Created
November 4, 2023 19:39
-
-
Save chenrui333/2acbb9def917052613b5a1ac1597a9f4 to your computer and use it in GitHub Desktop.
kallisto on macOS 13.6 - Homebrew build logs
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| Homebrew build logs for kallisto on macOS 13.6 | |
| Build date: 2023-11-04 15:39:30 |
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| HOMEBREW_VERSION: 4.1.16-17-g65da878 | |
| ORIGIN: https://github.com/Homebrew/brew | |
| HEAD: 65da8782755c442ee9dd8d83e04c1eaaa45644f0 | |
| Last commit: 9 days ago | |
| Core tap origin: https://github.com/Homebrew/homebrew-core | |
| Core tap HEAD: 7475de6b7e560793c108d4d87aa812cf38de99e2 | |
| Core tap last commit: 3 minutes ago | |
| Core tap branch: bump-kallisto-0.50.1 | |
| HOMEBREW_PREFIX: /opt/homebrew | |
| HOMEBREW_CASK_OPTS: [] | |
| HOMEBREW_DEVELOPER: set | |
| HOMEBREW_EDITOR: vim | |
| HOMEBREW_GITHUB_API_TOKEN: set | |
| HOMEBREW_MAKE_JOBS: 10 | |
| HOMEBREW_NO_ANALYTICS: set | |
| HOMEBREW_NO_AUTO_UPDATE: set | |
| HOMEBREW_NO_INSTALL_FROM_API: set | |
| HOMEBREW_SORBET_RUNTIME: set | |
| Homebrew Ruby: 2.6.10 => /System/Library/Frameworks/Ruby.framework/Versions/2.6/usr/bin/ruby | |
| CPU: 10-core 64-bit arm_firestorm_icestorm | |
| Clang: 15.0.0 build 1500 | |
| Git: 2.42.0 => /opt/homebrew/bin/git | |
| Curl: 8.1.2 => /usr/bin/curl | |
| macOS: 13.6.1-arm64 | |
| CLT: 15.0.0.0.1.1694021235 | |
| Xcode: 15.0.1 | |
| Rosetta 2: false |
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| Please note that these warnings are just used to help the Homebrew maintainers | |
| with debugging if you file an issue. If everything you use Homebrew for is | |
| working fine: please don't worry or file an issue; just ignore this. Thanks! | |
| Warning: Suspicious https://github.com/Homebrew/homebrew-core git origin remote found. | |
| The current git origin is: | |
| git@github.com:Homebrew/homebrew-core.git | |
| With a non-standard origin, Homebrew won't update properly. | |
| You can solve this by setting the origin remote: | |
| git -C "/opt/homebrew/Library/Taps/homebrew/homebrew-core" remote set-url origin https://github.com/Homebrew/homebrew-core | |
| Warning: Some installed kegs have no formulae! | |
| This means they were either deleted or installed manually. | |
| You should find replacements for the following formulae: | |
| dtf | |
| blush | |
| rvvm | |
| protobuf241 | |
| buildcache | |
| camouflage | |
| ocaml@4.14 | |
| timecraft | |
| termtunnel | |
| dbcrossbar | |
| libemf | |
| polyrhythmix | |
| sish | |
| cross | |
| ktop | |
| pa11y | |
| kibi | |
| munit | |
| ketch | |
| tree-sitter-c | |
| kplot | |
| boofuzz | |
| magicbell-cli | |
| featurebase | |
| mrustc | |
| kubecolor | |
| whatstyle | |
| slashbase | |
| lensm | |
| libjuice | |
| layerform | |
| otto | |
| stringsext | |
| dovitool | |
| polyclipping | |
| mox | |
| Warning: Some installed formulae are deprecated or disabled. | |
| You should find replacements for the following formulae: | |
| dotnet | |
| libgit2@1.5 | |
| minimal-racket | |
| mono | |
| naturaldocs | |
| openssl@1.1 | |
| spotify-tui | |
| Warning: You have unlinked kegs in your Cellar. | |
| Leaving kegs unlinked can lead to build-trouble and cause formulae that depend on | |
| those kegs to fail to run properly once built. Run `brew link` on these: | |
| protobuf241 | |
| ghostscript | |
| redo | |
| open-mpi | |
| pkgconf | |
| mysql | |
| bash-completion@2 | |
| pmix | |
| bash-completion | |
| git-extras | |
| Warning: You have uncommitted modifications to Homebrew/homebrew-core. | |
| If this is a surprise to you, then you should stash these modifications. | |
| Stashing returns Homebrew to a pristine state but can be undone | |
| should you later need to do so for some reason. | |
| cd /opt/homebrew/Library/Taps/homebrew/homebrew-core && git stash -u && git clean -d -f | |
| Uncommitted files: | |
| M Formula/k/kallisto.rb | |
| Warning: Some taps are not on the default git origin branch and may not receive | |
| updates. If this is a surprise to you, check out the default branch with: | |
| git -C $(brew --repo homebrew/core) checkout master | |
| Warning: /usr/bin occurs before /opt/homebrew/bin in your PATH. | |
| This means that system-provided programs will be used instead of those | |
| provided by Homebrew. Consider setting your PATH so that | |
| /opt/homebrew/bin occurs before /usr/bin. Here is a one-liner: | |
| echo 'export PATH="/opt/homebrew/bin:$PATH"' >> /Users/rui/.bash_profile | |
| The following tools exist at both paths: | |
| cpan | |
| rview | |
| vim | |
| cmp | |
| instmodsh | |
| db_upgrade | |
| perlivp | |
| vi | |
| pod2usage | |
| corelist | |
| db_hotbackup | |
| demandoc | |
| git-receive-pack | |
| xmllint | |
| vimdiff | |
| libnetcfg | |
| diff3 | |
| python3 | |
| xxd | |
| xsltproc | |
| encguess | |
| db_printlog | |
| less | |
| db_archive | |
| pip3 | |
| xslt-config | |
| pod2text | |
| bashbug | |
| irb | |
| ptardiff | |
| wish | |
| db_stat | |
| json_pp | |
| bsdtar | |
| perl | |
| ex | |
| perlbug | |
| db_load | |
| piconv | |
| ptargrep | |
| h2ph | |
| rake | |
| rvim | |
| vimtutor | |
| prove | |
| podchecker | |
| shasum | |
| bundle | |
| git-upload-archive | |
| xml2-config | |
| diff | |
| ri | |
| ptar | |
| pl2pm | |
| curl-config | |
| tclsh | |
| curl | |
| db_verify | |
| perlthanks | |
| patch | |
| xsubpp | |
| tidy | |
| streamzip | |
| perldoc | |
| mandoc | |
| view | |
| h2xs | |
| db_checkpoint | |
| pod2man | |
| enc2xs | |
| git-shell | |
| lessecho | |
| sdiff | |
| db_deadlock | |
| git-upload-pack | |
| erb | |
| openssl | |
| splain | |
| xmlcatalog | |
| pod2html | |
| tar | |
| rdoc | |
| db_recover | |
| zipinfo | |
| db_dump | |
| bundler | |
| ruby | |
| git | |
| zipdetails | |
| cpio | |
| gem | |
| Warning: Homebrew's "bin" was not found in your PATH. | |
| Consider setting your PATH for example like so: | |
| echo 'export PATH="/opt/homebrew/bin:$PATH"' >> /Users/rui/.bash_profile | |
| Warning: Homebrew's "sbin" was not found in your PATH but you have installed | |
| formulae that put executables in /opt/homebrew/sbin. | |
| Consider setting your PATH for example like so: | |
| echo 'export PATH="/opt/homebrew/sbin:$PATH"' >> /Users/rui/.bash_profile | |
| Warning: Some installed formulae are missing dependencies. | |
| You should `brew install` the missing dependencies: | |
| brew install cpr libpaper | |
| Run `brew missing` for more details. |
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| kallisto |
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| 2023-11-04 19:38:53 +0000 | |
| cmake | |
| -S | |
| . | |
| -B | |
| build | |
| -DUSE_HDF5=ON | |
| -DCMAKE_INSTALL_PREFIX=/opt/homebrew/Cellar/kallisto/0.50.1 | |
| -DCMAKE_INSTALL_LIBDIR=lib | |
| -DCMAKE_BUILD_TYPE=Release | |
| -DCMAKE_FIND_FRAMEWORK=LAST | |
| -DCMAKE_VERBOSE_MAKEFILE=ON | |
| -Wno-dev | |
| -DBUILD_TESTING=OFF | |
| -DCMAKE_OSX_SYSROOT=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk | |
| -- The C compiler identification is AppleClang 15.0.0.15000040 | |
| -- The CXX compiler identification is AppleClang 15.0.0.15000040 | |
| -- Detecting C compiler ABI info | |
| -- Detecting C compiler ABI info - done | |
| -- Check for working C compiler: /opt/homebrew/Library/Homebrew/shims/mac/super/clang - skipped | |
| -- Detecting C compile features | |
| -- Detecting C compile features - done | |
| -- Detecting CXX compiler ABI info | |
| -- Detecting CXX compiler ABI info - done | |
| -- Check for working CXX compiler: /opt/homebrew/Library/Homebrew/shims/mac/super/clang++ - skipped | |
| -- Detecting CXX compile features | |
| -- Detecting CXX compile features - done | |
| -- Performing Test COMPILER_SUPPORTS_CXX17 | |
| -- Performing Test COMPILER_SUPPORTS_CXX17 - Success | |
| shared build | |
| -- Performing Test CMAKE_HAVE_LIBC_PTHREAD | |
| -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success | |
| -- Found Threads: TRUE | |
| -- Found HDF5: /opt/homebrew/lib/libhdf5.dylib;/opt/homebrew/lib/libsz.dylib;/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/lib/libz.tbd;/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/lib/libdl.tbd;/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/lib/libm.tbd (found version "1.14.2") | |
| -- Found ZLIB: /opt/homebrew/lib/libzlibstatic.a (found version "1.2.11") | |
| -- Configuring done (1.6s) | |
| -- Generating done (0.1s) | |
| -- Build files have been written to: /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build |
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| clang called with: CMakeCCompilerId.c | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -L/opt/homebrew/lib -L/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries -Wl,-headerpad_max_install_names | |
| superenv executed: clang CMakeCCompilerId.c -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -L/opt/homebrew/lib -L/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries -Wl,-headerpad_max_install_names | |
| clang++ called with: CMakeCXXCompilerId.cpp | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -L/opt/homebrew/lib -L/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries -Wl,-headerpad_max_install_names | |
| superenv executed: clang++ CMakeCXXCompilerId.cpp -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -L/opt/homebrew/lib -L/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries -Wl,-headerpad_max_install_names | |
| clang called with: -Wl,--help | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -L/opt/homebrew/lib -L/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries -Wl,-headerpad_max_install_names | |
| superenv executed: clang -Wl,--help -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -L/opt/homebrew/lib -L/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries -Wl,-headerpad_max_install_names | |
| clang called with: -Wl,--help | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -L/opt/homebrew/lib -L/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries -Wl,-headerpad_max_install_names | |
| superenv executed: clang -Wl,--help -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -L/opt/homebrew/lib -L/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries -Wl,-headerpad_max_install_names | |
| clang called with: -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -v -Wl,-v -MD -MT CMakeFiles/cmTC_e3e33.dir/CMakeCCompilerABI.c.o -MF CMakeFiles/cmTC_e3e33.dir/CMakeCCompilerABI.c.o.d -o CMakeFiles/cmTC_e3e33.dir/CMakeCCompilerABI.c.o -c /opt/homebrew/Cellar/cmake/3.27.7/share/cmake/Modules/CMakeCCompilerABI.c | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| superenv executed: clang -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -v -Wl,-v -MD -MT CMakeFiles/cmTC_e3e33.dir/CMakeCCompilerABI.c.o -MF CMakeFiles/cmTC_e3e33.dir/CMakeCCompilerABI.c.o.d -o CMakeFiles/cmTC_e3e33.dir/CMakeCCompilerABI.c.o -c /opt/homebrew/Cellar/cmake/3.27.7/share/cmake/Modules/CMakeCCompilerABI.c -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| clang called with: -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wl,-search_paths_first -Wl,-headerpad_max_install_names -v -Wl,-v CMakeFiles/cmTC_e3e33.dir/CMakeCCompilerABI.c.o -o cmTC_e3e33 | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -L/opt/homebrew/lib -L/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries | |
| superenv executed: clang -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wl,-search_paths_first -Wl,-headerpad_max_install_names -v -Wl,-v CMakeFiles/cmTC_e3e33.dir/CMakeCCompilerABI.c.o -o cmTC_e3e33 -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -L/opt/homebrew/lib -L/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries -Wl,-headerpad_max_install_names | |
| clang++ called with: -Wl,--help | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -L/opt/homebrew/lib -L/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries -Wl,-headerpad_max_install_names | |
| superenv executed: clang++ -Wl,--help -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -L/opt/homebrew/lib -L/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries -Wl,-headerpad_max_install_names | |
| clang++ called with: -Wl,--help | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -L/opt/homebrew/lib -L/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries -Wl,-headerpad_max_install_names | |
| superenv executed: clang++ -Wl,--help -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -L/opt/homebrew/lib -L/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries -Wl,-headerpad_max_install_names | |
| clang++ called with: -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -v -Wl,-v -MD -MT CMakeFiles/cmTC_1e7c8.dir/CMakeCXXCompilerABI.cpp.o -MF CMakeFiles/cmTC_1e7c8.dir/CMakeCXXCompilerABI.cpp.o.d -o CMakeFiles/cmTC_1e7c8.dir/CMakeCXXCompilerABI.cpp.o -c /opt/homebrew/Cellar/cmake/3.27.7/share/cmake/Modules/CMakeCXXCompilerABI.cpp | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| superenv executed: clang++ -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -v -Wl,-v -MD -MT CMakeFiles/cmTC_1e7c8.dir/CMakeCXXCompilerABI.cpp.o -MF CMakeFiles/cmTC_1e7c8.dir/CMakeCXXCompilerABI.cpp.o.d -o CMakeFiles/cmTC_1e7c8.dir/CMakeCXXCompilerABI.cpp.o -c /opt/homebrew/Cellar/cmake/3.27.7/share/cmake/Modules/CMakeCXXCompilerABI.cpp -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| clang++ called with: -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wl,-search_paths_first -Wl,-headerpad_max_install_names -v -Wl,-v CMakeFiles/cmTC_1e7c8.dir/CMakeCXXCompilerABI.cpp.o -o cmTC_1e7c8 | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -L/opt/homebrew/lib -L/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries | |
| superenv executed: clang++ -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wl,-search_paths_first -Wl,-headerpad_max_install_names -v -Wl,-v CMakeFiles/cmTC_1e7c8.dir/CMakeCXXCompilerABI.cpp.o -o cmTC_1e7c8 -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -L/opt/homebrew/lib -L/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries -Wl,-headerpad_max_install_names | |
| clang++ called with: -DCOMPILER_SUPPORTS_CXX17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -std=c++17 -MD -MT CMakeFiles/cmTC_9e98d.dir/src.cxx.o -MF CMakeFiles/cmTC_9e98d.dir/src.cxx.o.d -o CMakeFiles/cmTC_9e98d.dir/src.cxx.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build/CMakeFiles/CMakeScratch/TryCompile-s2irvU/src.cxx | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| superenv executed: clang++ -DCOMPILER_SUPPORTS_CXX17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -std=c++17 -MD -MT CMakeFiles/cmTC_9e98d.dir/src.cxx.o -MF CMakeFiles/cmTC_9e98d.dir/src.cxx.o.d -o CMakeFiles/cmTC_9e98d.dir/src.cxx.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build/CMakeFiles/CMakeScratch/TryCompile-s2irvU/src.cxx -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| clang++ called with: -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wl,-search_paths_first -Wl,-headerpad_max_install_names CMakeFiles/cmTC_9e98d.dir/src.cxx.o -o cmTC_9e98d | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -L/opt/homebrew/lib -L/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries | |
| superenv executed: clang++ -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wl,-search_paths_first -Wl,-headerpad_max_install_names CMakeFiles/cmTC_9e98d.dir/src.cxx.o -o cmTC_9e98d -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -L/opt/homebrew/lib -L/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries -Wl,-headerpad_max_install_names | |
| clang called with: -DCMAKE_HAVE_LIBC_PTHREAD -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -MD -MT CMakeFiles/cmTC_86446.dir/src.c.o -MF CMakeFiles/cmTC_86446.dir/src.c.o.d -o CMakeFiles/cmTC_86446.dir/src.c.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build/CMakeFiles/CMakeScratch/TryCompile-MKJ9dG/src.c | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| superenv executed: clang -DCMAKE_HAVE_LIBC_PTHREAD -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -MD -MT CMakeFiles/cmTC_86446.dir/src.c.o -MF CMakeFiles/cmTC_86446.dir/src.c.o.d -o CMakeFiles/cmTC_86446.dir/src.c.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build/CMakeFiles/CMakeScratch/TryCompile-MKJ9dG/src.c -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| clang called with: -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wl,-search_paths_first -Wl,-headerpad_max_install_names CMakeFiles/cmTC_86446.dir/src.c.o -o cmTC_86446 | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -L/opt/homebrew/lib -L/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries | |
| superenv executed: clang -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wl,-search_paths_first -Wl,-headerpad_max_install_names CMakeFiles/cmTC_86446.dir/src.c.o -o cmTC_86446 -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -L/opt/homebrew/lib -L/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries -Wl,-headerpad_max_install_names | |
| clang called with: -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -MD -MT CMakeFiles/cmTC_42d79.dir/cmake_hdf5_test.c.o -MF CMakeFiles/cmTC_42d79.dir/cmake_hdf5_test.c.o.d -o CMakeFiles/cmTC_42d79.dir/cmake_hdf5_test.c.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build/src/CMakeFiles/hdf5/cmake_hdf5_test.c | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| superenv executed: clang -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -MD -MT CMakeFiles/cmTC_42d79.dir/cmake_hdf5_test.c.o -MF CMakeFiles/cmTC_42d79.dir/cmake_hdf5_test.c.o.d -o CMakeFiles/cmTC_42d79.dir/cmake_hdf5_test.c.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build/src/CMakeFiles/hdf5/cmake_hdf5_test.c -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| clang called with: -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wl,-search_paths_first -Wl,-headerpad_max_install_names CMakeFiles/cmTC_42d79.dir/cmake_hdf5_test.c.o -o cmTC_42d79 | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -L/opt/homebrew/lib -L/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries | |
| superenv executed: clang -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wl,-search_paths_first -Wl,-headerpad_max_install_names CMakeFiles/cmTC_42d79.dir/cmake_hdf5_test.c.o -o cmTC_42d79 -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -L/opt/homebrew/lib -L/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries -Wl,-headerpad_max_install_names | |
| clang called with: -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -c cmake_hdf5_test.c | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| superenv executed: clang -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -c cmake_hdf5_test.c -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| clang called with: -I/opt/homebrew/opt/libaec/include cmake_hdf5_test.o -L/opt/homebrew/Cellar/hdf5/1.14.2/lib /opt/homebrew/Cellar/hdf5/1.14.2/lib/libhdf5_hl.a /opt/homebrew/Cellar/hdf5/1.14.2/lib/libhdf5.a -L/opt/homebrew/opt/libaec/lib -lsz -lz -ldl -lm | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -L/opt/homebrew/lib -L/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries -Wl,-headerpad_max_install_names | |
| superenv executed: clang -I/opt/homebrew/opt/libaec/include cmake_hdf5_test.o -L/opt/homebrew/Cellar/hdf5/1.14.2/lib /opt/homebrew/Cellar/hdf5/1.14.2/lib/libhdf5_hl.a /opt/homebrew/Cellar/hdf5/1.14.2/lib/libhdf5.a -L/opt/homebrew/opt/libaec/lib -lsz -lz -ldl -lm -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -L/opt/homebrew/lib -L/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries -Wl,-headerpad_max_install_names | |
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| 2023-11-04 19:38:55 +0000 | |
| cmake | |
| --build | |
| build | |
| Change Dir: '/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build' | |
| Run Build Command(s): /opt/homebrew/Cellar/cmake/3.27.7/bin/cmake -E env VERBOSE=1 /opt/homebrew/bin/gmake -f Makefile | |
| /opt/homebrew/Cellar/cmake/3.27.7/bin/cmake -S/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1 -B/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build --check-build-system CMakeFiles/Makefile.cmake 0 | |
| /opt/homebrew/Cellar/cmake/3.27.7/bin/cmake -E cmake_progress_start /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build/CMakeFiles /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build//CMakeFiles/progress.marks | |
| /opt/homebrew/bin/gmake -f CMakeFiles/Makefile2 all | |
| gmake[1]: Entering directory '/private/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build' | |
| /opt/homebrew/bin/gmake -f CMakeFiles/bifrost.dir/build.make CMakeFiles/bifrost.dir/depend | |
| /opt/homebrew/bin/gmake -f src/CMakeFiles/kallisto_core.dir/build.make src/CMakeFiles/kallisto_core.dir/depend | |
| gmake[2]: Entering directory '/private/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build' | |
| cd /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build && /opt/homebrew/Cellar/cmake/3.27.7/bin/cmake -E cmake_depends "Unix Makefiles" /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1 /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1 /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build/CMakeFiles/bifrost.dir/DependInfo.cmake "--color=" | |
| gmake[2]: Entering directory '/private/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build' | |
| cd /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build && /opt/homebrew/Cellar/cmake/3.27.7/bin/cmake -E cmake_depends "Unix Makefiles" /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1 /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build/src /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build/src/CMakeFiles/kallisto_core.dir/DependInfo.cmake "--color=" | |
| gmake[2]: Leaving directory '/private/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build' | |
| gmake[2]: Leaving directory '/private/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build' | |
| /opt/homebrew/bin/gmake -f CMakeFiles/bifrost.dir/build.make CMakeFiles/bifrost.dir/build | |
| /opt/homebrew/bin/gmake -f src/CMakeFiles/kallisto_core.dir/build.make src/CMakeFiles/kallisto_core.dir/build | |
| gmake[2]: Entering directory '/private/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build' | |
| gmake[2]: Entering directory '/private/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build' | |
| [ 7%] Building CXX object src/CMakeFiles/kallisto_core.dir/BUSTools.cpp.o | |
| cd /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build/src && /opt/homebrew/Library/Homebrew/shims/mac/super/clang++ -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/BUSTools.cpp.o -MF CMakeFiles/kallisto_core.dir/BUSTools.cpp.o.d -o CMakeFiles/kallisto_core.dir/BUSTools.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.cpp | |
| [ 11%] Building CXX object src/CMakeFiles/kallisto_core.dir/Bootstrap.cpp.o | |
| [ 11%] Building CXX object src/CMakeFiles/kallisto_core.dir/BUSData.cpp.o | |
| [ 15%] Building CXX object src/CMakeFiles/kallisto_core.dir/H5Writer.cpp.o | |
| [ 19%] Building CXX object src/CMakeFiles/kallisto_core.dir/MinCollector.cpp.o | |
| [ 23%] Creating directories for 'bifrost' | |
| /opt/homebrew/Cellar/cmake/3.27.7/bin/cmake -Dcfgdir= -P /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/tmp/bifrost-mkdirs.cmake | |
| cd /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build/src && /opt/homebrew/Library/Homebrew/shims/mac/super/clang++ -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/MinCollector.cpp.o -MF CMakeFiles/kallisto_core.dir/MinCollector.cpp.o.d -o CMakeFiles/kallisto_core.dir/MinCollector.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.cpp | |
| [ 26%] Building CXX object src/CMakeFiles/kallisto_core.dir/KmerIndex.cpp.o | |
| cd /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build/src && /opt/homebrew/Library/Homebrew/shims/mac/super/clang++ -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/Bootstrap.cpp.o -MF CMakeFiles/kallisto_core.dir/Bootstrap.cpp.o.d -o CMakeFiles/kallisto_core.dir/Bootstrap.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.cpp | |
| cd /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build/src && /opt/homebrew/Library/Homebrew/shims/mac/super/clang++ -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/KmerIndex.cpp.o -MF CMakeFiles/kallisto_core.dir/KmerIndex.cpp.o.d -o CMakeFiles/kallisto_core.dir/KmerIndex.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp | |
| [ 30%] Building CXX object src/CMakeFiles/kallisto_core.dir/GeneModel.cpp.o | |
| cd /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build/src && /opt/homebrew/Library/Homebrew/shims/mac/super/clang++ -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/H5Writer.cpp.o -MF CMakeFiles/kallisto_core.dir/H5Writer.cpp.o.d -o CMakeFiles/kallisto_core.dir/H5Writer.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.cpp | |
| cd /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build/src && /opt/homebrew/Library/Homebrew/shims/mac/super/clang++ -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/GeneModel.cpp.o -MF CMakeFiles/kallisto_core.dir/GeneModel.cpp.o.d -o CMakeFiles/kallisto_core.dir/GeneModel.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.cpp | |
| cd /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build/src && /opt/homebrew/Library/Homebrew/shims/mac/super/clang++ -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/BUSData.cpp.o -MF CMakeFiles/kallisto_core.dir/BUSData.cpp.o.d -o CMakeFiles/kallisto_core.dir/BUSData.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.cpp | |
| [ 34%] Building CXX object src/CMakeFiles/kallisto_core.dir/ProcessReads.cpp.o | |
| [ 38%] Building CXX object src/CMakeFiles/kallisto_core.dir/PlaintextWriter.cpp.o | |
| cd /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build/src && /opt/homebrew/Library/Homebrew/shims/mac/super/clang++ -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/ProcessReads.cpp.o -MF CMakeFiles/kallisto_core.dir/ProcessReads.cpp.o.d -o CMakeFiles/kallisto_core.dir/ProcessReads.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.cpp | |
| cd /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build/src && /opt/homebrew/Library/Homebrew/shims/mac/super/clang++ -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/PlaintextWriter.cpp.o -MF CMakeFiles/kallisto_core.dir/PlaintextWriter.cpp.o.d -o CMakeFiles/kallisto_core.dir/PlaintextWriter.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.cpp | |
| /opt/homebrew/Cellar/cmake/3.27.7/bin/cmake -E touch /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/bifrost-stamp/bifrost-mkdir | |
| [ 42%] No download step for 'bifrost' | |
| /opt/homebrew/Cellar/cmake/3.27.7/bin/cmake -E echo_append | |
| /opt/homebrew/Cellar/cmake/3.27.7/bin/cmake -E touch /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/bifrost-stamp/bifrost-download | |
| warning: unknown warning option '-Wno-subobject-linkage' [-Wunknown-warning-option] | |
| warning: unknown warning option '-Wno-subobject-linkage' [-Wunknown-warning-option] | |
| warning: unknown warning option '-Wno-subobject-linkage' [-Wunknown-warning-option] | |
| warning: unknown warning option '-Wno-subobject-linkage' [-Wunknown-warning-option] | |
| [ 46%] No update step for 'bifrost' | |
| /opt/homebrew/Cellar/cmake/3.27.7/bin/cmake -E echo_append | |
| /opt/homebrew/Cellar/cmake/3.27.7/bin/cmake -E touch /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/bifrost-stamp/bifrost-update | |
| warning: unknown warning option '-Wno-subobject-linkage' [-Wunknown-warning-option] | |
| warning: unknown warning option '-Wno-subobject-linkage' [-Wunknown-warning-option] | |
| warning: unknown warning option '-Wno-subobject-linkage' [-Wunknown-warning-option] | |
| warning: unknown warning option '-Wno-subobject-linkage' [-Wunknown-warning-option] | |
| warning: unknown warning option '-Wno-subobject-linkage' [-Wunknown-warning-option] | |
| [ 50%] No patch step for 'bifrost' | |
| /opt/homebrew/Cellar/cmake/3.27.7/bin/cmake -E echo_append | |
| /opt/homebrew/Cellar/cmake/3.27.7/bin/cmake -E touch /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/bifrost-stamp/bifrost-patch | |
| [ 53%] Performing configure step for 'bifrost' | |
| cd /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost && mkdir -p build && cd build && cmake .. -DCMAKE_INSTALL_PREFIX= "-DCMAKE_CXX_FLAGS=-Wno-subobject-linkage -Wno-return-type" | |
| Re-run cmake no build system arguments | |
| CMake Deprecation Warning at CMakeLists.txt:1 (cmake_minimum_required): | |
| Compatibility with CMake < 3.5 will be removed from a future version of | |
| CMake. | |
| Update the VERSION argument <min> value or use a ...<max> suffix to tell | |
| CMake that the project does not need compatibility with older versions. | |
| -- The C compiler identification is AppleClang 15.0.0.15000040 | |
| -- The CXX compiler identification is AppleClang 15.0.0.15000040 | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.cpp:3: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.h:6: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:34: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.hpp:7: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.hpp:5: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/TinyBitmap.hpp:28:44: warning: 'iterator<std::input_iterator_tag, unsigned int>' is deprecated [-Wdeprecated-declarations] | |
| class TinyBitmapIterator : public std::iterator<std::input_iterator_tag, uint32_t> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::input_iterator_tag, unsigned int>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.cpp:3: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.h:6: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:34: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.hpp:7: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.hpp:18:57: warning: 'iterator<std::forward_iterator_tag, unsigned int>' is deprecated [-Wdeprecated-declarations] | |
| class BitContainer_const_iterator : public std::iterator<std::forward_iterator_tag, uint32_t> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, unsigned int>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.h:13: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:34: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.hpp:7: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.hppIn file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.h:7: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:34: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.hpp:7: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.hpp:5: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/TinyBitmap.hpp:28:44: warning: 'iterator<std::input_iterator_tag, unsigned int>' is deprecated [-Wdeprecated-declarations] | |
| class TinyBitmapIterator : public std::iterator<std::input_iterator_tag, uint32_t> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::input_iterator_tag, unsigned int>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.h:7: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:34: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.hpp:7: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.hpp:18:57: warning: 'iterator<std::forward_iterator_tag, unsigned int>' is deprecated [-Wdeprecated-declarations] | |
| class BitContainer_const_iterator : public std::iterator<std::forward_iterator_tag, uint32_t> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, unsigned int>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| :5: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/TinyBitmap.hpp:28:44: warning: 'iterator<std::input_iterator_tag, unsigned int>' is deprecated [-Wdeprecated-declarations] | |
| class TinyBitmapIterator : public std::iterator<std::input_iterator_tag, uint32_t> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::input_iterator_tag, unsigned int>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.cpp:3: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.h:6: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:34: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.hpp:157: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.tcc:85:35: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| v_blocks[i]->bc_cov = move(o.v_blocks[i]->bc_cov); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.h:13: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:34: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.hpp:7: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.hpp:18:57: warning: 'iterator<std::forward_iterator_tag, unsigned int>' is deprecated [-Wdeprecated-declarations] | |
| class BitContainer_const_iterator : public std::iterator<std::forward_iterator_tag, uint32_t> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, unsigned int>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.h:7: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:34: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.hpp:157: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.tcc:85:35: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| v_blocks[i]->bc_cov = move(o.v_blocks[i]->bc_cov); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.cpp:3: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.h:6: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:36: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerIterator.hpp:15:34: warning: 'iterator<std::input_iterator_tag, std::pair<Kmer, int>, int>' is deprecated [-Wdeprecated-declarations] | |
| class KmerIterator : public std::iterator<std::input_iterator_tag, std::pair<Kmer, int>, int> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::input_iterator_tag, std::pair<Kmer, int>, int>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.h:7: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:36: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerIterator.hpp:15:34: warning: 'iterator<std::input_iterator_tag, std::pair<Kmer, int>, int>' is deprecated [-Wdeprecated-declarations] | |
| class KmerIterator : public std::iterator<std::input_iterator_tag, std::pair<Kmer, int>, int> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::input_iterator_tag, std::pair<Kmer, int>, int>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| -- Detecting C compiler ABI info | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.cpp:6: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.h:17: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.h:7: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:37In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.cpp:3: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.h:6: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:37: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:18: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/minHashIterator.hpp:507:21: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| v = move(v_tmp); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.cpp:2: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.h:5: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/EMAlgorithm.h:5: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:34: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.hpp:7: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.hpp:5: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/TinyBitmap.hpp:28:44: warning: 'iterator<std::input_iterator_tag, unsigned int>' is deprecated [-Wdeprecated-declarations] | |
| class TinyBitmapIterator : public std::iterator<std::input_iterator_tag, uint32_t> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::input_iterator_tag, unsigned int>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.cpp:2: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.h:5: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/EMAlgorithm.h:5: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:34: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.hpp:7: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.hpp:18:57: warning: 'iterator<std::forward_iterator_tag, unsigned int>' is deprecated [-Wdeprecated-declarations] | |
| class BitContainer_const_iterator : public std::iterator<std::forward_iterator_tag, uint32_t> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, unsigned int>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| : | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:18: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/minHashIterator.hpp:507:21: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| v = move(v_tmp); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.h:13: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:34: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.hpp:157: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.tcc:85:35: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| v_blocks[i]->bc_cov = move(o.v_blocks[i]->bc_cov); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.h:13: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hppIn file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.cpp:3: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.h:6: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:37: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:1149:86: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| ReadHasherMinimizer(ReadQualityHasherMinimizer&& o) : k(o.k), g(o.g), sc_min(move(o.sc_min)) { | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:1151:85: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| for (size_t i = 0; i < NB_STREAMCOUNTER_PER_READHASHER; ++i) sc_km[i] = move(o.sc_km[i]); | |
| ^ | |
| std:: | |
| :36: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerIterator.hpp:15:34: warning: 'iterator<std::input_iterator_tag, std::pair<Kmer, int>, int>' is deprecated [-Wdeprecated-declarations] | |
| class KmerIterator : public std::iterator<std::input_iterator_tag, std::pair<Kmer, int>, int> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::input_iterator_tag, std::pair<Kmer, int>, int>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| 34: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.hpp:7: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.hpp:5: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/TinyBitmap.hpp:28:44: warning: 'iterator<std::input_iterator_tag, unsigned int>' is deprecated [-Wdeprecated-declarations] | |
| class TinyBitmapIterator : public std::iterator<std::input_iterator_tag, uint32_t> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::input_iterator_tag, unsigned int>' has been explicitly marked deprecated here | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.cpp:2: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.h:5: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/EMAlgorithm.h:5: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:34: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.hpp:157: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.tcc:85:35: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| v_blocks[i]->bc_cov = move(o.v_blocks[i]->bc_cov); | |
| ^ | |
| std:: | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:1673:23: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| rsh = move(rqh); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.cpp:6: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.h:17: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:34: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.hpp:7: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.hpp:18:57: warning: 'iterator<std::forward_iterator_tag, unsigned int>' is deprecated [-Wdeprecated-declarations] | |
| class BitContainer_const_iterator : public std::iterator<std::forward_iterator_tag, uint32_t> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, unsigned int>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.h:10: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:34: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.hpp:7: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.hpp:5: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/TinyBitmap.hpp:28:44: warning: 'iterator<std::input_iterator_tag, unsigned int>' is deprecated [-Wdeprecated-declarations] | |
| class TinyBitmapIterator : public std::iterator<std::input_iterator_tag, uint32_t> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::input_iterator_tag, unsigned int>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.h:10: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:34: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.hpp:7: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.hpp:18:57: warning: 'iterator<std::forward_iterator_tag, unsigned int>' is deprecated [-Wdeprecated-declarations] | |
| class BitContainer_const_iterator : public std::iterator<std::forward_iterator_tag, uint32_t> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, unsigned int>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:34: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.hpp:7: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.hpp:5: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/TinyBitmap.hpp:28:44: warning: 'iterator<std::input_iterator_tag, unsigned int>' is deprecated [-Wdeprecated-declarations] | |
| class TinyBitmapIterator : public std::iterator<std::input_iterator_tag, uint32_t> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::input_iterator_tag, unsigned int>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.h:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:34: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.hpp:7: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.hpp:5: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/TinyBitmap.hpp:28:44: warning: 'iterator<std::input_iterator_tag, unsigned int>' is deprecated [-Wdeprecated-declarations] | |
| class TinyBitmapIterator : public std::iterator<std::input_iterator_tag, uint32_t> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::input_iterator_tag, unsigned int>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:34: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.hpp:7: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.hpp:18:57: warning: 'iterator<std::forward_iterator_tag, unsigned int>' is deprecated [-Wdeprecated-declarations] | |
| class BitContainer_const_iterator : public std::iterator<std::forward_iterator_tag, uint32_t> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, unsigned int>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.h:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:34: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.hpp:7: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.hpp:18:57: warning: 'iterator<std::forward_iterator_tag, unsigned int>' is deprecated [-Wdeprecated-declarations] | |
| class BitContainer_const_iterator : public std::iterator<std::forward_iterator_tag, uint32_t> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, unsigned int>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.cpp:3: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.h:6: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:40: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/MinimizerIndex.hpp:12: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:536:48: warning: format specifies type 'unsigned long' but the argument has type 'uint64_t' (aka 'unsigned long long') [-Wformat] | |
| printf("bit array of size %lu: \n",_size); | |
| ~~~ ^~~~~ | |
| %llu | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:540:38: warning: format specifies type 'unsigned long' but the argument has type 'uint64_t' (aka 'unsigned long long') [-Wformat] | |
| printf(" (%lu) ",ii); | |
| ~~~ ^~ | |
| %llu | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:549:40: warning: format specifies type 'unsigned long' but the argument has type 'uint64_t' (aka 'unsigned long long') [-Wformat] | |
| printf("%lu : %lu, ",ii,_ranks[ii]); | |
| ~~~ ^~ | |
| %llu | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:549:43: warning: format specifies type 'unsigned long' but the argument has type 'value_type' (aka 'unsigned long long') [-Wformat] | |
| printf("%lu : %lu, ",ii,_ranks[ii]); | |
| ~~~ ^~~~~~~~~~ | |
| %llu | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.h:10: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:34: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.hpp:157: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.tcc:85:35: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| v_blocks[i]->bc_cov = move(o.v_blocks[i]->bc_cov); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.cpp:3: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.h:6: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:40: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/MinimizerIndex.hpp:19:35: warning: 'iterator<std::forward_iterator_tag, packed_tiny_vector>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, packed_tiny_vector> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, packed_tiny_vector>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.h:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:34: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.hpp:157: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.tcc:85:35: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| v_blocks[i]->bc_cov = move(o.v_blocks[i]->bc_cov); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.h:13: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:37: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:18: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/minHashIterator.hpp:507:21: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| v = move(v_tmp); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:34: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.hpp:157: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.tcc:85:35: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| v_blocks[i]->bc_cov = move(o.v_blocks[i]->bc_cov); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.cpp:3: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.h:6: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:43: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:7: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedCoverage.hpp:169:57: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| CompressedCoverage_t(CompressedCoverage&& c) : ccov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedCoverage.hpp:182:57: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| CompressedCoverage_t(CompressedCoverage&& c) : ccov(move(c)) {} | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.cpp:3: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.h:6: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:43: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:28:70: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:28:84: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:34: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.hpp:7: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.hpp:5: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/TinyBitmap.hpp:28:44: warning: 'iterator<std::input_iterator_tag, unsigned int>' is deprecated [-Wdeprecated-declarations] | |
| class TinyBitmapIterator : public std::iterator<std::input_iterator_tag, uint32_t> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::input_iterator_tag, unsigned int>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config::87837::7041:: warning: note: unqualified call to 'std::move' [-Wunqualified-std-cast-call]expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:87:84: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:34: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.hpp:7: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.hpp:18:57: warning: 'iterator<std::forward_iterator_tag, unsigned int>' is deprecated [-Wdeprecated-declarations] | |
| class BitContainer_const_iterator : public std::iterator<std::forward_iterator_tag, uint32_t> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, unsigned int>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.h:10: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:36: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerIterator.hpp:15:34: warning: 'iterator<std::input_iterator_tag, std::pair<Kmer, int>, int>' is deprecated [-Wdeprecated-declarations] | |
| class KmerIterator : public std::iterator<std::input_iterator_tag, std::pair<Kmer, int>, int> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::input_iterator_tag, std::pair<Kmer, int>, int>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.h:13: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:37: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:1149:86: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| ReadHasherMinimizer(ReadQualityHasherMinimizer&& o) : k(o.k), g(o.g), sc_min(move(o.sc_min)) { | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:1151:85: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| for (size_t i = 0; i < NB_STREAMCOUNTER_PER_READHASHER; ++i) sc_km[i] = move(o.sc_km[i]); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:36: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerIterator.hpp:15:34: warning: 'iterator<std::input_iterator_tag, std::pair<Kmer, int>, int>' is deprecated [-Wdeprecated-declarations] | |
| class KmerIterator : public std::iterator<std::input_iterator_tag, std::pair<Kmer, int>, int> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::input_iterator_tag, std::pair<Kmer, int>, int>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:1673:23: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| rsh = move(rqh); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.h:7: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:37: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:1149:86: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| ReadHasherMinimizer(ReadQualityHasherMinimizer&& o) : k(o.k), g(o.g), sc_min(move(o.sc_min)) { | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:1151:85: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| for (size_t i = 0; i < NB_STREAMCOUNTER_PER_READHASHER; ++i) sc_km[i] = move(o.sc_km[i]); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:1673:23: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| rsh = move(rqh); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.cpp:3: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.h:6: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:138:85: note: in instantiation of template class 'KmerHashTable<CompressedCoverage_t<void>>::iterator_<false>' requested here | |
| KmerHashTable<CompressedCoverage_t<void>>::const_iterator it_s = o.h_kmers_ccov.begin(); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.cpp:3: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.h:6: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:138:63: note: in instantiation of template class 'KmerHashTable<CompressedCoverage_t<void>>::iterator_<>' requested here | |
| KmerHashTable<CompressedCoverage_t<void>>::const_iterator it_s = o.h_kmers_ccov.begin(); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.cpp:3: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.h:6: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:831: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:147:29: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| h_kmers_ccov.insert(move(km), move(it_s->ccov)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:147:39: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| h_kmers_ccov.insert(move(km), move(it_s->ccov)); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:34: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.hpp:157: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.tcc:85:35: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| v_blocks[i]->bc_cov = move(o.v_blocks[i]->bc_cov); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.cpp:6: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.h:17: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:34: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.hpp:157: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.tcc:85:35: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| v_blocks[i]->bc_cov = move(o.v_blocks[i]->bc_cov); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.cpp:2: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.h:5: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/EMAlgorithm.h:5: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:36: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerIterator.hpp:15:34: warning: 'iterator<std::input_iterator_tag, std::pair<Kmer, int>, int>' is deprecated [-Wdeprecated-declarations] | |
| class KmerIterator : public std::iterator<std::input_iterator_tag, std::pair<Kmer, int>, int> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::input_iterator_tag, std::pair<Kmer, int>, int>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.h:7: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:40: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/MinimizerIndex.hpp:12: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:536:48: warning: format specifies type 'unsigned long' but the argument has type 'uint64_t' (aka 'unsigned long long') [-Wformat] | |
| printf("bit array of size %lu: \n",_size); | |
| ~~~ ^~~~~ | |
| %llu | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:540:38: warning: format specifies type 'unsigned long' but the argument has type 'uint64_t' (aka 'unsigned long long') [-Wformat] | |
| printf(" (%lu) ",ii); | |
| ~~~ ^~ | |
| %llu | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:549:40: warning: format specifies type 'unsigned long' but the argument has type 'uint64_t' (aka 'unsigned long long') [-Wformat] | |
| printf("%lu : %lu, ",ii,_ranks[ii]); | |
| ~~~ ^~ | |
| %llu | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:549:43: warning: format specifies type 'unsigned long' but the argument has type 'value_type' (aka 'unsigned long long') [-Wformat] | |
| printf("%lu : %lu, ",ii,_ranks[ii]); | |
| ~~~ ^~~~~~~~~~ | |
| %llu | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:37: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:18: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/minHashIterator.hpp:507:21: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| v = move(v_tmp); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.h:7: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:40: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/MinimizerIndex.hpp:19:35: warning: 'iterator<std::forward_iterator_tag, packed_tiny_vector>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, packed_tiny_vector> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, packed_tiny_vector>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.h:10: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:37: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:18: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/minHashIterator.hpp:507:21: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| v = move(v_tmp); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:36: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerIterator.hpp:15:34: warning: 'iterator<std::input_iterator_tag, std::pair<Kmer, int>, int>' is deprecated [-Wdeprecated-declarations] | |
| class KmerIterator : public std::iterator<std::input_iterator_tag, std::pair<Kmer, int>, int> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::input_iterator_tag, std::pair<Kmer, int>, int>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.h:7: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:43: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:7: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedCoverage.hpp:169:57: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| CompressedCoverage_t(CompressedCoverage&& c) : ccov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedCoverage.hpp:182:57: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| CompressedCoverage_t(CompressedCoverage&& c) : ccov(move(c)) {} | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.h:7: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:43: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:28:70: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:28:84: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:87:70: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:87:84: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.cpp:6: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.h:17: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:36: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerIterator.hpp:15:34: warning: 'iterator<std::input_iterator_tag, std::pair<Kmer, int>, int>' is deprecated [-Wdeprecated-declarations] | |
| class KmerIterator : public std::iterator<std::input_iterator_tag, std::pair<Kmer, int>, int> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::input_iterator_tag, std::pair<Kmer, int>, int>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:37: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:1149:86: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| ReadHasherMinimizer(ReadQualityHasherMinimizer&& o) : k(o.k), g(o.g), sc_min(move(o.sc_min)) { | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:1151:85: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| for (size_t i = 0; i < NB_STREAMCOUNTER_PER_READHASHER; ++i) sc_km[i] = move(o.sc_km[i]); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.h:10: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:37: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:1149:86: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| ReadHasherMinimizer(ReadQualityHasherMinimizer&& o) : k(o.k), g(o.g), sc_min(move(o.sc_min)) { | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:1151:85: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| for (size_t i = 0; i < NB_STREAMCOUNTER_PER_READHASHER; ++i) sc_km[i] = move(o.sc_km[i]); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:1673:23: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| rsh = move(rqh); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.h:7: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:138:85: note: in instantiation of template class 'KmerHashTable<CompressedCoverage_t<void>>::iterator_<false>' requested here | |
| KmerHashTable<CompressedCoverage_t<void>>::const_iterator it_s = o.h_kmers_ccov.begin(); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.h:7: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:138:63: note: in instantiation of template class 'KmerHashTable<CompressedCoverage_t<void>>::iterator_<>' requested here | |
| KmerHashTable<CompressedCoverage_t<void>>::const_iterator it_s = o.h_kmers_ccov.begin(); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:1673:23: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| rsh = move(rqh); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.h:13: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:40: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/MinimizerIndex.hpp:12: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:536:48: warning: format specifies type 'unsigned long' but the argument has type 'uint64_t' (aka 'unsigned long long') [-Wformat] | |
| printf("bit array of size %lu: \n",_size); | |
| ~~~ ^~~~~ | |
| %llu | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:540:38: warning: format specifies type 'unsigned long' but the argument has type 'uint64_t' (aka 'unsigned long long') [-Wformat] | |
| printf(" (%lu) ",ii); | |
| ~~~ ^~ | |
| %llu | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:549:40: warning: format specifies type 'unsigned long' but the argument has type 'uint64_t' (aka 'unsigned long long') [-Wformat] | |
| printf("%lu : %lu, ",ii,_ranks[ii]); | |
| ~~~ ^~ | |
| %llu | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:549:43: warning: format specifies type 'unsigned long' but the argument has type 'value_type' (aka 'unsigned long long') [-Wformat] | |
| printf("%lu : %lu, ",ii,_ranks[ii]); | |
| ~~~ ^~~~~~~~~~ | |
| %llu | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.h:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:36: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerIterator.hpp:15:34: warning: 'iterator<std::input_iterator_tag, std::pair<Kmer, int>, int>' is deprecated [-Wdeprecated-declarations] | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.h:13: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from class KmerIterator : public std::iterator<std::input_iterator_tag, std::pair<Kmer, int>, int> {/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp | |
| : ^40 | |
| : | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/MinimizerIndex.hpp:19:35: warning: 'iterator<std::forward_iterator_tag, packed_tiny_vector>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, packed_tiny_vector> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, packed_tiny_vector>' has been explicitly marked deprecated here | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::input_iterator_tag, std::pair<Kmer, int>, int>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837# define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED: | |
| 41: note: 29 ^ | |
| expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17'/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:40: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/MinimizerIndex.hpp:12: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:536:48: warning: format specifies type 'unsigned long' but the argument has type 'uint64_t' (aka 'unsigned long long') [-Wformat] | |
| printf("bit array of size %lu: \n",_size); | |
| ~~~ ^~~~~ | |
| %llu | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:540:38: warning: format specifies type 'unsigned long' but the argument has type 'uint64_t' (aka 'unsigned long long') [-Wformat] | |
| printf(" (%lu) ",ii); | |
| ~~~ ^~ | |
| %llu | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:549:40: warning: format specifies type 'unsigned long' but the argument has type 'uint64_t' (aka 'unsigned long long') [-Wformat] | |
| printf("%lu : %lu, ",ii,_ranks[ii]); | |
| ~~~ ^~ | |
| %llu | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:549:43: warning: format specifies type 'unsigned long' but the argument has type 'value_type' (aka 'unsigned long long') [-Wformat] | |
| printf("%lu : %lu, ",ii,_ranks[ii]); | |
| ~~~ ^~~~~~~~~~ | |
| %llu | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.h:10: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:40: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/MinimizerIndex.hpp:12: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:536:48: warning: format specifies type 'unsigned long' but the argument has type 'uint64_t' (aka 'unsigned long long') [-Wformat] | |
| printf("bit array of size %lu: \n",_size); | |
| ~~~ ^~~~~ | |
| %llu | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:540:38: warning: format specifies type 'unsigned long' but the argument has type 'uint64_t' (aka 'unsigned long long') [-Wformat] | |
| printf(" (%lu) ",ii); | |
| ~~~ ^~ | |
| %llu | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:549:40: warning: format specifies type 'unsigned long' but the argument has type 'uint64_t' (aka 'unsigned long long') [-Wformat] | |
| printf("%lu : %lu, ",ii,_ranks[ii]); | |
| ~~~ ^~ | |
| %llu | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:549:43: warning: format specifies type 'unsigned long' but the argument has type 'value_type' (aka 'unsigned long long') [-Wformat] | |
| printf("%lu : %lu, ",ii,_ranks[ii]); | |
| ~~~ ^~~~~~~~~~ | |
| %llu | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.h:13: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:43: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:7: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedCoverage.hpp:169:57: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| CompressedCoverage_t(CompressedCoverage&& c) : ccov(move(c)) {} | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:40: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/MinimizerIndex.hpp:19:35: warning: 'iterator<std::forward_iterator_tag, packed_tiny_vector>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, packed_tiny_vector> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, packed_tiny_vector>' has been explicitly marked deprecated here | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedCoverage.hpp:182:57struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator: | |
| ^warning: | |
| unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| CompressedCoverage_t(CompressedCoverage&& c) : ccov(move(c)) {} | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.h:13: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:43: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:28:70: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:28:84: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:87:70: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| : note: /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' has been explicitly marked deprecated here: | |
| 87:84: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.h:10: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:40: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/MinimizerIndex.hpp:19:35: warning: 'iterator<std::forward_iterator_tag, packed_tiny_vector>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, packed_tiny_vector> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, packed_tiny_vector>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:43: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:7: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedCoverage.hpp:169:57: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| CompressedCoverage_t(CompressedCoverage&& c) : ccov(move(c)) {} | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.h:7: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:831: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:147:29: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| h_kmers_ccov.insert(move(km), move(it_s->ccov)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedCoverage.hpp:182:57: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| CompressedCoverage_t(CompressedCoverage&& c) : ccov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:147:39: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| h_kmers_ccov.insert(move(km), move(it_s->ccov)); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:43: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:28:70: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:28:84: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:87:70: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:87:84: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.cpp:2: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.h:5: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/EMAlgorithm.h:5: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:37: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:18: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/minHashIterator.hpp:507:21: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| v = move(v_tmp); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.h:10: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:43: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:7: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedCoverage.hpp:169:57: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| CompressedCoverage_t(CompressedCoverage&& c) : ccov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedCoverage.hpp:182:57: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| CompressedCoverage_t(CompressedCoverage&& c) : ccov(move(c)) {} | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.h:10: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:43: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:28:70: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:28:84: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:87:70: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:87:84: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.cpp:6: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.h:17: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:37: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:18: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/minHashIterator.hpp:507:21: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| v = move(v_tmp); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:700:22: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| bf = move(filter_out.second.first); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:701:21: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| r = move(filter_out.second.second); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.cpp:2: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.h:5: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/EMAlgorithm.h:5: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:37: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:1149:86: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| ReadHasherMinimizer(ReadQualityHasherMinimizer&& o) : k(o.k), g(o.g), sc_min(move(o.sc_min)) { | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:1151:85: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| for (size_t i = 0; i < NB_STREAMCOUNTER_PER_READHASHER; ++i) sc_km[i] = move(o.sc_km[i]); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.cpp:6: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.h:17: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:37: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:1149:86: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| ReadHasherMinimizer(ReadQualityHasherMinimizer&& o) : k(o.k), g(o.g), sc_min(move(o.sc_min)) { | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:1151:85: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| for (size_t i = 0; i < NB_STREAMCOUNTER_PER_READHASHER; ++i) sc_km[i] = move(o.sc_km[i]); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:1673:23: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| rsh = move(rqh); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.h:13: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:138:85: note: in instantiation of template class 'KmerHashTable<CompressedCoverage_t<void>>::iterator_<false>' requested here | |
| KmerHashTable<CompressedCoverage_t<void>>::const_iterator it_s = o.h_kmers_ccov.begin(); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.h:13: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:138:63: note: in instantiation of template class 'KmerHashTable<CompressedCoverage_t<void>>::iterator_<>' requested here | |
| KmerHashTable<CompressedCoverage_t<void>>::const_iterator it_s = o.h_kmers_ccov.begin(); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.h:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:37: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:18: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/minHashIterator.hpp:507:21: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| v = move(v_tmp); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.h:13: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:831: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:147:29: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| h_kmers_ccov.insert(move(km), move(it_s->ccov)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:147:39: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| h_kmers_ccov.insert(move(km), move(it_s->ccov)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:1673:23: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| rsh = move(rqh); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:138:85: note: in instantiation of template class 'KmerHashTable<CompressedCoverage_t<void>>::iterator_<false>' requested here | |
| KmerHashTable<CompressedCoverage_t<void>>::const_iterator it_s = o.h_kmers_ccov.begin(); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:138:63: note: in instantiation of template class 'KmerHashTable<CompressedCoverage_t<void>>::iterator_<>' requested here | |
| KmerHashTable<CompressedCoverage_t<void>>::const_iterator it_s = o.h_kmers_ccov.begin(); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:831: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:147:29: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| h_kmers_ccov.insert(move(km), move(it_s->ccov)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:147:39: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| h_kmers_ccov.insert(move(km), move(it_s->ccov)); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.cpp:6: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.h:17: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:40: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/MinimizerIndex.hpp:12: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:536:48: warning: format specifies type 'unsigned long' but the argument has type 'uint64_t' (aka 'unsigned long long') [-Wformat] | |
| printf("bit array of size %lu: \n",_size); | |
| ~~~ ^~~~~ | |
| %llu | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:540:38: warning: format specifies type 'unsigned long' but the argument has type 'uint64_t' (aka 'unsigned long long') [-Wformat] | |
| printf(" (%lu) ",ii); | |
| ~~~ ^~ | |
| %llu | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:549:40: warning: format specifies type 'unsigned long' but the argument has type 'uint64_t' (aka 'unsigned long long') [-Wformat] | |
| printf("%lu : %lu, ",ii,_ranks[ii]); | |
| ~~~ ^~ | |
| %llu | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:549:43: warning: format specifies type 'unsigned long' but the argument has type 'value_type' (aka 'unsigned long long') [-Wformat] | |
| printf("%lu : %lu, ",ii,_ranks[ii]); | |
| ~~~ ^~~~~~~~~~ | |
| %llu | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.h:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:37: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:1149:86: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| ReadHasherMinimizer(ReadQualityHasherMinimizer&& o) : k(o.k), g(o.g), sc_min(move(o.sc_min)) { | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:1151:85: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| for (size_t i = 0; i < NB_STREAMCOUNTER_PER_READHASHER; ++i) sc_km[i] = move(o.sc_km[i]); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:700:22: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| bf = move(filter_out.second.first); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:701:21: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| r = move(filter_out.second.second); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.cpp:2: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.h:5: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/EMAlgorithm.h:5: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:40: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/MinimizerIndex.hpp:12: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:536:48: warning: format specifies type 'unsigned long' but the argument has type 'uint64_t' (aka 'unsigned long long') [-Wformat] | |
| printf("bit array of size %lu: \n",_size); | |
| ~~~ ^~~~~ | |
| %llu | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:540:38: warning: format specifies type 'unsigned long' but the argument has type 'uint64_t' (aka 'unsigned long long') [-Wformat] | |
| printf(" (%lu) ",ii); | |
| ~~~ ^~ | |
| %llu | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:549:40: warning: format specifies type 'unsigned long' but the argument has type 'uint64_t' (aka 'unsigned long long') [-Wformat] | |
| printf("%lu : %lu, ",ii,_ranks[ii]); | |
| ~~~ ^~ | |
| %llu | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:549:43: warning: format specifies type 'unsigned long' but the argument has type 'value_type' (aka 'unsigned long long') [-Wformat] | |
| printf("%lu : %lu, ",ii,_ranks[ii]); | |
| ~~~ ^~~~~~~~~~ | |
| %llu | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:37: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:18: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/minHashIterator.hpp:507:21: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| v = move(v_tmp); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.cpp:6: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.h:17: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:40: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/MinimizerIndex.hpp:19:35: warning: 'iterator<std::forward_iterator_tag, packed_tiny_vector>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, packed_tiny_vector> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, packed_tiny_vector>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:700:22: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| bf = move(filter_out.second.first); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:701:21: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| r = move(filter_out.second.second); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:1673:23: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| rsh = move(rqh); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.cpp:6: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.h:17: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:43: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:7: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedCoverage.hpp:169:57: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| CompressedCoverage_t(CompressedCoverage&& c) : ccov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedCoverage.hpp:182:57: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| CompressedCoverage_t(CompressedCoverage&& c) : ccov(move(c)) {} | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.cpp:6: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.h:17: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:43: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:28:70: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:28:84: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:2771:31: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| if (reference_mode) bf2 = move(bf1); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:87:70: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:87:84: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.cpp:2: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.h:5: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/EMAlgorithm.h:5: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:40: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/MinimizerIndex.hpp:19:35: warning: 'iterator<std::forward_iterator_tag, packed_tiny_vector>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, packed_tiny_vector> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, packed_tiny_vector>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.h:7: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, bool>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__utility/pair.h:48:9: note: in instantiation of template class 'KmerHashTable<bool>::iterator_<false>' requested here | |
| _T1 first; | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:3454:74: note: in instantiation of template class 'std::pair<KmerHashTable<bool>::iterator_<false>, bool>' requested here | |
| for (const auto& km_tip : l_ignored_km_tips) ignored_km_tips.insert(km_tip, false); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, bool>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.h:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:40: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/MinimizerIndex.hpp:12: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:536:48: warning: format specifies type 'unsigned long' but the argument has type 'uint64_t' (aka 'unsigned long long') [-Wformat] | |
| printf("bit array of size %lu: \n",_size); | |
| ~~~ ^~~~~ | |
| %llu | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:540:38: warning: format specifies type 'unsigned long' but the argument has type 'uint64_t' (aka 'unsigned long long') [-Wformat] | |
| printf(" (%lu) ",ii); | |
| ~~~ ^~ | |
| %llu | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:549:40: warning: format specifies type 'unsigned long' but the argument has type 'uint64_t' (aka 'unsigned long long') [-Wformat] | |
| printf("%lu : %lu, ",ii,_ranks[ii]); | |
| ~~~ ^~ | |
| %llu | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:549:43: warning: format specifies type 'unsigned long' but the argument has type 'value_type' (aka 'unsigned long long') [-Wformat] | |
| printf("%lu : %lu, ",ii,_ranks[ii]); | |
| ~~~ ^~~~~~~~~~ | |
| %llu | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.cpp:2: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.h:5: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/EMAlgorithm.h:5: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:43: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:7: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedCoverage.hpp:169:57: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| CompressedCoverage_t(CompressedCoverage&& c) : ccov(move(c)) {} | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:37: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedCoverage.hpp:182:57: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| 1149:86: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| CompressedCoverage_t(CompressedCoverage&& c) : ccov(move(c)) {} | |
| ^ | |
| std:: | |
| ReadHasherMinimizer(ReadQualityHasherMinimizer&& o) : k(o.k), g(o.g), sc_min(move(o.sc_min)) { | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:1151:85: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| for (size_t i = 0; i < NB_STREAMCOUNTER_PER_READHASHER; ++i) sc_km[i] = move(o.sc_km[i]); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.cpp:2: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.h:5: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/EMAlgorithm.h:5: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:43: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:28:70: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:28:84: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:87:70: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:87:84: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:700:22: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| bf = move(filter_out.second.first); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:701:21: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| r = move(filter_out.second.second); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.h:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:40: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/MinimizerIndex.hpp:19:35: warning: 'iterator<std::forward_iterator_tag, packed_tiny_vector>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, packed_tiny_vector> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, packed_tiny_vector>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.h:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:43: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:7: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedCoverage.hpp:169:57: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| CompressedCoverage_t(CompressedCoverage&& c) : ccov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedCoverage.hpp:182:57: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| CompressedCoverage_t(CompressedCoverage&& c) : ccov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:1673:23: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| rsh = move(rqh); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.h:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:43: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:28:70: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:28:84: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:87:70: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:87:84: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.h:10: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:138:85: note: in instantiation of template class 'KmerHashTable<CompressedCoverage_t<void>>::iterator_<false>' requested here | |
| KmerHashTable<CompressedCoverage_t<void>>::const_iterator it_s = o.h_kmers_ccov.begin(); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.h:10: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:138:63: note: in instantiation of template class 'KmerHashTable<CompressedCoverage_t<void>>::iterator_<>' requested here | |
| KmerHashTable<CompressedCoverage_t<void>>::const_iterator it_s = o.h_kmers_ccov.begin(); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:40: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/MinimizerIndex.hpp:12: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:536:48: warning: format specifies type 'unsigned long' but the argument has type 'uint64_t' (aka 'unsigned long long') [-Wformat] | |
| printf("bit array of size %lu: \n",_size); | |
| ~~~ ^~~~~ | |
| %llu | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:540:38: warning: format specifies type 'unsigned long' but the argument has type 'uint64_t' (aka 'unsigned long long') [-Wformat] | |
| printf(" (%lu) ",ii); | |
| ~~~ ^~ | |
| %llu | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.h:10: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:831: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:147:29: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| h_kmers_ccov.insert(move(km), move(it_s->ccov)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:147:39: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h: h_kmers_ccov.insert(move(km), move(it_s->ccov)); | |
| 549 ^: | |
| 40 std::: | |
| warning: format specifies type 'unsigned long' but the argument has type 'uint64_t' (aka 'unsigned long long') [-Wformat] | |
| printf("%lu : %lu, ",ii,_ranks[ii]); | |
| ~~~ ^~ | |
| %llu | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:549:43: warning: format specifies type 'unsigned long' but the argument has type 'value_type' (aka 'unsigned long long') [-Wformat] | |
| printf("%lu : %lu, ",ii,_ranks[ii]); | |
| ~~~ ^~~~~~~~~~ | |
| %llu | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.cpp:2: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.h:5: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/EMAlgorithm.h:5: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:138:85: note: in instantiation of template class 'KmerHashTable<CompressedCoverage_t<void>>::iterator_<false>' requested here | |
| KmerHashTable<CompressedCoverage_t<void>>::const_iterator it_s = o.h_kmers_ccov.begin(); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.cpp:2: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.h:5: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/EMAlgorithm.h:5: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:138:63: note: in instantiation of template class 'KmerHashTable<CompressedCoverage_t<void>>::iterator_<>' requested here | |
| KmerHashTable<CompressedCoverage_t<void>>::const_iterator it_s = o.h_kmers_ccov.begin(); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.cpp:6: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.h:17: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:138:85: note: in instantiation of template class 'KmerHashTable<CompressedCoverage_t<void>>::iterator_<false>' requested here | |
| KmerHashTable<CompressedCoverage_t<void>>::const_iterator it_s = o.h_kmers_ccov.begin(); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.cpp:2: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.h:5: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/EMAlgorithm.h:5: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:831: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:147:29: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| h_kmers_ccov.insert(move(km), move(it_s->ccov)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:147:39: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.cpp:6: | |
| In file included from h_kmers_ccov.insert(move(km), move(it_s->ccov));/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.h | |
| : ^17 | |
| : | |
| std::In file included from | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:138:63: note: in instantiation of template class 'KmerHashTable<CompressedCoverage_t<void>>::iterator_<>' requested here | |
| KmerHashTable<CompressedCoverage_t<void>>::const_iterator it_s = o.h_kmers_ccov.begin(); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.cpp:6: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.h:17: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:831: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:147:29: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| h_kmers_ccov.insert(move(km), move(it_s->ccov)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:147:39: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| h_kmers_ccov.insert(move(km), move(it_s->ccov)); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.cpp:1: | |
| In file included from In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.cpp:1: | |
| 700:In file included from 22:/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.h:/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc8: | |
| :In file included from 700/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.h:22:: warning: 7unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| : | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| bf = move(filter_out.second.first);In file included from | |
| bf = move(filter_out.second.first);35 | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:700: ^ ^ | |
| std::22 | |
| : | |
| warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| : | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc bf = move(filter_out.second.first); std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp | |
| ^ | |
| std::20:35: warning: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:701:21: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| r = move(filter_out.second.second); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:701:21: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| r = move(filter_out.second.second); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:701:21: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| r = move(filter_out.second.second); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:138:85: note: in instantiation of template class 'KmerHashTable<CompressedCoverage_t<void>>::iterator_<false>' requested here | |
| KmerHashTable<CompressedCoverage_t<void>>::const_iterator it_s = o.h_kmers_ccov.begin(); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.h:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:138:63: note: in instantiation of template class 'KmerHashTable<CompressedCoverage_t<void>>::iterator_<>' requested here | |
| KmerHashTable<CompressedCoverage_t<void>>::const_iterator it_s = o.h_kmers_ccov.begin(); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.h:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:831: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:147:29: :warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| h_kmers_ccov.insert(move(km), move(it_s->ccov)); | |
| ^ | |
| std:: | |
| 40: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/MinimizerIndex.hpp:19:35: warning: 'iterator<std::forward_iterator_tag, packed_tiny_vector>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, packed_tiny_vector> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, packed_tiny_vector>' has been explicitly marked deprecated here | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:147:39: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| h_kmers_ccov.insert(move(km), move(it_s->ccov)); | |
| ^ | |
| std:: | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| :2771:31/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:2771:31: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| if (reference_mode) bf2 = move(bf1); | |
| ^ | |
| std:: | |
| : warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| if (reference_mode) bf2 = move(bf1); | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:2771:31: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| if (reference_mode) bf2 = move(bf1); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:43: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:7: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedCoverage.hpp:169:57: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| CompressedCoverage_t(CompressedCoverage&& c) : ccov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:700:22: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| bf = move(filter_out.second.first); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:701:21: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| r = move(filter_out.second.second); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedCoverage.hpp:182:57: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| CompressedCoverage_t(CompressedCoverage&& c) : ccov(move(c)) {} | |
| ^ | |
| std:: | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, std::vector<unsigned long>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:5329:56: note: in instantiation of template class 'KmerHashTable<std::vector<unsigned long>>::iterator_<false>' requested here | |
| KmerHashTable<vector<size_t>>::iterator it(kht.begin()); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, std::vector<unsigned long>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:43: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:28:70: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:28:84: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:87:70: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:87:84: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, bool>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__utility/pair.h:48:9: note: in instantiation of template class 'KmerHashTable<bool>::iterator_<false>' requested here | |
| _T1 first; | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:3454:74: note: in instantiation of template class 'std::pair<KmerHashTable<bool>::iterator_<false>, bool>' requested here | |
| for (const auto& km_tip : l_ignored_km_tips) ignored_km_tips.insert(km_tip, false); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, bool>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.cppIn file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.cpp:3: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.h:6: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, bool>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__utility/pair.h:48:9: note: in instantiation of template class 'KmerHashTable<bool>::iterator_<false>' requested here | |
| _T1 first; | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:3454:74: note: in instantiation of template class 'std::pair<KmerHashTable<bool>::iterator_<false>, bool>' requested here | |
| for (const auto& km_tip : l_ignored_km_tips) ignored_km_tips.insert(km_tip, false); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, bool>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| :1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.h:13: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, bool>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__utility/pair.h:48:9: note: in instantiation of template class 'KmerHashTable<bool>::iterator_<false>' requested here | |
| _T1 first; | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:3454:74: note: in instantiation of template class 'std::pair<KmerHashTable<bool>::iterator_<false>, bool>' requested here | |
| for (const auto& km_tip : l_ignored_km_tips) ignored_km_tips.insert(km_tip, false); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, bool>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:2771:31: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| if (reference_mode) bf2 = move(bf1); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:2771:31: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| if (reference_mode) bf2 = move(bf1); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.cpp:2: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.h:5: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/EMAlgorithm.h:5: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, bool>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__utility/pair.h:48:9: note: in instantiation of template class 'KmerHashTable<bool>::iterator_<false>' requested here | |
| _T1 first; | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:3454:74: note: in instantiation of template class 'std::pair<KmerHashTable<bool>::iterator_<false>, bool>' requested here | |
| for (const auto& km_tip : l_ignored_km_tips) ignored_km_tips.insert(km_tip, false); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, bool>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:138:85: note: in instantiation of template class 'KmerHashTable<CompressedCoverage_t<void>>::iterator_<false>' requested here | |
| KmerHashTable<CompressedCoverage_t<void>>::const_iterator it_s = o.h_kmers_ccov.begin(); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:138:63: note: in instantiation of template class 'KmerHashTable<CompressedCoverage_t<void>>::iterator_<>' requested here | |
| KmerHashTable<CompressedCoverage_t<void>>::const_iterator it_s = o.h_kmers_ccov.begin(); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:831: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:147:29: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| h_kmers_ccov.insert(move(km), move(it_s->ccov)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:147:39: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| h_kmers_ccov.insert(move(km), move(it_s->ccov)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:2771:31: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| if (reference_mode) bf2 = move(bf1); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.h:7: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, Kmer>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:6680:28: note: in instantiation of template class 'KmerHashTable<Kmer>::iterator_<false>' requested here | |
| if ((joins.find(tail) == joins.end()) && checkJoin(tail, cm, fw)) joins.insert(fw.twin(), tail); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, Kmer>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.cpp:6: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.h:17: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, bool>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.h:10: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, bool>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__utility/pair.h:48:9: note: in instantiation of template class 'KmerHashTable<bool>::iterator_<false>' requested here | |
| _T1 first; | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:3454:74: note: in instantiation of template class 'std::pair<KmerHashTable<bool>::iterator_<false>, bool>' requested here | |
| for (const auto& km_tip : l_ignored_km_tips) ignored_km_tips.insert(km_tip, false); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, bool>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__utility/pair.h:48# define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.h:7: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: :9: note: In file included from In file included from 'iterator<std::forward_iterator_tag, char>' is deprecated [-Wdeprecated-declarations]/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc | |
| :700:22: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| bf = move(filter_out.second.first); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:7000:28: note: in instantiation of template class 'KmerHashTable<char>::iterator_<false>' requested here | |
| if ((joins.find(tail) == joins.end()) && checkJoin(tail, cm, fw)) joins.insert(fw.twin(), tail.getChar(0)); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, char>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:701:21: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| r = move(filter_out.second.second); | |
| ^ | |
| std:: | |
| in instantiation of template class 'KmerHashTable<bool>::iterator_<false>' requested here | |
| _T1 first; | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:3454:74: note: in instantiation of template class 'std::pair<KmerHashTable<bool>::iterator_<false>, bool>' requested here | |
| for (const auto& km_tip : l_ignored_km_tips) ignored_km_tips.insert(km_tip, false); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, bool>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.cpp | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| :3: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.h:6: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, std::vector<unsigned long>>' is deprecated [-Wdeprecated-declarations] | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, std::vector<unsigned long>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:5329:56: note: in instantiation of template class 'KmerHashTable<std::vector<unsigned long>>::iterator_<false>' requested here | |
| KmerHashTable<vector<size_t>>::iterator it(kht.begin()); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, std::vector<unsigned long>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:2771:31: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| if (reference_mode) bf2 = move(bf1); | |
| ^ | |
| std:: | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.h:13: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, std::vector<unsigned long>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:5329:56: note: in instantiation of template class 'KmerHashTable<std::vector<unsigned long>>::iterator_<false>' requested here | |
| KmerHashTable<vector<size_t>>::iterator it(kht.begin()); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, std::vector<unsigned long>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.cpp:2: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.h:5: | |
| In file included from 5329:In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.h:7: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, unsigned char>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| 56: note: in instantiation of template class 'KmerHashTable<std::vector<unsigned long>>::iterator_<false>' requested here | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__utility/pair.h:48:9: note: in instantiation of template class 'KmerHashTable<unsigned char>::iterator_<false>' requested here | |
| _T1 first; | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:8103:40: note: in instantiation of template class 'std::pair<KmerHashTable<unsigned char>::iterator_<false>, bool>' requested here | |
| if ((i == 4) && (j == 4)) tips.insert(km, 3); | |
| ^ | |
| KmerHashTable<vector<size_t>>::iterator it(kht.begin()); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, unsigned char>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.cpp810::149: | |
| : note: In file included from expanded from macro '_LIBCPP_DEPRECATED'/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.h | |
| :8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:# define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| 35: warning: 'iterator<std::forward_iterator_tag, bool>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__utility/pair.h:48:9: note: in instantiation of template class 'KmerHashTable<bool>::iterator_<false>' requested here | |
| _T1 first; | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:3454:74: note: in instantiation of template class 'std::pair<KmerHashTable<bool>::iterator_<false>, bool>' requested here | |
| for (const auto& km_tip : l_ignored_km_tips) ignored_km_tips.insert(km_tip, false); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, bool>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.h:13: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, Kmer>' is deprecated [-Wdeprecated-declarations] | |
| 29: note: class iterator_ : public std::iterator<std::forward_iterator_tag, T> {'iterator<std::forward_iterator_tag, std::vector<unsigned long>>' has been explicitly marked deprecated here | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:6680:28: note: struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.h:10: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, std::vector<unsigned long>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:5329:56: note: in instantiation of template class 'KmerHashTable<std::vector<unsigned long>>::iterator_<false>' requested here | |
| KmerHashTable<vector<size_t>>::iterator it(kht.begin()); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, std::vector<unsigned long>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/EMAlgorithm.h:5: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.cpp:In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.cpp:3: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.h:6: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, Kmer>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:6680:28: note: in instantiation of template class 'KmerHashTable<Kmer>::iterator_<false>' requested here | |
| if ((joins.find(tail) == joins.end()) && checkJoin(tail, cm, fw)) joins.insert(fw.twin(), tail); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, Kmer>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| 'iterator<std::forward_iterator_tag, std::vector<unsigned long>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:5329:56: note: in instantiation of template class 'KmerHashTable<std::vector<unsigned long>>::iterator_<false>' requested here | |
| KmerHashTable<vector<size_t>>::iterator it(kht.begin()); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, std::vector<unsigned long>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| 1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, Kmer>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:6680:28: note: in instantiation of template class 'KmerHashTable<Kmer>::iterator_<false>' requested here | |
| if ((joins.find(tail) == joins.end()) && checkJoin(tail, cm, fw)) joins.insert(fw.twin(), tail);in instantiation of template class 'KmerHashTable<Kmer>::iterator_<false>' requested here | |
| if ((joins.find(tail) == joins.end()) && checkJoin(tail, cm, fw)) joins.insert(fw.twin(), tail); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, Kmer>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, Kmer>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:2771:31: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| if (reference_mode) bf2 = move(bf1); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.cpp:3: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.h:6: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, char>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:7000:28: note: in instantiation of template class 'KmerHashTable<char>::iterator_<false>' requested here | |
| if ((joins.find(tail) == joins.end()) && checkJoin(tail, cm, fw)) joins.insert(fw.twin(), tail.getChar(0)); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, char>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.cpp:/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.cpp1:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16In file included from In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.cpp:1/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.cpp16:: | |
| 1In file included from : | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, bool>' is deprecated [-Wdeprecated-declarations] | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.cpp:3: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.h:6: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, unsigned char>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__utility/pair.h:48:9/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__utility/pair.h:: 48note: :9: note: in instantiation of template class 'KmerHashTable<unsigned char>::iterator_<false>' requested here | |
| _T1 first; | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:8103:40: note: in instantiation of template class 'std::pair<KmerHashTable<unsigned char>::iterator_<false>, bool>' requested here | |
| : | |
| if ((i == 4) && (j == 4)) tips.insert(km, 3); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, unsigned char>' has been explicitly marked deprecated here | |
| In file included from struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.h | |
| : ^13 | |
| : | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.h:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp# define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED: | |
| 35 ^: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config::35: warning: 'iterator<std::forward_iterator_tag, std::vector<unsigned long>>' is deprecated [-Wdeprecated-declarations] | |
| 810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:5329:56: note: in instantiation of template class 'KmerHashTable<std::vector<unsigned long>>::iterator_<false>' requested here | |
| KmerHashTable<vector<size_t>>::iterator it(kht.begin()); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, std::vector<unsigned long>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| in instantiation of template class 'KmerHashTable<bool>::iterator_<false>' requested here | |
| _T1 first; | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:3454In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.cpp:2: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.h:5: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/EMAlgorithm.h:5: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, Kmer>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| : | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:6680/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp::28: note: in instantiation of template class 'KmerHashTable<Kmer>::iterator_<false>' requested here | |
| if ((joins.find(tail) == joins.end()) && checkJoin(tail, cm, fw)) joins.insert(fw.twin(), tail); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, Kmer>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| : | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, char>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:7000:28: note: in instantiation of template class 'KmerHashTable<char>::iterator_<false>' requested here | |
| : | |
| In file included from :74: if ((joins.find(tail) == joins.end()) && checkJoin(tail, cm, fw)) joins.insert(fw.twin(), tail.getChar(0));/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.hIn file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.cpp:note: 6 | |
| : | |
| in instantiation of template class 'std::pair<KmerHashTable<bool>::iterator_<false>, bool>' requested here ^ | |
| :20:35: warning: 'iterator<std::forward_iterator_tag, char>' is deprecated [-Wdeprecated-declarations] | |
| In file included from for (const auto& km_tip : l_ignored_km_tips) ignored_km_tips.insert(km_tip, false); | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.cpp:2: | |
| In file included from class iterator_ : public std::iterator<std::forward_iterator_tag, T> {/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.h | |
| : ^ | |
| 5: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/EMAlgorithm.h:5: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc::7000:28: note: in instantiation of template class 'KmerHashTable<char>::iterator_<false>' requested here | |
| In file included from if ((joins.find(tail) == joins.end()) && checkJoin(tail, cm, fw)) joins.insert(fw.twin(), tail.getChar(0)); | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.h:7: | |
| In file included from 10/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h: | |
| :In file included from 16: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.h:17: | |
| In file included from | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, std::vector<unsigned long>>' is deprecated [-Wdeprecated-declarations] | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, char>' has been explicitly marked deprecated here | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp: class iterator_ : public std::iterator<std::forward_iterator_tag, T> {35struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| :24:29: note: 'iterator<std::forward_iterator_tag, bool>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| 16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35# define _LIBCPP_DEPRECATED __attribute__((deprecated)): | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, Kmer>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:6680:28: note: in instantiation of template class 'KmerHashTable<Kmer>::iterator_<false>' requested here | |
| if ((joins.find(tail) == joins.end()) && checkJoin(tail, cm, fw)) joins.insert(fw.twin(), tail); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, Kmer>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| 29 | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:5329:56: note: in instantiation of template class 'KmerHashTable<std::vector<unsigned long>>::iterator_<false>' requested here | |
| KmerHashTable<vector<size_t>>::iterator it(kht.begin()); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, std::vector<unsigned long>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| : note: 'iterator<std::forward_iterator_tag, char>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.h:10: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from : | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.h:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, Kmer>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:6680:28: note: in instantiation of template class 'KmerHashTable<Kmer>::iterator_<false>' requested here | |
| if ((joins.find(tail) == joins.end()) && checkJoin(tail, cm, fw)) joins.insert(fw.twin(), tail); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, Kmer>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| : | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, char>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:7000:28: note: in instantiation of template class 'KmerHashTable<char>::iterator_<false>' requested here | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, unsigned long>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| if ((joins.find(tail) == joins.end()) && checkJoin(tail, cm, fw)) joins.insert(fw.twin(), tail.getChar(0)); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__utility/pair.h:48:9: note: in instantiation of template class 'KmerHashTable<unsigned long>::iterator_<false>' requested here | |
| _T1 first; | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, char>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:413:38: note: in instantiation of template class 'std::pair<KmerHashTable<unsigned long>::iterator_<false>, bool>' requested here | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config: if (unitig.isAbundant) idmap.insert(Kmer(unitig.referenceUnitigToString().c_str()), labelA); | |
| 810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, char>' is deprecated [-Wdeprecated-declarations] | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:7000:28: note: in instantiation of template class 'KmerHashTable<char>::iterator_<false>' requested here | |
| if ((joins.find(tail) == joins.end()) && checkJoin(tail, cm, fw)) joins.insert(fw.twin(), tail.getChar(0)); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, char>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.cpp:6: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.h:17: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, Kmer>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:6680:28: note: in instantiation of template class 'KmerHashTable<Kmer>::iterator_<false>' requested here | |
| if ((joins.find(tail) == joins.end()) && checkJoin(tail, cm, fw)) joins.insert(fw.twin(), tail); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, Kmer>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, unsigned char>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| ^ | |
| In file included from In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.h/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.cppIn file included from :24:29/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.cpp:: 6In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__utility/pair.h:1: | |
| :48In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.h:13: | |
| : | |
| note: In file included from In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.h:/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.cpp17::In file included from In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.cpp/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h::316:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.cppIn file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.h:6: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:118: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| : | |
| 9:: 1: | |
| note: in instantiation of template class 'KmerHashTable<unsigned char>::iterator_<false>' requested hereIn file included from | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.h:10'iterator<std::forward_iterator_tag, unsigned long>' has been explicitly marked deprecated here _T1 first; | |
| 2: | |
| In file included from : | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20: ^struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator: | |
| ^In file included from | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hppIn file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.h/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config::5837: | |
| :In file included from 41/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/EMAlgorithm.h::35:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, char>' is deprecated [-Wdeprecated-declarations] | |
| :: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:8103:40 class iterator_ : public std::iterator<std::forward_iterator_tag, T> {: | |
| ^ | |
| note: in instantiation of template class 'std::pair<KmerHashTable<unsigned char>::iterator_<false>, bool>' requested here | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h::16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp: note: 5expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17': | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:In file included from 35# define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED: | |
| if ((i == 4) && (j == 4)) tips.insert(km, 3); | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp ^: | |
| 20:35:7000::28: /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.hnote: :in instantiation of template class 'KmerHashTable<char>::iterator_<false>' requested here11 | |
| : | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.hIn file included from : ^24:2920:35:/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h :warning: 16 | |
| : warning: 'iterator<std::forward_iterator_tag, unsigned char>' is deprecated [-Wdeprecated-declarations] | |
| 'iterator<std::forward_iterator_tag, unsigned char>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { warning: note: 'iterator<std::forward_iterator_tag, unsigned long>' is deprecated [-Wdeprecated-declarations] class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| : | |
| ^ | |
| 'iterator<std::forward_iterator_tag, unsigned char>' has been explicitly marked deprecated here | |
| if ((joins.find(tail) == joins.end()) && checkJoin(tail, cm, fw)) joins.insert(fw.twin(), tail.getChar(0));/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__utility/pair.h:48:struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator9 | |
| : ^ | |
| ^ | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h: | |
| :24/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__utility/pair.h/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:48:/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config20: | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED'note: /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__utility/pair.h:48:9: :note: in instantiation of template class 'KmerHashTable<unsigned char>::iterator_<false>' requested here | |
| 837::in instantiation of template class 'KmerHashTable<unsigned char>::iterator_<false>' requested here29 _T1 first; | |
| ^ | |
| :9: 1641 | |
| : note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| 35: _T1 first; | |
| warning: ^'iterator<std::forward_iterator_tag, char>' is deprecated [-Wdeprecated-declarations] | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49:/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc :note: 8103expanded from macro '_LIBCPP_DEPRECATED': | |
| 40: note: in instantiation of template class 'std::pair<KmerHashTable<unsigned char>::iterator_<false>, bool>' requested here class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| : | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc if ((i == 4) && (j == 4)) tips.insert(km, 3);: | |
| 8103 ^note: | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated))in instantiation of template class 'KmerHashTable<unsigned long>::iterator_<false>' requested here | |
| ^: | |
| note: 'iterator<std::forward_iterator_tag, char>' has been explicitly marked deprecated here | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29 ^ | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hppnote: expanded from macro '_LIBCPP_DEPRECATED' | |
| :35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, unsigned char>' is deprecated [-Wdeprecated-declarations] | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__utility/pair.h:48:9: note: in instantiation of template class 'KmerHashTable<unsigned char>::iterator_<false>' requested here | |
| _T1 first; | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:8103:40: note: in instantiation of template class 'std::pair<KmerHashTable<unsigned char>::iterator_<false>, bool>' requested here | |
| if ((i == 4) && (j == 4)) tips.insert(km, 3); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, unsigned char>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:7000:28: note: in instantiation of template class 'KmerHashTable<char>::iterator_<false>' requested here | |
| if ((joins.find(tail) == joins.end()) && checkJoin(tail, cm, fw)) joins.insert(fw.twin(), tail.getChar(0)); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, char>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| :40: note: in instantiation of template class 'std::pair<KmerHashTable<unsigned char>::iterator_<false>, bool>' requested here | |
| if ((i == 4) && (j == 4)) tips.insert(km, 3); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, unsigned char>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| _T1 first; | |
| ^ | |
| : note: 'iterator<std::forward_iterator_tag, unsigned char>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:413:38: note: in instantiation of template class 'std::pair<KmerHashTable<unsigned long>::iterator_<false>, bool>' requested here | |
| if (unitig.isAbundant) idmap.insert(Kmer(unitig.referenceUnitigToString().c_str()), labelA); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, unsigned long>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, std::vector<unsigned long>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:5329:56: note: in instantiation of template class 'KmerHashTable<std::vector<unsigned long>>::iterator_<false>' requested here | |
| KmerHashTable<vector<size_t>>::iterator it(kht.begin()); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, std::vector<unsigned long>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.cpp:6: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.h:17: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, unsigned char>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__utility/pair.h:48:9: note: in instantiation of template class 'KmerHashTable<unsigned char>::iterator_<false>' requested here | |
| _T1 first; | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:8103:40: note: in instantiation of template class 'std::pair<KmerHashTable<unsigned char>::iterator_<false>, bool>' requested here | |
| if ((i == 4) && (j == 4)) tips.insert(km, 3); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.h:7In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.h:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, unsigned char>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__utility/pair.h:48:9: note: in instantiation of template class 'KmerHashTable<unsigned char>::iterator_<false>' requested here | |
| _T1 first; | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:8103:40: note: in instantiation of template class 'std::pair<KmerHashTable<unsigned char>::iterator_<false>, bool>' requested here | |
| if ((i == 4) && (j == 4)) tips.insert(km, 3); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, unsigned char>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, unsigned long>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__utility/pair.h:48:9: note: in instantiation of template class 'KmerHashTable<unsigned long>::iterator_<false>' requested here | |
| _T1 first; | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:413:38: note: in instantiation of template class 'std::pair<KmerHashTable<unsigned long>::iterator_<false>, bool>' requested here | |
| if (unitig.isAbundant) idmap.insert(Kmer(unitig.referenceUnitigToString().c_str()), labelA); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, unsigned long>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, Kmer>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:6680:28: note: in instantiation of template class 'KmerHashTable<Kmer>::iterator_<false>' requested here | |
| if ((joins.find(tail) == joins.end()) && checkJoin(tail, cm, fw)) joins.insert(fw.twin(), tail); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, Kmer>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| : note: 'iterator<std::forward_iterator_tag, unsigned char>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| : | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:833: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:1690:40: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:1690:50: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, char>' is deprecated [-Wdeprecated-declarations] | |
| In file included from class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.cpp:3: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.h:6: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:7000:28: note: in instantiation of template class 'KmerHashTable<char>::iterator_<false>' requested here | |
| if ((joins.find(tail) == joins.end()) && checkJoin(tail, cm, fw)) joins.insert(fw.twin(), tail.getChar(0)); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, char>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.cpp:2: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.h:5: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/EMAlgorithm.h:5: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, unsigned long>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__utility/pair.h:48:9: note: in instantiation of template class 'KmerHashTable<unsigned long>::iterator_<false>' requested here | |
| _T1 first; | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:413:38: note: in instantiation of template class 'std::pair<KmerHashTable<unsigned long>::iterator_<false>, bool>' requested here | |
| if (unitig.isAbundant) idmap.insert(Kmer(unitig.referenceUnitigToString().c_str()), labelA); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, unsigned long>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.h:13: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, unsigned long>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__utility/pair.h:48:9: note: in instantiation of template class 'KmerHashTable<unsigned long>::iterator_<false>' requested here | |
| _T1 first; | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.h:10: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, unsigned long>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__utility/pair.h:48:9: note: in instantiation of template class 'KmerHashTable<unsigned long>::iterator_<false>' requested here | |
| _T1 first; | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:413:38: note: in instantiation of template class 'std::pair<KmerHashTable<unsigned long>::iterator_<false>, bool>' requested here | |
| if (unitig.isAbundant) idmap.insert(Kmer(unitig.referenceUnitigToString().c_str()), labelA); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, unsigned long>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:413/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| : | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:833: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:1690:40: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:1690:50: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| :38: note: std::/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2423:40 | |
| : warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| in instantiation of template class 'std::pair<KmerHashTable<unsigned long>::iterator_<false>, bool>' requested here | |
| if (unitig.isAbundant) idmap.insert(Kmer(unitig.referenceUnitigToString().c_str()), labelA); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, unsigned long>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2423:50: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, unsigned char>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__utility/pair.h:48:9: note: in instantiation of template class 'KmerHashTable<unsigned char>::iterator_<false>' requested here | |
| _T1 first; | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:8103:40: note: in instantiation of template class 'std::pair<KmerHashTable<unsigned char>::iterator_<false>, bool>' requested here | |
| if ((i == 4) && (j == 4)) tips.insert(km, 3); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, unsigned char>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.cpp:6: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.h:17: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, unsigned long>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__utility/pair.h:48:9: note: in instantiation of template class 'KmerHashTable<unsigned long>::iterator_<false>' requested here | |
| _T1 first; | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:413:38: note: in instantiation of template class 'std::pair<KmerHashTable<unsigned long>::iterator_<false>, bool>' requested here | |
| if (unitig.isAbundant) idmap.insert(Kmer(unitig.referenceUnitigToString().c_str()), labelA); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, unsigned long>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:833: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:1690:40: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:1690:50: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2534:44: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2534:54: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.h:13: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:833: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:1690:40: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| In file included from std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2423:40: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:1690:50: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2423:50: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.h:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, unsigned long>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__utility/pair.h:48:9: note: in instantiation of template class 'KmerHashTable<unsigned long>::iterator_<false>' requested here | |
| _T1 first; | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:413:38: note: in instantiation of template class 'std::pair<KmerHashTable<unsigned long>::iterator_<false>, bool>' requested here | |
| if (unitig.isAbundant) idmap.insert(Kmer(unitig.referenceUnitigToString().c_str()), labelA); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, unsigned long>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2534:44: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2534:54: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.cpp:2: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.h:5: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/EMAlgorithm.h:5: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:833: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:1690:40: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:1690:50: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2423:40: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2423:50: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2534:44: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2534:54: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.h:10: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:833: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:1690:40: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:1690:50: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2423:40: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2423:50: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2534:44: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2534:54: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.cpp:6: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.h:17: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:833: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:1690:40: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:1690:50: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, unsigned long>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__utility/pair.h:48:9: note: in instantiation of template class 'KmerHashTable<unsigned long>::iterator_<false>' requested here | |
| _T1 first; | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:413:38: note: in instantiation of template class 'std::pair<KmerHashTable<unsigned long>::iterator_<false>, bool>' requested here | |
| if (unitig.isAbundant) idmap.insert(Kmer(unitig.referenceUnitigToString().c_str()), labelA); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, unsigned long>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2423:40: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| 2423:40: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2423:50: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2423:50: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.h:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:833: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:1690:40: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:1690:50: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2534:44: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2534:54: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2534:44: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2534:54: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2423:40: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2423:50: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2534:44: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2534:54: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2423:40: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2423:50: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2534:44: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2534:54: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:833: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:1690:40: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:1690:50: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2423:40: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2423:50: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2534:44: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2534:54: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:13: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/ColoredCDBG.hpp:10: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/DataManager.hpp:4: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/ColorSet.hpp:37:57: warning: 'iterator<std::forward_iterator_tag, std::pair<unsigned long, unsigned long>>' is deprecated [-Wdeprecated-declarations] | |
| class UnitigColors_const_iterator : public std::iterator<std::forward_iterator_tag, pair<size_t, size_t>> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, std::pair<unsigned long, unsigned long>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:13: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/ColoredCDBG.hpp:10: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/DataManager.hpp:10: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/DataStorage.tcc:345:23: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| color_names = move(o.color_names); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/DataStorage.tcc:347:20: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| overflow = move(o.overflow); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:13: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/ColoredCDBG.hpp:10: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/DataManager.hpp:11: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/DataAccessor.tcc:153:19: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| *uc_ptr = move(uc_); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/DataAccessor.tcc:197:19: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| *uc_ptr = move(uc_); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/DataAccessor.tcc:276:52: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| if (!new_cs.isEmpty()) *(p.second.first) = move(new_cs); // Move extracted colors to new (inserted) UnitigColors | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/DataAccessor.tcc:299:33: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| *(p.second.first) = move(new_cs); // Move extracted colors to new (inserted) UnitigColors | |
| ^ | |
| std:: | |
| -- Detecting C compiler ABI info - done | |
| -- Check for working C compiler: /opt/homebrew/Library/Homebrew/shims/mac/super/clang - skipped | |
| -- Detecting C compile features | |
| -- Detecting C compile features - done | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:13: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/ColoredCDBG.hpp:369: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/ColoredCDBG.tcc:505:23: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| *uc = move(r_uc); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/ColoredCDBG.tcc:826:68: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| if (uc != nullptr) *(p.second.first) = move(*uc); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:44: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/UnitigIterator.hpp:36:36: warning: 'iterator<std::input_iterator_tag, UnitigMap<DataAccessor<>, DataStorage<>>, int>' is deprecated [-Wdeprecated-declarations] | |
| class unitigIterator : public std::iterator<std::input_iterator_tag, UnitigMap<Unitig_data_t, Graph_data_t, is_const>, int> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/ColoredCDBG.tcc:853:54: note: in instantiation of template class 'unitigIterator<DataAccessor<>, DataStorage<>>' requested here | |
| typename ColoredCDBG<void>::iterator g_a = this->begin(); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::input_iterator_tag, UnitigMap<DataAccessor<>, DataStorage<>>, int>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<DataAccessor<>>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/UnitigIterator.hpp:105:73: note: in instantiation of template class 'KmerHashTable<CompressedCoverage_t<DataAccessor<>>>::iterator_<>' requested here | |
| typename KmerHashTable<CompressedCoverage_t<U>>::const_iterator it_h_kmers_ccov; | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/ColoredCDBG.tcc:853:54: note: in instantiation of template class 'unitigIterator<DataAccessor<>, DataStorage<>>' requested here | |
| typename ColoredCDBG<void>::iterator g_a = this->begin(); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<DataAccessor<>>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:13: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/ColoredCDBG.hpp:369: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/ColoredCDBG.tcc:1758:55: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| buffers_seq.push_back(move(s)); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, tiny_vector<unsigned long, 1>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__utility/pair.h:48:9: note: in instantiation of template class 'KmerHashTable<tiny_vector<unsigned long, 1>>::iterator_<false>' requested here | |
| _T1 first; | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/ColoredCDBG.tcc:1849:83: note: in instantiation of template class 'std::pair<KmerHashTable<tiny_vector<unsigned long, 1>>::iterator_<false>, bool>' requested here | |
| pair<KmerHashTable<tiny_vector<size_t, 1>>::iterator, bool> it = km_h.insert(it_km->first.rep(), tiny_vector<size_t, 1>()); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, tiny_vector<unsigned long, 1>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, tiny_vector<unsigned long, 1>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/ColoredCDBG.tcc:1865:73: note: in instantiation of template class 'KmerHashTable<tiny_vector<unsigned long, 1>>::iterator_<>' requested here | |
| for (typename KmerHashTable<tiny_vector<size_t, 1>>::const_iterator it_km = km_h.begin(), it_km_end = km_h.end(); it_km != it_km_end; ++it_km){ | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, tiny_vector<unsigned long, 1>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:44: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/UnitigIterator.hpp:36:36: warning: 'iterator<std::input_iterator_tag, UnitigMap<Node, void, true>, int>' is deprecated [-Wdeprecated-declarations] | |
| class unitigIterator : public std::iterator<std::input_iterator_tag, UnitigMap<Unitig_data_t, Graph_data_t, is_const>, int> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:217:23: note: in instantiation of template class 'unitigIterator<Node, void, true>' requested here | |
| for (const auto& um : dbg) { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::input_iterator_tag, UnitigMap<Node, void, true>, int>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<Node>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/UnitigIterator.hpp:105:73: note: in instantiation of template class 'KmerHashTable<CompressedCoverage_t<Node>>::iterator_<>' requested here | |
| typename KmerHashTable<CompressedCoverage_t<U>>::const_iterator it_h_kmers_ccov; | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:217:23: note: in instantiation of template class 'unitigIterator<Node, void, true>' requested here | |
| for (const auto& um : dbg) { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<Node>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:44: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/UnitigIterator.hpp:36:36: warning: 'iterator<std::input_iterator_tag, UnitigMap<Node>, int>' is deprecated [-Wdeprecated-declarations] | |
| class unitigIterator : public std::iterator<std::input_iterator_tag, UnitigMap<Unitig_data_t, Graph_data_t, is_const>, int> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:604:17: note: in instantiation of template class 'unitigIterator<Node>' requested here | |
| for (auto& um : dbg) { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::input_iterator_tag, UnitigMap<Node>, int>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| -- Detecting CXX compiler ABI info | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<Node>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/UnitigMap.tcc:274:47: note: in instantiation of template class 'KmerHashTable<CompressedCoverage_t<Node>>::iterator_<>' requested here | |
| if (isAbundant) return cdbg->h_kmers_ccov.find(pos_unitig)->getData(); | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/UnitigMap.tcc:253:12: note: in instantiation of function template specialization 'UnitigMap<Node, void, true>::getData_<false>' requested here | |
| return getData_<is_void<U>::value>(); | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.cpp:227:22: note: in instantiation of member function 'UnitigMap<Node, void, true>::getData' requested here | |
| a.first.getData()->ec[a.first.dist] == b.first.getData()->ec[b.first.dist]) { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<Node>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<Node>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:302:31: note: in instantiation of template class 'KmerHashTable<CompressedCoverage_t<Node>>::iterator_<false>' requested here | |
| return const_iterator(this); | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/UnitigMap.tcc:274:47: note: in instantiation of member function 'KmerHashTable<CompressedCoverage_t<Node>>::find' requested here | |
| if (isAbundant) return cdbg->h_kmers_ccov.find(pos_unitig)->getData(); | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/UnitigMap.tcc:253:12: note: in instantiation of function template specialization 'UnitigMap<Node, void, true>::getData_<false>' requested here | |
| return getData_<is_void<U>::value>(); | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.cpp:227:22: note: in instantiation of member function 'UnitigMap<Node, void, true>::getData' requested here | |
| a.first.getData()->ec[a.first.dist] == b.first.getData()->ec[b.first.dist]) { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<Node>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| 39 warnings generated. | |
| 39 warnings generated. | |
| [ 57%] Building CXX object src/CMakeFiles/kallisto_core.dir/PseudoBam.cpp.o | |
| cd /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build/src && /opt/homebrew/Library/Homebrew/shims/mac/super/clang++ -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/PseudoBam.cpp.o -MF CMakeFiles/kallisto_core.dir/PseudoBam.cpp.o.d -o CMakeFiles/kallisto_core.dir/PseudoBam.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.cpp | |
| [ 61%] Building CXX object src/CMakeFiles/kallisto_core.dir/common.cpp.o | |
| cd /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build/src && /opt/homebrew/Library/Homebrew/shims/mac/super/clang++ -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/common.cpp.o -MF CMakeFiles/kallisto_core.dir/common.cpp.o.d -o CMakeFiles/kallisto_core.dir/common.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/common.cpp | |
| warning: unknown warning option '-Wno-subobject-linkage' [-Wunknown-warning-option] | |
| warning: unknown warning option '-Wno-subobject-linkage' [-Wunknown-warning-option] | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.cpp:6: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.h:17: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<Node>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/UnitigMap.tcc:274:47: note: in instantiation of template class 'KmerHashTable<CompressedCoverage_t<Node>>::iterator_<>' requested here | |
| if (isAbundant) return cdbg->h_kmers_ccov.find(pos_unitig)->getData(); | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/UnitigMap.tcc:253:12: note: in instantiation of function template specialization 'UnitigMap<Node, void, true>::getData_<false>' requested here | |
| return getData_<is_void<U>::value>(); | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.cpp:72:24: note: in instantiation of member function 'UnitigMap<Node, void, true>::getData' requested here | |
| const Node* n = um.getData(); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<Node>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.cpp:6: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.h:17: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<Node>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:302:31: note: in instantiation of template class 'KmerHashTable<CompressedCoverage_t<Node>>::iterator_<false>' requested here | |
| return const_iterator(this); | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/UnitigMap.tcc:274:47: note: in instantiation of member function 'KmerHashTable<CompressedCoverage_t<Node>>::find' requested here | |
| if (isAbundant) return cdbg->h_kmers_ccov.find(pos_unitig)->getData(); | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/UnitigMap.tcc:253:12: note: in instantiation of function template specialization 'UnitigMap<Node, void, true>::getData_<false>' requested here | |
| return getData_<is_void<U>::value>(); | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.cpp:72:24: note: in instantiation of member function 'UnitigMap<Node, void, true>::getData' requested here | |
| const Node* n = um.getData(); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<Node>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| 39 warnings generated. | |
| 39 warnings generated. | |
| 39 warnings generated. | |
| [ 65%] Building CXX object src/CMakeFiles/kallisto_core.dir/h5utils.cpp.o | |
| cd /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build/src && /opt/homebrew/Library/Homebrew/shims/mac/super/clang++ -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/h5utils.cpp.o -MF CMakeFiles/kallisto_core.dir/h5utils.cpp.o.d -o CMakeFiles/kallisto_core.dir/h5utils.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/h5utils.cpp | |
| [ 69%] Building CXX object src/CMakeFiles/kallisto_core.dir/hash.cpp.o | |
| cd /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build/src && /opt/homebrew/Library/Homebrew/shims/mac/super/clang++ -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/hash.cpp.o -MF CMakeFiles/kallisto_core.dir/hash.cpp.o.d -o CMakeFiles/kallisto_core.dir/hash.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/hash.cpp | |
| [ 73%] Building CXX object src/CMakeFiles/kallisto_core.dir/main.cpp.o | |
| cd /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build/src && /opt/homebrew/Library/Homebrew/shims/mac/super/clang++ -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/main.cpp.o -MF CMakeFiles/kallisto_core.dir/main.cpp.o.d -o CMakeFiles/kallisto_core.dir/main.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/main.cpp | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<DataAccessor<>>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/UnitigMap.tcc:96:51: note: in instantiation of template class 'KmerHashTable<CompressedCoverage_t<DataAccessor<>>>::iterator_<false>' requested here | |
| if (isAbundant) return cdbg->h_kmers_ccov.find(pos_unitig).getKey(); | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/DataStorage.tcc:1600:30: note: in instantiation of member function 'UnitigMap<DataAccessor<>, DataStorage<>>::getUnitigHead' requested here | |
| const Kmer head = um.getUnitigHead(); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<DataAccessor<>>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<Node>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:395:27: note: in instantiation of template class 'KmerHashTable<CompressedCoverage_t<Node>>::iterator_<false>' requested here | |
| const_iterator it(this); | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/UnitigIterator.tcc:12:160: note: in instantiation of member function 'KmerHashTable<CompressedCoverage_t<Node>>::begin' requested here | |
| it_h_kmers_ccov((cdbg_ == nullptr) || cdbg_->invalid ? typename KmerHashTable<CompressedCoverage_t<U>>::const_iterator() : cdbg_->h_kmers_ccov.begin()){ | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:2525:20: note: in instantiation of member function 'unitigIterator<Node, void, true>::unitigIterator' requested here | |
| const_iterator it(this); | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:217:23: note: in instantiation of member function 'CompactedDBG<Node>::begin' requested here | |
| for (const auto& um : dbg) { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<Node>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| warning: unknown warning option '-Wno-subobject-linkage' [-Wunknown-warning-option] | |
| warning: unknown warning option '-Wno-subobject-linkage' [-Wunknown-warning-option] | |
| warning: unknown warning option '-Wno-subobject-linkage' [-Wunknown-warning-option] | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:831: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:700:22: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| bf = move(filter_out.second.first); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:522:7: note: in instantiation of member function 'CompactedDBG<Node>::build' requested here | |
| dbg.build(c_opt); | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:831: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:701:21: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| r = move(filter_out.second.second); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:700:22: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| bf = move(filter_out.second.first); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:620:44: note: in instantiation of member function 'CompactedDBG<>::build' requested here | |
| construct_finished = graph_seq.build(opt_seq); | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:522:7: note: in instantiation of member function 'CompactedDBG<Node>::build' requested here | |
| dbg.build(c_opt); | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:831: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:701:21: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| r = move(filter_out.second.second); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:147:29: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| h_kmers_ccov.insert(move(km), move(it_s->ccov)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:630:45: note: in instantiation of member function 'CompactedDBG<>::toDataGraph' requested here | |
| if (construct_finished) toDataGraph(std::move(graph_seq), opt.nb_threads); | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:620:44: note: in instantiation of member function 'CompactedDBG<>::build' requested here | |
| construct_finished = graph_seq.build(opt_seq); | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:522:7: note: in instantiation of member function 'CompactedDBG<Node>::build' requested here | |
| dbg.build(c_opt); | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:831: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:147:39: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| h_kmers_ccov.insert(move(km), move(it_s->ccov)); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:34: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.hpp:157: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.tcc:85:35: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| v_blocks[i]->bc_cov = move(o.v_blocks[i]->bc_cov); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:94:16: note: in instantiation of member function 'KmerCovIndex<>::toData' requested here | |
| km_unitigs.toData(std::move(o.km_unitigs), nb_threads); | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:630:45: note: in instantiation of member function 'CompactedDBG<>::toDataGraph' requested here | |
| if (construct_finished) toDataGraph(std::move(graph_seq), opt.nb_threads); | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:620:44: note: in instantiation of member function 'CompactedDBG<>::build' requested here | |
| construct_finished = graph_seq.build(opt_seq); | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:522:7: note: in instantiation of member function 'CompactedDBG<Node>::build' requested here | |
| dbg.build(c_opt); | |
| ^ | |
| 1 warning generated. | |
| -- Detecting CXX compiler ABI info - done | |
| -- Check for working CXX compiler: /opt/homebrew/Library/Homebrew/shims/mac/super/clang++ - skipped | |
| -- Detecting CXX compile features | |
| -- Detecting CXX compile features - done | |
| [ 76%] Building CXX object src/CMakeFiles/kallisto_core.dir/weights.cpp.o | |
| -- Performing Test CMAKE_HAVE_LIBC_PTHREAD | |
| cd /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build/src && /opt/homebrew/Library/Homebrew/shims/mac/super/clang++ -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/weights.cpp.o -MF CMakeFiles/kallisto_core.dir/weights.cpp.o.d -o CMakeFiles/kallisto_core.dir/weights.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.cpp | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:831: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:2771:31: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| if (reference_mode) bf2 = move(bf1); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:696:76: note: in instantiation of member function 'CompactedDBG<>::filter' requested here | |
| pair<bool, pair<BlockedBloomFilter, Roaring>> filter_out = filter(opt, nb_unique_kmers, nb_non_unique_kmers); | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:620:44: note: in instantiation of member function 'CompactedDBG<>::build' requested here | |
| construct_finished = graph_seq.build(opt_seq); | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:522:7: note: in instantiation of member function 'CompactedDBG<Node>::build' requested here | |
| dbg.build(c_opt); | |
| ^ | |
| 39 warnings generated. | |
| 41 warnings generated. | |
| warning: unknown warning option '-Wno-subobject-linkage' [-Wunknown-warning-option] | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:44: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/UnitigIterator.hpp:36:36: warning: 'iterator<std::input_iterator_tag, UnitigMap<>, int>' is deprecated [-Wdeprecated-declarations] | |
| class unitigIterator : public std::iterator<std::input_iterator_tag, UnitigMap<Unitig_data_t, Graph_data_t, is_const>, int> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:2132:27: note: in instantiation of template class 'unitigIterator<>' requested here | |
| for (auto& unitig : *this) unitig.setFullCoverage(); | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:628:52: note: in instantiation of member function 'CompactedDBG<>::merge' requested here | |
| construct_finished = graph_seq.merge(std::move(graph_ref), opt.nb_threads, opt.verbose); | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:522:7: note: in instantiation of member function 'CompactedDBG<Node>::build' requested here | |
| dbg.build(c_opt); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::input_iterator_tag, UnitigMap<>, int>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:44: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/UnitigIterator.hpp:36:36: warning: 'iterator<std::input_iterator_tag, UnitigMap<void, void, true>, int>' is deprecated [-Wdeprecated-declarations] | |
| class unitigIterator : public std::iterator<std::input_iterator_tag, UnitigMap<Unitig_data_t, Graph_data_t, is_const>, int> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:2248:37: note: in instantiation of template class 'unitigIterator<void, void, true>' requested here | |
| for (const auto& unitig : o) annotateSplitUnitig(unitig.referenceUnitigToString(), false); | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:2134:13: note: in instantiation of member function 'CompactedDBG<>::annotateSplitUnitigs' requested here | |
| if (annotateSplitUnitigs(o, nb_threads, verbose)){ | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:628:52: note: in instantiation of member function 'CompactedDBG<>::merge' requested here | |
| construct_finished = graph_seq.merge(std::move(graph_ref), opt.nb_threads, opt.verbose); | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:522:7: note: in instantiation of member function 'CompactedDBG<Node>::build' requested here | |
| dbg.build(c_opt); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::input_iterator_tag, UnitigMap<void, void, true>, int>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:831: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:147:29: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| h_kmers_ccov.insert(move(km), move(it_s->ccov)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:630:45: note: in instantiation of member function 'CompactedDBG<Node>::toDataGraph' requested here | |
| if (construct_finished) toDataGraph(std::move(graph_seq), opt.nb_threads); | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:522:7: note: in instantiation of member function 'CompactedDBG<Node>::build' requested here | |
| dbg.build(c_opt); | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:831: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:147:39: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| h_kmers_ccov.insert(move(km), move(it_s->ccov)); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:34: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.hpp:157: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.tcc:85:35: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| v_blocks[i]->bc_cov = move(o.v_blocks[i]->bc_cov); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:94:16: note: in instantiation of member function 'KmerCovIndex<Node>::toData' requested here | |
| km_unitigs.toData(std::move(o.km_unitigs), nb_threads); | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:630:45: note: in instantiation of member function 'CompactedDBG<Node>::toDataGraph' requested here | |
| if (construct_finished) toDataGraph(std::move(graph_seq), opt.nb_threads); | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:522:7: note: in instantiation of member function 'CompactedDBG<Node>::build' requested here | |
| dbg.build(c_opt); | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:43: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:28:70: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:106:32: note: in instantiation of member function 'Unitig<Node>::Unitig' requested here | |
| v_unitigs[i] = new Unitig<U>(std::move(o.v_unitigs[i]->getSeq()), std::move(o.v_unitigs[i]->getCov())); | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:630:45: note: in instantiation of member function 'CompactedDBG<Node>::toDataGraph' requested here | |
| if (construct_finished) toDataGraph(std::move(graph_seq), opt.nb_threads); | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:522:7: note: in instantiation of member function 'CompactedDBG<Node>::build' requested here | |
| dbg.build(c_opt); | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:43: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:28:84: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:831: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:2771:31: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| if (reference_mode) bf2 = move(bf1); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:696:76: note: in instantiation of member function 'CompactedDBG<Node>::filter' requested here | |
| pair<bool, pair<BlockedBloomFilter, Roaring>> filter_out = filter(opt, nb_unique_kmers, nb_non_unique_kmers); | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:522:7: note: in instantiation of member function 'CompactedDBG<Node>::build' requested here | |
| dbg.build(c_opt); | |
| ^ | |
| 1 warning generated. | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:833: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:1690:40: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:955:61: note: in instantiation of member function 'CompactedDBG<Node>::readBinaryGraph' requested here | |
| const pair<uint64_t, bool> p_readSuccess_checksum = readBinaryGraph(in); | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:599:7: note: in instantiation of member function 'CompactedDBG<Node>::readBinary' requested here | |
| dbg.readBinary(in, mphf, opt.threads); | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp:8: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:833: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:1690:50: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success | |
| -- Found Threads: TRUE | |
| Disabling AVX2 instructions on arm64 | |
| Disabling native architecture compilation (including AVX2) | |
| Disabling AVX2 instructions | |
| Build type: Release | |
| Maximum k-mer size: 31 | |
| Maximum g-mer size: 31 | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.cpp:2: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.h:9: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:34: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.hpp:7: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.hpp:5: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/TinyBitmap.hpp:28:44: warning: 'iterator<std::input_iterator_tag, unsigned int>' is deprecated [-Wdeprecated-declarations] | |
| class TinyBitmapIterator : public std::iterator<std::input_iterator_tag, uint32_t> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::input_iterator_tag, unsigned int>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.cpp:2: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.h:9: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:34: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.hpp:7: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.hpp:18:57: warning: 'iterator<std::forward_iterator_tag, unsigned int>' is deprecated [-Wdeprecated-declarations] | |
| class BitContainer_const_iterator : public std::iterator<std::forward_iterator_tag, uint32_t> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, unsigned int>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.cpp:2: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.h:9: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:34: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.hpp:157: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.tcc:85:35: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| v_blocks[i]->bc_cov = move(o.v_blocks[i]->bc_cov); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.cpp:2: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.h:9: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:36: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerIterator.hpp:15:34: warning: 'iterator<std::input_iterator_tag, std::pair<Kmer, int>, int>' is deprecated [-Wdeprecated-declarations] | |
| class KmerIterator : public std::iterator<std::input_iterator_tag, std::pair<Kmer, int>, int> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::input_iterator_tag, std::pair<Kmer, int>, int>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| 1 warning generated. | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.cpp:2: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.h:9: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:37: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:18: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/minHashIterator.hpp:507:21: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| v = move(v_tmp); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.cpp:2: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.h:9: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:37: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:1149:86: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| ReadHasherMinimizer(ReadQualityHasherMinimizer&& o) : k(o.k), g(o.g), sc_min(move(o.sc_min)) { | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:1151:85: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| for (size_t i = 0; i < NB_STREAMCOUNTER_PER_READHASHER; ++i) sc_km[i] = move(o.sc_km[i]); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:1673:23: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| rsh = move(rqh); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.cpp:2: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.h:9: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:40: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/MinimizerIndex.hpp:12: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:536:48: warning: format specifies type 'unsigned long' but the argument has type 'uint64_t' (aka 'unsigned long long') [-Wformat] | |
| printf("bit array of size %lu: \n",_size); | |
| ~~~ ^~~~~ | |
| %llu | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:540:38: warning: format specifies type 'unsigned long' but the argument has type 'uint64_t' (aka 'unsigned long long') [-Wformat] | |
| printf(" (%lu) ",ii); | |
| ~~~ ^~ | |
| %llu | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:549:40: warning: format specifies type 'unsigned long' but the argument has type 'uint64_t' (aka 'unsigned long long') [-Wformat] | |
| printf("%lu : %lu, ",ii,_ranks[ii]); | |
| ~~~ ^~ | |
| %llu | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:549:43: warning: format specifies type 'unsigned long' but the argument has type 'value_type' (aka 'unsigned long long') [-Wformat] | |
| printf("%lu : %lu, ",ii,_ranks[ii]); | |
| ~~~ ^~~~~~~~~~ | |
| %llu | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.cpp:2: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.h:9: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:40: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/MinimizerIndex.hpp:19:35: warning: 'iterator<std::forward_iterator_tag, packed_tiny_vector>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, packed_tiny_vector> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, packed_tiny_vector>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.cpp:2: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.h:9: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:43: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:7: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedCoverage.hpp:169:57: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| CompressedCoverage_t(CompressedCoverage&& c) : ccov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedCoverage.hpp:182:57: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| CompressedCoverage_t(CompressedCoverage&& c) : ccov(move(c)) {} | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.cpp:2: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.h:9: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:43: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:28:70: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:28:84: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:87:70: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:87:84: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.cpp:2: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.h:9: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:138:85: note: in instantiation of template class 'KmerHashTable<CompressedCoverage_t<void>>::iterator_<false>' requested here | |
| KmerHashTable<CompressedCoverage_t<void>>::const_iterator it_s = o.h_kmers_ccov.begin(); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.cpp:2: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.h:9: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:138:63: note: in instantiation of template class 'KmerHashTable<CompressedCoverage_t<void>>::iterator_<>' requested here | |
| KmerHashTable<CompressedCoverage_t<void>>::const_iterator it_s = o.h_kmers_ccov.begin(); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.cpp:2: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.h:9: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:831: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:147:29: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| h_kmers_ccov.insert(move(km), move(it_s->ccov)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:147:39: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| h_kmers_ccov.insert(move(km), move(it_s->ccov)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:700:22: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| bf = move(filter_out.second.first); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:701:21: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| r = move(filter_out.second.second); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:2771:31: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| if (reference_mode) bf2 = move(bf1); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.cpp:2: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.h:9: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, bool>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__utility/pair.h:48:9: note: in instantiation of template class 'KmerHashTable<bool>::iterator_<false>' requested here | |
| _T1 first; | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:3454:74: note: in instantiation of template class 'std::pair<KmerHashTable<bool>::iterator_<false>, bool>' requested here | |
| for (const auto& km_tip : l_ignored_km_tips) ignored_km_tips.insert(km_tip, false); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, bool>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/main.cpp:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.h:17: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:34: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.hpp:7: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.hpp:5: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/TinyBitmap.hpp:28:44: warning: 'iterator<std::input_iterator_tag, unsigned int>' is deprecated [-Wdeprecated-declarations] | |
| class TinyBitmapIterator : public std::iterator<std::input_iterator_tag, uint32_t> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::input_iterator_tag, unsigned int>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/main.cpp:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.h:17: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:34: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.hpp:7: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.hpp:18:57: warning: 'iterator<std::forward_iterator_tag, unsigned int>' is deprecated [-Wdeprecated-declarations] | |
| class BitContainer_const_iterator : public std::iterator<std::forward_iterator_tag, uint32_t> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, unsigned int>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.cpp:2: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.h:9: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, std::vector<unsigned long>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:5329:56: note: in instantiation of template class 'KmerHashTable<std::vector<unsigned long>>::iterator_<false>' requested here | |
| KmerHashTable<vector<size_t>>::iterator it(kht.begin()); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, std::vector<unsigned long>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/main.cpp:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.h:17: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:34: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.hpp:157: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.tcc:85:35: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| v_blocks[i]->bc_cov = move(o.v_blocks[i]->bc_cov); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/main.cpp:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.h:17: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:36: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerIterator.hpp:15:34: warning: 'iterator<std::input_iterator_tag, std::pair<Kmer, int>, int>' is deprecated [-Wdeprecated-declarations] | |
| class KmerIterator : public std::iterator<std::input_iterator_tag, std::pair<Kmer, int>, int> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::input_iterator_tag, std::pair<Kmer, int>, int>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.cpp:2: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.h:9: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, Kmer>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:6680:28: note: in instantiation of template class 'KmerHashTable<Kmer>::iterator_<false>' requested here | |
| if ((joins.find(tail) == joins.end()) && checkJoin(tail, cm, fw)) joins.insert(fw.twin(), tail); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, Kmer>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.cpp:2: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.h:9: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, char>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:7000:28: note: in instantiation of template class 'KmerHashTable<char>::iterator_<false>' requested here | |
| if ((joins.find(tail) == joins.end()) && checkJoin(tail, cm, fw)) joins.insert(fw.twin(), tail.getChar(0)); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, char>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/main.cpp:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.h:17: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:37: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:18: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/minHashIterator.hpp:507:21: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| v = move(v_tmp); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.cpp:2: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.h:9: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, unsigned char>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__utility/pair.h:48:9: note: in instantiation of template class 'KmerHashTable<unsigned char>::iterator_<false>' requested here | |
| _T1 first; | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:8103:40: note: in instantiation of template class 'std::pair<KmerHashTable<unsigned char>::iterator_<false>, bool>' requested here | |
| if ((i == 4) && (j == 4)) tips.insert(km, 3); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, unsigned char>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/main.cpp:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.h:17: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:37: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:1149:86: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| ReadHasherMinimizer(ReadQualityHasherMinimizer&& o) : k(o.k), g(o.g), sc_min(move(o.sc_min)) { | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:1151:85: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| for (size_t i = 0; i < NB_STREAMCOUNTER_PER_READHASHER; ++i) sc_km[i] = move(o.sc_km[i]); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:1673:23: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| rsh = move(rqh); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/main.cpp:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.h:17: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:40: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/MinimizerIndex.hpp:12: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:536:48: warning: format specifies type 'unsigned long' but the argument has type 'uint64_t' (aka 'unsigned long long') [-Wformat] | |
| printf("bit array of size %lu: \n",_size); | |
| ~~~ ^~~~~ | |
| %llu | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:540:38: warning: format specifies type 'unsigned long' but the argument has type 'uint64_t' (aka 'unsigned long long') [-Wformat] | |
| printf(" (%lu) ",ii); | |
| ~~~ ^~ | |
| %llu | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:549:40: warning: format specifies type 'unsigned long' but the argument has type 'uint64_t' (aka 'unsigned long long') [-Wformat] | |
| printf("%lu : %lu, ",ii,_ranks[ii]); | |
| ~~~ ^~ | |
| %llu | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:549:43: warning: format specifies type 'unsigned long' but the argument has type 'value_type' (aka 'unsigned long long') [-Wformat] | |
| printf("%lu : %lu, ",ii,_ranks[ii]); | |
| ~~~ ^~~~~~~~~~ | |
| %llu | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/main.cpp:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.h:17: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:40: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/MinimizerIndex.hpp:19:35: warning: 'iterator<std::forward_iterator_tag, packed_tiny_vector>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, packed_tiny_vector> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, packed_tiny_vector>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/main.cpp:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.h:17: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:43: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:7: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedCoverage.hpp:169:57: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| CompressedCoverage_t(CompressedCoverage&& c) : ccov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedCoverage.hpp:182:57: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| CompressedCoverage_t(CompressedCoverage&& c) : ccov(move(c)) {} | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/main.cpp:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.h:17: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:43: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:28:70: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:28:84: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:87:70: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:87:84: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.cpp:2: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.h:9: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, unsigned long>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__utility/pair.h:48:9: note: in instantiation of template class 'KmerHashTable<unsigned long>::iterator_<false>' requested here | |
| _T1 first; | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:413:38: note: in instantiation of template class 'std::pair<KmerHashTable<unsigned long>::iterator_<false>, bool>' requested here | |
| if (unitig.isAbundant) idmap.insert(Kmer(unitig.referenceUnitigToString().c_str()), labelA); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, unsigned long>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/main.cpp:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.h:17: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:138:85: note: in instantiation of template class 'KmerHashTable<CompressedCoverage_t<void>>::iterator_<false>' requested here | |
| KmerHashTable<CompressedCoverage_t<void>>::const_iterator it_s = o.h_kmers_ccov.begin(); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/main.cpp:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.h:17: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:138:63: note: in instantiation of template class 'KmerHashTable<CompressedCoverage_t<void>>::iterator_<>' requested here | |
| KmerHashTable<CompressedCoverage_t<void>>::const_iterator it_s = o.h_kmers_ccov.begin(); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/main.cpp:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.h:17: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:831: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:147:29: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| h_kmers_ccov.insert(move(km), move(it_s->ccov)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:147:39: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| h_kmers_ccov.insert(move(km), move(it_s->ccov)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:700:22: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| bf = move(filter_out.second.first); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:701:21: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| r = move(filter_out.second.second); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.cpp:2: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.h:9: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:833: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:1690:40: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:1690:50: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2423:40: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2423:50: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2534:44: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2534:54: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:2771:31: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| if (reference_mode) bf2 = move(bf1); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/main.cpp:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.h:17: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, bool>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__utility/pair.h:48:9: note: in instantiation of template class 'KmerHashTable<bool>::iterator_<false>' requested here | |
| _T1 first; | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:3454:74: note: in instantiation of template class 'std::pair<KmerHashTable<bool>::iterator_<false>, bool>' requested here | |
| for (const auto& km_tip : l_ignored_km_tips) ignored_km_tips.insert(km_tip, false); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, bool>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.h:4: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:34: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.hpp:7: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.hpp:5: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/TinyBitmap.hpp:28:44: warning: 'iterator<std::input_iterator_tag, unsigned int>' is deprecated [-Wdeprecated-declarations] | |
| class TinyBitmapIterator : public std::iterator<std::input_iterator_tag, uint32_t> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::input_iterator_tag, unsigned int>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.h:4: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:34: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.hpp:7: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.hpp:18:57: warning: 'iterator<std::forward_iterator_tag, unsigned int>' is deprecated [-Wdeprecated-declarations] | |
| class BitContainer_const_iterator : public std::iterator<std::forward_iterator_tag, uint32_t> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, unsigned int>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.h:4: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:34: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.hpp:157: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerCovIndex.tcc:85:35: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| v_blocks[i]->bc_cov = move(o.v_blocks[i]->bc_cov); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/main.cpp:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.h:17: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, std::vector<unsigned long>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:5329:56: note: in instantiation of template class 'KmerHashTable<std::vector<unsigned long>>::iterator_<false>' requested here | |
| KmerHashTable<vector<size_t>>::iterator it(kht.begin()); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, std::vector<unsigned long>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.h:4: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:36: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerIterator.hpp:15:34: warning: 'iterator<std::input_iterator_tag, std::pair<Kmer, int>, int>' is deprecated [-Wdeprecated-declarations] | |
| class KmerIterator : public std::iterator<std::input_iterator_tag, std::pair<Kmer, int>, int> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::input_iterator_tag, std::pair<Kmer, int>, int>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/main.cpp:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.h:17: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, Kmer>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:6680:28: note: in instantiation of template class 'KmerHashTable<Kmer>::iterator_<false>' requested here | |
| if ((joins.find(tail) == joins.end()) && checkJoin(tail, cm, fw)) joins.insert(fw.twin(), tail); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, Kmer>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.h:4: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:37: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:18: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/minHashIterator.hpp:507:21: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| v = move(v_tmp); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/main.cpp:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.h:17: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, char>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:7000:28: note: in instantiation of template class 'KmerHashTable<char>::iterator_<false>' requested here | |
| if ((joins.find(tail) == joins.end()) && checkJoin(tail, cm, fw)) joins.insert(fw.twin(), tail.getChar(0)); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, char>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.h:4: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:37: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:1149:86: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| ReadHasherMinimizer(ReadQualityHasherMinimizer&& o) : k(o.k), g(o.g), sc_min(move(o.sc_min)) { | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:1151:85: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| for (size_t i = 0; i < NB_STREAMCOUNTER_PER_READHASHER; ++i) sc_km[i] = move(o.sc_km[i]); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerStream.hpp:1673:23: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| rsh = move(rqh); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/main.cpp:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.h:17: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, unsigned char>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__utility/pair.h:48:9: note: in instantiation of template class 'KmerHashTable<unsigned char>::iterator_<false>' requested here | |
| _T1 first; | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:8103:40: note: in instantiation of template class 'std::pair<KmerHashTable<unsigned char>::iterator_<false>, bool>' requested here | |
| if ((i == 4) && (j == 4)) tips.insert(km, 3); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, unsigned char>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.h:4: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:40: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/MinimizerIndex.hpp:12: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:536:48: warning: format specifies type 'unsigned long' but the argument has type 'uint64_t' (aka 'unsigned long long') [-Wformat] | |
| printf("bit array of size %lu: \n",_size); | |
| ~~~ ^~~~~ | |
| %llu | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:540:38: warning: format specifies type 'unsigned long' but the argument has type 'uint64_t' (aka 'unsigned long long') [-Wformat] | |
| printf(" (%lu) ",ii); | |
| ~~~ ^~ | |
| %llu | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:549:40: warning: format specifies type 'unsigned long' but the argument has type 'uint64_t' (aka 'unsigned long long') [-Wformat] | |
| printf("%lu : %lu, ",ii,_ranks[ii]); | |
| ~~~ ^~ | |
| %llu | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BooPHF.h:549:43: warning: format specifies type 'unsigned long' but the argument has type 'value_type' (aka 'unsigned long long') [-Wformat] | |
| printf("%lu : %lu, ",ii,_ranks[ii]); | |
| ~~~ ^~~~~~~~~~ | |
| %llu | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.h:4: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:40: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/MinimizerIndex.hpp:19:35: warning: 'iterator<std::forward_iterator_tag, packed_tiny_vector>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, packed_tiny_vector> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, packed_tiny_vector>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.h:4: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:43: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:7: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedCoverage.hpp:169:57: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| CompressedCoverage_t(CompressedCoverage&& c) : ccov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedCoverage.hpp:182:57: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| CompressedCoverage_t(CompressedCoverage&& c) : ccov(move(c)) {} | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.h:4: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:43: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:28:70: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:28:84: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:87:70: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Unitig.hpp:87:84: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| Unitig(CompressedSequence&& s, CompressedCoverage&& c) : seq(move(s)), cov(move(c)) {} | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.h:4: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:138:85: note: in instantiation of template class 'KmerHashTable<CompressedCoverage_t<void>>::iterator_<false>' requested here | |
| KmerHashTable<CompressedCoverage_t<void>>::const_iterator it_s = o.h_kmers_ccov.begin(); | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/main.cpp:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.h:17: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, unsigned long>' is deprecated [-Wdeprecated-declarations] | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h class iterator_ : public std::iterator<std::forward_iterator_tag, T> {: | |
| 24 ^: | |
| 29: note: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' has been explicitly marked deprecated here | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__utility/pair.h:48:9: struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iteratornote: | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| in instantiation of template class 'KmerHashTable<unsigned long>::iterator_<false>' requested here | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| _T1 first; | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:413:38: note: in instantiation of template class 'std::pair<KmerHashTable<unsigned long>::iterator_<false>, bool>' requested here | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| if (unitig.isAbundant) idmap.insert(Kmer(unitig.referenceUnitigToString().c_str()), labelA); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, unsigned long>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.h:4: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:138:63: note: in instantiation of template class 'KmerHashTable<CompressedCoverage_t<void>>::iterator_<>' requested here | |
| KmerHashTable<CompressedCoverage_t<void>>::const_iterator it_s = o.h_kmers_ccov.begin(); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, CompressedCoverage_t<void>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.h:4: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:831: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:147:29: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| h_kmers_ccov.insert(move(km), move(it_s->ccov)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:147:39: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| h_kmers_ccov.insert(move(km), move(it_s->ccov)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:700:22: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| bf = move(filter_out.second.first); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:701:21: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| r = move(filter_out.second.second); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/main.cpp:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.h:17: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.h:11: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:833: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:1690:40: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:1690:50: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2423:40: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2423:50: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2534:44: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2534:54: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:2771:31: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| if (reference_mode) bf2 = move(bf1); | |
| ^ | |
| std:: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.h:4: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, bool>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__utility/pair.h:48:9: note: in instantiation of template class 'KmerHashTable<bool>::iterator_<false>' requested here | |
| _T1 first; | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:3454:74: note: in instantiation of template class 'std::pair<KmerHashTable<bool>::iterator_<false>, bool>' requested here | |
| for (const auto& km_tip : l_ignored_km_tips) ignored_km_tips.insert(km_tip, false); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, bool>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.h:4: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, std::vector<unsigned long>>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:5329:56: note: in instantiation of template class 'KmerHashTable<std::vector<unsigned long>>::iterator_<false>' requested here | |
| KmerHashTable<vector<size_t>>::iterator it(kht.begin()); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, std::vector<unsigned long>>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.h:4: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, Kmer>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:6680:28: note: in instantiation of template class 'KmerHashTable<Kmer>::iterator_<false>' requested here | |
| if ((joins.find(tail) == joins.end()) && checkJoin(tail, cm, fw)) joins.insert(fw.twin(), tail); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, Kmer>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.h:4: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, char>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:7000:28: note: in instantiation of template class 'KmerHashTable<char>::iterator_<false>' requested here | |
| if ((joins.find(tail) == joins.end()) && checkJoin(tail, cm, fw)) joins.insert(fw.twin(), tail.getChar(0)); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, char>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.h:4: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, unsigned char>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__utility/pair.h:48:9: note: in instantiation of template class 'KmerHashTable<unsigned char>::iterator_<false>' requested here | |
| _T1 first; | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.tcc:8103:40: note: in instantiation of template class 'std::pair<KmerHashTable<unsigned char>::iterator_<false>, bool>' requested here | |
| if ((i == 4) && (j == 4)) tips.insert(km, 3); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, unsigned char>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.h:4: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:35: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/KmerHashTable.hpp:20:35: warning: 'iterator<std::forward_iterator_tag, unsigned long>' is deprecated [-Wdeprecated-declarations] | |
| class iterator_ : public std::iterator<std::forward_iterator_tag, T> { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__utility/pair.h:48:9: note: in instantiation of template class 'KmerHashTable<unsigned long>::iterator_<false>' requested here | |
| _T1 first; | |
| ^ | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:413:38: note: in instantiation of template class 'std::pair<KmerHashTable<unsigned long>::iterator_<false>, bool>' requested here | |
| if (unitig.isAbundant) idmap.insert(Kmer(unitig.referenceUnitigToString().c_str()), labelA); | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator.h:24:29: note: 'iterator<std::forward_iterator_tag, unsigned long>' has been explicitly marked deprecated here | |
| struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:837:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
| # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:810:49: note: expanded from macro '_LIBCPP_DEPRECATED' | |
| # define _LIBCPP_DEPRECATED __attribute__((deprecated)) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.h:4: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.h:16: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:833: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:1690:40: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:1690:50: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2423:40: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2423:50: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2534:44: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/IO.tcc:2534:54: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call] | |
| unitig = new Unitig<U>(move(cs), move(cc)); | |
| ^ | |
| std:: | |
| 39 warnings generated. | |
| -- Found ZLIB: /opt/homebrew/lib/libzlibstatic.a (found version "1.2.12") | |
| -- Configuring done (2.6s) | |
| -- Generating done (0.0s) | |
| -- Build files have been written to: /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build | |
| cd /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost && /opt/homebrew/Cellar/cmake/3.27.7/bin/cmake -E touch /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/bifrost-stamp/bifrost-configure | |
| [ 80%] Performing build step for 'bifrost' | |
| cd /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost && cd build && make | |
| /opt/homebrew/Cellar/cmake/3.27.7/bin/cmake -S/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost -B/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build --check-build-system CMakeFiles/Makefile.cmake 0 | |
| /opt/homebrew/Cellar/cmake/3.27.7/bin/cmake -E cmake_progress_start /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/CMakeFiles /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build//CMakeFiles/progress.marks | |
| /Applications/Xcode.app/Contents/Developer/usr/bin/make -f CMakeFiles/Makefile2 all | |
| /Applications/Xcode.app/Contents/Developer/usr/bin/make -f src/CMakeFiles/bifrost_static.dir/build.make src/CMakeFiles/bifrost_static.dir/depend | |
| /Applications/Xcode.app/Contents/Developer/usr/bin/make -f src/CMakeFiles/bifrost_dynamic.dir/build.make src/CMakeFiles/bifrost_dynamic.dir/depend | |
| cd /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build && /opt/homebrew/Cellar/cmake/3.27.7/bin/cmake -E cmake_depends "Unix Makefiles" /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src/CMakeFiles/bifrost_dynamic.dir/DependInfo.cmake "--color=" | |
| cd /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build && /opt/homebrew/Cellar/cmake/3.27.7/bin/cmake -E cmake_depends "Unix Makefiles" /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src/CMakeFiles/bifrost_static.dir/DependInfo.cmake "--color=" | |
| /Applications/Xcode.app/Contents/Developer/usr/bin/make -f src/CMakeFiles/bifrost_dynamic.dir/build.make src/CMakeFiles/bifrost_dynamic.dir/build | |
| /Applications/Xcode.app/Contents/Developer/usr/bin/make -f src/CMakeFiles/bifrost_static.dir/build.make src/CMakeFiles/bifrost_static.dir/build | |
| [ 3%] Building CXX object src/CMakeFiles/bifrost_dynamic.dir/ColorSet.cpp.o | |
| [ 6%] Building CXX object src/CMakeFiles/bifrost_dynamic.dir/Bifrost.cpp.o | |
| [ 9%] Building CXX object src/CMakeFiles/bifrost_dynamic.dir/CompressedSequence.cpp.o | |
| cd /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src && /opt/homebrew/Library/Homebrew/shims/mac/super/clang++ -DMAX_GMER_SIZE=32 -DMAX_KMER_SIZE=32 -Dbifrost_dynamic_EXPORTS -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk/usr/include -Wno-subobject-linkage -Wno-return-type -std=c++11 -mno-avx2 -O3 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -mmacosx-version-min=13.6 -fPIC -O3 -MD -MT src/CMakeFiles/bifrost_dynamic.dir/ColorSet.cpp.o -MF CMakeFiles/bifrost_dynamic.dir/ColorSet.cpp.o.d -o CMakeFiles/bifrost_dynamic.dir/ColorSet.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/ColorSet.cpp | |
| cd /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src && /opt/homebrew/Library/Homebrew/shims/mac/super/clang++ -DMAX_GMER_SIZE=32 -DMAX_KMER_SIZE=32 -Dbifrost_dynamic_EXPORTS -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk/usr/include -Wno-subobject-linkage -Wno-return-type -std=c++11 -mno-avx2 -O3 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -mmacosx-version-min=13.6 -fPIC -O3 -MD -MT src/CMakeFiles/bifrost_dynamic.dir/CompressedSequence.cpp.o -MF CMakeFiles/bifrost_dynamic.dir/CompressedSequence.cpp.o.d -o CMakeFiles/bifrost_dynamic.dir/CompressedSequence.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedSequence.cpp | |
| [ 12%] Building CXX object src/CMakeFiles/bifrost_dynamic.dir/BitContainer.cpp.o | |
| [ 21%] Building CXX object src/CMakeFiles/bifrost_dynamic.dir/BlockedBloomFilter.cpp.o | |
| [ 21%] Building CXX object src/CMakeFiles/bifrost_static.dir/Bifrost.cpp.o | |
| [ 21%] Building CXX object src/CMakeFiles/bifrost_static.dir/BitContainer.cpp.o | |
| cd /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src && /opt/homebrew/Library/Homebrew/shims/mac/super/clang++ -DMAX_GMER_SIZE=32 -DMAX_KMER_SIZE=32 -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk/usr/include -Wno-subobject-linkage -Wno-return-type -std=c++11 -mno-avx2 -O3 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -mmacosx-version-min=13.6 -O3 -MD -MT src/CMakeFiles/bifrost_static.dir/Bifrost.cpp.o -MF CMakeFiles/bifrost_static.dir/Bifrost.cpp.o.d -o CMakeFiles/bifrost_static.dir/Bifrost.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Bifrost.cpp | |
| [ 25%] Building CXX object src/CMakeFiles/bifrost_dynamic.dir/CompressedCoverage.cpp.o | |
| cd /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src && /opt/homebrew/Library/Homebrew/shims/mac/super/clang++ -DMAX_GMER_SIZE=32 -DMAX_KMER_SIZE=32 -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk/usr/include -Wno-subobject-linkage -Wno-return-type -std=c++11 -mno-avx2 -O3 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -mmacosx-version-min=13.6 -O3 -MD -MT src/CMakeFiles/bifrost_static.dir/BitContainer.cpp.o -MF CMakeFiles/bifrost_static.dir/BitContainer.cpp.o.d -o CMakeFiles/bifrost_static.dir/BitContainer.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.cpp | |
| cd /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src && /opt/homebrew/Library/Homebrew/shims/mac/super/clang++ -DMAX_GMER_SIZE=32 -DMAX_KMER_SIZE=32 -Dbifrost_dynamic_EXPORTS -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk/usr/include -Wno-subobject-linkage -Wno-return-type -std=c++11 -mno-avx2 -O3 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -mmacosx-version-min=13.6 -fPIC -O3 -MD -MT src/CMakeFiles/bifrost_dynamic.dir/BlockedBloomFilter.cpp.o -MF CMakeFiles/bifrost_dynamic.dir/BlockedBloomFilter.cpp.o.d -o CMakeFiles/bifrost_dynamic.dir/BlockedBloomFilter.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BlockedBloomFilter.cpp | |
| cd /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src && /opt/homebrew/Library/Homebrew/shims/mac/super/clang++ -DMAX_GMER_SIZE=32 -DMAX_KMER_SIZE=32 -Dbifrost_dynamic_EXPORTS -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk/usr/include -Wno-subobject-linkage -Wno-return-type -std=c++11 -mno-avx2 -O3 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -mmacosx-version-min=13.6 -fPIC -O3 -MD -MT src/CMakeFiles/bifrost_dynamic.dir/CompressedCoverage.cpp.o -MF CMakeFiles/bifrost_dynamic.dir/CompressedCoverage.cpp.o.d -o CMakeFiles/bifrost_dynamic.dir/CompressedCoverage.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedCoverage.cpp | |
| cd /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src && /opt/homebrew/Library/Homebrew/shims/mac/super/clang++ -DMAX_GMER_SIZE=32 -DMAX_KMER_SIZE=32 -Dbifrost_dynamic_EXPORTS -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk/usr/include -Wno-subobject-linkage -Wno-return-type -std=c++11 -mno-avx2 -O3 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -mmacosx-version-min=13.6 -fPIC -O3 -MD -MT src/CMakeFiles/bifrost_dynamic.dir/BitContainer.cpp.o -MF CMakeFiles/bifrost_dynamic.dir/BitContainer.cpp.o.d -o CMakeFiles/bifrost_dynamic.dir/BitContainer.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.cpp | |
| [ 28%] Building CXX object src/CMakeFiles/bifrost_dynamic.dir/FASTX_Parser.cpp.o | |
| cd /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src && /opt/homebrew/Library/Homebrew/shims/mac/super/clang++ -DMAX_GMER_SIZE=32 -DMAX_KMER_SIZE=32 -Dbifrost_dynamic_EXPORTS -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk/usr/include -Wno-subobject-linkage -Wno-return-type -std=c++11 -mno-avx2 -O3 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -mmacosx-version-min=13.6 -fPIC -O3 -MD -MT src/CMakeFiles/bifrost_dynamic.dir/Bifrost.cpp.o -MF CMakeFiles/bifrost_dynamic.dir/Bifrost.cpp.o.d -o CMakeFiles/bifrost_dynamic.dir/Bifrost.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Bifrost.cpp | |
| cd /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src && /opt/homebrew/Library/Homebrew/shims/mac/super/clang++ -DMAX_GMER_SIZE=32 -DMAX_KMER_SIZE=32 -Dbifrost_dynamic_EXPORTS -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk/usr/include -Wno-subobject-linkage -Wno-return-type -std=c++11 -mno-avx2 -O3 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -mmacosx-version-min=13.6 -fPIC -O3 -MD -MT src/CMakeFiles/bifrost_dynamic.dir/FASTX_Parser.cpp.o -MF CMakeFiles/bifrost_dynamic.dir/FASTX_Parser.cpp.o.d -o CMakeFiles/bifrost_dynamic.dir/FASTX_Parser.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/FASTX_Parser.cpp | |
| [ 31%] Building CXX object src/CMakeFiles/bifrost_dynamic.dir/GFA_Parser.cpp.o | |
| cd /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src && /opt/homebrew/Library/Homebrew/shims/mac/super/clang++ -DMAX_GMER_SIZE=32 -DMAX_KMER_SIZE=32 -Dbifrost_dynamic_EXPORTS -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk/usr/include -Wno-subobject-linkage -Wno-return-type -std=c++11 -mno-avx2 -O3 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -mmacosx-version-min=13.6 -fPIC -O3 -MD -MT src/CMakeFiles/bifrost_dynamic.dir/GFA_Parser.cpp.o -MF CMakeFiles/bifrost_dynamic.dir/GFA_Parser.cpp.o.d -o CMakeFiles/bifrost_dynamic.dir/GFA_Parser.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/GFA_Parser.cpp | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BlockedBloomFilter.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BlockedBloomFilter.hpp:4: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/array:111: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__algorithm/equal.h:15: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/distance.h:14: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/concepts.h:14: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/incrementable_traits.h:15: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/concepts:133: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__concepts/arithmetic.h:15: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/type_traits:421: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__functional/invoke.h:15: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/apply_cv.h:16: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/remove_reference.h:13: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/cstddef:50:9: error: no member named 'nullptr_t' in the global namespace | |
| using ::nullptr_t; | |
| ~~^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedCoverage.cpp:1: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/string:519: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__algorithm/max.h:13: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__algorithm/comp_ref_type.h:13: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__debug:15: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/cstddef:50:9: error: no member named 'nullptr_t' in the global namespace | |
| using ::nullptr_t; | |
| ~~^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Bifrost.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:5: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/limits:107: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/type_traits:421: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__functional/invoke.h:15: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/apply_cv.h:16: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/remove_reference.h:13: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/cstddef:50:9: error: no member named 'nullptr_t' in the global namespace | |
| using ::nullptr_t; | |
| ~~^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedCoverage.cpp:1: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/string:519: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__algorithm/max.h:13: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__algorithm/comp_ref_type.h:13: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__debug:16: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/type_traits:452: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_compound.h:14: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_fundamental.h:14: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_null_pointer.h:24:49: error: use of undeclared identifier 'nullptr_t'; did you mean 'nullptr'? | |
| template <> struct __is_nullptr_t_impl<nullptr_t> : public true_type {}; | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_null_pointer.h:24:49: error: template argument for template type parameter must be a type | |
| template <> struct __is_nullptr_t_impl<nullptr_t> : public true_type {}; | |
| ^~~~~~~~~ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_null_pointer.h:23:17: note: template parameter is declared here | |
| template <class _Tp> struct __is_nullptr_t_impl : public false_type {}; | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BlockedBloomFilter.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BlockedBloomFilter.hpp:4: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/array:111: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__algorithm/equal.h:15: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/distance.h:14: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/concepts.h:14: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/incrementable_traits.h:15: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/concepts:133: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__concepts/arithmetic.h:15: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/type_traits:452: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_compound.h:14: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_fundamental.h:14: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_null_pointer.h:24:49: error: use of undeclared identifier 'nullptr_t'; did you mean 'nullptr'? | |
| template <> struct __is_nullptr_t_impl<nullptr_t> : public true_type {}; | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_null_pointer.h:24:49: error: template argument for template type parameter must be a type | |
| template <> struct __is_nullptr_t_impl<nullptr_t> : public true_type {}; | |
| ^~~~~~~~~ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_null_pointer.h:23:17: note: template parameter is declared here | |
| template <class _Tp> struct __is_nullptr_t_impl : public false_type {}; | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Bifrost.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:5: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/limits:107: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/type_traits:452: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_compound.h:14: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_fundamental.h:14: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_null_pointer.h:24:49: error: use of undeclared identifier 'nullptr_t'; did you mean 'nullptr'? | |
| template <> struct __is_nullptr_t_impl<nullptr_t> : public true_type {}; | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_null_pointer.h:24:49: error: template argument for template type parameter must be a type | |
| template <> struct __is_nullptr_t_impl<nullptr_t> : public true_type {}; | |
| ^~~~~~~~~ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_null_pointer.h:23:17: note: template parameter is declared here | |
| template <class _Tp> struct __is_nullptr_t_impl : public false_type {}; | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedSequence.cpp:1: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/iostream:41: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/ios:221: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__locale:18: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:841: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__algorithm/copy.h:12: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__algorithm/unwrap_iter.h:13: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator_traits.h:14: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/incrementable_traits.h:15: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/concepts:133: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__concepts/arithmetic.h:15: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/type_traits:421: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__functional/invoke.h:15: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/apply_cv.h:16: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/remove_reference.h:13: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/cstddef:50:9: error: no member named 'nullptr_t' in the global namespace | |
| using ::nullptr_t; | |
| ~~^ | |
| 41 warnings generated. | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Bifrost.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:5: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/limits:107: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/type_traits:421: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__functional/invoke.h:15: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/apply_cv.h:16: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/remove_reference.h:13: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/cstddef:50:9: error: no member named 'nullptr_t' in the global namespace | |
| using ::nullptr_t; | |
| ~~^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/FASTX_Parser.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/FASTX_Parser.hpp:8: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/iostream:41: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/ios:221: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__locale:18: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:841: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__algorithm/copy.h:12: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__algorithm/unwrap_iter.h:13: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator_traits.h:14: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/incrementable_traits.h:15: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/concepts:133: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__concepts/arithmetic.h:15: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/type_traits:421: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__functional/invoke.h:15: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/apply_cv.h:16: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/remove_reference.h:13: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/cstddef:50:9: error: no member named 'nullptr_t' in the global namespace | |
| using ::nullptr_t; | |
| ~~^ | |
| 39 warnings generated. | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Bifrost.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:5: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/limits:107: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/type_traits:452: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_compound.h:14: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_fundamental.h:14: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_null_pointer.h:24:49: error: use of undeclared identifier 'nullptr_t'; did you mean 'nullptr'? | |
| template <> struct __is_nullptr_t_impl<nullptr_t> : public true_type {}; | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_null_pointer.h:24:49: error: template argument for template type parameter must be a type | |
| template <> struct __is_nullptr_t_impl<nullptr_t> : public true_type {}; | |
| ^~~~~~~~~ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_null_pointer.h:23:17: note: template parameter is declared here | |
| template <class _Tp> struct __is_nullptr_t_impl : public false_type {}; | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.hpp:4: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/roaring.hh:10: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/algorithm:1709: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__debug:15: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/cstddef:50:9: error: no member named 'nullptr_t' in the global namespace | |
| using ::nullptr_t; | |
| ~~^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.hpp:4: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/roaring.hh:10: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/algorithm:1709: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__debug:15: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/cstddef:50:9: error: no member named 'nullptr_t' in the global namespace | |
| using ::nullptr_t; | |
| ~~^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/FASTX_Parser.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/FASTX_Parser.hpp:8: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/iostream:41: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/ios:221: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__locale:18: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:841: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__algorithm/copy.h:12: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__algorithm/unwrap_iter.h:13: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator_traits.h:14: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/incrementable_traits.h:15: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/concepts:133: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__concepts/arithmetic.h:15: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/type_traits:452: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_compound.h:14: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_fundamental.h:14: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_null_pointer.h:24:49: error: use of undeclared identifier 'nullptr_t'; did you mean 'nullptr'? | |
| template <> struct __is_nullptr_t_impl<nullptr_t> : public true_type {}; | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_null_pointer.h:24:49: error: template argument for template type parameter must be a type | |
| template <> struct __is_nullptr_t_impl<nullptr_t> : public true_type {}; | |
| ^~~~~~~~~ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_null_pointer.h:23:17: note: template parameter is declared here | |
| template <class _Tp> struct __is_nullptr_t_impl : public false_type {}; | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/ColorSet.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/ColorSet.hpp:4: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/roaring.hh:10: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/algorithm:1709: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__debug:15: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/cstddef:50:9: error: no member named 'nullptr_t' in the global namespace | |
| using ::nullptr_t; | |
| ~~^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedSequence.cpp:1: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/iostream:41: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/ios:221: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__locale:18: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:841: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__algorithm/copy.h:12: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__algorithm/unwrap_iter.h:13: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/iterator_traits.h:14: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/incrementable_traits.h:15: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/concepts:133: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__concepts/arithmetic.h:15: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/type_traits:452: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_compound.h:14: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_fundamental.h:14: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_null_pointer.h:24:49: error: use of undeclared identifier 'nullptr_t'; did you mean 'nullptr'? | |
| template <> struct __is_nullptr_t_impl<nullptr_t> : public true_type {}; | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_null_pointer.h:24:49: error: template argument for template type parameter must be a type | |
| template <> struct __is_nullptr_t_impl<nullptr_t> : public true_type {}; | |
| ^~~~~~~~~ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/ColorSet.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/ColorSet.hpp:4: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/roaring.hh:10: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/algorithm:1709: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__debug:16: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/type_traits:452: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_compound.h:14: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_fundamental.h:14: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_null_pointer.h:24:49: error: use of undeclared identifier 'nullptr_t'; did you mean 'nullptr'? | |
| template <> struct __is_nullptr_t_impl<nullptr_t> : public true_type {}; | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_null_pointer.h:24:49: error: template argument for template type parameter must be a type | |
| template <> struct __is_nullptr_t_impl<nullptr_t> : public true_type {}; | |
| ^~~~~~~~~ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_null_pointer.h:23:17: note: template parameter is declared here | |
| template <class _Tp> struct __is_nullptr_t_impl : public false_type {}; | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.hpp:4: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/roaring.hh:10: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/algorithm:1709: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__debug:16: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/type_traits:452: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_compound.h:14: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_fundamental.h:14: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_null_pointer.h:24:49: error: use of undeclared identifier 'nullptr_t'; did you mean 'nullptr'? | |
| template <> struct __is_nullptr_t_impl<nullptr_t> : public true_type {}; | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_null_pointer.h:24:49: error: template argument for template type parameter must be a type | |
| template <> struct __is_nullptr_t_impl<nullptr_t> : public true_type {}; | |
| ^~~~~~~~~ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_null_pointer.h:23:17: note: template parameter is declared here | |
| template <class _Tp> struct __is_nullptr_t_impl : public false_type {}; | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_null_pointer.h:23:17: note: template parameter is declared here | |
| template <class _Tp> struct __is_nullptr_t_impl : public false_type {}; | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.hpp:4: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/roaring.hh:10: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/algorithm:1709: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__debug:16: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/type_traits:452: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_compound.h:14: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_fundamental.h:14: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_null_pointer.h:24:49: error: use of undeclared identifier 'nullptr_t'; did you mean 'nullptr'? | |
| template <> struct __is_nullptr_t_impl<nullptr_t> : public true_type {}; | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_null_pointer.h:24:49: error: template argument for template type parameter must be a type | |
| template <> struct __is_nullptr_t_impl<nullptr_t> : public true_type {}; | |
| ^~~~~~~~~ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_null_pointer.h:23:17: note: template parameter is declared here | |
| template <class _Tp> struct __is_nullptr_t_impl : public false_type {}; | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Bifrost.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:7: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/cstdlib:123:9: error: target of using declaration conflicts with declaration already in scope | |
| using ::abs _LIBCPP_USING_IF_EXISTS; | |
| ^ | |
| /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk/usr/include/stdlib.h:132:6: note: target of using declaration | |
| int abs(int) __pure2; | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/cmath:339:1: note: conflicting declaration | |
| using ::abs _LIBCPP_USING_IF_EXISTS; | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Bifrost.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:7: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/cstdlib:123:9: error: target of using declaration conflicts with declaration already in scope | |
| using ::abs _LIBCPP_USING_IF_EXISTS; | |
| ^ | |
| /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk/usr/include/stdlib.h:132:6: note: target of using declaration | |
| int abs(int) __pure2; | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/cmath:339:1: note: conflicting declaration | |
| using ::abs _LIBCPP_USING_IF_EXISTS; | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BlockedBloomFilter.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BlockedBloomFilter.hpp:4: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/array:122: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/stdexcept:47: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:149:45: error: field has incomplete type 'exception_ptr' | |
| _LIBCPP_INLINE_VISIBILITY exception_ptr(nullptr_t) _NOEXCEPT : __ptr_() {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:144:24: note: definition of 'std::exception_ptr' is not complete until the closing '}' | |
| class _LIBCPP_TYPE_VIS exception_ptr | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:149:5: error: '__abi_tag__' attribute only applies to structs, variables, functions, and namespaces | |
| _LIBCPP_INLINE_VISIBILITY exception_ptr(nullptr_t) _NOEXCEPT : __ptr_() {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:689:37: note: expanded from macro '_LIBCPP_INLINE_VISIBILITY' | |
| # define _LIBCPP_INLINE_VISIBILITY _LIBCPP_HIDE_FROM_ABI | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:673:26: note: expanded from macro '_LIBCPP_HIDE_FROM_ABI' | |
| __attribute__((__abi_tag__(_LIBCPP_TOSTRING(_LIBCPP_VERSIONED_IDENTIFIER)))) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BlockedBloomFilter.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BlockedBloomFilter.hpp:4: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/array:122: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/stdexcept:47: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:149:55: error: expected ';' at end of declaration list | |
| _LIBCPP_INLINE_VISIBILITY exception_ptr(nullptr_t) _NOEXCEPT : __ptr_() {} | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/FASTX_Parser.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/FASTX_Parser.hpp:8: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/iostream:41: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/ios:221: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__locale:18: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:848: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/allocator.h:18: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/new:94: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:149:45: error: field has incomplete type 'exception_ptr' | |
| _LIBCPP_INLINE_VISIBILITY exception_ptr(nullptr_t) _NOEXCEPT : __ptr_() {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:144:24: note: definition of 'std::exception_ptr' is not complete until the closing '}' | |
| class _LIBCPP_TYPE_VIS exception_ptr | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:149:5: error: '__abi_tag__' attribute only applies to structs, variables, functions, and namespaces | |
| _LIBCPP_INLINE_VISIBILITY exception_ptr(nullptr_t) _NOEXCEPT : __ptr_() {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:689:37: note: expanded from macro '_LIBCPP_INLINE_VISIBILITY' | |
| # define _LIBCPP_INLINE_VISIBILITY _LIBCPP_HIDE_FROM_ABI | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:673:26: note: expanded from macro '_LIBCPP_HIDE_FROM_ABI' | |
| __attribute__((__abi_tag__(_LIBCPP_TOSTRING(_LIBCPP_VERSIONED_IDENTIFIER)))) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/FASTX_Parser.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/FASTX_Parser.hpp:8: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/iostream:41: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/ios:221: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__locale:18: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:848: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/allocator.h:18: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/new:94: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:149:55: error: expected ';' at end of declaration list | |
| _LIBCPP_INLINE_VISIBILITY exception_ptr(nullptr_t) _NOEXCEPT : __ptr_() {} | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Bifrost.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:12: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/functional:510: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__functional/bind.h:17: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/tuple:223: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:149:45: error: field has incomplete type 'exception_ptr' | |
| _LIBCPP_INLINE_VISIBILITY exception_ptr(nullptr_t) _NOEXCEPT : __ptr_() {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:144:24: note: definition of 'std::exception_ptr' is not complete until the closing '}' | |
| class _LIBCPP_TYPE_VIS exception_ptr | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:149:5: error: '__abi_tag__' attribute only applies to structs, variables, functions, and namespaces | |
| _LIBCPP_INLINE_VISIBILITY exception_ptr(nullptr_t) _NOEXCEPT : __ptr_() {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:689:37: note: expanded from macro '_LIBCPP_INLINE_VISIBILITY' | |
| # define _LIBCPP_INLINE_VISIBILITY _LIBCPP_HIDE_FROM_ABI | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:673:26: note: expanded from macro '_LIBCPP_HIDE_FROM_ABI' | |
| __attribute__((__abi_tag__(_LIBCPP_TOSTRING(_LIBCPP_VERSIONED_IDENTIFIER)))) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Bifrost.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:12: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/functional:510: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__functional/bind.h:17: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/tuple:223: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:149:55: error: expected ';' at end of declaration list | |
| _LIBCPP_INLINE_VISIBILITY exception_ptr(nullptr_t) _NOEXCEPT : __ptr_() {} | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedSequence.cpp:1: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/iostream:41: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/ios:221: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__locale:18: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:848: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/allocator.h:18: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/new:94: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:149:45: error: field has incomplete type 'exception_ptr' | |
| _LIBCPP_INLINE_VISIBILITY exception_ptr(nullptr_t) _NOEXCEPT : __ptr_() {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:144:24: note: definition of 'std::exception_ptr' is not complete until the closing '}' | |
| class _LIBCPP_TYPE_VIS exception_ptr | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:149:5: error: '__abi_tag__' attribute only applies to structs, variables, functions, and namespaces | |
| _LIBCPP_INLINE_VISIBILITY exception_ptr(nullptr_t) _NOEXCEPT : __ptr_() {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:689:37: note: expanded from macro '_LIBCPP_INLINE_VISIBILITY' | |
| # define _LIBCPP_INLINE_VISIBILITY _LIBCPP_HIDE_FROM_ABI | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:673:26: note: expanded from macro '_LIBCPP_HIDE_FROM_ABI' | |
| __attribute__((__abi_tag__(_LIBCPP_TOSTRING(_LIBCPP_VERSIONED_IDENTIFIER)))) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedSequence.cpp:1: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/iostream:41: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/ios:221: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__locale:18: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:848: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/allocator.h:18: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/new:94: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:149:55: error: expected ';' at end of declaration list | |
| _LIBCPP_INLINE_VISIBILITY exception_ptr(nullptr_t) _NOEXCEPT : __ptr_() {} | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Bifrost.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:12: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/functional:510: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__functional/bind.h:17: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/tuple:223: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:149:45: error: field has incomplete type 'exception_ptr' | |
| _LIBCPP_INLINE_VISIBILITY exception_ptr(nullptr_t) _NOEXCEPT : __ptr_() {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:144:24: note: definition of 'std::exception_ptr' is not complete until the closing '}' | |
| class _LIBCPP_TYPE_VIS exception_ptr | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:149:5: error: '__abi_tag__' attribute only applies to structs, variables, functions, and namespaces | |
| _LIBCPP_INLINE_VISIBILITY exception_ptr(nullptr_t) _NOEXCEPT : __ptr_() {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:689:37: note: expanded from macro '_LIBCPP_INLINE_VISIBILITY' | |
| # define _LIBCPP_INLINE_VISIBILITY _LIBCPP_HIDE_FROM_ABI | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:673:26: note: expanded from macro '_LIBCPP_HIDE_FROM_ABI' | |
| __attribute__((__abi_tag__(_LIBCPP_TOSTRING(_LIBCPP_VERSIONED_IDENTIFIER)))) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Bifrost.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:12: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/functional:510: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__functional/bind.h:17: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/tuple:223: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:149:55: error: expected ';' at end of declaration list | |
| _LIBCPP_INLINE_VISIBILITY exception_ptr(nullptr_t) _NOEXCEPT : __ptr_() {} | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/GFA_Parser.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/GFA_Parser.hpp:4: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/string:519: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__algorithm/max.h:13: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__algorithm/comp_ref_type.h:13: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__debug:15: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/cstddef:50:9: error: no member named 'nullptr_t' in the global namespace | |
| using ::nullptr_t; | |
| ~~^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.hpp:4: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/roaring.hh:10: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/algorithm:1712: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:848: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/allocator.h:18: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/new:94: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:149:45: error: field has incomplete type 'exception_ptr' | |
| _LIBCPP_INLINE_VISIBILITY exception_ptr(nullptr_t) _NOEXCEPT : __ptr_() {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:144:24: note: definition of 'std::exception_ptr' is not complete until the closing '}' | |
| class _LIBCPP_TYPE_VIS exception_ptr | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:149:5: error: '__abi_tag__' attribute only applies to structs, variables, functions, and namespaces | |
| _LIBCPP_INLINE_VISIBILITY exception_ptr(nullptr_t) _NOEXCEPT : __ptr_() {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:689:37: note: expanded from macro '_LIBCPP_INLINE_VISIBILITY' | |
| # define _LIBCPP_INLINE_VISIBILITY _LIBCPP_HIDE_FROM_ABI | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:673:26: note: expanded from macro '_LIBCPP_HIDE_FROM_ABI' | |
| __attribute__((__abi_tag__(_LIBCPP_TOSTRING(_LIBCPP_VERSIONED_IDENTIFIER)))) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.hpp:4: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/roaring.hh:10: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/algorithm:1712: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:848: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/allocator.h:18: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/new:94: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:149:55: error: expected ';' at end of declaration list | |
| _LIBCPP_INLINE_VISIBILITY exception_ptr(nullptr_t) _NOEXCEPT : __ptr_() {} | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedCoverage.cpp:1: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/string:549: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:848: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/allocator.h:18: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/new:94: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:149:45: error: field has incomplete type 'exception_ptr' | |
| _LIBCPP_INLINE_VISIBILITY exception_ptr(nullptr_t) _NOEXCEPT : __ptr_() {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:144:24: note: definition of 'std::exception_ptr' is not complete until the closing '}' | |
| class _LIBCPP_TYPE_VIS exception_ptr | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:149:5: error: '__abi_tag__' attribute only applies to structs, variables, functions, and namespaces | |
| _LIBCPP_INLINE_VISIBILITY exception_ptr(nullptr_t) _NOEXCEPT : __ptr_() {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:689:37: note: expanded from macro '_LIBCPP_INLINE_VISIBILITY' | |
| # define _LIBCPP_INLINE_VISIBILITY _LIBCPP_HIDE_FROM_ABI | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:673:26: note: expanded from macro '_LIBCPP_HIDE_FROM_ABI' | |
| __attribute__((__abi_tag__(_LIBCPP_TOSTRING(_LIBCPP_VERSIONED_IDENTIFIER)))) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedCoverage.cpp:1: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/string:549: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:848: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/allocator.h:18: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/new:94: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:149:55: error: expected ';' at end of declaration list | |
| _LIBCPP_INLINE_VISIBILITY exception_ptr(nullptr_t) _NOEXCEPT : __ptr_() {} | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/GFA_Parser.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/GFA_Parser.hpp:4: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/string:519: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__algorithm/max.h:13: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__algorithm/comp_ref_type.h:13: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__debug:16: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/type_traits:452: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_compound.h:14: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_fundamental.h:14: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_null_pointer.h:24:49: error: use of undeclared identifier 'nullptr_t'; did you mean 'nullptr'? | |
| template <> struct __is_nullptr_t_impl<nullptr_t> : public true_type {}; | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_null_pointer.h:24:49: error: template argument for template type parameter must be a type | |
| template <> struct __is_nullptr_t_impl<nullptr_t> : public true_type {}; | |
| ^~~~~~~~~ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_null_pointer.h:23:17: note: template parameter is declared here | |
| template <class _Tp> struct __is_nullptr_t_impl : public false_type {}; | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/FASTX_Parser.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/FASTX_Parser.hpp:8: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/iostream:41: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/ios:221: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__locale:18: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:860: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/shared_ptr.h:28: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:173:3: error: non-static data member cannot be constexpr; did you intend to make it const? | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:728:31: note: expanded from macro '_LIBCPP_CONSTEXPR' | |
| # define _LIBCPP_CONSTEXPR constexpr | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/FASTX_Parser.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/FASTX_Parser.hpp:8: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/iostream:41: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/ios:221: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__locale:18: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:860: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/shared_ptr.h:28: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:173:32: error: member 'nullptr_t' declared as a template | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:173:42: error: expected ';' at end of declaration list | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:262:25: error: unknown type name 'nullptr_t' | |
| unique_ptr& operator=(nullptr_t) _NOEXCEPT { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:395:3: error: non-static data member cannot be constexpr; did you intend to make it const? | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:728:31: note: expanded from macro '_LIBCPP_CONSTEXPR' | |
| # define _LIBCPP_CONSTEXPR constexpr | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/FASTX_Parser.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/FASTX_Parser.hpp:8: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/iostream:41: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/ios:221: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__locale:18: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:860: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/shared_ptr.h:28: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:395:32: error: member 'nullptr_t' declared as a template | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:395:42: error: expected ';' at end of declaration list | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:484:25: error: unknown type name 'nullptr_t' | |
| unique_ptr& operator=(nullptr_t) _NOEXCEPT { | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Bifrost.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:12: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/functional:515: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__functional/boyer_moore_searcher.h:22: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/shared_ptr.h:28: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:173:3: error: non-static data member cannot be constexpr; did you intend to make it const? | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:728:31: note: expanded from macro '_LIBCPP_CONSTEXPR' | |
| # define _LIBCPP_CONSTEXPR constexpr | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Bifrost.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:12: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/functional:515: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__functional/boyer_moore_searcher.h:22: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/shared_ptr.h:28: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:173:32: error: member 'nullptr_t' declared as a template | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:173:42: error: expected ';' at end of declaration list | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:533:14: error: unknown type name 'nullptr_t' | |
| void reset(nullptr_t = nullptr) _NOEXCEPT { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:533:24: error: cannot initialize a parameter of type 'int' with an rvalue of type 'std::nullptr_t' | |
| void reset(nullptr_t = nullptr) _NOEXCEPT { | |
| ^ ~~~~~~~ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:533:24: note: passing argument to parameter here | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:262:25: error: unknown type name 'nullptr_t' | |
| unique_ptr& operator=(nullptr_t) _NOEXCEPT { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:594:45: error: unknown type name 'nullptr_t' | |
| operator==(const unique_ptr<_T1, _D1>& __x, nullptr_t) _NOEXCEPT | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:395:3: error: non-static data member cannot be constexpr; did you intend to make it const? | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:728:31: note: expanded from macro '_LIBCPP_CONSTEXPR' | |
| # define _LIBCPP_CONSTEXPR constexpr | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Bifrost.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:12: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/functional:515: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__functional/boyer_moore_searcher.h:22: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/shared_ptr.h:28: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:395:32: error: member 'nullptr_t' declared as a template | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:395:42: error: expected ';' at end of declaration list | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:602:12: error: unknown type name 'nullptr_t' | |
| operator==(nullptr_t, const unique_ptr<_T1, _D1>& __x) _NOEXCEPT | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:484:25: error: unknown type name 'nullptr_t' | |
| unique_ptr& operator=(nullptr_t) _NOEXCEPT { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:610:45: error: unknown type name 'nullptr_t' | |
| operator!=(const unique_ptr<_T1, _D1>& __x, nullptr_t) _NOEXCEPT | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:533:14: error: unknown type name 'nullptr_t' | |
| void reset(nullptr_t = nullptr) _NOEXCEPT { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:533:24: error: cannot initialize a parameter of type 'int' with an rvalue of type 'std::nullptr_t' | |
| void reset(nullptr_t = nullptr) _NOEXCEPT { | |
| ^ ~~~~~~~ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:533:24: note: passing argument to parameter here | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:594:45: error: unknown type name 'nullptr_t' | |
| operator==(const unique_ptr<_T1, _D1>& __x, nullptr_t) _NOEXCEPT | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:602:12: error: unknown type name 'nullptr_t' | |
| operator==(nullptr_t, const unique_ptr<_T1, _D1>& __x) _NOEXCEPT | |
| ^ | |
| fatal error: too many errors emitted, stopping now [-ferror-limit=] | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.hpp:4: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/roaring.hh:10: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/algorithm:1712: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:848: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/allocator.h:18: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/new:94: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:149:45: error: field has incomplete type 'exception_ptr' | |
| _LIBCPP_INLINE_VISIBILITY exception_ptr(nullptr_t) _NOEXCEPT : __ptr_() {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:144:24: note: definition of 'std::exception_ptr' is not complete until the closing '}' | |
| class _LIBCPP_TYPE_VIS exception_ptr | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:149:5: error: '__abi_tag__' attribute only applies to structs, variables, functions, and namespaces | |
| _LIBCPP_INLINE_VISIBILITY exception_ptr(nullptr_t) _NOEXCEPT : __ptr_() {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:689:37: note: expanded from macro '_LIBCPP_INLINE_VISIBILITY' | |
| # define _LIBCPP_INLINE_VISIBILITY _LIBCPP_HIDE_FROM_ABI | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:673:26: note: expanded from macro '_LIBCPP_HIDE_FROM_ABI' | |
| __attribute__((__abi_tag__(_LIBCPP_TOSTRING(_LIBCPP_VERSIONED_IDENTIFIER)))) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.hpp:4: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/roaring.hh:10: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/algorithm:1712: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:848: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/allocator.h:18: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/new:94: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:149:55: error: expected ';' at end of declaration list | |
| _LIBCPP_INLINE_VISIBILITY exception_ptr(nullptr_t) _NOEXCEPT : __ptr_() {} | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.hpp:4: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/roaring.hh:10: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/algorithm:1712: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:860: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/shared_ptr.h:28: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:173:3: error: non-static data member cannot be constexpr; did you intend to make it const? | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:728:31: note: expanded from macro '_LIBCPP_CONSTEXPR' | |
| # define _LIBCPP_CONSTEXPR constexpr | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.hpp:4: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/roaring.hh:10: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/algorithm:1712: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:860: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/shared_ptr.h:28: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:173:32: error: member 'nullptr_t' declared as a template | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:173:42: error: expected ';' at end of declaration list | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedSequence.cpp:1: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/iostream:41: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/ios:221: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__locale:18: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:860: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/shared_ptr.h:28: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:173:3: error: non-static data member cannot be constexpr; did you intend to make it const? | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:728:31: note: expanded from macro '_LIBCPP_CONSTEXPR' | |
| # define _LIBCPP_CONSTEXPR constexpr | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedSequence.cpp:1: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/iostream:41: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/ios:221: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__locale:18: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:860: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/shared_ptr.h:28: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:173:32: error: member 'nullptr_t' declared as a template | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:173:42: error: expected ';' at end of declaration list | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:262:25: error: unknown type name 'nullptr_t' | |
| unique_ptr& operator=(nullptr_t) _NOEXCEPT { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:262:25: error: unknown type name 'nullptr_t' | |
| unique_ptr& operator=(nullptr_t) _NOEXCEPT { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:395:3: error: non-static data member cannot be constexpr; did you intend to make it const? | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:728:31: note: expanded from macro '_LIBCPP_CONSTEXPR' | |
| # define _LIBCPP_CONSTEXPR constexpr | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.hpp:4: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/roaring.hh:10: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/algorithm:1712: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:860: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/shared_ptr.h:28: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:395:32: error: member 'nullptr_t' declared as a template | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:395:42: error: expected ';' at end of declaration list | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:395:3: error: non-static data member cannot be constexpr; did you intend to make it const? | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:728:31: note: expanded from macro '_LIBCPP_CONSTEXPR' | |
| # define _LIBCPP_CONSTEXPR constexpr | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedSequence.cpp:1: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/iostream:41: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/ios:221: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__locale:18: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:860: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/shared_ptr.h:28: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:395:32: error: member 'nullptr_t' declared as a template | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:395:42: error: expected ';' at end of declaration list | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:484:25: error: unknown type name 'nullptr_t' | |
| unique_ptr& operator=(nullptr_t) _NOEXCEPT { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:484:25: error: unknown type name 'nullptr_t' | |
| unique_ptr& operator=(nullptr_t) _NOEXCEPT { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:533:14: error: unknown type name 'nullptr_t' | |
| void reset(nullptr_t = nullptr) _NOEXCEPT { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:533:24: error: cannot initialize a parameter of type 'int' with an rvalue of type 'std::nullptr_t' | |
| void reset(nullptr_t = nullptr) _NOEXCEPT { | |
| ^ ~~~~~~~ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:533:24: note: passing argument to parameter here | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:533:14: error: unknown type name 'nullptr_t' | |
| void reset(nullptr_t = nullptr) _NOEXCEPT { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:533:24: error: cannot initialize a parameter of type 'int' with an rvalue of type 'std::nullptr_t' | |
| void reset(nullptr_t = nullptr) _NOEXCEPT { | |
| ^ ~~~~~~~ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:533:24: note: passing argument to parameter here | |
| fatal error: too many errors emitted, stopping now [-ferror-limit=] | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:594:45: error: unknown type name 'nullptr_t' | |
| operator==(const unique_ptr<_T1, _D1>& __x, nullptr_t) _NOEXCEPT | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:602:12: error: unknown type name 'nullptr_t' | |
| operator==(nullptr_t, const unique_ptr<_T1, _D1>& __x) _NOEXCEPT | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:610:45: error: unknown type name 'nullptr_t' | |
| operator!=(const unique_ptr<_T1, _D1>& __x, nullptr_t) _NOEXCEPT | |
| ^ | |
| fatal error: too many errors emitted, stopping now [-ferror-limit=] | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/ColorSet.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/ColorSet.hpp:4: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/roaring.hh:10: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/algorithm:1712: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:848: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/allocator.h:18: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/new:94: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:149:45: error: field has incomplete type 'exception_ptr' | |
| _LIBCPP_INLINE_VISIBILITY exception_ptr(nullptr_t) _NOEXCEPT : __ptr_() {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:144:24: note: definition of 'std::exception_ptr' is not complete until the closing '}' | |
| class _LIBCPP_TYPE_VIS exception_ptr | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:149:5: error: '__abi_tag__' attribute only applies to structs, variables, functions, and namespaces | |
| _LIBCPP_INLINE_VISIBILITY exception_ptr(nullptr_t) _NOEXCEPT : __ptr_() {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:689:37: note: expanded from macro '_LIBCPP_INLINE_VISIBILITY' | |
| # define _LIBCPP_INLINE_VISIBILITY _LIBCPP_HIDE_FROM_ABI | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:673:26: note: expanded from macro '_LIBCPP_HIDE_FROM_ABI' | |
| __attribute__((__abi_tag__(_LIBCPP_TOSTRING(_LIBCPP_VERSIONED_IDENTIFIER)))) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/ColorSet.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/ColorSet.hpp:4: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/roaring.hh:10: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/algorithm:1712: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:848: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/allocator.h:18: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/new:94: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:149:55: error: expected ';' at end of declaration list | |
| _LIBCPP_INLINE_VISIBILITY exception_ptr(nullptr_t) _NOEXCEPT : __ptr_() {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:594:45: error: unknown type name 'nullptr_t' | |
| operator==(const unique_ptr<_T1, _D1>& __x, nullptr_t) _NOEXCEPT | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:602:12: error: unknown type name 'nullptr_t' | |
| operator==(nullptr_t, const unique_ptr<_T1, _D1>& __x) _NOEXCEPT | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BlockedBloomFilter.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BlockedBloomFilter.hpp:4: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/array:127: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/algorithm:1712: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:860: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/shared_ptr.h:28: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:173:3: error: non-static data member cannot be constexpr; did you intend to make it const? | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:728:31: note: expanded from macro '_LIBCPP_CONSTEXPR' | |
| # define _LIBCPP_CONSTEXPR constexpr | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BlockedBloomFilter.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BlockedBloomFilter.hpp:4: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/array:127: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/algorithm:1712: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:860: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/shared_ptr.h:28: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:173:32: error: member 'nullptr_t' declared as a template | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:173:42: error: expected ';' at end of declaration list | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedCoverage.cpp:1: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/string:549: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:860: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/shared_ptr.h:28: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:173:3: error: non-static data member cannot be constexpr; did you intend to make it const? | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:728:31: note: expanded from macro '_LIBCPP_CONSTEXPR' | |
| # define _LIBCPP_CONSTEXPR constexpr | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedCoverage.cpp:1: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/string:549: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:860: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/shared_ptr.h:28: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:173:32: error: member 'nullptr_t' declared as a template | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:173:42: error: expected ';' at end of declaration list | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:262:25: error: unknown type name 'nullptr_t' | |
| unique_ptr& operator=(nullptr_t) _NOEXCEPT { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:395:3: error: non-static data member cannot be constexpr; did you intend to make it const? | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:728:31: note: expanded from macro '_LIBCPP_CONSTEXPR' | |
| # define _LIBCPP_CONSTEXPR constexpr | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BlockedBloomFilter.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BlockedBloomFilter.hpp:4: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/array:127: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/algorithm:1712: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:860: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/shared_ptr.h:28: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:395:32: error: member 'nullptr_t' declared as a template | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:395:42: error: expected ';' at end of declaration list | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:262:25: error: unknown type name 'nullptr_t' | |
| unique_ptr& operator=(nullptr_t) _NOEXCEPT { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:610:45: error: unknown type name 'nullptr_t' | |
| operator!=(const unique_ptr<_T1, _D1>& __x, nullptr_t) _NOEXCEPT | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:395:3: error: non-static data member cannot be constexpr; did you intend to make it const? | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:728:31: note: expanded from macro '_LIBCPP_CONSTEXPR' | |
| # define _LIBCPP_CONSTEXPR constexpr | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedCoverage.cpp:1: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/string:549: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:860: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/shared_ptr.h:28: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:395:32: error: member 'nullptr_t' declared as a template | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:395:42: error: expected ';' at end of declaration list | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:484:25: error: unknown type name 'nullptr_t' | |
| unique_ptr& operator=(nullptr_t) _NOEXCEPT { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:533:14: error: unknown type name 'nullptr_t' | |
| void reset(nullptr_t = nullptr) _NOEXCEPT { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:484:25: error: unknown type name 'nullptr_t' | |
| unique_ptr& operator=(nullptr_t) _NOEXCEPT { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:533:24: error: cannot initialize a parameter of type 'int' with an rvalue of type 'std::nullptr_t' | |
| void reset(nullptr_t = nullptr) _NOEXCEPT { | |
| ^ ~~~~~~~ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:533:24: note: passing argument to parameter here | |
| fatal error: too many errors emitted, stopping now [-ferror-limit=] | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:533:14: error: unknown type name 'nullptr_t' | |
| void reset(nullptr_t = nullptr) _NOEXCEPT { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:533:24: error: cannot initialize a parameter of type 'int' with an rvalue of type 'std::nullptr_t' | |
| void reset(nullptr_t = nullptr) _NOEXCEPT { | |
| ^ ~~~~~~~ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:533:24: note: passing argument to parameter here | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:594:45: error: unknown type name 'nullptr_t' | |
| operator==(const unique_ptr<_T1, _D1>& __x, nullptr_t) _NOEXCEPT | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:602:12: error: unknown type name 'nullptr_t' | |
| operator==(nullptr_t, const unique_ptr<_T1, _D1>& __x) _NOEXCEPT | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:594/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:610:45: error: unknown type name 'nullptr_t' | |
| operator!=(const unique_ptr<_T1, _D1>& __x, nullptr_t) _NOEXCEPT | |
| ^ | |
| fatal error: too many errors emitted, stopping now [-ferror-limit=] | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/GFA_Parser.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/GFA_Parser.hpp:4: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/string:549: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:848: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/allocator.h:18: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/new:94: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:149:45: error: field has incomplete type 'exception_ptr' | |
| _LIBCPP_INLINE_VISIBILITY exception_ptr(nullptr_t) _NOEXCEPT : __ptr_() {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:144:24: note: definition of 'std::exception_ptr' is not complete until the closing '}' | |
| class _LIBCPP_TYPE_VIS exception_ptr | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:149:5: error: '__abi_tag__' attribute only applies to structs, variables, functions, and namespaces | |
| _LIBCPP_INLINE_VISIBILITY exception_ptr(nullptr_t) _NOEXCEPT : __ptr_() {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:689:37: note: expanded from macro '_LIBCPP_INLINE_VISIBILITY' | |
| # define _LIBCPP_INLINE_VISIBILITY _LIBCPP_HIDE_FROM_ABI | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:673:26: note: expanded from macro '_LIBCPP_HIDE_FROM_ABI' | |
| __attribute__((__abi_tag__(_LIBCPP_TOSTRING(_LIBCPP_VERSIONED_IDENTIFIER)))) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/GFA_Parser.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/GFA_Parser.hpp:4: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/string:549: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:848: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/allocator.h:18: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/new:94: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:149:55: error: expected ';' at end of declaration list | |
| _LIBCPP_INLINE_VISIBILITY exception_ptr(nullptr_t) _NOEXCEPT : __ptr_() {} | |
| ^ | |
| :45: error: unknown type name 'nullptr_t' | |
| operator==(const unique_ptr<_T1, _D1>& __x, nullptr_t) _NOEXCEPT | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Bifrost.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:12: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/functional:515: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__functional/boyer_moore_searcher.h:22: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/shared_ptr.h:28: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:173:3: error: non-static data member cannot be constexpr; did you intend to make it const? | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:728:31: note: expanded from macro '_LIBCPP_CONSTEXPR' | |
| # define _LIBCPP_CONSTEXPR constexpr | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Bifrost.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:12: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/functional:515: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__functional/boyer_moore_searcher.h:22: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/shared_ptr.h:28: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:173:32: error: member 'nullptr_t' declared as a template | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:173:42: error: expected ';' at end of declaration list | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:262:25: error: unknown type name 'nullptr_t' | |
| unique_ptr& operator=(nullptr_t) _NOEXCEPT { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:395:3: error: non-static data member cannot be constexpr; did you intend to make it const? | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:728:31: note: expanded from macro '_LIBCPP_CONSTEXPR' | |
| # define _LIBCPP_CONSTEXPR constexpr | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Bifrost.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompactedDBG.hpp:12: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/functional:515: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__functional/boyer_moore_searcher.h:22: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/shared_ptr.h:28: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:395:32: error: member 'nullptr_t' declared as a template | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:395:42: error: expected ';' at end of declaration list | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:484:25: error: unknown type name 'nullptr_t' | |
| unique_ptr& operator=(nullptr_t) _NOEXCEPT { | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/GFA_Parser.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/GFA_Parser.hpp:4: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/string:549: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:860: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/shared_ptr.h:28: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:173:3: error: non-static data member cannot be constexpr; did you intend to make it const? | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:728:31: note: expanded from macro '_LIBCPP_CONSTEXPR' | |
| # define _LIBCPP_CONSTEXPR constexpr | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/GFA_Parser.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/GFA_Parser.hpp:4: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/string:549: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:860: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/shared_ptr.h:28: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:173:32: error: member 'nullptr_t' declared as a template | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:173:42: error: expected ';' at end of declaration list | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:533:14: error: unknown type name 'nullptr_t' | |
| void reset(nullptr_t = nullptr) _NOEXCEPT { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:533:24: error: cannot initialize a parameter of type 'int' with an rvalue of type 'std::nullptr_t' | |
| void reset(nullptr_t = nullptr) _NOEXCEPT { | |
| ^ ~~~~~~~ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:533:24: note: passing argument to parameter here | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:262:25: error: unknown type name 'nullptr_t' | |
| unique_ptr& operator=(nullptr_t) _NOEXCEPT { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:594:45: error: unknown type name 'nullptr_t' | |
| operator==(const unique_ptr<_T1, _D1>& __x, nullptr_t) _NOEXCEPT | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:395:3: error: non-static data member cannot be constexpr; did you intend to make it const? | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:728:31: note: expanded from macro '_LIBCPP_CONSTEXPR' | |
| # define _LIBCPP_CONSTEXPR constexpr | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/GFA_Parser.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/GFA_Parser.hpp:4: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/string:549: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:860: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/shared_ptr.h:28: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:395:32: error: member 'nullptr_t' declared as a template | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:395:42: error: expected ';' at end of declaration list | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:602:12: error: unknown type name 'nullptr_t' | |
| operator==(nullptr_t, const unique_ptr<_T1, _D1>& __x) _NOEXCEPT | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:484:25: error: unknown type name 'nullptr_t' | |
| unique_ptr& operator=(nullptr_t) _NOEXCEPT { | |
| ^ | |
| fatal error: too many errors emitted, stopping now [-ferror-limit=] | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:533:14: error: unknown type name 'nullptr_t' | |
| void reset(nullptr_t = nullptr) _NOEXCEPT { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:533:24: error: cannot initialize a parameter of type 'int' with an rvalue of type 'std::nullptr_t' | |
| void reset(nullptr_t = nullptr) _NOEXCEPT { | |
| ^ ~~~~~~~ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:533:24: note: passing argument to parameter here | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:602:12: error: unknown type name 'nullptr_t' | |
| operator==(nullptr_t, const unique_ptr<_T1, _D1>& __x) _NOEXCEPT | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:594:45: error: unknown type name 'nullptr_t' | |
| operator==(const unique_ptr<_T1, _D1>& __x, nullptr_t) _NOEXCEPT | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:602:12: error: unknown type name 'nullptr_t' | |
| operator==(nullptr_t, const unique_ptr<_T1, _D1>& __x) _NOEXCEPT | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:610:45: error: unknown type name 'nullptr_t' | |
| operator!=(const unique_ptr<_T1, _D1>& __x, nullptr_t) _NOEXCEPT | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:610:45: error: unknown type name 'nullptr_t' | |
| operator!=(const unique_ptr<_T1, _D1>& __x, nullptr_t) _NOEXCEPT | |
| ^ | |
| fatal error: too many errors emitted, stopping now [-ferror-limit=] | |
| fatal error: too many errors emitted, stopping now [-ferror-limit=] | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.hpp:4: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/roaring.hh:10: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/algorithm:1712: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:860: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/shared_ptr.h:28: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:173:3: error: non-static data member cannot be constexpr; did you intend to make it const? | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:728:31: note: expanded from macro '_LIBCPP_CONSTEXPR' | |
| # define _LIBCPP_CONSTEXPR constexpr | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.hpp:4: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/roaring.hh:10: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/algorithm:1712: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:860: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/shared_ptr.h:28: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:173:32: error: member 'nullptr_t' declared as a template | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:173:42: error: expected ';' at end of declaration list | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:262:25: error: unknown type name 'nullptr_t' | |
| unique_ptr& operator=(nullptr_t) _NOEXCEPT { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:395:3: error: non-static data member cannot be constexpr; did you intend to make it const? | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:728:31: note: expanded from macro '_LIBCPP_CONSTEXPR' | |
| # define _LIBCPP_CONSTEXPR constexpr | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.hpp:4: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/roaring.hh:10: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/algorithm:1712: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:860: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/shared_ptr.h:28: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:395:32: error: member 'nullptr_t' declared as a template | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:395:42: error: expected ';' at end of declaration list | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:484:25: error: unknown type name 'nullptr_t' | |
| unique_ptr& operator=(nullptr_t) _NOEXCEPT { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:533:14: error: unknown type name 'nullptr_t' | |
| void reset(nullptr_t = nullptr) _NOEXCEPT { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:533:24: error: cannot initialize a parameter of type 'int' with an rvalue of type 'std::nullptr_t' | |
| void reset(nullptr_t = nullptr) _NOEXCEPT { | |
| ^ ~~~~~~~ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:533:24: note: passing argument to parameter here | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:594:45: error: unknown type name 'nullptr_t' | |
| operator==(const unique_ptr<_T1, _D1>& __x, nullptr_t) _NOEXCEPT | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:602:12: error: unknown type name 'nullptr_t' | |
| operator==(nullptr_t, const unique_ptr<_T1, _D1>& __x) _NOEXCEPT | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:610:45: error: unknown type name 'nullptr_t' | |
| operator!=(const unique_ptr<_T1, _D1>& __x, nullptr_t) _NOEXCEPT | |
| ^ | |
| fatal error: too many errors emitted, stopping now [-ferror-limit=] | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/ColorSet.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/ColorSet.hpp:4: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/roaring.hh:10: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/algorithm:1712: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:860: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/shared_ptr.h:28: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:173:3: error: non-static data member cannot be constexpr; did you intend to make it const? | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:728:31: note: expanded from macro '_LIBCPP_CONSTEXPR' | |
| # define _LIBCPP_CONSTEXPR constexpr | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/ColorSet.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/ColorSet.hpp:4: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/roaring.hh:10: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/algorithm:1712: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:860: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/shared_ptr.h:28: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:173:32: error: member 'nullptr_t' declared as a template | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:173:42: error: expected ';' at end of declaration list | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:262:25: error: unknown type name 'nullptr_t' | |
| unique_ptr& operator=(nullptr_t) _NOEXCEPT { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:395:3: error: non-static data member cannot be constexpr; did you intend to make it const? | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:728:31: note: expanded from macro '_LIBCPP_CONSTEXPR' | |
| # define _LIBCPP_CONSTEXPR constexpr | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/ColorSet.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/ColorSet.hpp:4: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/roaring.hh:10: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/algorithm:1712: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:860: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/shared_ptr.h:28: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:395:32: error: member 'nullptr_t' declared as a template | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:395:42: error: expected ';' at end of declaration list | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:484:25: error: unknown type name 'nullptr_t' | |
| unique_ptr& operator=(nullptr_t) _NOEXCEPT { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:533:14: error: unknown type name 'nullptr_t' | |
| void reset(nullptr_t = nullptr) _NOEXCEPT { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:533:24: error: cannot initialize a parameter of type 'int' with an rvalue of type 'std::nullptr_t' | |
| void reset(nullptr_t = nullptr) _NOEXCEPT { | |
| ^ ~~~~~~~ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:533:24: note: passing argument to parameter here | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:594:45: error: unknown type name 'nullptr_t' | |
| operator==(const unique_ptr<_T1, _D1>& __x, nullptr_t) _NOEXCEPT | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:602:12: error: unknown type name 'nullptr_t' | |
| operator==(nullptr_t, const unique_ptr<_T1, _D1>& __x) _NOEXCEPT | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:610:45: error: unknown type name 'nullptr_t' | |
| operator!=(const unique_ptr<_T1, _D1>& __x, nullptr_t) _NOEXCEPT | |
| ^ | |
| fatal error: too many errors emitted, stopping now [-ferror-limit=] | |
| 20 errors generated. | |
| make[5]: *** [src/CMakeFiles/bifrost_dynamic.dir/FASTX_Parser.cpp.o] Error 1 | |
| make[5]: *** Waiting for unfinished jobs.... | |
| [ 34%] Building CXX object src/CMakeFiles/bifrost_static.dir/BlockedBloomFilter.cpp.o | |
| cd /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src && /opt/homebrew/Library/Homebrew/shims/mac/super/clang++ -DMAX_GMER_SIZE=32 -DMAX_KMER_SIZE=32 -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk/usr/include -Wno-subobject-linkage -Wno-return-type -std=c++11 -mno-avx2 -O3 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -mmacosx-version-min=13.6 -O3 -MD -MT src/CMakeFiles/bifrost_static.dir/BlockedBloomFilter.cpp.o -MF CMakeFiles/bifrost_static.dir/BlockedBloomFilter.cpp.o.d -o CMakeFiles/bifrost_static.dir/BlockedBloomFilter.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BlockedBloomFilter.cpp | |
| 20 errors generated. | |
| make[5]: *** [src/CMakeFiles/bifrost_static.dir/BitContainer.cpp.o] Error 1 | |
| make[5]: *** Waiting for unfinished jobs.... | |
| 20 errors generated. | |
| make[5]: *** [src/CMakeFiles/bifrost_dynamic.dir/CompressedSequence.cpp.o] Error 1 | |
| 20 errors generated. | |
| make[5]: *** [src/CMakeFiles/bifrost_dynamic.dir/GFA_Parser.cpp.o] Error 1 | |
| 20 errors generated. | |
| make[5]: *** [src/CMakeFiles/bifrost_dynamic.dir/BitContainer.cpp.o] Error 1 | |
| 20 errors generated. | |
| make[5]: *** [src/CMakeFiles/bifrost_dynamic.dir/CompressedCoverage.cpp.o] Error 1 | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BlockedBloomFilter.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BlockedBloomFilter.hpp:4: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/array:111: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__algorithm/equal.h:15: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/distance.h:14: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/concepts.h:14: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/incrementable_traits.h:15: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/concepts:133: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__concepts/arithmetic.h:15: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/type_traits:421: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__functional/invoke.h:15: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/apply_cv.h:16: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/remove_reference.h:13: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/cstddef:50:9: error: no member named 'nullptr_t' in the global namespace | |
| using ::nullptr_t; | |
| ~~^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BlockedBloomFilter.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BlockedBloomFilter.hpp:4: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/array:111: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__algorithm/equal.h:15: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/distance.h:14: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/concepts.h:14: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__iterator/incrementable_traits.h:15: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/concepts:133: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__concepts/arithmetic.h:15: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/type_traits:452: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_compound.h:14: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_fundamental.h:14: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_null_pointer.h:24:49: error: use of undeclared identifier 'nullptr_t'; did you mean 'nullptr'? | |
| template <> struct __is_nullptr_t_impl<nullptr_t> : public true_type {}; | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_null_pointer.h:24:49: error: template argument for template type parameter must be a type | |
| template <> struct __is_nullptr_t_impl<nullptr_t> : public true_type {}; | |
| ^~~~~~~~~ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__type_traits/is_null_pointer.h:23:17: note: template parameter is declared here | |
| template <class _Tp> struct __is_nullptr_t_impl : public false_type {}; | |
| ^ | |
| 20 errors generated. | |
| make[5]: *** [src/CMakeFiles/bifrost_dynamic.dir/BlockedBloomFilter.cpp.o] Error 1 | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BlockedBloomFilter.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BlockedBloomFilter.hpp:4: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/array:122: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/stdexcept:47: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:149:45: error: field has incomplete type 'exception_ptr' | |
| _LIBCPP_INLINE_VISIBILITY exception_ptr(nullptr_t) _NOEXCEPT : __ptr_() {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:144:24: note: definition of 'std::exception_ptr' is not complete until the closing '}' | |
| class _LIBCPP_TYPE_VIS exception_ptr | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:149:5: error: '__abi_tag__' attribute only applies to structs, variables, functions, and namespaces | |
| _LIBCPP_INLINE_VISIBILITY exception_ptr(nullptr_t) _NOEXCEPT : __ptr_() {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:689:37: note: expanded from macro '_LIBCPP_INLINE_VISIBILITY' | |
| # define _LIBCPP_INLINE_VISIBILITY _LIBCPP_HIDE_FROM_ABI | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:673:26: note: expanded from macro '_LIBCPP_HIDE_FROM_ABI' | |
| __attribute__((__abi_tag__(_LIBCPP_TOSTRING(_LIBCPP_VERSIONED_IDENTIFIER)))) | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BlockedBloomFilter.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BlockedBloomFilter.hpp:4: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/array:122: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/stdexcept:47: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/exception:149:55: error: expected ';' at end of declaration list | |
| _LIBCPP_INLINE_VISIBILITY exception_ptr(nullptr_t) _NOEXCEPT : __ptr_() {} | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BlockedBloomFilter.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BlockedBloomFilter.hpp:4: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/array:127: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/algorithm:1712: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:860: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/shared_ptr.h:28: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:173:3: error: non-static data member cannot be constexpr; did you intend to make it const? | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:728:31: note: expanded from macro '_LIBCPP_CONSTEXPR' | |
| # define _LIBCPP_CONSTEXPR constexpr | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BlockedBloomFilter.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BlockedBloomFilter.hpp:4: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/array:127: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/algorithm:1712: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:860: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/shared_ptr.h:28: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:173:32: error: member 'nullptr_t' declared as a template | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:173:42: error: expected ';' at end of declaration list | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:262:25: error: unknown type name 'nullptr_t' | |
| unique_ptr& operator=(nullptr_t) _NOEXCEPT { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:395:3: error: non-static data member cannot be constexpr; did you intend to make it const? | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__config:728:31: note: expanded from macro '_LIBCPP_CONSTEXPR' | |
| # define _LIBCPP_CONSTEXPR constexpr | |
| ^ | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BlockedBloomFilter.cpp:1: | |
| In file included from /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BlockedBloomFilter.hpp:4: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/array:127: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/algorithm:1712: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/memory:860: | |
| In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/shared_ptr.h:28: | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:395:32: error: member 'nullptr_t' declared as a template | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:395:42: error: expected ';' at end of declaration list | |
| _LIBCPP_CONSTEXPR unique_ptr(nullptr_t) _NOEXCEPT : __ptr_(__value_init_tag(), __value_init_tag()) {} | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:484:25: error: unknown type name 'nullptr_t' | |
| unique_ptr& operator=(nullptr_t) _NOEXCEPT { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:533:14: error: unknown type name 'nullptr_t' | |
| void reset(nullptr_t = nullptr) _NOEXCEPT { | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:533:24: error: cannot initialize a parameter of type 'int' with an rvalue of type 'std::nullptr_t' | |
| void reset(nullptr_t = nullptr) _NOEXCEPT { | |
| ^ ~~~~~~~ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:533:24: note: passing argument to parameter here | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:594:45: error: unknown type name 'nullptr_t' | |
| operator==(const unique_ptr<_T1, _D1>& __x, nullptr_t) _NOEXCEPT | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:602:12: error: unknown type name 'nullptr_t' | |
| operator==(nullptr_t, const unique_ptr<_T1, _D1>& __x) _NOEXCEPT | |
| ^ | |
| /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include/c++/v1/__memory/unique_ptr.h:610:45: error: unknown type name 'nullptr_t' | |
| operator!=(const unique_ptr<_T1, _D1>& __x, nullptr_t) _NOEXCEPT | |
| ^ | |
| fatal error: too many errors emitted, stopping now [-ferror-limit=] | |
| 20 errors generated. | |
| make[5]: *** [src/CMakeFiles/bifrost_static.dir/Bifrost.cpp.o] Error 1 | |
| 20 errors generated. | |
| make[5]: *** [src/CMakeFiles/bifrost_dynamic.dir/ColorSet.cpp.o] Error 1 | |
| 20 errors generated. | |
| make[5]: *** [src/CMakeFiles/bifrost_dynamic.dir/Bifrost.cpp.o] Error 1 | |
| make[4]: *** [src/CMakeFiles/bifrost_dynamic.dir/all] Error 2 | |
| make[4]: *** Waiting for unfinished jobs.... | |
| 20 errors generated. | |
| make[5]: *** [src/CMakeFiles/bifrost_static.dir/BlockedBloomFilter.cpp.o] Error 1 | |
| make[4]: *** [src/CMakeFiles/bifrost_static.dir/all] Error 2 | |
| make[3]: *** [all] Error 2 | |
| gmake[2]: *** [CMakeFiles/bifrost.dir/build.make:89: /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/bifrost-stamp/bifrost-build] Error 2 | |
| gmake[2]: Leaving directory '/private/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build' | |
| gmake[1]: *** [CMakeFiles/Makefile2:105: CMakeFiles/bifrost.dir/all] Error 2 | |
| gmake[1]: *** Waiting for unfinished jobs.... | |
| 39 warnings generated. | |
| 76 warnings generated. | |
| [ 84%] Linking CXX static library libkallisto_core.a | |
| cd /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build/src && /opt/homebrew/Cellar/cmake/3.27.7/bin/cmake -P CMakeFiles/kallisto_core.dir/cmake_clean_target.cmake | |
| cd /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build/src && /opt/homebrew/Cellar/cmake/3.27.7/bin/cmake -E cmake_link_script CMakeFiles/kallisto_core.dir/link.txt --verbose=1 | |
| /usr/bin/ar qc libkallisto_core.a CMakeFiles/kallisto_core.dir/BUSData.cpp.o CMakeFiles/kallisto_core.dir/BUSTools.cpp.o CMakeFiles/kallisto_core.dir/Bootstrap.cpp.o CMakeFiles/kallisto_core.dir/GeneModel.cpp.o CMakeFiles/kallisto_core.dir/H5Writer.cpp.o CMakeFiles/kallisto_core.dir/KmerIndex.cpp.o CMakeFiles/kallisto_core.dir/MinCollector.cpp.o CMakeFiles/kallisto_core.dir/PlaintextWriter.cpp.o CMakeFiles/kallisto_core.dir/ProcessReads.cpp.o CMakeFiles/kallisto_core.dir/PseudoBam.cpp.o CMakeFiles/kallisto_core.dir/common.cpp.o CMakeFiles/kallisto_core.dir/h5utils.cpp.o CMakeFiles/kallisto_core.dir/hash.cpp.o CMakeFiles/kallisto_core.dir/main.cpp.o CMakeFiles/kallisto_core.dir/weights.cpp.o | |
| /usr/bin/ranlib libkallisto_core.a | |
| gmake[2]: Leaving directory '/private/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build' | |
| [ 84%] Built target kallisto_core | |
| gmake[1]: Leaving directory '/private/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build' | |
| gmake: *** [Makefile:139: all] Error 2 | |
| HOMEBREW_VERSION: 4.1.16-17-g65da878 | |
| ORIGIN: https://github.com/Homebrew/brew | |
| HEAD: 65da8782755c442ee9dd8d83e04c1eaaa45644f0 | |
| Last commit: 9 days ago | |
| Core tap origin: https://github.com/Homebrew/homebrew-core | |
| Core tap HEAD: 7475de6b7e560793c108d4d87aa812cf38de99e2 | |
| Core tap last commit: 3 minutes ago | |
| Core tap branch: bump-kallisto-0.50.1 | |
| HOMEBREW_PREFIX: /opt/homebrew | |
| HOMEBREW_CASK_OPTS: [] | |
| HOMEBREW_DEVELOPER: set | |
| HOMEBREW_EDITOR: vim | |
| HOMEBREW_MAKE_JOBS: 10 | |
| HOMEBREW_NO_ANALYTICS: set | |
| HOMEBREW_NO_AUTO_UPDATE: set | |
| HOMEBREW_NO_BOOTSNAP: set | |
| HOMEBREW_NO_INSTALL_FROM_API: set | |
| HOMEBREW_SORBET_RUNTIME: set | |
| Homebrew Ruby: 2.6.10 => /System/Library/Frameworks/Ruby.framework/Versions/2.6/usr/bin/ruby | |
| CPU: 10-core 64-bit arm_firestorm_icestorm | |
| Clang: 15.0.0 build 1500 | |
| Git: 2.42.0 => /opt/homebrew/bin/git | |
| Curl: 8.1.2 => /usr/bin/curl | |
| macOS: 13.6.1-arm64 | |
| CLT: 15.0.0.0.1.1694021235 | |
| Xcode: 15.0.1 | |
| Rosetta 2: false | |
| HOMEBREW_CC: clang | |
| HOMEBREW_CXX: clang++ | |
| MAKEFLAGS: -j10 | |
| CMAKE_PREFIX_PATH: /opt/homebrew | |
| CMAKE_INCLUDE_PATH: /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| CMAKE_LIBRARY_PATH: /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries | |
| PKG_CONFIG_PATH: /opt/homebrew/opt/gmp/lib/pkgconfig:/opt/homebrew/opt/isl/lib/pkgconfig:/opt/homebrew/opt/mpfr/lib/pkgconfig:/opt/homebrew/opt/lz4/lib/pkgconfig:/opt/homebrew/opt/xz/lib/pkgconfig:/opt/homebrew/opt/zstd/lib/pkgconfig | |
| PKG_CONFIG_LIBDIR: /usr/lib/pkgconfig:/opt/homebrew/Library/Homebrew/os/mac/pkgconfig/13 | |
| HOMEBREW_GIT: git | |
| HOMEBREW_SDKROOT: /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk | |
| ACLOCAL_PATH: /opt/homebrew/share/aclocal | |
| PATH: /opt/homebrew/Library/Homebrew/shims/mac/super:/opt/homebrew/opt/cmake/bin:/opt/homebrew/opt/lz4/bin:/opt/homebrew/opt/xz/bin:/opt/homebrew/opt/zstd/bin:/opt/homebrew/opt/gcc/bin:/opt/homebrew/opt/hdf5/bin:/usr/bin:/bin:/usr/sbin:/sbin |
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| clang++ called with: -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/BUSData.cpp.o -MF CMakeFiles/kallisto_core.dir/BUSData.cpp.o.d -o CMakeFiles/kallisto_core.dir/BUSData.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.cpp | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| superenv executed: clang++ -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/BUSData.cpp.o -MF CMakeFiles/kallisto_core.dir/BUSData.cpp.o.d -o CMakeFiles/kallisto_core.dir/BUSData.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSData.cpp -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| clang++ called with: -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/MinCollector.cpp.o -MF CMakeFiles/kallisto_core.dir/MinCollector.cpp.o.d -o CMakeFiles/kallisto_core.dir/MinCollector.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.cpp | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| superenv executed: clang++ -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/MinCollector.cpp.o -MF CMakeFiles/kallisto_core.dir/MinCollector.cpp.o.d -o CMakeFiles/kallisto_core.dir/MinCollector.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/MinCollector.cpp -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| clang++ called with: -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/BUSTools.cpp.o -MF CMakeFiles/kallisto_core.dir/BUSTools.cpp.o.d -o CMakeFiles/kallisto_core.dir/BUSTools.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.cpp | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| superenv executed: clang++ -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/BUSTools.cpp.o -MF CMakeFiles/kallisto_core.dir/BUSTools.cpp.o.d -o CMakeFiles/kallisto_core.dir/BUSTools.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/BUSTools.cpp -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| clang++ called with: -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/GeneModel.cpp.o -MF CMakeFiles/kallisto_core.dir/GeneModel.cpp.o.d -o CMakeFiles/kallisto_core.dir/GeneModel.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.cpp | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| superenv executed: clang++ -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/GeneModel.cpp.o -MF CMakeFiles/kallisto_core.dir/GeneModel.cpp.o.d -o CMakeFiles/kallisto_core.dir/GeneModel.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/GeneModel.cpp -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| clang++ called with: -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/KmerIndex.cpp.o -MF CMakeFiles/kallisto_core.dir/KmerIndex.cpp.o.d -o CMakeFiles/kallisto_core.dir/KmerIndex.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| superenv executed: clang++ -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/KmerIndex.cpp.o -MF CMakeFiles/kallisto_core.dir/KmerIndex.cpp.o.d -o CMakeFiles/kallisto_core.dir/KmerIndex.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/KmerIndex.cpp -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| clang++ called with: -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/ProcessReads.cpp.o -MF CMakeFiles/kallisto_core.dir/ProcessReads.cpp.o.d -o CMakeFiles/kallisto_core.dir/ProcessReads.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.cpp | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| superenv executed: clang++ -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/ProcessReads.cpp.o -MF CMakeFiles/kallisto_core.dir/ProcessReads.cpp.o.d -o CMakeFiles/kallisto_core.dir/ProcessReads.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/ProcessReads.cpp -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| clang++ called with: -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/PlaintextWriter.cpp.o -MF CMakeFiles/kallisto_core.dir/PlaintextWriter.cpp.o.d -o CMakeFiles/kallisto_core.dir/PlaintextWriter.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.cpp | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| superenv executed: clang++ -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/PlaintextWriter.cpp.o -MF CMakeFiles/kallisto_core.dir/PlaintextWriter.cpp.o.d -o CMakeFiles/kallisto_core.dir/PlaintextWriter.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PlaintextWriter.cpp -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| clang++ called with: -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/H5Writer.cpp.o -MF CMakeFiles/kallisto_core.dir/H5Writer.cpp.o.d -o CMakeFiles/kallisto_core.dir/H5Writer.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.cpp | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| superenv executed: clang++ -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/H5Writer.cpp.o -MF CMakeFiles/kallisto_core.dir/H5Writer.cpp.o.d -o CMakeFiles/kallisto_core.dir/H5Writer.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/H5Writer.cpp -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| clang++ called with: -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/Bootstrap.cpp.o -MF CMakeFiles/kallisto_core.dir/Bootstrap.cpp.o.d -o CMakeFiles/kallisto_core.dir/Bootstrap.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.cpp | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| superenv executed: clang++ -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/Bootstrap.cpp.o -MF CMakeFiles/kallisto_core.dir/Bootstrap.cpp.o.d -o CMakeFiles/kallisto_core.dir/Bootstrap.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/Bootstrap.cpp -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| clang called with: CMakeCCompilerId.c | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -L/opt/homebrew/lib -L/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries -Wl,-headerpad_max_install_names | |
| superenv executed: clang CMakeCCompilerId.c -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -L/opt/homebrew/lib -L/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries -Wl,-headerpad_max_install_names | |
| clang++ called with: -Wno-subobject-linkage -Wno-return-type CMakeCXXCompilerId.cpp | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -L/opt/homebrew/lib -L/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries -Wl,-headerpad_max_install_names | |
| superenv executed: clang++ -Wno-subobject-linkage -Wno-return-type CMakeCXXCompilerId.cpp -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -L/opt/homebrew/lib -L/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries -Wl,-headerpad_max_install_names | |
| clang called with: -Wl,--help | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -L/opt/homebrew/lib -L/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries -Wl,-headerpad_max_install_names | |
| superenv executed: clang -Wl,--help -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -L/opt/homebrew/lib -L/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries -Wl,-headerpad_max_install_names | |
| clang called with: -Wl,--help | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -L/opt/homebrew/lib -L/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries -Wl,-headerpad_max_install_names | |
| superenv executed: clang -Wl,--help -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -L/opt/homebrew/lib -L/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries -Wl,-headerpad_max_install_names | |
| clang called with: -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -mmacosx-version-min=13.6 -v -Wl,-v -MD -MT CMakeFiles/cmTC_805aa.dir/CMakeCCompilerABI.c.o -MF CMakeFiles/cmTC_805aa.dir/CMakeCCompilerABI.c.o.d -o CMakeFiles/cmTC_805aa.dir/CMakeCCompilerABI.c.o -c /opt/homebrew/Cellar/cmake/3.27.7/share/cmake/Modules/CMakeCCompilerABI.c | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| superenv executed: clang -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -mmacosx-version-min=13.6 -v -Wl,-v -MD -MT CMakeFiles/cmTC_805aa.dir/CMakeCCompilerABI.c.o -MF CMakeFiles/cmTC_805aa.dir/CMakeCCompilerABI.c.o.d -o CMakeFiles/cmTC_805aa.dir/CMakeCCompilerABI.c.o -c /opt/homebrew/Cellar/cmake/3.27.7/share/cmake/Modules/CMakeCCompilerABI.c -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| clang called with: -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -mmacosx-version-min=13.6 -Wl,-search_paths_first -Wl,-headerpad_max_install_names -v -Wl,-v CMakeFiles/cmTC_805aa.dir/CMakeCCompilerABI.c.o -o cmTC_805aa | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -L/opt/homebrew/lib -L/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries | |
| superenv executed: clang -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -mmacosx-version-min=13.6 -Wl,-search_paths_first -Wl,-headerpad_max_install_names -v -Wl,-v CMakeFiles/cmTC_805aa.dir/CMakeCCompilerABI.c.o -o cmTC_805aa -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -L/opt/homebrew/lib -L/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries -Wl,-headerpad_max_install_names | |
| clang++ called with: -Wl,--help | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -L/opt/homebrew/lib -L/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries -Wl,-headerpad_max_install_names | |
| superenv executed: clang++ -Wl,--help -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -L/opt/homebrew/lib -L/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries -Wl,-headerpad_max_install_names | |
| clang++ called with: -Wl,--help | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -L/opt/homebrew/lib -L/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries -Wl,-headerpad_max_install_names | |
| superenv executed: clang++ -Wl,--help -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -L/opt/homebrew/lib -L/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries -Wl,-headerpad_max_install_names | |
| clang++ called with: -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/PseudoBam.cpp.o -MF CMakeFiles/kallisto_core.dir/PseudoBam.cpp.o.d -o CMakeFiles/kallisto_core.dir/PseudoBam.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.cpp | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| superenv executed: clang++ -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/PseudoBam.cpp.o -MF CMakeFiles/kallisto_core.dir/PseudoBam.cpp.o.d -o CMakeFiles/kallisto_core.dir/PseudoBam.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/PseudoBam.cpp -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| clang++ called with: -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/common.cpp.o -MF CMakeFiles/kallisto_core.dir/common.cpp.o.d -o CMakeFiles/kallisto_core.dir/common.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/common.cpp | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| superenv executed: clang++ -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/common.cpp.o -MF CMakeFiles/kallisto_core.dir/common.cpp.o.d -o CMakeFiles/kallisto_core.dir/common.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/common.cpp -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| clang++ called with: -Wno-subobject-linkage -Wno-return-type -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -mmacosx-version-min=13.6 -v -Wl,-v -MD -MT CMakeFiles/cmTC_71abe.dir/CMakeCXXCompilerABI.cpp.o -MF CMakeFiles/cmTC_71abe.dir/CMakeCXXCompilerABI.cpp.o.d -o CMakeFiles/cmTC_71abe.dir/CMakeCXXCompilerABI.cpp.o -c /opt/homebrew/Cellar/cmake/3.27.7/share/cmake/Modules/CMakeCXXCompilerABI.cpp | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| superenv executed: clang++ -Wno-subobject-linkage -Wno-return-type -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -mmacosx-version-min=13.6 -v -Wl,-v -MD -MT CMakeFiles/cmTC_71abe.dir/CMakeCXXCompilerABI.cpp.o -MF CMakeFiles/cmTC_71abe.dir/CMakeCXXCompilerABI.cpp.o.d -o CMakeFiles/cmTC_71abe.dir/CMakeCXXCompilerABI.cpp.o -c /opt/homebrew/Cellar/cmake/3.27.7/share/cmake/Modules/CMakeCXXCompilerABI.cpp -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| clang++ called with: -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/h5utils.cpp.o -MF CMakeFiles/kallisto_core.dir/h5utils.cpp.o.d -o CMakeFiles/kallisto_core.dir/h5utils.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/h5utils.cpp | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| superenv executed: clang++ -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/h5utils.cpp.o -MF CMakeFiles/kallisto_core.dir/h5utils.cpp.o.d -o CMakeFiles/kallisto_core.dir/h5utils.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/h5utils.cpp -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| clang++ called with: -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/hash.cpp.o -MF CMakeFiles/kallisto_core.dir/hash.cpp.o.d -o CMakeFiles/kallisto_core.dir/hash.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/hash.cpp | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| superenv executed: clang++ -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/hash.cpp.o -MF CMakeFiles/kallisto_core.dir/hash.cpp.o.d -o CMakeFiles/kallisto_core.dir/hash.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/hash.cpp -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| clang++ called with: -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/main.cpp.o -MF CMakeFiles/kallisto_core.dir/main.cpp.o.d -o CMakeFiles/kallisto_core.dir/main.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/main.cpp | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| superenv executed: clang++ -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/main.cpp.o -MF CMakeFiles/kallisto_core.dir/main.cpp.o.d -o CMakeFiles/kallisto_core.dir/main.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/main.cpp -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| clang++ called with: -Wno-subobject-linkage -Wno-return-type -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -mmacosx-version-min=13.6 -Wl,-search_paths_first -Wl,-headerpad_max_install_names -v -Wl,-v CMakeFiles/cmTC_71abe.dir/CMakeCXXCompilerABI.cpp.o -o cmTC_71abe | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -L/opt/homebrew/lib -L/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries | |
| superenv executed: clang++ -Wno-subobject-linkage -Wno-return-type -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -mmacosx-version-min=13.6 -Wl,-search_paths_first -Wl,-headerpad_max_install_names -v -Wl,-v CMakeFiles/cmTC_71abe.dir/CMakeCXXCompilerABI.cpp.o -o cmTC_71abe -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -L/opt/homebrew/lib -L/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries -Wl,-headerpad_max_install_names | |
| clang++ called with: -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/weights.cpp.o -MF CMakeFiles/kallisto_core.dir/weights.cpp.o.d -o CMakeFiles/kallisto_core.dir/weights.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.cpp | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| superenv executed: clang++ -DNO_HTSLIB=ON -DUSE_HDF5=ON -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src -I/opt/homebrew/Cellar/hdf5/1.14.2/include -I/opt/homebrew/opt/libaec/include -O3 -DNDEBUG -std=c++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -Wno-subobject-linkage -MD -MT src/CMakeFiles/kallisto_core.dir/weights.cpp.o -MF CMakeFiles/kallisto_core.dir/weights.cpp.o.d -o CMakeFiles/kallisto_core.dir/weights.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/src/weights.cpp -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| clang called with: -DCMAKE_HAVE_LIBC_PTHREAD -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -mmacosx-version-min=13.6 -MD -MT CMakeFiles/cmTC_07abe.dir/src.c.o -MF CMakeFiles/cmTC_07abe.dir/src.c.o.d -o CMakeFiles/cmTC_07abe.dir/src.c.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/CMakeFiles/CMakeScratch/TryCompile-M0XUvv/src.c | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| superenv executed: clang -DCMAKE_HAVE_LIBC_PTHREAD -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -mmacosx-version-min=13.6 -MD -MT CMakeFiles/cmTC_07abe.dir/src.c.o -MF CMakeFiles/cmTC_07abe.dir/src.c.o.d -o CMakeFiles/cmTC_07abe.dir/src.c.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/CMakeFiles/CMakeScratch/TryCompile-M0XUvv/src.c -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| clang called with: -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -mmacosx-version-min=13.6 -Wl,-search_paths_first -Wl,-headerpad_max_install_names CMakeFiles/cmTC_07abe.dir/src.c.o -o cmTC_07abe | |
| superenv added: -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -L/opt/homebrew/lib -L/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries | |
| superenv executed: clang -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -mmacosx-version-min=13.6 -Wl,-search_paths_first -Wl,-headerpad_max_install_names CMakeFiles/cmTC_07abe.dir/src.c.o -o cmTC_07abe -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -L/opt/homebrew/lib -L/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries -Wl,-headerpad_max_install_names | |
| clang++ called with: -DMAX_GMER_SIZE=32 -DMAX_KMER_SIZE=32 -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk/usr/include -Wno-subobject-linkage -Wno-return-type -std=c++11 -mno-avx2 -O3 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -mmacosx-version-min=13.6 -O3 -MD -MT src/CMakeFiles/bifrost_static.dir/BitContainer.cpp.o -MF CMakeFiles/bifrost_static.dir/BitContainer.cpp.o.d -o CMakeFiles/bifrost_static.dir/BitContainer.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.cpp | |
| superenv removed: -O3 -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -O3 | |
| superenv added: -pipe -w -Os -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| superenv executed: clang++ -pipe -w -Os -DMAX_GMER_SIZE=32 -DMAX_KMER_SIZE=32 -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk/usr/include -Wno-subobject-linkage -Wno-return-type -std=c++11 -mno-avx2 -DNDEBUG -mmacosx-version-min=13.6 -MD -MT src/CMakeFiles/bifrost_static.dir/BitContainer.cpp.o -MF CMakeFiles/bifrost_static.dir/BitContainer.cpp.o.d -o CMakeFiles/bifrost_static.dir/BitContainer.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.cpp -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| clang++ called with: -DMAX_GMER_SIZE=32 -DMAX_KMER_SIZE=32 -Dbifrost_dynamic_EXPORTS -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk/usr/include -Wno-subobject-linkage -Wno-return-type -std=c++11 -mno-avx2 -O3 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -mmacosx-version-min=13.6 -fPIC -O3 -MD -MT src/CMakeFiles/bifrost_dynamic.dir/BlockedBloomFilter.cpp.o -MF CMakeFiles/bifrost_dynamic.dir/BlockedBloomFilter.cpp.o.d -o CMakeFiles/bifrost_dynamic.dir/BlockedBloomFilter.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BlockedBloomFilter.cpp | |
| superenv removed: -O3 -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -O3 | |
| superenv added: -pipe -w -Os -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| superenv executed: clang++ -pipe -w -Os -DMAX_GMER_SIZE=32 -DMAX_KMER_SIZE=32 -Dbifrost_dynamic_EXPORTS -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk/usr/include -Wno-subobject-linkage -Wno-return-type -std=c++11 -mno-avx2 -DNDEBUG -mmacosx-version-min=13.6 -fPIC -MD -MT src/CMakeFiles/bifrost_dynamic.dir/BlockedBloomFilter.cpp.o -MF CMakeFiles/bifrost_dynamic.dir/BlockedBloomFilter.cpp.o.d -o CMakeFiles/bifrost_dynamic.dir/BlockedBloomFilter.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BlockedBloomFilter.cpp -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| clang++ called with: -DMAX_GMER_SIZE=32 -DMAX_KMER_SIZE=32 -Dbifrost_dynamic_EXPORTS -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk/usr/include -Wno-subobject-linkage -Wno-return-type -std=c++11 -mno-avx2 -O3 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -mmacosx-version-min=13.6 -fPIC -O3 -MD -MT src/CMakeFiles/bifrost_dynamic.dir/ColorSet.cpp.o -MF CMakeFiles/bifrost_dynamic.dir/ColorSet.cpp.o.d -o CMakeFiles/bifrost_dynamic.dir/ColorSet.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/ColorSet.cpp | |
| superenv removed: -O3 -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -O3 | |
| superenv added: -pipe -w -Os -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| superenv executed: clang++ -pipe -w -Os -DMAX_GMER_SIZE=32 -DMAX_KMER_SIZE=32 -Dbifrost_dynamic_EXPORTS -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk/usr/include -Wno-subobject-linkage -Wno-return-type -std=c++11 -mno-avx2 -DNDEBUG -mmacosx-version-min=13.6 -fPIC -MD -MT src/CMakeFiles/bifrost_dynamic.dir/ColorSet.cpp.o -MF CMakeFiles/bifrost_dynamic.dir/ColorSet.cpp.o.d -o CMakeFiles/bifrost_dynamic.dir/ColorSet.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/ColorSet.cpp -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| clang++ called with: -DMAX_GMER_SIZE=32 -DMAX_KMER_SIZE=32 -Dbifrost_dynamic_EXPORTS -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk/usr/include -Wno-subobject-linkage -Wno-return-type -std=c++11 -mno-avx2 -O3 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -mmacosx-version-min=13.6 -fPIC -O3 -MD -MT src/CMakeFiles/bifrost_dynamic.dir/CompressedSequence.cpp.o -MF CMakeFiles/bifrost_dynamic.dir/CompressedSequence.cpp.o.d -o CMakeFiles/bifrost_dynamic.dir/CompressedSequence.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedSequence.cpp | |
| superenv removed: -O3 -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -O3 | |
| superenv added: -pipe -w -Os -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| superenv executed: clang++ -pipe -w -Os -DMAX_GMER_SIZE=32 -DMAX_KMER_SIZE=32 -Dbifrost_dynamic_EXPORTS -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk/usr/include -Wno-subobject-linkage -Wno-return-type -std=c++11 -mno-avx2 -DNDEBUG -mmacosx-version-min=13.6 -fPIC -MD -MT src/CMakeFiles/bifrost_dynamic.dir/CompressedSequence.cpp.o -MF CMakeFiles/bifrost_dynamic.dir/CompressedSequence.cpp.o.d -o CMakeFiles/bifrost_dynamic.dir/CompressedSequence.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedSequence.cpp -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| clang++ called with: -DMAX_GMER_SIZE=32 -DMAX_KMER_SIZE=32 -Dbifrost_dynamic_EXPORTS -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk/usr/include -Wno-subobject-linkage -Wno-return-type -std=c++11 -mno-avx2 -O3 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -mmacosx-version-min=13.6 -fPIC -O3 -MD -MT src/CMakeFiles/bifrost_dynamic.dir/FASTX_Parser.cpp.o -MF CMakeFiles/bifrost_dynamic.dir/FASTX_Parser.cpp.o.d -o CMakeFiles/bifrost_dynamic.dir/FASTX_Parser.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/FASTX_Parser.cpp | |
| superenv removed: -O3 -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -O3 | |
| superenv added: -pipe -w -Os -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| superenv executed: clang++ -pipe -w -Os -DMAX_GMER_SIZE=32 -DMAX_KMER_SIZE=32 -Dbifrost_dynamic_EXPORTS -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk/usr/include -Wno-subobject-linkage -Wno-return-type -std=c++11 -mno-avx2 -DNDEBUG -mmacosx-version-min=13.6 -fPIC -MD -MT src/CMakeFiles/bifrost_dynamic.dir/FASTX_Parser.cpp.o -MF CMakeFiles/bifrost_dynamic.dir/FASTX_Parser.cpp.o.d -o CMakeFiles/bifrost_dynamic.dir/FASTX_Parser.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/FASTX_Parser.cpp -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| clang++ called with: -DMAX_GMER_SIZE=32 -DMAX_KMER_SIZE=32 -Dbifrost_dynamic_EXPORTS -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk/usr/include -Wno-subobject-linkage -Wno-return-type -std=c++11 -mno-avx2 -O3 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -mmacosx-version-min=13.6 -fPIC -O3 -MD -MT src/CMakeFiles/bifrost_dynamic.dir/Bifrost.cpp.o -MF CMakeFiles/bifrost_dynamic.dir/Bifrost.cpp.o.d -o CMakeFiles/bifrost_dynamic.dir/Bifrost.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Bifrost.cpp | |
| superenv removed: -O3 -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -O3 | |
| superenv added: -pipe -w -Os -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| superenv executed: clang++ -pipe -w -Os -DMAX_GMER_SIZE=32 -DMAX_KMER_SIZE=32 -Dbifrost_dynamic_EXPORTS -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk/usr/include -Wno-subobject-linkage -Wno-return-type -std=c++11 -mno-avx2 -DNDEBUG -mmacosx-version-min=13.6 -fPIC -MD -MT src/CMakeFiles/bifrost_dynamic.dir/Bifrost.cpp.o -MF CMakeFiles/bifrost_dynamic.dir/Bifrost.cpp.o.d -o CMakeFiles/bifrost_dynamic.dir/Bifrost.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Bifrost.cpp -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| clang++ called with: -DMAX_GMER_SIZE=32 -DMAX_KMER_SIZE=32 -Dbifrost_dynamic_EXPORTS -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk/usr/include -Wno-subobject-linkage -Wno-return-type -std=c++11 -mno-avx2 -O3 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -mmacosx-version-min=13.6 -fPIC -O3 -MD -MT src/CMakeFiles/bifrost_dynamic.dir/CompressedCoverage.cpp.o -MF CMakeFiles/bifrost_dynamic.dir/CompressedCoverage.cpp.o.d -o CMakeFiles/bifrost_dynamic.dir/CompressedCoverage.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedCoverage.cpp | |
| superenv removed: -O3 -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -O3 | |
| superenv added: -pipe -w -Os -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| superenv executed: clang++ -pipe -w -Os -DMAX_GMER_SIZE=32 -DMAX_KMER_SIZE=32 -Dbifrost_dynamic_EXPORTS -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk/usr/include -Wno-subobject-linkage -Wno-return-type -std=c++11 -mno-avx2 -DNDEBUG -mmacosx-version-min=13.6 -fPIC -MD -MT src/CMakeFiles/bifrost_dynamic.dir/CompressedCoverage.cpp.o -MF CMakeFiles/bifrost_dynamic.dir/CompressedCoverage.cpp.o.d -o CMakeFiles/bifrost_dynamic.dir/CompressedCoverage.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/CompressedCoverage.cpp -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| clang++ called with: -DMAX_GMER_SIZE=32 -DMAX_KMER_SIZE=32 -Dbifrost_dynamic_EXPORTS -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk/usr/include -Wno-subobject-linkage -Wno-return-type -std=c++11 -mno-avx2 -O3 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -mmacosx-version-min=13.6 -fPIC -O3 -MD -MT src/CMakeFiles/bifrost_dynamic.dir/BitContainer.cpp.o -MF CMakeFiles/bifrost_dynamic.dir/BitContainer.cpp.o.d -o CMakeFiles/bifrost_dynamic.dir/BitContainer.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.cpp | |
| superenv removed: -O3 -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -O3 | |
| superenv added: -pipe -w -Os -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| superenv executed: clang++ -pipe -w -Os -DMAX_GMER_SIZE=32 -DMAX_KMER_SIZE=32 -Dbifrost_dynamic_EXPORTS -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk/usr/include -Wno-subobject-linkage -Wno-return-type -std=c++11 -mno-avx2 -DNDEBUG -mmacosx-version-min=13.6 -fPIC -MD -MT src/CMakeFiles/bifrost_dynamic.dir/BitContainer.cpp.o -MF CMakeFiles/bifrost_dynamic.dir/BitContainer.cpp.o.d -o CMakeFiles/bifrost_dynamic.dir/BitContainer.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BitContainer.cpp -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| clang++ called with: -DMAX_GMER_SIZE=32 -DMAX_KMER_SIZE=32 -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk/usr/include -Wno-subobject-linkage -Wno-return-type -std=c++11 -mno-avx2 -O3 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -mmacosx-version-min=13.6 -O3 -MD -MT src/CMakeFiles/bifrost_static.dir/Bifrost.cpp.o -MF CMakeFiles/bifrost_static.dir/Bifrost.cpp.o.d -o CMakeFiles/bifrost_static.dir/Bifrost.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Bifrost.cpp | |
| superenv removed: -O3 -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -O3 | |
| superenv added: -pipe -w -Os -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| superenv executed: clang++ -pipe -w -Os -DMAX_GMER_SIZE=32 -DMAX_KMER_SIZE=32 -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk/usr/include -Wno-subobject-linkage -Wno-return-type -std=c++11 -mno-avx2 -DNDEBUG -mmacosx-version-min=13.6 -MD -MT src/CMakeFiles/bifrost_static.dir/Bifrost.cpp.o -MF CMakeFiles/bifrost_static.dir/Bifrost.cpp.o.d -o CMakeFiles/bifrost_static.dir/Bifrost.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/Bifrost.cpp -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| clang++ called with: -DMAX_GMER_SIZE=32 -DMAX_KMER_SIZE=32 -Dbifrost_dynamic_EXPORTS -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk/usr/include -Wno-subobject-linkage -Wno-return-type -std=c++11 -mno-avx2 -O3 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -mmacosx-version-min=13.6 -fPIC -O3 -MD -MT src/CMakeFiles/bifrost_dynamic.dir/GFA_Parser.cpp.o -MF CMakeFiles/bifrost_dynamic.dir/GFA_Parser.cpp.o.d -o CMakeFiles/bifrost_dynamic.dir/GFA_Parser.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/GFA_Parser.cpp | |
| superenv removed: -O3 -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -O3 | |
| superenv added: -pipe -w -Os -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| superenv executed: clang++ -pipe -w -Os -DMAX_GMER_SIZE=32 -DMAX_KMER_SIZE=32 -Dbifrost_dynamic_EXPORTS -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk/usr/include -Wno-subobject-linkage -Wno-return-type -std=c++11 -mno-avx2 -DNDEBUG -mmacosx-version-min=13.6 -fPIC -MD -MT src/CMakeFiles/bifrost_dynamic.dir/GFA_Parser.cpp.o -MF CMakeFiles/bifrost_dynamic.dir/GFA_Parser.cpp.o.d -o CMakeFiles/bifrost_dynamic.dir/GFA_Parser.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/GFA_Parser.cpp -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| clang++ called with: -DMAX_GMER_SIZE=32 -DMAX_KMER_SIZE=32 -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk/usr/include -Wno-subobject-linkage -Wno-return-type -std=c++11 -mno-avx2 -O3 -DNDEBUG -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -mmacosx-version-min=13.6 -O3 -MD -MT src/CMakeFiles/bifrost_static.dir/BlockedBloomFilter.cpp.o -MF CMakeFiles/bifrost_static.dir/BlockedBloomFilter.cpp.o.d -o CMakeFiles/bifrost_static.dir/BlockedBloomFilter.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BlockedBloomFilter.cpp | |
| superenv removed: -O3 -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk -O3 | |
| superenv added: -pipe -w -Os -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
| superenv executed: clang++ -pipe -w -Os -DMAX_GMER_SIZE=32 -DMAX_KMER_SIZE=32 -I/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk/usr/include -Wno-subobject-linkage -Wno-return-type -std=c++11 -mno-avx2 -DNDEBUG -mmacosx-version-min=13.6 -MD -MT src/CMakeFiles/bifrost_static.dir/BlockedBloomFilter.cpp.o -MF CMakeFiles/bifrost_static.dir/BlockedBloomFilter.cpp.o.d -o CMakeFiles/bifrost_static.dir/BlockedBloomFilter.cpp.o -c /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/src/BlockedBloomFilter.cpp -isysroot/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk -isystem/opt/homebrew/include -isystem/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers | |
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| # This is the CMakeCache file. | |
| # For build in directory: /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build | |
| # It was generated by CMake: /opt/homebrew/Cellar/cmake/3.27.7/bin/cmake | |
| # You can edit this file to change values found and used by cmake. | |
| # If you do not want to change any of the values, simply exit the editor. | |
| # If you do want to change a value, simply edit, save, and exit the editor. | |
| # The syntax for the file is as follows: | |
| # KEY:TYPE=VALUE | |
| # KEY is the name of a variable in the cache. | |
| # TYPE is a hint to GUIs for the type of VALUE, DO NOT EDIT TYPE!. | |
| # VALUE is the current value for the KEY. | |
| ######################## | |
| # EXTERNAL cache entries | |
| ######################## | |
| //Build functional tests. | |
| BUILD_FUNCTESTING:BOOL=OFF | |
| //Build the testing tree. | |
| BUILD_TESTING:BOOL=OFF | |
| //Path to a program. | |
| CMAKE_ADDR2LINE:FILEPATH=CMAKE_ADDR2LINE-NOTFOUND | |
| //Path to a program. | |
| CMAKE_AR:FILEPATH=/usr/bin/ar | |
| //Choose the type of build, options are: None Debug Release RelWithDebInfo | |
| // MinSizeRel ... | |
| CMAKE_BUILD_TYPE:STRING=Release | |
| //Enable/Disable color output during build. | |
| CMAKE_COLOR_MAKEFILE:BOOL=ON | |
| //CXX compiler | |
| CMAKE_CXX_COMPILER:FILEPATH=/opt/homebrew/Library/Homebrew/shims/mac/super/clang++ | |
| //Flags used by the CXX compiler during all build types. | |
| CMAKE_CXX_FLAGS:STRING= | |
| //Flags used by the CXX compiler during DEBUG builds. | |
| CMAKE_CXX_FLAGS_DEBUG:STRING=-g | |
| //Flags used by the CXX compiler during MINSIZEREL builds. | |
| CMAKE_CXX_FLAGS_MINSIZEREL:STRING=-Os -DNDEBUG | |
| //Flags used by the CXX compiler during RELEASE builds. | |
| CMAKE_CXX_FLAGS_RELEASE:STRING=-O3 -DNDEBUG | |
| //Flags used by the CXX compiler during RELWITHDEBINFO builds. | |
| CMAKE_CXX_FLAGS_RELWITHDEBINFO:STRING=-O2 -g -DNDEBUG | |
| //C compiler | |
| CMAKE_C_COMPILER:FILEPATH=/opt/homebrew/Library/Homebrew/shims/mac/super/clang | |
| //Flags used by the C compiler during all build types. | |
| CMAKE_C_FLAGS:STRING= | |
| //Flags used by the C compiler during DEBUG builds. | |
| CMAKE_C_FLAGS_DEBUG:STRING=-g | |
| //Flags used by the C compiler during MINSIZEREL builds. | |
| CMAKE_C_FLAGS_MINSIZEREL:STRING=-Os -DNDEBUG | |
| //Flags used by the C compiler during RELEASE builds. | |
| CMAKE_C_FLAGS_RELEASE:STRING=-O3 -DNDEBUG | |
| //Flags used by the C compiler during RELWITHDEBINFO builds. | |
| CMAKE_C_FLAGS_RELWITHDEBINFO:STRING=-O2 -g -DNDEBUG | |
| //Path to a program. | |
| CMAKE_DLLTOOL:FILEPATH=CMAKE_DLLTOOL-NOTFOUND | |
| //Flags used by the linker during all build types. | |
| CMAKE_EXE_LINKER_FLAGS:STRING= | |
| //Flags used by the linker during DEBUG builds. | |
| CMAKE_EXE_LINKER_FLAGS_DEBUG:STRING= | |
| //Flags used by the linker during MINSIZEREL builds. | |
| CMAKE_EXE_LINKER_FLAGS_MINSIZEREL:STRING= | |
| //Flags used by the linker during RELEASE builds. | |
| CMAKE_EXE_LINKER_FLAGS_RELEASE:STRING= | |
| //Flags used by the linker during RELWITHDEBINFO builds. | |
| CMAKE_EXE_LINKER_FLAGS_RELWITHDEBINFO:STRING= | |
| //Enable/Disable output of compile commands during generation. | |
| CMAKE_EXPORT_COMPILE_COMMANDS:BOOL= | |
| //No help, variable specified on the command line. | |
| CMAKE_FIND_FRAMEWORK:UNINITIALIZED=LAST | |
| //Value Computed by CMake. | |
| CMAKE_FIND_PACKAGE_REDIRECTS_DIR:STATIC=/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build/CMakeFiles/pkgRedirects | |
| //User executables (bin) | |
| CMAKE_INSTALL_BINDIR:PATH=bin | |
| //Read-only architecture-independent data (DATAROOTDIR) | |
| CMAKE_INSTALL_DATADIR:PATH= | |
| //Read-only architecture-independent data root (share) | |
| CMAKE_INSTALL_DATAROOTDIR:PATH=share | |
| //Documentation root (DATAROOTDIR/doc/PROJECT_NAME) | |
| CMAKE_INSTALL_DOCDIR:PATH= | |
| //C header files (include) | |
| CMAKE_INSTALL_INCLUDEDIR:PATH=include | |
| //Info documentation (DATAROOTDIR/info) | |
| CMAKE_INSTALL_INFODIR:PATH= | |
| //Object code libraries (lib) | |
| CMAKE_INSTALL_LIBDIR:PATH=lib | |
| //Program executables (libexec) | |
| CMAKE_INSTALL_LIBEXECDIR:PATH=libexec | |
| //Locale-dependent data (DATAROOTDIR/locale) | |
| CMAKE_INSTALL_LOCALEDIR:PATH= | |
| //Modifiable single-machine data (var) | |
| CMAKE_INSTALL_LOCALSTATEDIR:PATH=var | |
| //Man documentation (DATAROOTDIR/man) | |
| CMAKE_INSTALL_MANDIR:PATH= | |
| //Path to a program. | |
| CMAKE_INSTALL_NAME_TOOL:FILEPATH=/usr/bin/install_name_tool | |
| //C header files for non-gcc (/usr/include) | |
| CMAKE_INSTALL_OLDINCLUDEDIR:PATH=/usr/include | |
| //Install path prefix, prepended onto install directories. | |
| CMAKE_INSTALL_PREFIX:PATH=/opt/homebrew/Cellar/kallisto/0.50.1 | |
| //Run-time variable data (LOCALSTATEDIR/run) | |
| CMAKE_INSTALL_RUNSTATEDIR:PATH= | |
| //System admin executables (sbin) | |
| CMAKE_INSTALL_SBINDIR:PATH=sbin | |
| //Modifiable architecture-independent data (com) | |
| CMAKE_INSTALL_SHAREDSTATEDIR:PATH=com | |
| //Read-only single-machine data (etc) | |
| CMAKE_INSTALL_SYSCONFDIR:PATH=etc | |
| //Path to a program. | |
| CMAKE_LINKER:FILEPATH=/opt/homebrew/Library/Homebrew/shims/mac/super/ld | |
| //Path to a program. | |
| CMAKE_MAKE_PROGRAM:FILEPATH=/opt/homebrew/bin/gmake | |
| //Flags used by the linker during the creation of modules during | |
| // all build types. | |
| CMAKE_MODULE_LINKER_FLAGS:STRING= | |
| //Flags used by the linker during the creation of modules during | |
| // DEBUG builds. | |
| CMAKE_MODULE_LINKER_FLAGS_DEBUG:STRING= | |
| //Flags used by the linker during the creation of modules during | |
| // MINSIZEREL builds. | |
| CMAKE_MODULE_LINKER_FLAGS_MINSIZEREL:STRING= | |
| //Flags used by the linker during the creation of modules during | |
| // RELEASE builds. | |
| CMAKE_MODULE_LINKER_FLAGS_RELEASE:STRING= | |
| //Flags used by the linker during the creation of modules during | |
| // RELWITHDEBINFO builds. | |
| CMAKE_MODULE_LINKER_FLAGS_RELWITHDEBINFO:STRING= | |
| //Path to a program. | |
| CMAKE_NM:FILEPATH=/usr/bin/nm | |
| //Path to a program. | |
| CMAKE_OBJCOPY:FILEPATH=CMAKE_OBJCOPY-NOTFOUND | |
| //Path to a program. | |
| CMAKE_OBJDUMP:FILEPATH=/usr/bin/objdump | |
| //Build architectures for OSX | |
| CMAKE_OSX_ARCHITECTURES:STRING= | |
| //Minimum OS X version to target for deployment (at runtime); newer | |
| // APIs weak linked. Set to empty string for default value. | |
| CMAKE_OSX_DEPLOYMENT_TARGET:STRING= | |
| //The product will be built against the headers and libraries located | |
| // inside the indicated SDK. | |
| CMAKE_OSX_SYSROOT:PATH=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk | |
| //Value Computed by CMake | |
| CMAKE_PROJECT_DESCRIPTION:STATIC= | |
| //Value Computed by CMake | |
| CMAKE_PROJECT_HOMEPAGE_URL:STATIC= | |
| //Value Computed by CMake | |
| CMAKE_PROJECT_NAME:STATIC=kallisto | |
| //Path to a program. | |
| CMAKE_RANLIB:FILEPATH=/usr/bin/ranlib | |
| //Path to a program. | |
| CMAKE_READELF:FILEPATH=CMAKE_READELF-NOTFOUND | |
| //Flags used by the linker during the creation of shared libraries | |
| // during all build types. | |
| CMAKE_SHARED_LINKER_FLAGS:STRING= | |
| //Flags used by the linker during the creation of shared libraries | |
| // during DEBUG builds. | |
| CMAKE_SHARED_LINKER_FLAGS_DEBUG:STRING= | |
| //Flags used by the linker during the creation of shared libraries | |
| // during MINSIZEREL builds. | |
| CMAKE_SHARED_LINKER_FLAGS_MINSIZEREL:STRING= | |
| //Flags used by the linker during the creation of shared libraries | |
| // during RELEASE builds. | |
| CMAKE_SHARED_LINKER_FLAGS_RELEASE:STRING= | |
| //Flags used by the linker during the creation of shared libraries | |
| // during RELWITHDEBINFO builds. | |
| CMAKE_SHARED_LINKER_FLAGS_RELWITHDEBINFO:STRING= | |
| //If set, runtime paths are not added when installing shared libraries, | |
| // but are added when building. | |
| CMAKE_SKIP_INSTALL_RPATH:BOOL=NO | |
| //If set, runtime paths are not added when using shared libraries. | |
| CMAKE_SKIP_RPATH:BOOL=NO | |
| //Flags used by the linker during the creation of static libraries | |
| // during all build types. | |
| CMAKE_STATIC_LINKER_FLAGS:STRING= | |
| //Flags used by the linker during the creation of static libraries | |
| // during DEBUG builds. | |
| CMAKE_STATIC_LINKER_FLAGS_DEBUG:STRING= | |
| //Flags used by the linker during the creation of static libraries | |
| // during MINSIZEREL builds. | |
| CMAKE_STATIC_LINKER_FLAGS_MINSIZEREL:STRING= | |
| //Flags used by the linker during the creation of static libraries | |
| // during RELEASE builds. | |
| CMAKE_STATIC_LINKER_FLAGS_RELEASE:STRING= | |
| //Flags used by the linker during the creation of static libraries | |
| // during RELWITHDEBINFO builds. | |
| CMAKE_STATIC_LINKER_FLAGS_RELWITHDEBINFO:STRING= | |
| //Path to a program. | |
| CMAKE_STRIP:FILEPATH=/usr/bin/strip | |
| //Path to a program. | |
| CMAKE_TAPI:FILEPATH=/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/tapi | |
| //If this value is on, makefiles will be generated without the | |
| // .SILENT directive, and all commands will be echoed to the console | |
| // during the make. This is useful for debugging only. With Visual | |
| // Studio IDE projects all commands are done without /nologo. | |
| CMAKE_VERBOSE_MAKEFILE:BOOL=ON | |
| //HDF5 C Wrapper compiler. Used only to detect HDF5 compile flags. | |
| HDF5_C_COMPILER_EXECUTABLE:FILEPATH=/opt/homebrew/bin/h5cc | |
| //Path to a library. | |
| HDF5_C_LIBRARY_dl:FILEPATH=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/lib/libdl.tbd | |
| //Path to a library. | |
| HDF5_C_LIBRARY_hdf5:FILEPATH=/opt/homebrew/lib/libhdf5.dylib | |
| //Path to a library. | |
| HDF5_C_LIBRARY_m:FILEPATH=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/lib/libm.tbd | |
| //Path to a library. | |
| HDF5_C_LIBRARY_sz:FILEPATH=/opt/homebrew/lib/libsz.dylib | |
| //Path to a library. | |
| HDF5_C_LIBRARY_z:FILEPATH=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/lib/libz.tbd | |
| //HDF5 file differencing tool. | |
| HDF5_DIFF_EXECUTABLE:FILEPATH=/opt/homebrew/bin/h5diff | |
| //The directory containing a CMake configuration file for HDF5. | |
| HDF5_DIR:PATH=HDF5_DIR-NOTFOUND | |
| //Compile with HTSLIB support | |
| USE_BAM:BOOL=OFF | |
| //Compile with HDF5 support | |
| USE_HDF5:BOOL=ON | |
| //Path to a file. | |
| ZLIB_INCLUDE_DIR:PATH=/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include | |
| //Path to a library. | |
| ZLIB_LIBRARY_DEBUG:FILEPATH=ZLIB_LIBRARY_DEBUG-NOTFOUND | |
| //Path to a library. | |
| ZLIB_LIBRARY_RELEASE:FILEPATH=/opt/homebrew/lib/libzlibstatic.a | |
| //Value Computed by CMake | |
| kallisto_BINARY_DIR:STATIC=/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build | |
| //Value Computed by CMake | |
| kallisto_IS_TOP_LEVEL:STATIC=ON | |
| //Value Computed by CMake | |
| kallisto_SOURCE_DIR:STATIC=/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1 | |
| //Dependencies for the target | |
| kallisto_core_LIB_DEPENDS:STATIC=general;/opt/homebrew/lib/libhdf5.dylib;general;/opt/homebrew/lib/libsz.dylib;general;/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/lib/libz.tbd;general;/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/lib/libdl.tbd;general;/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/lib/libm.tbd; | |
| ######################## | |
| # INTERNAL cache entries | |
| ######################## | |
| //ADVANCED property for variable: CMAKE_ADDR2LINE | |
| CMAKE_ADDR2LINE-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_AR | |
| CMAKE_AR-ADVANCED:INTERNAL=1 | |
| //This is the directory where this CMakeCache.txt was created | |
| CMAKE_CACHEFILE_DIR:INTERNAL=/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/build | |
| //Major version of cmake used to create the current loaded cache | |
| CMAKE_CACHE_MAJOR_VERSION:INTERNAL=3 | |
| //Minor version of cmake used to create the current loaded cache | |
| CMAKE_CACHE_MINOR_VERSION:INTERNAL=27 | |
| //Patch version of cmake used to create the current loaded cache | |
| CMAKE_CACHE_PATCH_VERSION:INTERNAL=7 | |
| //ADVANCED property for variable: CMAKE_COLOR_MAKEFILE | |
| CMAKE_COLOR_MAKEFILE-ADVANCED:INTERNAL=1 | |
| //Path to CMake executable. | |
| CMAKE_COMMAND:INTERNAL=/opt/homebrew/Cellar/cmake/3.27.7/bin/cmake | |
| //Path to cpack program executable. | |
| CMAKE_CPACK_COMMAND:INTERNAL=/opt/homebrew/Cellar/cmake/3.27.7/bin/cpack | |
| //Path to ctest program executable. | |
| CMAKE_CTEST_COMMAND:INTERNAL=/opt/homebrew/Cellar/cmake/3.27.7/bin/ctest | |
| //ADVANCED property for variable: CMAKE_CXX_COMPILER | |
| CMAKE_CXX_COMPILER-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_CXX_FLAGS | |
| CMAKE_CXX_FLAGS-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_CXX_FLAGS_DEBUG | |
| CMAKE_CXX_FLAGS_DEBUG-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_CXX_FLAGS_MINSIZEREL | |
| CMAKE_CXX_FLAGS_MINSIZEREL-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_CXX_FLAGS_RELEASE | |
| CMAKE_CXX_FLAGS_RELEASE-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_CXX_FLAGS_RELWITHDEBINFO | |
| CMAKE_CXX_FLAGS_RELWITHDEBINFO-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_C_COMPILER | |
| CMAKE_C_COMPILER-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_C_FLAGS | |
| CMAKE_C_FLAGS-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_C_FLAGS_DEBUG | |
| CMAKE_C_FLAGS_DEBUG-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_C_FLAGS_MINSIZEREL | |
| CMAKE_C_FLAGS_MINSIZEREL-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_C_FLAGS_RELEASE | |
| CMAKE_C_FLAGS_RELEASE-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_C_FLAGS_RELWITHDEBINFO | |
| CMAKE_C_FLAGS_RELWITHDEBINFO-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_DLLTOOL | |
| CMAKE_DLLTOOL-ADVANCED:INTERNAL=1 | |
| //Path to cache edit program executable. | |
| CMAKE_EDIT_COMMAND:INTERNAL=/opt/homebrew/Cellar/cmake/3.27.7/bin/ccmake | |
| //Whether to issue deprecation errors for macros and functions. | |
| CMAKE_ERROR_DEPRECATED:INTERNAL=FALSE | |
| //Executable file format | |
| CMAKE_EXECUTABLE_FORMAT:INTERNAL=MACHO | |
| //ADVANCED property for variable: CMAKE_EXE_LINKER_FLAGS | |
| CMAKE_EXE_LINKER_FLAGS-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_EXE_LINKER_FLAGS_DEBUG | |
| CMAKE_EXE_LINKER_FLAGS_DEBUG-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_EXE_LINKER_FLAGS_MINSIZEREL | |
| CMAKE_EXE_LINKER_FLAGS_MINSIZEREL-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_EXE_LINKER_FLAGS_RELEASE | |
| CMAKE_EXE_LINKER_FLAGS_RELEASE-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_EXE_LINKER_FLAGS_RELWITHDEBINFO | |
| CMAKE_EXE_LINKER_FLAGS_RELWITHDEBINFO-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_EXPORT_COMPILE_COMMANDS | |
| CMAKE_EXPORT_COMPILE_COMMANDS-ADVANCED:INTERNAL=1 | |
| //Name of external makefile project generator. | |
| CMAKE_EXTRA_GENERATOR:INTERNAL= | |
| //Name of generator. | |
| CMAKE_GENERATOR:INTERNAL=Unix Makefiles | |
| //Generator instance identifier. | |
| CMAKE_GENERATOR_INSTANCE:INTERNAL= | |
| //Name of generator platform. | |
| CMAKE_GENERATOR_PLATFORM:INTERNAL= | |
| //Name of generator toolset. | |
| CMAKE_GENERATOR_TOOLSET:INTERNAL= | |
| //Test CMAKE_HAVE_LIBC_PTHREAD | |
| CMAKE_HAVE_LIBC_PTHREAD:INTERNAL=1 | |
| //Source directory with the top level CMakeLists.txt file for this | |
| // project | |
| CMAKE_HOME_DIRECTORY:INTERNAL=/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1 | |
| //ADVANCED property for variable: CMAKE_INSTALL_BINDIR | |
| CMAKE_INSTALL_BINDIR-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_INSTALL_DATADIR | |
| CMAKE_INSTALL_DATADIR-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_INSTALL_DATAROOTDIR | |
| CMAKE_INSTALL_DATAROOTDIR-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_INSTALL_DOCDIR | |
| CMAKE_INSTALL_DOCDIR-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_INSTALL_INCLUDEDIR | |
| CMAKE_INSTALL_INCLUDEDIR-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_INSTALL_INFODIR | |
| CMAKE_INSTALL_INFODIR-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_INSTALL_LIBDIR | |
| CMAKE_INSTALL_LIBDIR-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_INSTALL_LIBEXECDIR | |
| CMAKE_INSTALL_LIBEXECDIR-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_INSTALL_LOCALEDIR | |
| CMAKE_INSTALL_LOCALEDIR-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_INSTALL_LOCALSTATEDIR | |
| CMAKE_INSTALL_LOCALSTATEDIR-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_INSTALL_MANDIR | |
| CMAKE_INSTALL_MANDIR-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_INSTALL_NAME_TOOL | |
| CMAKE_INSTALL_NAME_TOOL-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_INSTALL_OLDINCLUDEDIR | |
| CMAKE_INSTALL_OLDINCLUDEDIR-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_INSTALL_RUNSTATEDIR | |
| CMAKE_INSTALL_RUNSTATEDIR-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_INSTALL_SBINDIR | |
| CMAKE_INSTALL_SBINDIR-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_INSTALL_SHAREDSTATEDIR | |
| CMAKE_INSTALL_SHAREDSTATEDIR-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_INSTALL_SYSCONFDIR | |
| CMAKE_INSTALL_SYSCONFDIR-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_LINKER | |
| CMAKE_LINKER-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_MAKE_PROGRAM | |
| CMAKE_MAKE_PROGRAM-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_MODULE_LINKER_FLAGS | |
| CMAKE_MODULE_LINKER_FLAGS-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_MODULE_LINKER_FLAGS_DEBUG | |
| CMAKE_MODULE_LINKER_FLAGS_DEBUG-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_MODULE_LINKER_FLAGS_MINSIZEREL | |
| CMAKE_MODULE_LINKER_FLAGS_MINSIZEREL-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_MODULE_LINKER_FLAGS_RELEASE | |
| CMAKE_MODULE_LINKER_FLAGS_RELEASE-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_MODULE_LINKER_FLAGS_RELWITHDEBINFO | |
| CMAKE_MODULE_LINKER_FLAGS_RELWITHDEBINFO-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_NM | |
| CMAKE_NM-ADVANCED:INTERNAL=1 | |
| //number of local generators | |
| CMAKE_NUMBER_OF_MAKEFILES:INTERNAL=2 | |
| //ADVANCED property for variable: CMAKE_OBJCOPY | |
| CMAKE_OBJCOPY-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_OBJDUMP | |
| CMAKE_OBJDUMP-ADVANCED:INTERNAL=1 | |
| //Platform information initialized | |
| CMAKE_PLATFORM_INFO_INITIALIZED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_RANLIB | |
| CMAKE_RANLIB-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_READELF | |
| CMAKE_READELF-ADVANCED:INTERNAL=1 | |
| //Path to CMake installation. | |
| CMAKE_ROOT:INTERNAL=/opt/homebrew/Cellar/cmake/3.27.7/share/cmake | |
| //ADVANCED property for variable: CMAKE_SHARED_LINKER_FLAGS | |
| CMAKE_SHARED_LINKER_FLAGS-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_SHARED_LINKER_FLAGS_DEBUG | |
| CMAKE_SHARED_LINKER_FLAGS_DEBUG-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_SHARED_LINKER_FLAGS_MINSIZEREL | |
| CMAKE_SHARED_LINKER_FLAGS_MINSIZEREL-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_SHARED_LINKER_FLAGS_RELEASE | |
| CMAKE_SHARED_LINKER_FLAGS_RELEASE-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_SHARED_LINKER_FLAGS_RELWITHDEBINFO | |
| CMAKE_SHARED_LINKER_FLAGS_RELWITHDEBINFO-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_SKIP_INSTALL_RPATH | |
| CMAKE_SKIP_INSTALL_RPATH-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_SKIP_RPATH | |
| CMAKE_SKIP_RPATH-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_STATIC_LINKER_FLAGS | |
| CMAKE_STATIC_LINKER_FLAGS-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_STATIC_LINKER_FLAGS_DEBUG | |
| CMAKE_STATIC_LINKER_FLAGS_DEBUG-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_STATIC_LINKER_FLAGS_MINSIZEREL | |
| CMAKE_STATIC_LINKER_FLAGS_MINSIZEREL-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_STATIC_LINKER_FLAGS_RELEASE | |
| CMAKE_STATIC_LINKER_FLAGS_RELEASE-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_STATIC_LINKER_FLAGS_RELWITHDEBINFO | |
| CMAKE_STATIC_LINKER_FLAGS_RELWITHDEBINFO-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_STRIP | |
| CMAKE_STRIP-ADVANCED:INTERNAL=1 | |
| //Suppress errors that are meant for the author of the CMakeLists.txt | |
| // files. | |
| CMAKE_SUPPRESS_DEVELOPER_ERRORS:INTERNAL=TRUE | |
| //Suppress Warnings that are meant for the author of the CMakeLists.txt | |
| // files. | |
| CMAKE_SUPPRESS_DEVELOPER_WARNINGS:INTERNAL=TRUE | |
| //ADVANCED property for variable: CMAKE_TAPI | |
| CMAKE_TAPI-ADVANCED:INTERNAL=1 | |
| //uname command | |
| CMAKE_UNAME:INTERNAL=/usr/bin/uname | |
| //ADVANCED property for variable: CMAKE_VERBOSE_MAKEFILE | |
| CMAKE_VERBOSE_MAKEFILE-ADVANCED:INTERNAL=1 | |
| //Whether to issue warnings for deprecated functionality. | |
| CMAKE_WARN_DEPRECATED:INTERNAL=FALSE | |
| //Test COMPILER_SUPPORTS_CXX17 | |
| COMPILER_SUPPORTS_CXX17:INTERNAL=1 | |
| //Details about finding HDF5 | |
| FIND_PACKAGE_MESSAGE_DETAILS_HDF5:INTERNAL=[/opt/homebrew/lib/libhdf5.dylib;/opt/homebrew/lib/libsz.dylib;/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/lib/libz.tbd;/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/lib/libdl.tbd;/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/lib/libm.tbd][c ][v1.14.2()] | |
| //Details about finding Threads | |
| FIND_PACKAGE_MESSAGE_DETAILS_Threads:INTERNAL=[TRUE][v()] | |
| //Details about finding ZLIB | |
| FIND_PACKAGE_MESSAGE_DETAILS_ZLIB:INTERNAL=[/opt/homebrew/lib/libzlibstatic.a][/Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/usr/include][c ][v1.2.11()] | |
| //ADVANCED property for variable: HDF5_C_COMPILER_EXECUTABLE | |
| HDF5_C_COMPILER_EXECUTABLE-ADVANCED:INTERNAL=1 | |
| //Result of TRY_COMPILE | |
| HDF5_C_COMPILER_NO_INTERROGATE:INTERNAL=FALSE | |
| //ADVANCED property for variable: HDF5_DIFF_EXECUTABLE | |
| HDF5_DIFF_EXECUTABLE-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: HDF5_DIR | |
| HDF5_DIR-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: ZLIB_INCLUDE_DIR | |
| ZLIB_INCLUDE_DIR-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: ZLIB_LIBRARY_DEBUG | |
| ZLIB_LIBRARY_DEBUG-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: ZLIB_LIBRARY_RELEASE | |
| ZLIB_LIBRARY_RELEASE-ADVANCED:INTERNAL=1 | |
| //CMAKE_INSTALL_PREFIX during last run | |
| _GNUInstallDirs_LAST_CMAKE_INSTALL_PREFIX:INTERNAL=/opt/homebrew/Cellar/kallisto/0.50.1 | |
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| # This is the CMakeCache file. | |
| # For build in directory: /tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build | |
| # It was generated by CMake: /opt/homebrew/Cellar/cmake/3.27.7/bin/cmake | |
| # You can edit this file to change values found and used by cmake. | |
| # If you do not want to change any of the values, simply exit the editor. | |
| # If you do want to change a value, simply edit, save, and exit the editor. | |
| # The syntax for the file is as follows: | |
| # KEY:TYPE=VALUE | |
| # KEY is the name of a variable in the cache. | |
| # TYPE is a hint to GUIs for the type of VALUE, DO NOT EDIT TYPE!. | |
| # VALUE is the current value for the KEY. | |
| ######################## | |
| # EXTERNAL cache entries | |
| ######################## | |
| //Value Computed by CMake | |
| Bifrost_BINARY_DIR:STATIC=/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build | |
| //Value Computed by CMake | |
| Bifrost_IS_TOP_LEVEL:STATIC=ON | |
| //Value Computed by CMake | |
| Bifrost_SOURCE_DIR:STATIC=/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost | |
| //Path to a program. | |
| CMAKE_ADDR2LINE:FILEPATH=CMAKE_ADDR2LINE-NOTFOUND | |
| //Path to a program. | |
| CMAKE_AR:FILEPATH=/usr/bin/ar | |
| //Choose the type of build, options are: None Debug Release RelWithDebInfo | |
| // MinSizeRel ... | |
| CMAKE_BUILD_TYPE:STRING= | |
| //Enable/Disable color output during build. | |
| CMAKE_COLOR_MAKEFILE:BOOL=ON | |
| //CXX compiler | |
| CMAKE_CXX_COMPILER:FILEPATH=/opt/homebrew/Library/Homebrew/shims/mac/super/clang++ | |
| //Flags used by the CXX compiler during all build types. | |
| CMAKE_CXX_FLAGS:STRING=-Wno-subobject-linkage -Wno-return-type | |
| //Flags used by the CXX compiler during DEBUG builds. | |
| CMAKE_CXX_FLAGS_DEBUG:STRING=-g | |
| //Flags used by the CXX compiler during MINSIZEREL builds. | |
| CMAKE_CXX_FLAGS_MINSIZEREL:STRING=-Os -DNDEBUG | |
| //Flags used by the CXX compiler during RELEASE builds. | |
| CMAKE_CXX_FLAGS_RELEASE:STRING=-O3 -DNDEBUG | |
| //Flags used by the CXX compiler during RELWITHDEBINFO builds. | |
| CMAKE_CXX_FLAGS_RELWITHDEBINFO:STRING=-O2 -g -DNDEBUG | |
| //C compiler | |
| CMAKE_C_COMPILER:FILEPATH=/opt/homebrew/Library/Homebrew/shims/mac/super/clang | |
| //Flags used by the C compiler during all build types. | |
| CMAKE_C_FLAGS:STRING= | |
| //Flags used by the C compiler during DEBUG builds. | |
| CMAKE_C_FLAGS_DEBUG:STRING=-g | |
| //Flags used by the C compiler during MINSIZEREL builds. | |
| CMAKE_C_FLAGS_MINSIZEREL:STRING=-Os -DNDEBUG | |
| //Flags used by the C compiler during RELEASE builds. | |
| CMAKE_C_FLAGS_RELEASE:STRING=-O3 -DNDEBUG | |
| //Flags used by the C compiler during RELWITHDEBINFO builds. | |
| CMAKE_C_FLAGS_RELWITHDEBINFO:STRING=-O2 -g -DNDEBUG | |
| //Path to a program. | |
| CMAKE_DLLTOOL:FILEPATH=CMAKE_DLLTOOL-NOTFOUND | |
| //Flags used by the linker during all build types. | |
| CMAKE_EXE_LINKER_FLAGS:STRING= | |
| //Flags used by the linker during DEBUG builds. | |
| CMAKE_EXE_LINKER_FLAGS_DEBUG:STRING= | |
| //Flags used by the linker during MINSIZEREL builds. | |
| CMAKE_EXE_LINKER_FLAGS_MINSIZEREL:STRING= | |
| //Flags used by the linker during RELEASE builds. | |
| CMAKE_EXE_LINKER_FLAGS_RELEASE:STRING= | |
| //Flags used by the linker during RELWITHDEBINFO builds. | |
| CMAKE_EXE_LINKER_FLAGS_RELWITHDEBINFO:STRING= | |
| //Enable/Disable output of compile commands during generation. | |
| CMAKE_EXPORT_COMPILE_COMMANDS:BOOL= | |
| //Value Computed by CMake. | |
| CMAKE_FIND_PACKAGE_REDIRECTS_DIR:STATIC=/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build/CMakeFiles/pkgRedirects | |
| //Path to a program. | |
| CMAKE_INSTALL_NAME_TOOL:FILEPATH=/usr/bin/install_name_tool | |
| //Install path prefix, prepended onto install directories. | |
| CMAKE_INSTALL_PREFIX:PATH= | |
| //Path to a program. | |
| CMAKE_LINKER:FILEPATH=/opt/homebrew/Library/Homebrew/shims/mac/super/ld | |
| //Path to a program. | |
| CMAKE_MAKE_PROGRAM:FILEPATH=/opt/homebrew/bin/gmake | |
| //Flags used by the linker during the creation of modules during | |
| // all build types. | |
| CMAKE_MODULE_LINKER_FLAGS:STRING= | |
| //Flags used by the linker during the creation of modules during | |
| // DEBUG builds. | |
| CMAKE_MODULE_LINKER_FLAGS_DEBUG:STRING= | |
| //Flags used by the linker during the creation of modules during | |
| // MINSIZEREL builds. | |
| CMAKE_MODULE_LINKER_FLAGS_MINSIZEREL:STRING= | |
| //Flags used by the linker during the creation of modules during | |
| // RELEASE builds. | |
| CMAKE_MODULE_LINKER_FLAGS_RELEASE:STRING= | |
| //Flags used by the linker during the creation of modules during | |
| // RELWITHDEBINFO builds. | |
| CMAKE_MODULE_LINKER_FLAGS_RELWITHDEBINFO:STRING= | |
| //Path to a program. | |
| CMAKE_NM:FILEPATH=/usr/bin/nm | |
| //Path to a program. | |
| CMAKE_OBJCOPY:FILEPATH=CMAKE_OBJCOPY-NOTFOUND | |
| //Path to a program. | |
| CMAKE_OBJDUMP:FILEPATH=/usr/bin/objdump | |
| //Build architectures for OSX | |
| CMAKE_OSX_ARCHITECTURES:STRING= | |
| //Minimum OS X version to target for deployment (at runtime); newer | |
| // APIs weak linked. Set to empty string for default value. | |
| CMAKE_OSX_DEPLOYMENT_TARGET:STRING=13.6 | |
| //The product will be built against the headers and libraries located | |
| // inside the indicated SDK. | |
| CMAKE_OSX_SYSROOT:PATH=/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk | |
| //Value Computed by CMake | |
| CMAKE_PROJECT_DESCRIPTION:STATIC= | |
| //Value Computed by CMake | |
| CMAKE_PROJECT_HOMEPAGE_URL:STATIC= | |
| //Value Computed by CMake | |
| CMAKE_PROJECT_NAME:STATIC=Bifrost | |
| //Path to a program. | |
| CMAKE_RANLIB:FILEPATH=/usr/bin/ranlib | |
| //Path to a program. | |
| CMAKE_READELF:FILEPATH=CMAKE_READELF-NOTFOUND | |
| //Flags used by the linker during the creation of shared libraries | |
| // during all build types. | |
| CMAKE_SHARED_LINKER_FLAGS:STRING= | |
| //Flags used by the linker during the creation of shared libraries | |
| // during DEBUG builds. | |
| CMAKE_SHARED_LINKER_FLAGS_DEBUG:STRING= | |
| //Flags used by the linker during the creation of shared libraries | |
| // during MINSIZEREL builds. | |
| CMAKE_SHARED_LINKER_FLAGS_MINSIZEREL:STRING= | |
| //Flags used by the linker during the creation of shared libraries | |
| // during RELEASE builds. | |
| CMAKE_SHARED_LINKER_FLAGS_RELEASE:STRING= | |
| //Flags used by the linker during the creation of shared libraries | |
| // during RELWITHDEBINFO builds. | |
| CMAKE_SHARED_LINKER_FLAGS_RELWITHDEBINFO:STRING= | |
| //If set, runtime paths are not added when installing shared libraries, | |
| // but are added when building. | |
| CMAKE_SKIP_INSTALL_RPATH:BOOL=NO | |
| //If set, runtime paths are not added when using shared libraries. | |
| CMAKE_SKIP_RPATH:BOOL=NO | |
| //Flags used by the linker during the creation of static libraries | |
| // during all build types. | |
| CMAKE_STATIC_LINKER_FLAGS:STRING= | |
| //Flags used by the linker during the creation of static libraries | |
| // during DEBUG builds. | |
| CMAKE_STATIC_LINKER_FLAGS_DEBUG:STRING= | |
| //Flags used by the linker during the creation of static libraries | |
| // during MINSIZEREL builds. | |
| CMAKE_STATIC_LINKER_FLAGS_MINSIZEREL:STRING= | |
| //Flags used by the linker during the creation of static libraries | |
| // during RELEASE builds. | |
| CMAKE_STATIC_LINKER_FLAGS_RELEASE:STRING= | |
| //Flags used by the linker during the creation of static libraries | |
| // during RELWITHDEBINFO builds. | |
| CMAKE_STATIC_LINKER_FLAGS_RELWITHDEBINFO:STRING= | |
| //Path to a program. | |
| CMAKE_STRIP:FILEPATH=/usr/bin/strip | |
| //Path to a program. | |
| CMAKE_TAPI:FILEPATH=/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/tapi | |
| //If this value is on, makefiles will be generated without the | |
| // .SILENT directive, and all commands will be echoed to the console | |
| // during the make. This is useful for debugging only. With Visual | |
| // Studio IDE projects all commands are done without /nologo. | |
| CMAKE_VERBOSE_MAKEFILE:BOOL=FALSE | |
| //COMPILATION_ARCH | |
| COMPILATION_ARCH:STRING=native | |
| //ENABLE_AVX2 | |
| ENABLE_AVX2:STRING=ON | |
| //MAX_GMER_SIZE | |
| MAX_GMER_SIZE:STRING=32 | |
| //MAX_KMER_SIZE | |
| MAX_KMER_SIZE:STRING=32 | |
| //Path to a file. | |
| ZLIB_INCLUDE_DIR:PATH=/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk/usr/include | |
| //Path to a library. | |
| ZLIB_LIBRARY_DEBUG:FILEPATH=ZLIB_LIBRARY_DEBUG-NOTFOUND | |
| //Path to a library. | |
| ZLIB_LIBRARY_RELEASE:FILEPATH=/opt/homebrew/lib/libzlibstatic.a | |
| //Dependencies for the target | |
| bifrost_dynamic_LIB_DEPENDS:STATIC=general;pthread;general;/opt/homebrew/lib/libzlibstatic.a; | |
| //Dependencies for the target | |
| bifrost_static_LIB_DEPENDS:STATIC=general;pthread;general;/opt/homebrew/lib/libzlibstatic.a; | |
| ######################## | |
| # INTERNAL cache entries | |
| ######################## | |
| //ADVANCED property for variable: CMAKE_ADDR2LINE | |
| CMAKE_ADDR2LINE-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_AR | |
| CMAKE_AR-ADVANCED:INTERNAL=1 | |
| //This is the directory where this CMakeCache.txt was created | |
| CMAKE_CACHEFILE_DIR:INTERNAL=/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost/build | |
| //Major version of cmake used to create the current loaded cache | |
| CMAKE_CACHE_MAJOR_VERSION:INTERNAL=3 | |
| //Minor version of cmake used to create the current loaded cache | |
| CMAKE_CACHE_MINOR_VERSION:INTERNAL=27 | |
| //Patch version of cmake used to create the current loaded cache | |
| CMAKE_CACHE_PATCH_VERSION:INTERNAL=7 | |
| //ADVANCED property for variable: CMAKE_COLOR_MAKEFILE | |
| CMAKE_COLOR_MAKEFILE-ADVANCED:INTERNAL=1 | |
| //Path to CMake executable. | |
| CMAKE_COMMAND:INTERNAL=/opt/homebrew/Cellar/cmake/3.27.7/bin/cmake | |
| //Path to cpack program executable. | |
| CMAKE_CPACK_COMMAND:INTERNAL=/opt/homebrew/Cellar/cmake/3.27.7/bin/cpack | |
| //Path to ctest program executable. | |
| CMAKE_CTEST_COMMAND:INTERNAL=/opt/homebrew/Cellar/cmake/3.27.7/bin/ctest | |
| //ADVANCED property for variable: CMAKE_CXX_COMPILER | |
| CMAKE_CXX_COMPILER-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_CXX_FLAGS | |
| CMAKE_CXX_FLAGS-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_CXX_FLAGS_DEBUG | |
| CMAKE_CXX_FLAGS_DEBUG-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_CXX_FLAGS_MINSIZEREL | |
| CMAKE_CXX_FLAGS_MINSIZEREL-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_CXX_FLAGS_RELEASE | |
| CMAKE_CXX_FLAGS_RELEASE-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_CXX_FLAGS_RELWITHDEBINFO | |
| CMAKE_CXX_FLAGS_RELWITHDEBINFO-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_C_COMPILER | |
| CMAKE_C_COMPILER-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_C_FLAGS | |
| CMAKE_C_FLAGS-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_C_FLAGS_DEBUG | |
| CMAKE_C_FLAGS_DEBUG-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_C_FLAGS_MINSIZEREL | |
| CMAKE_C_FLAGS_MINSIZEREL-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_C_FLAGS_RELEASE | |
| CMAKE_C_FLAGS_RELEASE-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_C_FLAGS_RELWITHDEBINFO | |
| CMAKE_C_FLAGS_RELWITHDEBINFO-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_DLLTOOL | |
| CMAKE_DLLTOOL-ADVANCED:INTERNAL=1 | |
| //Path to cache edit program executable. | |
| CMAKE_EDIT_COMMAND:INTERNAL=/opt/homebrew/Cellar/cmake/3.27.7/bin/ccmake | |
| //Executable file format | |
| CMAKE_EXECUTABLE_FORMAT:INTERNAL=MACHO | |
| //ADVANCED property for variable: CMAKE_EXE_LINKER_FLAGS | |
| CMAKE_EXE_LINKER_FLAGS-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_EXE_LINKER_FLAGS_DEBUG | |
| CMAKE_EXE_LINKER_FLAGS_DEBUG-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_EXE_LINKER_FLAGS_MINSIZEREL | |
| CMAKE_EXE_LINKER_FLAGS_MINSIZEREL-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_EXE_LINKER_FLAGS_RELEASE | |
| CMAKE_EXE_LINKER_FLAGS_RELEASE-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_EXE_LINKER_FLAGS_RELWITHDEBINFO | |
| CMAKE_EXE_LINKER_FLAGS_RELWITHDEBINFO-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_EXPORT_COMPILE_COMMANDS | |
| CMAKE_EXPORT_COMPILE_COMMANDS-ADVANCED:INTERNAL=1 | |
| //Name of external makefile project generator. | |
| CMAKE_EXTRA_GENERATOR:INTERNAL= | |
| //Name of generator. | |
| CMAKE_GENERATOR:INTERNAL=Unix Makefiles | |
| //Generator instance identifier. | |
| CMAKE_GENERATOR_INSTANCE:INTERNAL= | |
| //Name of generator platform. | |
| CMAKE_GENERATOR_PLATFORM:INTERNAL= | |
| //Name of generator toolset. | |
| CMAKE_GENERATOR_TOOLSET:INTERNAL= | |
| //Test CMAKE_HAVE_LIBC_PTHREAD | |
| CMAKE_HAVE_LIBC_PTHREAD:INTERNAL=1 | |
| //Source directory with the top level CMakeLists.txt file for this | |
| // project | |
| CMAKE_HOME_DIRECTORY:INTERNAL=/tmp/kallisto-20231104-51059-b8hmvt/kallisto-0.50.1/ext/bifrost | |
| //ADVANCED property for variable: CMAKE_INSTALL_NAME_TOOL | |
| CMAKE_INSTALL_NAME_TOOL-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_LINKER | |
| CMAKE_LINKER-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_MAKE_PROGRAM | |
| CMAKE_MAKE_PROGRAM-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_MODULE_LINKER_FLAGS | |
| CMAKE_MODULE_LINKER_FLAGS-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_MODULE_LINKER_FLAGS_DEBUG | |
| CMAKE_MODULE_LINKER_FLAGS_DEBUG-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_MODULE_LINKER_FLAGS_MINSIZEREL | |
| CMAKE_MODULE_LINKER_FLAGS_MINSIZEREL-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_MODULE_LINKER_FLAGS_RELEASE | |
| CMAKE_MODULE_LINKER_FLAGS_RELEASE-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_MODULE_LINKER_FLAGS_RELWITHDEBINFO | |
| CMAKE_MODULE_LINKER_FLAGS_RELWITHDEBINFO-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_NM | |
| CMAKE_NM-ADVANCED:INTERNAL=1 | |
| //number of local generators | |
| CMAKE_NUMBER_OF_MAKEFILES:INTERNAL=2 | |
| //ADVANCED property for variable: CMAKE_OBJCOPY | |
| CMAKE_OBJCOPY-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_OBJDUMP | |
| CMAKE_OBJDUMP-ADVANCED:INTERNAL=1 | |
| //Platform information initialized | |
| CMAKE_PLATFORM_INFO_INITIALIZED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_RANLIB | |
| CMAKE_RANLIB-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_READELF | |
| CMAKE_READELF-ADVANCED:INTERNAL=1 | |
| //Path to CMake installation. | |
| CMAKE_ROOT:INTERNAL=/opt/homebrew/Cellar/cmake/3.27.7/share/cmake | |
| //ADVANCED property for variable: CMAKE_SHARED_LINKER_FLAGS | |
| CMAKE_SHARED_LINKER_FLAGS-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_SHARED_LINKER_FLAGS_DEBUG | |
| CMAKE_SHARED_LINKER_FLAGS_DEBUG-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_SHARED_LINKER_FLAGS_MINSIZEREL | |
| CMAKE_SHARED_LINKER_FLAGS_MINSIZEREL-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_SHARED_LINKER_FLAGS_RELEASE | |
| CMAKE_SHARED_LINKER_FLAGS_RELEASE-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_SHARED_LINKER_FLAGS_RELWITHDEBINFO | |
| CMAKE_SHARED_LINKER_FLAGS_RELWITHDEBINFO-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_SKIP_INSTALL_RPATH | |
| CMAKE_SKIP_INSTALL_RPATH-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_SKIP_RPATH | |
| CMAKE_SKIP_RPATH-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_STATIC_LINKER_FLAGS | |
| CMAKE_STATIC_LINKER_FLAGS-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_STATIC_LINKER_FLAGS_DEBUG | |
| CMAKE_STATIC_LINKER_FLAGS_DEBUG-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_STATIC_LINKER_FLAGS_MINSIZEREL | |
| CMAKE_STATIC_LINKER_FLAGS_MINSIZEREL-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_STATIC_LINKER_FLAGS_RELEASE | |
| CMAKE_STATIC_LINKER_FLAGS_RELEASE-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_STATIC_LINKER_FLAGS_RELWITHDEBINFO | |
| CMAKE_STATIC_LINKER_FLAGS_RELWITHDEBINFO-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_STRIP | |
| CMAKE_STRIP-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: CMAKE_TAPI | |
| CMAKE_TAPI-ADVANCED:INTERNAL=1 | |
| //uname command | |
| CMAKE_UNAME:INTERNAL=/usr/bin/uname | |
| //ADVANCED property for variable: CMAKE_VERBOSE_MAKEFILE | |
| CMAKE_VERBOSE_MAKEFILE-ADVANCED:INTERNAL=1 | |
| //Details about finding Threads | |
| FIND_PACKAGE_MESSAGE_DETAILS_Threads:INTERNAL=[TRUE][v()] | |
| //Details about finding ZLIB | |
| FIND_PACKAGE_MESSAGE_DETAILS_ZLIB:INTERNAL=[/opt/homebrew/lib/libzlibstatic.a][/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX14.0.sdk/usr/include][c ][v1.2.12()] | |
| //ADVANCED property for variable: ZLIB_INCLUDE_DIR | |
| ZLIB_INCLUDE_DIR-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: ZLIB_LIBRARY_DEBUG | |
| ZLIB_LIBRARY_DEBUG-ADVANCED:INTERNAL=1 | |
| //ADVANCED property for variable: ZLIB_LIBRARY_RELEASE | |
| ZLIB_LIBRARY_RELEASE-ADVANCED:INTERNAL=1 | |
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment