treepl (brewsci/bio/treepl) on macOS 10.13.6 - Homebrew build logs

# treepl - 2018-08-07_14-05-22.txt

Homebrew build logs for brewsci/bio/treepl on macOS 10.13.6
Build date: 2018-08-07 14:05:22

00.config.out

HOMEBREW_VERSION: 1.7.1-162-g15c62df
ORIGIN: https://github.com/Homebrew/brew
HEAD: 15c62dfd017771cfd3ba5e57687bc5b1d2ed2487
Last commit: 4 hours ago
Core tap ORIGIN: https://github.com/Homebrew/homebrew-core
Core tap HEAD: ca6f92d919730258dfef2de4e324a270468b8c75
Core tap last commit: 3 hours ago
HOMEBREW_PREFIX: /usr/local
HOMEBREW_DEV_CMD_RUN: 1
HOMEBREW_GITHUB_API_TOKEN: set
CPU: octa-core 64-bit kabylake
Homebrew Ruby: 2.3.7 => /usr/local/Homebrew/Library/Homebrew/vendor/portable-ruby/2.3.7/bin/ruby
Clang: 9.0 build 900
Git: 2.18.0 => /usr/local/bin/git
Curl: 7.54.0 => /usr/bin/curl
Java: 1.8.0_121
macOS: 10.13.6-x86_64
CLT: N/A
Xcode: 9.2
XQuartz: 2.7.11 => /opt/X11

00.doctor.out

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: Unbrewed dylibs were found in /usr/local/lib.
If you didn't put them there on purpose they could cause problems when
building Homebrew formulae, and may need to be deleted.

Unexpected dylibs:
  /usr/local/lib/libtcl8.6.dylib
  /usr/local/lib/libtk8.6.dylib
  /usr/local/lib/libwkhtmltox.0.12.4.dylib

Warning: Unbrewed header files were found in /usr/local/include.
If you didn't put them there on purpose they could cause problems when
building Homebrew formulae, and may need to be deleted.

Unexpected header files:
  /usr/local/include/fakemysql.h
  /usr/local/include/fakepq.h
  /usr/local/include/fakesql.h
  /usr/local/include/itcl.h
  /usr/local/include/itcl2TclOO.h
  /usr/local/include/itclDecls.h
  /usr/local/include/itclInt.h
  /usr/local/include/itclIntDecls.h
  /usr/local/include/itclMigrate2TclCore.h
  /usr/local/include/itclTclIntStubsFcn.h
  /usr/local/include/mysqlStubs.h
  /usr/local/include/odbcStubs.h
  /usr/local/include/pqStubs.h
  /usr/local/include/tcl.h
  /usr/local/include/tclDecls.h
  /usr/local/include/tclOO.h
  /usr/local/include/tclOODecls.h
  /usr/local/include/tclPlatDecls.h
  /usr/local/include/tclThread.h
  /usr/local/include/tclTomMath.h
  /usr/local/include/tclTomMathDecls.h
  /usr/local/include/tdbc.h
  /usr/local/include/tdbcDecls.h
  /usr/local/include/tdbcInt.h
  /usr/local/include/tk.h
  /usr/local/include/tkDecls.h
  /usr/local/include/tkPlatDecls.h
  /usr/local/include/wkhtmltox/image.h
  /usr/local/include/wkhtmltox/pdf.h

Warning: Unbrewed .pc files were found in /usr/local/lib/pkgconfig.
If you didn't put them there on purpose they could cause problems when
building Homebrew formulae, and may need to be deleted.

Unexpected .pc files:
  /usr/local/lib/pkgconfig/tcl.pc
  /usr/local/lib/pkgconfig/tk.pc

Warning: Unbrewed static libraries were found in /usr/local/lib.
If you didn't put them there on purpose they could cause problems when
building Homebrew formulae, and may need to be deleted.

Unexpected static libraries:
  /usr/local/lib/libtclstub8.6.a
  /usr/local/lib/libtkstub8.6.a

Warning: You have unlinked kegs in your Cellar
Leaving kegs unlinked can lead to build-trouble and cause brews that depend on
those kegs to fail to run properly once built. Run `brew link` on these:
  r

Warning: Your Xcode (9.2) is outdated.
Please update to Xcode 9.4 (or delete it).
Xcode can be updated from the App Store.

Warning: Use nlopt instead of deprecated homebrew/science/nlopt
Warning: Use beagle instead of deprecated brewsci/bio/beagle

Warning: Some installed formulae are missing dependencies.
You should `brew install` the missing dependencies:
  brew install beagle

Run `brew missing` for more details.

00.tap.out

Formula: treepl
Tap: brewsci/bio
Path: /usr/local/Homebrew/Library/Taps/brewsci/homebrew-bio/Formula/treepl.rb

test.01.treePL

2018-08-07 14:05:22 -0400

/usr/local/Cellar/treepl/2017.05.23/bin/treePL
clock.cppr8s

dyld: Library not loaded: /usr/local/opt/gcc/lib/gcc/7/libgomp.1.dylib
  Referenced from: /usr/local/Cellar/treepl/2017.05.23/bin/treePL
  Reason: image not found

HOMEBREW_VERSION: 1.7.1
ORIGIN: https://github.com/Homebrew/brew
HEAD: d6a245c05110c240e680da594c2cc6038998b82e
Last commit: 2 weeks ago
Core tap ORIGIN: https://github.com/Homebrew/homebrew-core
Core tap HEAD: ca6f92d919730258dfef2de4e324a270468b8c75
Core tap last commit: 83 minutes ago
HOMEBREW_PREFIX: /usr/local
HOMEBREW_CACHE: /Users/bomeara/Library/Caches/Homebrew
CPU: octa-core 64-bit kabylake
Homebrew Ruby: 2.3.7 => /usr/local/Homebrew/Library/Homebrew/vendor/portable-ruby/2.3.7/bin/ruby
Clang: 9.0 build 900
Git: 2.17.1 => /usr/local/bin/git
Curl: 7.60.0 => /usr/local/opt/curl/bin/curl
Java: 1.8.0_121
macOS: 10.13.5-x86_64
CLT: N/A
Xcode: 9.2
XQuartz: 2.7.11 => /opt/X11

CC: /usr/bin/clang
CXX: /usr/bin/clang++
OBJC: /usr/bin/clang
OBJCXX: /usr/bin/clang++
CFLAGS: -Os -w -pipe -march=native -mmacosx-version-min=10.13 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.13.sdk
CXXFLAGS: -Os -w -pipe -march=native -mmacosx-version-min=10.13 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.13.sdk
CPPFLAGS: -F/usr/local/Frameworks -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.13.sdk
LDFLAGS: -L/usr/local/lib -F/usr/local/Frameworks -Wl,-headerpad_max_install_names -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.13.sdk
SDKROOT: /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.13.sdk
MAKEFLAGS: -j8
CMAKE_PREFIX_PATH: /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.13.sdk/usr
CMAKE_FRAMEWORK_PATH: /usr/local/Frameworks:/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.13.sdk/System/Library/Frameworks
PKG_CONFIG_LIBDIR: /usr/local/lib/pkgconfig:/usr/local/share/pkgconfig:/usr/local/Homebrew/Library/Homebrew/os/mac/pkgconfig/10.13:/usr/lib/pkgconfig
PATH: /Library/TeX/texbin:/opt/X11/bin:/usr/local/bin:/usr/local/sbin:/usr/local/opt/curl/bin:/usr/local/opt/sqlite/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/Homebrew/Library/Homebrew/shims/scm:/Applications/Xcode.app/Contents/Developer/usr/bin:/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin
CPATH: /usr/local/include:/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.13.sdk/usr/include