Created
January 9, 2010 11:01
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A failed attempt at installing emboss fixed by installing xeyes
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| Disclaimer: as far as I can tell, the only difference between the two emboss installation attempts is installing xeyes, but I'm not 100% certain. | |
| #============================================================== | |
| #Two attempts at installing emboss before I tried installing xeyes, one without -d, one with -d | |
| #Note: another couple of attempts prior to this can be seen in http://gist.github.com/272838 | |
| #============================================================== | |
| Last login: Sat Jan 9 19:51:26 on console | |
| 192-168-1-5:~ agrimm$ port list emboss | |
| EMBOSS @6.0.1 science/EMBOSS | |
| 192-168-1-5:~ agrimm$ sudo port install emboss | |
| Password: | |
| ---> Computing dependencies for EMBOSS | |
| ---> Building EMBOSS | |
| Error: Target org.macports.build returned: shell command " cd "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_science_EMBOSS/work/EMBOSS-6.0.1" && /usr/bin/make -j2 all " returned error 2 | |
| Command output: Making all in PRINTS | |
| make[3]: Nothing to be done for `all'. | |
| Making all in PROSITE | |
| make[3]: Nothing to be done for `all'. | |
| Making all in JASPAR_CORE | |
| make[3]: Nothing to be done for `all'. | |
| Making all in JASPAR_FAM | |
| make[3]: Nothing to be done for `all'. | |
| Making all in JASPAR_PHYLOFACTS | |
| make[3]: Nothing to be done for `all'. | |
| Making all in JASPAR_CNE | |
| make[3]: Nothing to be done for `all'. | |
| Making all in JASPAR_POLII | |
| make[3]: Nothing to be done for `all'. | |
| Making all in JASPAR_SPLICE | |
| make[3]: Nothing to be done for `all'. | |
| make[3]: Nothing to be done for `all-am'. | |
| /bin/sh ../libtool --tag=CC --mode=link /usr/bin/gcc-4.2 -O2 -arch x86_64 -L/opt/local/lib -o aaindexextract aaindexextract.o ../nucleus/libnucleus.la ../ajax/libajaxg.la ../ajax/libajax.la ../plplot/libeplplot.la -lX11 -lm | |
| /bin/sh ../libtool --tag=CC --mode=link /usr/bin/gcc-4.2 -O2 -arch x86_64 -L/opt/local/lib -o abiview abiview.o ../nucleus/libnucleus.la ../ajax/libajaxg.la ../ajax/libajax.la ../plplot/libeplplot.la -lX11 -lm | |
| /usr/bin/gcc-4.2 -O2 -arch x86_64 -o .libs/aaindexextract aaindexextract.o -L/opt/local/lib ../nucleus/.libs/libnucleus.dylib ../ajax/.libs/libajaxg.dylib ../ajax/.libs/libajax.dylib ../plplot/.libs/libeplplot.dylib -lX11 -lm | |
| /usr/bin/gcc-4.2 -O2 -arch x86_64 -o .libs/abiview abiview.o -L/opt/local/lib ../nucleus/.libs/libnucleus.dylib ../ajax/.libs/libajaxg.dylib ../ajax/.libs/libajax.dylib ../plplot/.libs/libeplplot.dylib -lX11 -lm | |
| ld: library not found for -lX11 | |
| collect2: ld returned 1 exit status | |
| ld: library not found for -lX11 | |
| collect2: ld returned 1 exit status | |
| make[2]: *** [abiview] Error 1 | |
| make[2]: *** Waiting for unfinished jobs.... | |
| make[2]: *** [aaindexextract] Error 1 | |
| make[1]: *** [all-recursive] Error 1 | |
| make: *** [all-recursive] Error 1 | |
| Error: Status 1 encountered during processing. | |
| Before reporting a bug, first run the command again with the -d flag to get complete output. | |
| 192-168-1-5:~ agrimm$ sudo port -d install emboss | |
| DEBUG: Found port in file:///opt/local/var/macports/sources/rsync.macports.org/release/ports/science/EMBOSS | |
| DEBUG: Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/ports/science/EMBOSS | |
| DEBUG: OS Platform: darwin | |
| DEBUG: OS Version: 10.2.0 | |
| DEBUG: Mac OS X Version: 10.6 | |
| DEBUG: System Arch: i386 | |
| DEBUG: setting option os.universal_supported to yes | |
| DEBUG: org.macports.load registered provides 'load', a pre-existing procedure. Target override will not be provided | |
| DEBUG: org.macports.unload registered provides 'unload', a pre-existing procedure. Target override will not be provided | |
| DEBUG: org.macports.distfiles registered provides 'distfiles', a pre-existing procedure. Target override will not be provided | |
| DEBUG: adding the default universal variant | |
| DEBUG: Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/ports/_resources/port1.0/variant_descriptions.conf | |
| DEBUG: Requested variant darwin is not provided by port EMBOSS. | |
| DEBUG: Requested variant i386 is not provided by port EMBOSS. | |
| DEBUG: Requested variant macosx is not provided by port EMBOSS. | |
| ---> Computing dependencies for EMBOSS | |
| DEBUG: Executing org.macports.main (EMBOSS) | |
| DEBUG: Skipping completed org.macports.fetch (EMBOSS) | |
| DEBUG: Skipping completed org.macports.checksum (EMBOSS) | |
| DEBUG: Skipping completed org.macports.extract (EMBOSS) | |
| DEBUG: Skipping completed org.macports.patch (EMBOSS) | |
| DEBUG: Skipping completed org.macports.configure (EMBOSS) | |
| ---> Building EMBOSS | |
| DEBUG: Executing org.macports.build (EMBOSS) | |
| DEBUG: Environment: MACOSX_DEPLOYMENT_TARGET='10.6' | |
| DEBUG: Assembled command: 'cd "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_science_EMBOSS/work/EMBOSS-6.0.1" && /usr/bin/make -j2 all' | |
| Making all in plplot | |
| Making all in lib | |
| make[2]: Nothing to be done for `all'. | |
| make[2]: Nothing to be done for `all-am'. | |
| Making all in ajax | |
| make[1]: Nothing to be done for `all'. | |
| Making all in nucleus | |
| make[1]: Nothing to be done for `all'. | |
| Making all in emboss | |
| Making all in acd | |
| make[2]: Nothing to be done for `all'. | |
| Making all in data | |
| Making all in AAINDEX | |
| make[3]: Nothing to be done for `all'. | |
| Making all in CODONS | |
| make[3]: Nothing to be done for `all'. | |
| Making all in REBASE | |
| make[3]: Nothing to be done for `all'. | |
| Making all in PRINTS | |
| make[3]: Nothing to be done for `all'. | |
| Making all in PROSITE | |
| make[3]: Nothing to be done for `all'. | |
| Making all in JASPAR_CORE | |
| make[3]: Nothing to be done for `all'. | |
| Making all in JASPAR_FAM | |
| make[3]: Nothing to be done for `all'. | |
| Making all in JASPAR_PHYLOFACTS | |
| make[3]: Nothing to be done for `all'. | |
| Making all in JASPAR_CNE | |
| make[3]: Nothing to be done for `all'. | |
| Making all in JASPAR_POLII | |
| make[3]: Nothing to be done for `all'. | |
| Making all in JASPAR_SPLICE | |
| make[3]: Nothing to be done for `all'. | |
| make[3]: Nothing to be done for `all-am'. | |
| /bin/sh ../libtool --tag=CC --mode=link /usr/bin/gcc-4.2 -O2 -arch x86_64 -L/opt/local/lib -o aaindexextract aaindexextract.o ../nucleus/libnucleus.la ../ajax/libajaxg.la ../ajax/libajax.la ../plplot/libeplplot.la -lX11 -lm | |
| /bin/sh ../libtool --tag=CC --mode=link /usr/bin/gcc-4.2 -O2 -arch x86_64 -L/opt/local/lib -o abiview abiview.o ../nucleus/libnucleus.la ../ajax/libajaxg.la ../ajax/libajax.la ../plplot/libeplplot.la -lX11 -lm | |
| /usr/bin/gcc-4.2 -O2 -arch x86_64 -o .libs/abiview abiview.o -L/opt/local/lib ../nucleus/.libs/libnucleus.dylib ../ajax/.libs/libajaxg.dylib ../ajax/.libs/libajax.dylib ../plplot/.libs/libeplplot.dylib -lX11 -lm | |
| ld: library not found for -lX11 | |
| collect2: ld returned 1 exit status | |
| make[2]: *** [abiview] Error 1 | |
| make[2]: *** Waiting for unfinished jobs.... | |
| /usr/bin/gcc-4.2 -O2 -arch x86_64 -o .libs/aaindexextract aaindexextract.o -L/opt/local/lib ../nucleus/.libs/libnucleus.dylib ../ajax/.libs/libajaxg.dylib ../ajax/.libs/libajax.dylib ../plplot/.libs/libeplplot.dylib -lX11 -lm | |
| ld: library not found for -lX11 | |
| collect2: ld returned 1 exit status | |
| make[2]: *** [aaindexextract] Error 1 | |
| make[1]: *** [all-recursive] Error 1 | |
| make: *** [all-recursive] Error 1 | |
| Error: Target org.macports.build returned: shell command " cd "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_science_EMBOSS/work/EMBOSS-6.0.1" && /usr/bin/make -j2 all " returned error 2 | |
| DEBUG: Backtrace: shell command " cd "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_science_EMBOSS/work/EMBOSS-6.0.1" && /usr/bin/make -j2 all " returned error 2 | |
| while executing | |
| "command_exec build" | |
| (procedure "portbuild::build_main" line 9) | |
| invoked from within | |
| "$procedure $targetname" | |
| Warning: the following items did not execute (for EMBOSS): org.macports.activate org.macports.build org.macports.destroot org.macports.install | |
| Error: Status 1 encountered during processing. | |
| To report a bug, see <http://guide.macports.org/#project.tickets> | |
| 192-168-1-5:~ agrimm$ date #Done a bit later | |
| Sat 9 Jan 2010 20:59:49 EST | |
| 192-168-1-5:~ agrimm$ | |
| #================= | |
| # Installing xeyes | |
| #================= | |
| Last login: Sat Jan 9 20:01:44 on ttys001 | |
| 192-168-1-5:~ agrimm$ sudo port install xeyes | |
| Password: | |
| ---> Computing dependencies for xeyes | |
| ---> Fetching groff | |
| ---> Attempting to fetch groff-1.20.1.tar.gz from http://mirror.pacific.net.au/pub1/gnu/gnu/groff | |
| ---> Verifying checksum(s) for groff | |
| ---> Extracting groff | |
| ---> Configuring groff | |
| ---> Building groff | |
| ---> Staging groff into destroot | |
| ---> Installing groff @1.20.1_1 | |
| ---> Activating groff @1.20.1_1 | |
| ---> Cleaning groff | |
| ---> Fetching xorg-bigreqsproto | |
| ---> Attempting to fetch bigreqsproto-1.1.0.tar.bz2 from http://aarnet.au.distfiles.macports.org/pub/macports/mpdistfiles/xorg-bigreqsproto | |
| ---> Verifying checksum(s) for xorg-bigreqsproto | |
| ---> Extracting xorg-bigreqsproto | |
| ---> Configuring xorg-bigreqsproto | |
| ---> Building xorg-bigreqsproto | |
| ---> Staging xorg-bigreqsproto into destroot | |
| ---> Installing xorg-bigreqsproto @1.1.0_0 | |
| ---> Activating xorg-bigreqsproto @1.1.0_0 | |
| ---> Cleaning xorg-bigreqsproto | |
| ---> Fetching xorg-inputproto | |
| ---> Attempting to fetch inputproto-2.0.tar.bz2 from http://aarnet.au.distfiles.macports.org/pub/macports/mpdistfiles/xorg-inputproto | |
| ---> Verifying checksum(s) for xorg-inputproto | |
| ---> Extracting xorg-inputproto | |
| ---> Configuring xorg-inputproto | |
| ---> Building xorg-inputproto | |
| ---> Staging xorg-inputproto into destroot | |
| ---> Installing xorg-inputproto @2.0_0 | |
| ---> Activating xorg-inputproto @2.0_0 | |
| ---> Cleaning xorg-inputproto | |
| ---> Fetching xorg-kbproto | |
| ---> Attempting to fetch kbproto-1.0.4.tar.bz2 from http://aarnet.au.distfiles.macports.org/pub/macports/mpdistfiles/xorg-kbproto | |
| ---> Verifying checksum(s) for xorg-kbproto | |
| ---> Extracting xorg-kbproto | |
| ---> Configuring xorg-kbproto | |
| ---> Building xorg-kbproto | |
| ---> Staging xorg-kbproto into destroot | |
| ---> Installing xorg-kbproto @1.0.4_0 | |
| ---> Activating xorg-kbproto @1.0.4_0 | |
| ---> Cleaning xorg-kbproto | |
| ---> Fetching xorg-xproto | |
| ---> Attempting to fetch xproto-7.0.16.tar.bz2 from http://aarnet.au.distfiles.macports.org/pub/macports/mpdistfiles/xorg-xproto | |
| ---> Verifying checksum(s) for xorg-xproto | |
| ---> Extracting xorg-xproto | |
| ---> Configuring xorg-xproto | |
| ---> Building xorg-xproto | |
| ---> Staging xorg-xproto into destroot | |
| ---> Installing xorg-xproto @7.0.16_0 | |
| ---> Activating xorg-xproto @7.0.16_0 | |
| ---> Cleaning xorg-xproto | |
| ---> Fetching xorg-libXau | |
| ---> Attempting to fetch libXau-1.0.5.tar.bz2 from http://aarnet.au.distfiles.macports.org/pub/macports/mpdistfiles/xorg-libXau | |
| ---> Verifying checksum(s) for xorg-libXau | |
| ---> Extracting xorg-libXau | |
| ---> Configuring xorg-libXau | |
| ---> Building xorg-libXau | |
| ---> Staging xorg-libXau into destroot | |
| ---> Installing xorg-libXau @1.0.5_0 | |
| ---> Activating xorg-libXau @1.0.5_0 | |
| ---> Cleaning xorg-libXau | |
| ---> Fetching xorg-libXdmcp | |
| ---> Attempting to fetch libXdmcp-1.0.3.tar.bz2 from http://aarnet.au.distfiles.macports.org/pub/macports/mpdistfiles/xorg-libXdmcp | |
| ---> Verifying checksum(s) for xorg-libXdmcp | |
| ---> Extracting xorg-libXdmcp | |
| ---> Configuring xorg-libXdmcp | |
| ---> Building xorg-libXdmcp | |
| ---> Staging xorg-libXdmcp into destroot | |
| ---> Installing xorg-libXdmcp @1.0.3_0 | |
| ---> Activating xorg-libXdmcp @1.0.3_0 | |
| ---> Cleaning xorg-libXdmcp | |
| ---> Fetching xorg-util-macros | |
| ---> Attempting to fetch util-macros-1.4.1.tar.bz2 from http://aarnet.au.distfiles.macports.org/pub/macports/mpdistfiles/xorg-util-macros | |
| ---> Verifying checksum(s) for xorg-util-macros | |
| ---> Extracting xorg-util-macros | |
| ---> Configuring xorg-util-macros | |
| ---> Building xorg-util-macros | |
| ---> Staging xorg-util-macros into destroot | |
| ---> Installing xorg-util-macros @1.4.1_0 | |
| ---> Activating xorg-util-macros @1.4.1_0 | |
| ---> Cleaning xorg-util-macros | |
| ---> Fetching xorg-xcmiscproto | |
| ---> Attempting to fetch xcmiscproto-1.2.0.tar.bz2 from http://aarnet.au.distfiles.macports.org/pub/macports/mpdistfiles/xorg-xcmiscproto | |
| ---> Verifying checksum(s) for xorg-xcmiscproto | |
| ---> Extracting xorg-xcmiscproto | |
| ---> Configuring xorg-xcmiscproto | |
| ---> Building xorg-xcmiscproto | |
| ---> Staging xorg-xcmiscproto into destroot | |
| ---> Installing xorg-xcmiscproto @1.2.0_0 | |
| ---> Activating xorg-xcmiscproto @1.2.0_0 | |
| ---> Cleaning xorg-xcmiscproto | |
| ---> Fetching xorg-xextproto | |
| ---> Attempting to fetch xextproto-7.1.1.tar.bz2 from http://aarnet.au.distfiles.macports.org/pub/macports/mpdistfiles/xorg-xextproto | |
| ---> Verifying checksum(s) for xorg-xextproto | |
| ---> Extracting xorg-xextproto | |
| ---> Configuring xorg-xextproto | |
| ---> Building xorg-xextproto | |
| ---> Staging xorg-xextproto into destroot | |
| ---> Installing xorg-xextproto @7.1.1_0 | |
| ---> Activating xorg-xextproto @7.1.1_0 | |
| ---> Cleaning xorg-xextproto | |
| ---> Fetching xorg-xf86bigfontproto | |
| ---> Attempting to fetch xf86bigfontproto-1.2.0.tar.bz2 from http://aarnet.au.distfiles.macports.org/pub/macports/mpdistfiles/xorg-xf86bigfontproto | |
| ---> Verifying checksum(s) for xorg-xf86bigfontproto | |
| ---> Extracting xorg-xf86bigfontproto | |
| ---> Configuring xorg-xf86bigfontproto | |
| ---> Building xorg-xf86bigfontproto | |
| ---> Staging xorg-xf86bigfontproto into destroot | |
| ---> Installing xorg-xf86bigfontproto @1.2.0_0 | |
| ---> Activating xorg-xf86bigfontproto @1.2.0_0 | |
| ---> Cleaning xorg-xf86bigfontproto | |
| ---> Fetching xorg-xtrans | |
| ---> Attempting to fetch xtrans-1.2.5.tar.bz2 from http://aarnet.au.distfiles.macports.org/pub/macports/mpdistfiles/xorg-xtrans | |
| ---> Verifying checksum(s) for xorg-xtrans | |
| ---> Extracting xorg-xtrans | |
| ---> Configuring xorg-xtrans | |
| ---> Building xorg-xtrans | |
| ---> Staging xorg-xtrans into destroot | |
| ---> Installing xorg-xtrans @1.2.5_0 | |
| ---> Activating xorg-xtrans @1.2.5_0 | |
| ---> Cleaning xorg-xtrans | |
| ---> Fetching xorg-libX11 | |
| ---> Attempting to fetch libX11-1.3.2.tar.bz2 from http://aarnet.au.distfiles.macports.org/pub/macports/mpdistfiles/xorg-libX11 | |
| ---> Verifying checksum(s) for xorg-libX11 | |
| ---> Extracting xorg-libX11 | |
| ---> Configuring xorg-libX11 | |
| ---> Building xorg-libX11 | |
| ---> Staging xorg-libX11 into destroot | |
| ---> Installing xorg-libX11 @1.3.2_0 | |
| ---> Activating xorg-libX11 @1.3.2_0 | |
| ---> Cleaning xorg-libX11 | |
| ---> Fetching xorg-libXext | |
| ---> Attempting to fetch libXext-1.1.1.tar.bz2 from http://aarnet.au.distfiles.macports.org/pub/macports/mpdistfiles/xorg-libXext | |
| ---> Verifying checksum(s) for xorg-libXext | |
| ---> Extracting xorg-libXext | |
| ---> Configuring xorg-libXext | |
| ---> Building xorg-libXext | |
| ---> Staging xorg-libXext into destroot | |
| ---> Installing xorg-libXext @1.1.1_0 | |
| ---> Activating xorg-libXext @1.1.1_0 | |
| ---> Cleaning xorg-libXext | |
| ---> Fetching p5-locale-gettext | |
| ---> Attempting to fetch gettext-1.05.tar.gz from http://mirror.aarnet.edu.au/pub/CPAN/modules/by-module/Locale | |
| ---> Verifying checksum(s) for p5-locale-gettext | |
| ---> Extracting p5-locale-gettext | |
| ---> Applying patches to p5-locale-gettext | |
| ---> Configuring p5-locale-gettext | |
| ---> Building p5-locale-gettext | |
| ---> Staging p5-locale-gettext into destroot | |
| ---> Installing p5-locale-gettext @1.05_0 | |
| ---> Activating p5-locale-gettext @1.05_0 | |
| ---> Cleaning p5-locale-gettext | |
| ---> Fetching help2man | |
| ---> Attempting to fetch help2man-1.37.1.tar.gz from http://mirror.pacific.net.au/pub1/gnu/gnu/help2man | |
| ---> Verifying checksum(s) for help2man | |
| ---> Extracting help2man | |
| ---> Configuring help2man | |
| ---> Building help2man | |
| ---> Staging help2man into destroot | |
| ---> Installing help2man @1.37.1_1 | |
| ---> Activating help2man @1.37.1_1 | |
| ---> Cleaning help2man | |
| ---> Fetching m4 | |
| ---> Attempting to fetch m4-1.4.13.tar.bz2 from http://mirror.pacific.net.au/pub1/gnu/gnu/m4 | |
| ---> Verifying checksum(s) for m4 | |
| ---> Extracting m4 | |
| ---> Applying patches to m4 | |
| ---> Configuring m4 | |
| ---> Building m4 | |
| ---> Staging m4 into destroot | |
| ---> Installing m4 @1.4.13_0 | |
| ---> Activating m4 @1.4.13_0 | |
| ---> Cleaning m4 | |
| ---> Fetching autoconf | |
| ---> Attempting to fetch autoconf-2.65.tar.bz2 from http://mirror.pacific.net.au/pub1/gnu/gnu/autoconf | |
| ---> Verifying checksum(s) for autoconf | |
| ---> Extracting autoconf | |
| ---> Configuring autoconf | |
| ---> Building autoconf | |
| ---> Staging autoconf into destroot | |
| ---> Installing autoconf @2.65_0 | |
| ---> Activating autoconf @2.65_0 | |
| ---> Cleaning autoconf | |
| ---> Fetching automake | |
| ---> Attempting to fetch automake-1.11.1.tar.bz2 from http://mirror.pacific.net.au/pub1/gnu/gnu/automake | |
| ---> Verifying checksum(s) for automake | |
| ---> Extracting automake | |
| ---> Configuring automake | |
| ---> Building automake | |
| ---> Staging automake into destroot | |
| ---> Installing automake @1.11.1_0 | |
| ---> Activating automake @1.11.1_0 | |
| ---> Cleaning automake | |
| ---> Fetching libtool | |
| ---> Attempting to fetch libtool-2.2.6b.tar.gz from http://mirror.pacific.net.au/pub1/gnu/gnu/libtool | |
| ---> Verifying checksum(s) for libtool | |
| ---> Extracting libtool | |
| ---> Configuring libtool | |
| ---> Building libtool | |
| ---> Staging libtool into destroot | |
| ---> Installing libtool @2.2.6b_0 | |
| ---> Activating libtool @2.2.6b_0 | |
| ---> Cleaning libtool | |
| ---> Fetching xorg-libice | |
| ---> Attempting to fetch libICE-1.0.6.tar.bz2 from http://aarnet.au.distfiles.macports.org/pub/macports/mpdistfiles/xorg-libice | |
| ---> Verifying checksum(s) for xorg-libice | |
| ---> Extracting xorg-libice | |
| ---> Configuring xorg-libice | |
| ---> Building xorg-libice | |
| ---> Staging xorg-libice into destroot | |
| ---> Installing xorg-libice @1.0.6_0 | |
| ---> Activating xorg-libice @1.0.6_0 | |
| ---> Cleaning xorg-libice | |
| ---> Fetching xorg-libsm | |
| ---> Attempting to fetch libSM-1.1.1.tar.bz2 from http://aarnet.au.distfiles.macports.org/pub/macports/mpdistfiles/xorg-libsm | |
| ---> Verifying checksum(s) for xorg-libsm | |
| ---> Extracting xorg-libsm | |
| ---> Configuring xorg-libsm | |
| ---> Building xorg-libsm | |
| ---> Staging xorg-libsm into destroot | |
| ---> Installing xorg-libsm @1.1.1_0 | |
| ---> Activating xorg-libsm @1.1.1_0 | |
| ---> Cleaning xorg-libsm | |
| ---> Fetching xorg-libXt | |
| ---> Attempting to fetch libXt-1.0.7.tar.bz2 from http://aarnet.au.distfiles.macports.org/pub/macports/mpdistfiles/xorg-libXt | |
| ---> Verifying checksum(s) for xorg-libXt | |
| ---> Extracting xorg-libXt | |
| ---> Applying patches to xorg-libXt | |
| ---> Configuring xorg-libXt | |
| ---> Building xorg-libXt | |
| ---> Staging xorg-libXt into destroot | |
| ---> Installing xorg-libXt @1.0.7_1 | |
| ---> Activating xorg-libXt @1.0.7_1 | |
| ---> Cleaning xorg-libXt | |
| ---> Fetching xorg-libXmu | |
| ---> Attempting to fetch libXmu-1.0.5.tar.bz2 from http://aarnet.au.distfiles.macports.org/pub/macports/mpdistfiles/xorg-libXmu | |
| ---> Verifying checksum(s) for xorg-libXmu | |
| ---> Extracting xorg-libXmu | |
| ---> Configuring xorg-libXmu | |
| ---> Building xorg-libXmu | |
| ---> Staging xorg-libXmu into destroot | |
| ---> Installing xorg-libXmu @1.0.5_0 | |
| ---> Activating xorg-libXmu @1.0.5_0 | |
| ---> Cleaning xorg-libXmu | |
| ---> Fetching xeyes | |
| ---> Attempting to fetch xeyes-1.0.1.tar.bz2 from http://aarnet.au.distfiles.macports.org/pub/macports/mpdistfiles/xeyes | |
| ---> Verifying checksum(s) for xeyes | |
| ---> Extracting xeyes | |
| ---> Configuring xeyes | |
| ---> Building xeyes | |
| ---> Staging xeyes into destroot | |
| ---> Installing xeyes @1.0.1_1 | |
| ---> Activating xeyes @1.0.1_1 | |
| ---> Cleaning xeyes | |
| 192-168-1-5:~ agrimm$ date | |
| Sat 9 Jan 2010 20:52:40 EST | |
| 192-168-1-5:~ agrimm$ exit | |
| logout | |
| [Process completed] | |
| #============================= | |
| Successfully installing emboss | |
| #============================= | |
| Last login: Sat Jan 9 20:44:45 on ttys003 | |
| 192-168-1-5:~ agrimm$ sudo port -d install emboss | |
| Password: | |
| DEBUG: Found port in file:///opt/local/var/macports/sources/rsync.macports.org/release/ports/science/EMBOSS | |
| DEBUG: Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/ports/science/EMBOSS | |
| DEBUG: OS Platform: darwin | |
| DEBUG: OS Version: 10.2.0 | |
| DEBUG: Mac OS X Version: 10.6 | |
| DEBUG: System Arch: i386 | |
| DEBUG: setting option os.universal_supported to yes | |
| DEBUG: org.macports.load registered provides 'load', a pre-existing procedure. Target override will not be provided | |
| DEBUG: org.macports.unload registered provides 'unload', a pre-existing procedure. Target override will not be provided | |
| DEBUG: org.macports.distfiles registered provides 'distfiles', a pre-existing procedure. Target override will not be provided | |
| DEBUG: adding the default universal variant | |
| DEBUG: Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/ports/_resources/port1.0/variant_descriptions.conf | |
| DEBUG: Requested variant darwin is not provided by port EMBOSS. | |
| DEBUG: Requested variant i386 is not provided by port EMBOSS. | |
| DEBUG: Requested variant macosx is not provided by port EMBOSS. | |
| ---> Computing dependencies for EMBOSS | |
| DEBUG: Executing org.macports.main (EMBOSS) | |
| DEBUG: Skipping completed org.macports.fetch (EMBOSS) | |
| DEBUG: Skipping completed org.macports.checksum (EMBOSS) | |
| DEBUG: Skipping completed org.macports.extract (EMBOSS) | |
| DEBUG: Skipping completed org.macports.patch (EMBOSS) | |
| DEBUG: Skipping completed org.macports.configure (EMBOSS) | |
| ---> Building EMBOSS | |
| DEBUG: Executing org.macports.build (EMBOSS) | |
| DEBUG: Environment: MACOSX_DEPLOYMENT_TARGET='10.6' | |
| DEBUG: Assembled command: 'cd "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_science_EMBOSS/work/EMBOSS-6.0.1" && /usr/bin/make -j2 all' | |
| Making all in plplot | |
| Making all in lib | |
| make[2]: Nothing to be done for `all'. | |
| make[2]: Nothing to be done for `all-am'. | |
| Making all in ajax | |
| make[1]: Nothing to be done for `all'. | |
| Making all in nucleus | |
| make[1]: Nothing to be done for `all'. | |
| Making all in emboss | |
| Making all in acd | |
| make[2]: Nothing to be done for `all'. | |
| Making all in data | |
| Making all in AAINDEX | |
| make[3]: Nothing to be done for `all'. | |
| Making all in CODONS | |
| make[3]: Nothing to be done for `all'. | |
| Making all in REBASE | |
| make[3]: Nothing to be done for `all'. | |
| Making all in PRINTS | |
| make[3]: Nothing to be done for `all'. | |
| Making all in PROSITE | |
| make[3]: Nothing to be done for `all'. | |
| Making all in JASPAR_CORE | |
| make[3]: Nothing to be done for `all'. | |
| Making all in JASPAR_FAM | |
| make[3]: Nothing to be done for `all'. | |
| Making all in JASPAR_PHYLOFACTS | |
| make[3]: Nothing to be done for `all'. | |
| Making all in JASPAR_CNE | |
| make[3]: Nothing to be done for `all'. | |
| Making all in JASPAR_POLII | |
| make[3]: Nothing to be done for `all'. | |
| Making all in JASPAR_SPLICE | |
| make[3]: Nothing to be done for `all'. | |
| make[3]: Nothing to be done for `all-am'. | |
| /bin/sh ../libtool --tag=CC --mode=link /usr/bin/gcc-4.2 -O2 -arch x86_64 -L/opt/local/lib -o aaindexextract aaindexextract.o ../nucleus/libnucleus.la ../ajax/libajaxg.la ../ajax/libajax.la ../plplot/libeplplot.la -lX11 -lm | |
| /bin/sh ../libtool --tag=CC --mode=link /usr/bin/gcc-4.2 -O2 -arch x86_64 -L/opt/local/lib -o abiview abiview.o ../nucleus/libnucleus.la ../ajax/libajaxg.la ../ajax/libajax.la ../plplot/libeplplot.la -lX11 -lm | |
| /usr/bin/gcc-4.2 -O2 -arch x86_64 -o .libs/abiview abiview.o -L/opt/local/lib ../nucleus/.libs/libnucleus.dylib ../ajax/.libs/libajaxg.dylib ../ajax/.libs/libajax.dylib ../plplot/.libs/libeplplot.dylib /opt/local/lib/libX11.dylib /opt/local/lib/libXau.dylib /opt/local/lib/libXdmcp.dylib -lm | |
| /usr/bin/gcc-4.2 -O2 -arch x86_64 -o .libs/aaindexextract aaindexextract.o -L/opt/local/lib ../nucleus/.libs/libnucleus.dylib ../ajax/.libs/libajaxg.dylib ../ajax/.libs/libajax.dylib ../plplot/.libs/libeplplot.dylib /opt/local/lib/libX11.dylib /opt/local/lib/libXau.dylib /opt/local/lib/libXdmcp.dylib -lm | |
| creating abiview | |
| creating aaindexextract | |
| /bin/sh ../libtool --tag=CC --mode=link /usr/bin/gcc-4.2 -O2 -arch x86_64 -L/opt/local/lib -o acdc acdc.o ../nucleus/libnucleus.la ../ajax/libajaxg.la ../ajax/libajax.la ../plplot/libeplplot.la -lX11 -lm | |
| /bin/sh ../libtool --tag=CC --mode=link /usr/bin/gcc-4.2 -O2 -arch x86_64 -L/opt/local/lib -o acdpretty acdpretty.o ../nucleus/libnucleus.la ../ajax/libajaxg.la ../ajax/libajax.la ../plplot/libeplplot.la -lX11 -lm | |
| /usr/bin/gcc-4.2 -O2 -arch x86_64 -o .libs/acdc acdc.o -L/opt/local/lib ../nucleus/.libs/libnucleus.dylib ../ajax/.libs/libajaxg.dylib ../ajax/.libs/libajax.dylib ../plplot/.libs/libeplplot.dylib /opt/local/lib/libX11.dylib /opt/local/lib/libXau.dylib /opt/local/lib/libXdmcp.dylib -lm | |
| /usr/bin/gcc-4.2 -O2 -arch x86_64 -o .libs/acdpretty acdpretty.o -L/opt/local/lib ../nucleus/.libs/libnucleus.dylib ../ajax/.libs/libajaxg.dylib ../ajax/.libs/libajax.dylib ../plplot/.libs/libeplplot.dylib /opt/local/lib/libX11.dylib /opt/local/lib/libXau.dylib /opt/local/lib/libXdmcp.dylib -lm | |
| creating acdc | |
| creating acdpretty | |
| #=================================================== | |
| And so on and so on - far too much output for a gist | |
| #=================================================== |
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