------------------------------------------------------------------------------- -- Phase: setup ------------------------------------------------------------------------------- Installing /packages/All/indexinfo-0.3.1.txz Installing /packages/All/gettext-runtime-0.21.txz Installing /packages/All/gmake-4.3_2.txz Installing /packages/All/libobjc2-2.1_2.txz ===== Message from libobjc2-2.1_2: -- ===> NOTICE: The libobjc2 port currently does not have a maintainer. As a result, it is more likely to have unresolved issues, not be up-to-date, or even be removed in the future. To volunteer to maintain this port, please create an issue at: https://bugs.freebsd.org/bugzilla More information about port maintainership is available at: https://www.freebsd.org/doc/en/articles/contributing/ports-contributing.html#maintain-port Installing /packages/All/gnustep-make-2.7.0_3.txz ===== Message from gnustep-make-2.7.0_3: -- ===> NOTICE: The gnustep-make port currently does not have a maintainer. As a result, it is more likely to have unresolved issues, not be up-to-date, or even be removed in the future. To volunteer to maintain this port, please create an issue at: https://bugs.freebsd.org/bugzilla More information about port maintainership is available at: https://www.freebsd.org/doc/en/articles/contributing/ports-contributing.html#maintain-port Installing /packages/All/ncurses-6.2.20200831.txz Installing /packages/All/libedit-3.1.20191231,1.txz Installing /packages/All/libxml2-2.9.10.txz Installing /packages/All/libffi-3.3_1.txz Installing /packages/All/expat-2.2.8.txz Installing /packages/All/readline-8.0.4.txz Installing /packages/All/openssl-1.1.1g,1.txz Installing /packages/All/python37-3.7.9.txz ===== Message from python37-3.7.9: -- Note that some standard Python modules are provided as separate ports as they require additional dependencies. They are available as: py37-gdbm databases/py-gdbm@py37 py37-sqlite3 databases/py-sqlite3@py37 py37-tkinter x11-toolkits/py-tkinter@py37 Installing /packages/All/perl5-5.32.0.txz Installing /packages/All/llvm80-8.0.1_4.txz Installing /packages/All/giflib-5.2.1.txz Installing /packages/All/jbigkit-2.1_1.txz Installing /packages/All/jpeg-turbo-2.0.4.txz Installing /packages/All/tiff-4.1.0.txz Installing /packages/All/freetype2-2.10.2.txz ===== Message from freetype2-2.10.2: -- The 2.7.x series now uses the new subpixel hinting mode (V40 port's option) as the default, emulating a modern version of ClearType. This change inevitably leads to different rendering results, and you might change port's options to adapt it to your taste (or use the new "FREETYPE_PROPERTIES" environment variable). The environment variable "FREETYPE_PROPERTIES" can be used to control the driver properties. Example: FREETYPE_PROPERTIES=truetype:interpreter-version=35 \ cff:no-stem-darkening=1 \ autofitter:warping=1 This allows to select, say, the subpixel hinting mode at runtime for a given application. If LONG_PCF_NAMES port's option was enabled, the PCF family names may include the foundry and information whether they contain wide characters. For example, "Sony Fixed" or "Misc Fixed Wide", instead of "Fixed". This can be disabled at run time with using pcf:no-long-family-names property, if needed. Example: FREETYPE_PROPERTIES=pcf:no-long-family-names=1 How to recreate fontconfig cache with using such environment variable, if needed: # env FREETYPE_PROPERTIES=pcf:no-long-family-names=1 fc-cache -fsv The controllable properties are listed in the section "Controlling FreeType Modules" in the reference's table of contents (/usr/local/share/doc/freetype2/reference/site/index.html, if documentation was installed). Installing /packages/All/fontconfig-2.13.92_2,1.txz Running fc-cache to build fontconfig cache... Font directories: /usr/local/share/fonts /usr/local/lib/X11/fonts /usr/local/share/fonts: skipping, no such directory /usr/local/lib/X11/fonts: skipping, no such directory /var/db/fontconfig: cleaning cache directory fc-cache: succeeded Installing /packages/All/libpthread-stubs-0.4.txz Installing /packages/All/libXau-1.0.9.txz Installing /packages/All/xorgproto-2020.1.txz Installing /packages/All/libXdmcp-1.1.3.txz Installing /packages/All/libxcb-1.13.1.txz Installing /packages/All/libX11-1.6.12,1.txz Installing /packages/All/libXrender-0.9.10_2.txz Installing /packages/All/libXft-2.3.3.txz Installing /packages/All/png-1.6.37.txz Installing /packages/All/pcre-8.44.txz Installing /packages/All/libiconv-1.16.txz Installing /packages/All/glib-2.56.3_9,1.txz No schema files found: doing nothing. Installing /packages/All/pixman-0.40.0_1.txz Installing /packages/All/libXext-1.3.4,1.txz Installing /packages/All/cairo-1.16.0,2.txz Installing /packages/All/wayland-1.18.0.txz Installing /packages/All/pciids-20200819.txz Installing /packages/All/libpciaccess-0.16.txz Installing /packages/All/libdrm-2.4.101.txz Installing /packages/All/libXfixes-5.0.3_2.txz Installing /packages/All/libXdamage-1.1.5.txz Installing /packages/All/libxshmfence-1.3.txz Installing /packages/All/libXxf86vm-1.1.4_3.txz Installing /packages/All/libXrandr-1.5.2.txz Installing /packages/All/mesa-libs-19.0.8_2.txz Installing /packages/All/libgpg-error-1.39.txz Installing /packages/All/libgcrypt-1.8.5.txz Installing /packages/All/libxslt-1.1.34_1.txz Installing /packages/All/gmp-6.2.0.txz Installing /packages/All/nettle-3.6.txz Installing /packages/All/libtasn1-4.16.0.txz Installing /packages/All/libunistring-0.9.10_1.txz Installing /packages/All/libidn2-2.3.0_1.txz Installing /packages/All/ca_root_nss-3.56.txz ===== Message from ca_root_nss-3.56: -- FreeBSD does not, and can not warrant that the certification authorities whose certificates are included in this package have in any way been audited for trustworthiness or RFC 3647 compliance. Assessment and verification of trust is the complete responsibility of the system administrator. This package installs symlinks to support root certificates discovery by default for software that uses OpenSSL. This enables SSL Certificate Verification by client software without manual intervention. If you prefer to do this manually, replace the following symlinks with either an empty file or your site-local certificate bundle. * /etc/ssl/cert.pem * /usr/local/etc/ssl/cert.pem * /usr/local/openssl/cert.pem Installing /packages/All/bash-5.0.18_3.txz Installing /packages/All/bash-completion-2.11,2.txz ===== Message from bash-completion-2.11,2: -- To enable the bash completion library, add the following to your .bashrc file: [[ $PS1 && -f /usr/local/share/bash-completion/bash_completion.sh ]] && \ source /usr/local/share/bash-completion/bash_completion.sh See /usr/local/share/doc/bash-completion/README.md for more information. Installing /packages/All/p11-kit-0.23.21.txz Installing /packages/All/tpm-emulator-0.7.4_2.txz ===> Creating groups. Creating group '_tss' with gid '601'. ===> Creating users Creating user '_tss' with uid '601'. Installing /packages/All/trousers-0.3.14_3.txz ===> Creating groups. Using existing group '_tss'. ===> Creating users Using existing user '_tss'. ===== Message from trousers-0.3.14_3: -- To run tcsd automatically, add the following line to /etc/rc.conf: tcsd_enable="YES" You might want to edit /usr/local/etc/tcsd.conf to reflect your setup. If you want to use tcsd with software TPM emulator, use the following configuration in /etc/rc.conf: tcsd_enable="YES" tcsd_mode="emulator" tpmd_enable="YES" To use TPM, add your_account to '_tss' group like following: # pw groupmod _tss -m your_account Installing /packages/All/gnutls-3.6.15.txz Installing /packages/All/icu-67.1,1.txz Installing /packages/All/libdaemon-0.14_1.txz Installing /packages/All/libICE-1.0.10,1.txz Installing /packages/All/libSM-1.2.3,1.txz Installing /packages/All/dbus-1.12.20.txz ===> Creating groups. Creating group 'messagebus' with gid '556'. ===> Creating users Creating user 'messagebus' with uid '556'. Installing /packages/All/dbus-glib-0.110.txz Installing /packages/All/gdbm-1.18.1_1.txz Installing /packages/All/gobject-introspection-1.56.1_1,1.txz Installing /packages/All/gnome_subr-1.0.txz Installing /packages/All/avahi-app-0.7_3.txz ===> Creating groups. Creating group 'avahi' with gid '558'. ===> Creating users Creating user 'avahi' with uid '558'. Installing /packages/All/gnustep-base-1.26.0_6.txz ===== Message from gnustep-base-1.26.0_6: -- ===> NOTICE: The gnustep-base port currently does not have a maintainer. As a result, it is more likely to have unresolved issues, not be up-to-date, or even be removed in the future. To volunteer to maintain this port, please create an issue at: https://bugs.freebsd.org/bugzilla More information about port maintainership is available at: https://www.freebsd.org/doc/en/articles/contributing/ports-contributing.html#maintain-port Installing /packages/All/libogg-1.3.4,4.txz Installing /packages/All/flac-1.3.3.txz Installing /packages/All/opus-1.3.1.txz Installing /packages/All/libvorbis-1.3.7_2,3.txz Installing /packages/All/libsndfile-1.0.29.p.20200620.txz Installing /packages/All/libao-1.2.0_5.txz Installing /packages/All/flite-2.1.txz Installing /packages/All/libpaper-1.1.24.4.txz Installing /packages/All/cups-2.3.3_1.txz ===> Creating groups. Creating group 'cups' with gid '193'. ===> Creating users Creating user 'cups' with uid '193'. Installing /packages/All/libXt-1.2.0,1.txz Installing /packages/All/gnustep-gui-0.27.0_5.txz ===== Message from gnustep-gui-0.27.0_5: -- ===> NOTICE: The gnustep-gui port currently does not have a maintainer. As a result, it is more likely to have unresolved issues, not be up-to-date, or even be removed in the future. To volunteer to maintain this port, please create an issue at: https://bugs.freebsd.org/bugzilla More information about port maintainership is available at: https://www.freebsd.org/doc/en/articles/contributing/ports-contributing.html#maintain-port Installing /packages/All/libXmu-1.1.3,1.txz Installing /packages/All/libXcursor-1.2.0.txz Installing /packages/All/gnustep-back-0.27.0.txz ===== Message from gnustep-back-0.27.0: -- ===> NOTICE: The gnustep-back port currently does not have a maintainer. As a result, it is more likely to have unresolved issues, not be up-to-date, or even be removed in the future. To volunteer to maintain this port, please create an issue at: https://bugs.freebsd.org/bugzilla More information about port maintainership is available at: https://www.freebsd.org/doc/en/articles/contributing/ports-contributing.html#maintain-port SUCCEEDED 00:00:50 ------------------------------------------------------------------------------- -- Phase: check-sanity ------------------------------------------------------------------------------- ===> NOTICE: The biococoa port currently does not have a maintainer. As a result, it is more likely to have unresolved issues, not be up-to-date, or even be removed in the future. To volunteer to maintain this port, please create an issue at: https://bugs.freebsd.org/bugzilla More information about port maintainership is available at: https://www.freebsd.org/doc/en/articles/contributing/ports-contributing.html#maintain-port SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: pkg-depends ------------------------------------------------------------------------------- ===> biococoa-2.2.2_6 depends on file: /usr/local/sbin/pkg - found SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: fetch-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: fetch ------------------------------------------------------------------------------- ===> NOTICE: The biococoa port currently does not have a maintainer. As a result, it is more likely to have unresolved issues, not be up-to-date, or even be removed in the future. To volunteer to maintain this port, please create an issue at: https://bugs.freebsd.org/bugzilla More information about port maintainership is available at: https://www.freebsd.org/doc/en/articles/contributing/ports-contributing.html#maintain-port ===> biococoa-2.2.2_6 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by biococoa-2.2.2_6 for building SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: checksum ------------------------------------------------------------------------------- ===> NOTICE: The biococoa port currently does not have a maintainer. As a result, it is more likely to have unresolved issues, not be up-to-date, or even be removed in the future. To volunteer to maintain this port, please create an issue at: https://bugs.freebsd.org/bugzilla More information about port maintainership is available at: https://www.freebsd.org/doc/en/articles/contributing/ports-contributing.html#maintain-port ===> biococoa-2.2.2_6 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by biococoa-2.2.2_6 for building => SHA256 Checksum OK for biococoa-2.2.2-src.tgz. SUCCEEDED 00:00:01 ------------------------------------------------------------------------------- -- Phase: extract-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: extract ------------------------------------------------------------------------------- ===> NOTICE: The biococoa port currently does not have a maintainer. As a result, it is more likely to have unresolved issues, not be up-to-date, or even be removed in the future. To volunteer to maintain this port, please create an issue at: https://bugs.freebsd.org/bugzilla More information about port maintainership is available at: https://www.freebsd.org/doc/en/articles/contributing/ports-contributing.html#maintain-port ===> biococoa-2.2.2_6 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by biococoa-2.2.2_6 for building ===> Extracting for biococoa-2.2.2_6 => SHA256 Checksum OK for biococoa-2.2.2-src.tgz. Extracted Memory Use: 1.97M SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: patch-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: patch ------------------------------------------------------------------------------- ===> Patching for biococoa-2.2.2_6 SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: build-depends ------------------------------------------------------------------------------- ===> biococoa-2.2.2_6 depends on package: gmake>=4.3 - found ===> biococoa-2.2.2_6 depends on package: gnustep-make>0 - found ===> biococoa-2.2.2_6 depends on file: /usr/local/bin/clang80 - found ===> biococoa-2.2.2_6 depends on package: gnustep-back>0 - found SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: lib-depends ------------------------------------------------------------------------------- ===> biococoa-2.2.2_6 depends on shared library: libobjc.so.4.6 - found (/usr/local/lib/libobjc.so.4.6) SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: configure ------------------------------------------------------------------------------- ===> biococoa-2.2.2_6 depends on package: gmake>=4.3 - found ===> biococoa-2.2.2_6 depends on package: gnustep-make>0 - found ===> biococoa-2.2.2_6 depends on file: /usr/local/bin/clang80 - found ===> biococoa-2.2.2_6 depends on package: gnustep-back>0 - found ===> biococoa-2.2.2_6 depends on shared library: libobjc.so.4.6 - found (/usr/local/lib/libobjc.so.4.6) ===> Configuring for biococoa-2.2.2_6 SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: build ------------------------------------------------------------------------------- ===> Building for biococoa-2.2.2_6 gmake[1]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2' This is gnustep-make 2.7.0. Type 'gmake print-gnustep-make-help' for help. Running in gnustep-make version 2 strict mode. Making build-headers in subprojects of framework BioCocoa... gmake[2]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation' Making build-headers in subprojects of subproject BCFoundation... gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCAlignment' Making build-headers for subproject BCAlignment... /usr/local/GNUstep/System/Library/Makefiles/mkinstalldirs ../../BioCocoa.framework/Versions/2/Headers install -c BCPairwiseAlignment.h ../../BioCocoa.framework/Versions/2/Headers/BCPairwiseAlignment.h install -c BCScoreMatrix.h ../../BioCocoa.framework/Versions/2/Headers/BCScoreMatrix.h install -c BCSequenceAlignment.h ../../BioCocoa.framework/Versions/2/Headers/BCSequenceAlignment.h gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCAlignment' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCAnalysis' Making build-headers for subproject BCAnalysis... install -c BCMCP.h ../../BioCocoa.framework/Versions/2/Headers/BCMCP.h install -c BCSuffixArray.h ../../BioCocoa.framework/Versions/2/Headers/BCSuffixArray.h gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCAnalysis' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCGeneExpression' Making build-headers for subproject BCGeneExpression... install -c BCSeries.h ../../BioCocoa.framework/Versions/2/Headers/BCSeries.h install -c BCSample.h ../../BioCocoa.framework/Versions/2/Headers/BCSample.h install -c BCPlatform.h ../../BioCocoa.framework/Versions/2/Headers/BCPlatform.h install -c BCParseSOFT.h ../../BioCocoa.framework/Versions/2/Headers/BCParseSOFT.h gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCGeneExpression' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCGeneticCode' Making build-headers for subproject BCGeneticCode... install -c BCCodonDNA.h ../../BioCocoa.framework/Versions/2/Headers/BCCodonDNA.h install -c BCCodon.h ../../BioCocoa.framework/Versions/2/Headers/BCCodon.h install -c BCCodonRNA.h ../../BioCocoa.framework/Versions/2/Headers/BCCodonRNA.h install -c BCGeneticCode.h ../../BioCocoa.framework/Versions/2/Headers/BCGeneticCode.h gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCGeneticCode' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCProteinStructure' Making build-headers for subproject BCProteinStructure... install -c BCAtom.h ../../BioCocoa.framework/Versions/2/Headers/BCAtom.h install -c BCProteinStructure.h ../../BioCocoa.framework/Versions/2/Headers/BCProteinStructure.h install -c BCSecondaryStructure.h ../../BioCocoa.framework/Versions/2/Headers/BCSecondaryStructure.h install -c BCChain.h ../../BioCocoa.framework/Versions/2/Headers/BCChain.h install -c BCResidue.h ../../BioCocoa.framework/Versions/2/Headers/BCResidue.h install -c BCSequenceStructure.h ../../BioCocoa.framework/Versions/2/Headers/BCSequenceStructure.h gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCProteinStructure' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCSequence' Making build-headers for subproject BCSequence... install -c BCAnnotation.h ../../BioCocoa.framework/Versions/2/Headers/BCAnnotation.h install -c BCSequence.h ../../BioCocoa.framework/Versions/2/Headers/BCSequence.h install -c BCSequenceArray.h ../../BioCocoa.framework/Versions/2/Headers/BCSequenceArray.h install -c BCSequenceCodon.h ../../BioCocoa.framework/Versions/2/Headers/BCSequenceCodon.h gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCSequence' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCSequenceIO' Making build-headers for subproject BCSequenceIO... install -c BCSequenceReader.h ../../BioCocoa.framework/Versions/2/Headers/BCSequenceReader.h install -c BCSequenceWriter.h ../../BioCocoa.framework/Versions/2/Headers/BCSequenceWriter.h install -c BCCachedSequenceFile.h ../../BioCocoa.framework/Versions/2/Headers/BCCachedSequenceFile.h install -c BCCachedFastaFile.h ../../BioCocoa.framework/Versions/2/Headers/BCCachedFastaFile.h gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCSequenceIO' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCSymbol' Making build-headers for subproject BCSymbol... install -c BCAminoAcid.h ../../BioCocoa.framework/Versions/2/Headers/BCAminoAcid.h install -c BCNucleotide.h ../../BioCocoa.framework/Versions/2/Headers/BCNucleotide.h install -c BCSymbol.h ../../BioCocoa.framework/Versions/2/Headers/BCSymbol.h install -c BCNucleotideDNA.h ../../BioCocoa.framework/Versions/2/Headers/BCNucleotideDNA.h install -c BCNucleotideRNA.h ../../BioCocoa.framework/Versions/2/Headers/BCNucleotideRNA.h install -c BCSymbolSet.h ../../BioCocoa.framework/Versions/2/Headers/BCSymbolSet.h gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCSymbol' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCTools' Making build-headers for subproject BCTools... install -c BCSequenceTool.h ../../BioCocoa.framework/Versions/2/Headers/BCSequenceTool.h install -c BCToolDigest.h ../../BioCocoa.framework/Versions/2/Headers/BCToolDigest.h install -c BCToolHydropathyCalculator.h ../../BioCocoa.framework/Versions/2/Headers/BCToolHydropathyCalculator.h install -c BCToolMassCalculator.h ../../BioCocoa.framework/Versions/2/Headers/BCToolMassCalculator.h install -c BCToolComplement.h ../../BioCocoa.framework/Versions/2/Headers/BCToolComplement.h install -c BCToolSequenceFinder.h ../../BioCocoa.framework/Versions/2/Headers/BCToolSequenceFinder.h install -c BCToolSymbolCounter.h ../../BioCocoa.framework/Versions/2/Headers/BCToolSymbolCounter.h install -c BCToolTranslator.h ../../BioCocoa.framework/Versions/2/Headers/BCToolTranslator.h install -c BCToolTranslatorDNA.h ../../BioCocoa.framework/Versions/2/Headers/BCToolTranslatorDNA.h gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCTools' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCUtils' Making build-headers for subproject BCUtils... install -c BCDataMatrix.h ../../BioCocoa.framework/Versions/2/Headers/BCDataMatrix.h install -c BCUtilData.h ../../BioCocoa.framework/Versions/2/Headers/BCUtilData.h install -c BCUtilStrings.h ../../BioCocoa.framework/Versions/2/Headers/BCUtilStrings.h gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCUtils' Making build-headers for subproject BCFoundation... install -c BCFoundation.h ../BioCocoa.framework/Versions/2/Headers/BCFoundation.h install -c BCFoundationDefines.h ../BioCocoa.framework/Versions/2/Headers/BCFoundationDefines.h install -c BCStringDefinitions.h ../BioCocoa.framework/Versions/2/Headers/BCStringDefinitions.h install -c BCPreferences.h ../BioCocoa.framework/Versions/2/Headers/BCPreferences.h gmake[2]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation' Making build-headers for framework BioCocoa... /usr/local/GNUstep/System/Library/Makefiles/mkinstalldirs ./derived_src; \ touch derived_src/.stamp /usr/local/GNUstep/System/Library/Makefiles/mkinstalldirs BioCocoa.framework/Versions/2/Resources cd ./BioCocoa.framework/Versions; \ rm -f Current; \ ln -s 2 Current cd ./BioCocoa.framework; \ if [ ! -h "Resources" ]; then \ rm -f Resources; \ ln -s Versions/Current/Resources Resources; \ fi; \ if [ ! -h "Headers" ]; then \ rm -f Headers; \ ln -s Versions/Current/Headers Headers; \ fi cd ./derived_src; \ if [ ! -h "BioCocoa" ]; then \ rm -f ./BioCocoa; \ ln -s ../BioCocoa.framework/Headers \ ./BioCocoa; \ fi cd .; \ /usr/local/GNUstep/System/Library/Makefiles/mkinstalldirs ./obj Making all in subprojects of framework BioCocoa... gmake[2]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation' cd .; \ /usr/local/GNUstep/System/Library/Makefiles/mkinstalldirs ./obj Making all in subprojects of subproject BCFoundation... gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCAlignment' cd .; \ /usr/local/GNUstep/System/Library/Makefiles/mkinstalldirs ./obj Making all for subproject BCAlignment... cd .; \ /usr/local/GNUstep/System/Library/Makefiles/mkinstalldirs ./obj/BCAlignment.obj/ /usr/local/bin/clang80 BCPairwiseAlignment.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCAlignment.obj/BCPairwiseAlignment.m.o /usr/local/bin/clang80 BCScoreMatrix.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCAlignment.obj/BCScoreMatrix.m.o /usr/local/bin/clang80 BCSequenceAlignment.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCAlignment.obj/BCSequenceAlignment.m.o /usr/local/bin/clang80 -nostdlib -Wl,-r -L/usr/local/lib -pthread -fexceptions -o ./obj/subproject.o obj/BCAlignment.obj/BCPairwiseAlignment.m.o obj/BCAlignment.obj/BCScoreMatrix.m.o obj/BCAlignment.obj/BCSequenceAlignment.m.o ; clang-8: warning: argument unused during compilation: '-pthread' [-Wunused-command-line-argument] gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCAlignment' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCAnalysis' cd .; \ /usr/local/GNUstep/System/Library/Makefiles/mkinstalldirs ./obj Making all for subproject BCAnalysis... cd .; \ /usr/local/GNUstep/System/Library/Makefiles/mkinstalldirs ./obj/BCAnalysis.obj/ /usr/local/bin/clang80 BCMCP.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCAnalysis.obj/BCMCP.m.o /usr/local/bin/clang80 BCSuffixArray.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCAnalysis.obj/BCSuffixArray.m.o BCSuffixArray.m:644:26: warning: expression which evaluates to zero treated as a null pointer constant of type 'BCSuffixArray *' [-Wnon-literal-null-conversion] if (!aSequence) return NO; ^~ /usr/local/include/objc/runtime.h:196:13: note: expanded from macro 'NO' # define NO ((BOOL)0) ^~~~~~~~~ 1 warning generated. /usr/local/bin/clang80 -nostdlib -Wl,-r -L/usr/local/lib -pthread -fexceptions -o ./obj/subproject.o obj/BCAnalysis.obj/BCMCP.m.o obj/BCAnalysis.obj/BCSuffixArray.m.o ; clang-8: warning: argument unused during compilation: '-pthread' [-Wunused-command-line-argument] gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCAnalysis' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCGeneExpression' cd .; \ /usr/local/GNUstep/System/Library/Makefiles/mkinstalldirs ./obj Making all for subproject BCGeneExpression... cd .; \ /usr/local/GNUstep/System/Library/Makefiles/mkinstalldirs ./obj/BCGeneExpression.obj/ /usr/local/bin/clang80 BCSeries.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCGeneExpression.obj/BCSeries.m.o /usr/local/bin/clang80 BCSample.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCGeneExpression.obj/BCSample.m.o /usr/local/bin/clang80 BCPlatform.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCGeneExpression.obj/BCPlatform.m.o /usr/local/bin/clang80 BCParseSOFT.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCGeneExpression.obj/BCParseSOFT.m.o BCParseSOFT.m:259:61: warning: format specifies type 'int' but the argument has type 'NSUInteger' (aka 'unsigned long') [-Wformat] ...probe set columns %d != %d entries\n", [probeSetColumns count], [f count]); ~~ ^~~~~~~~~~~~~~~~~~~~~~~ %lu BCParseSOFT.m:259:86: warning: format specifies type 'int' but the argument has type 'NSUInteger' (aka 'unsigned long') [-Wformat] ...set columns %d != %d entries\n", [probeSetColumns count], [f count]); ~~ ^~~~~~~~~ %lu BCParseSOFT.m:332:63: warning: format specifies type 'int' but the argument has type 'NSUInteger' (aka 'unsigned long') [-Wformat] ...sample data columns %d != %d entries\n", [sampleSetColumns count], [f co... ~~ ^~~~~~~~~~~~~~~~~~~~~~~~ %lu BCParseSOFT.m:332:89: warning: format specifies type 'int' but the argument has type 'NSUInteger' (aka 'unsigned long') [-Wformat] ...data columns %d != %d entries\n", [sampleSetColumns count], [f count]); ~~ ^~~~~~~~~ %lu 4 warnings generated. /usr/local/bin/clang80 -nostdlib -Wl,-r -L/usr/local/lib -pthread -fexceptions -o ./obj/subproject.o obj/BCGeneExpression.obj/BCSeries.m.o obj/BCGeneExpression.obj/BCSample.m.o obj/BCGeneExpression.obj/BCPlatform.m.o obj/BCGeneExpression.obj/BCParseSOFT.m.o ; clang-8: warning: argument unused during compilation: '-pthread' [-Wunused-command-line-argument] gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCGeneExpression' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCGeneticCode' cd .; \ /usr/local/GNUstep/System/Library/Makefiles/mkinstalldirs ./obj Making all for subproject BCGeneticCode... cd .; \ /usr/local/GNUstep/System/Library/Makefiles/mkinstalldirs ./obj/BCGeneticCode.obj/ /usr/local/bin/clang80 BCCodonDNA.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCGeneticCode.obj/BCCodonDNA.m.o /usr/local/bin/clang80 BCCodon.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCGeneticCode.obj/BCCodon.m.o /usr/local/bin/clang80 BCCodonRNA.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCGeneticCode.obj/BCCodonRNA.m.o /usr/local/bin/clang80 BCGeneticCode.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCGeneticCode.obj/BCGeneticCode.m.o /usr/local/bin/clang80 -nostdlib -Wl,-r -L/usr/local/lib -pthread -fexceptions -o ./obj/subproject.o obj/BCGeneticCode.obj/BCCodonDNA.m.o obj/BCGeneticCode.obj/BCCodon.m.o obj/BCGeneticCode.obj/BCCodonRNA.m.o obj/BCGeneticCode.obj/BCGeneticCode.m.o ; clang-8: warning: argument unused during compilation: '-pthread' [-Wunused-command-line-argument] gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCGeneticCode' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCProteinStructure' cd .; \ /usr/local/GNUstep/System/Library/Makefiles/mkinstalldirs ./obj Making all for subproject BCProteinStructure... cd .; \ /usr/local/GNUstep/System/Library/Makefiles/mkinstalldirs ./obj/BCProteinStructure.obj/ /usr/local/bin/clang80 BCAtom.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCProteinStructure.obj/BCAtom.m.o /usr/local/bin/clang80 BCProteinStructure.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCProteinStructure.obj/BCProteinStructure.m.o /usr/local/bin/clang80 BCSecondaryStructure.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCProteinStructure.obj/BCSecondaryStructure.m.o /usr/local/bin/clang80 BCChain.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCProteinStructure.obj/BCChain.m.o /usr/local/bin/clang80 BCResidue.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCProteinStructure.obj/BCResidue.m.o /usr/local/bin/clang80 BCSequenceStructure.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCProteinStructure.obj/BCSequenceStructure.m.o /usr/local/bin/clang80 -nostdlib -Wl,-r -L/usr/local/lib -pthread -fexceptions -o ./obj/subproject.o obj/BCProteinStructure.obj/BCAtom.m.o obj/BCProteinStructure.obj/BCProteinStructure.m.o obj/BCProteinStructure.obj/BCSecondaryStructure.m.o obj/BCProteinStructure.obj/BCChain.m.o obj/BCProteinStructure.obj/BCResidue.m.o obj/BCProteinStructure.obj/BCSequenceStructure.m.o ; clang-8: warning: argument unused during compilation: '-pthread' [-Wunused-command-line-argument] gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCProteinStructure' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCSequence' cd .; \ /usr/local/GNUstep/System/Library/Makefiles/mkinstalldirs ./obj Making all for subproject BCSequence... cd .; \ /usr/local/GNUstep/System/Library/Makefiles/mkinstalldirs ./obj/BCSequence.obj/ /usr/local/bin/clang80 BCAnnotation.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCSequence.obj/BCAnnotation.m.o /usr/local/bin/clang80 BCSequence.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCSequence.obj/BCSequence.m.o /usr/local/bin/clang80 BCSequenceArray.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCSequence.obj/BCSequenceArray.m.o /usr/local/bin/clang80 BCSequenceCodon.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCSequence.obj/BCSequenceCodon.m.o /usr/local/bin/clang80 -nostdlib -Wl,-r -L/usr/local/lib -pthread -fexceptions -o ./obj/subproject.o obj/BCSequence.obj/BCAnnotation.m.o obj/BCSequence.obj/BCSequence.m.o obj/BCSequence.obj/BCSequenceArray.m.o obj/BCSequence.obj/BCSequenceCodon.m.o ; clang-8: warning: argument unused during compilation: '-pthread' [-Wunused-command-line-argument] gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCSequence' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCSequenceIO' cd .; \ /usr/local/GNUstep/System/Library/Makefiles/mkinstalldirs ./obj Making all for subproject BCSequenceIO... cd .; \ /usr/local/GNUstep/System/Library/Makefiles/mkinstalldirs ./obj/BCSequenceIO.obj/ /usr/local/bin/clang80 BCSequenceReader.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCSequenceIO.obj/BCSequenceReader.m.o /usr/local/bin/clang80 BCSequenceWriter.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCSequenceIO.obj/BCSequenceWriter.m.o /usr/local/bin/clang80 BCCachedSequenceFile.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCSequenceIO.obj/BCCachedSequenceFile.m.o /usr/local/bin/clang80 BCCachedFastaFile.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCSequenceIO.obj/BCCachedFastaFile.m.o BCSequenceReader.m:167:63: warning: instance method '-initWithRTF:documentAttributes:' not found (return type defaults to 'id') [-Wobjc-method-access] ...initWithRTF: [entryString dataUsingEncoding: NSUTF8StringEncoding] documentAttributes... ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/local/GNUstep/System/Library/Headers/Foundation/NSAttributedString.h:64:12: note: receiver is instance of class declared here @interface NSAttributedString : NSObject ^ BCSequenceReader.m:798:48: warning: incompatible pointer types sending 'id' to parameter of type 'NSString **' [-Wincompatible-pointer-types] [lineScanner scanUpToString:@" " intoString: nil]; ^~~ /usr/local/include/objc/runtime.h:212:14: note: expanded from macro 'nil' # define nil ((id)_OBJC_NULL_PTR) ^~~~~~~~~~~~~~~~~~~~ /usr/local/GNUstep/System/Library/Headers/Foundation/NSScanner.h:102:68: note: passing argument to parameter 'value' here - (BOOL) scanUpToString: (NSString*)string intoString: (NSString**)value; ^ BCSequenceReader.m:830:12: warning: using 'stringWithString:' with a literal is redundant [-Wobjc-redundant-literal-use] ...name = [NSString stringWithString: @"alignment"]; ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ BCCachedFastaFile.m:126:71: warning: format specifies type 'unsigned long' but the argument has type 'unsigned long long' [-Wformat] NSLog(@"Attempting to read past end of forward stand: (%lu)\n", aPos); ~~~ ^~~~ %llu BCCachedFastaFile.m:133:72: warning: format specifies type 'unsigned long' but the argument has type 'unsigned long long' [-Wformat] NSLog(@"Attempting to read past end of reverse strand: (%lu)\n", aPos); ~~~ ^~~~ %llu 2 warnings generated. 3 warnings generated. /usr/local/bin/clang80 -nostdlib -Wl,-r -L/usr/local/lib -pthread -fexceptions -o ./obj/subproject.o obj/BCSequenceIO.obj/BCSequenceReader.m.o obj/BCSequenceIO.obj/BCSequenceWriter.m.o obj/BCSequenceIO.obj/BCCachedSequenceFile.m.o obj/BCSequenceIO.obj/BCCachedFastaFile.m.o ; clang-8: warning: argument unused during compilation: '-pthread' [-Wunused-command-line-argument] gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCSequenceIO' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCSymbol' cd .; \ /usr/local/GNUstep/System/Library/Makefiles/mkinstalldirs ./obj Making all for subproject BCSymbol... cd .; \ /usr/local/GNUstep/System/Library/Makefiles/mkinstalldirs ./obj/BCSymbol.obj/ /usr/local/bin/clang80 BCAminoAcid.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCSymbol.obj/BCAminoAcid.m.o /usr/local/bin/clang80 BCNucleotide.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCSymbol.obj/BCNucleotide.m.o /usr/local/bin/clang80 BCSymbol.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCSymbol.obj/BCSymbol.m.o /usr/local/bin/clang80 BCNucleotideDNA.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCSymbol.obj/BCNucleotideDNA.m.o /usr/local/bin/clang80 BCNucleotideRNA.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCSymbol.obj/BCNucleotideRNA.m.o /usr/local/bin/clang80 BCSymbolSet.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCSymbol.obj/BCSymbolSet.m.o BCNucleotideRNA.m:454:43: warning: 'BCNucleotideRNA' may not respond to 'initWithDictionary:' aBase = [[[BCNucleotideRNA alloc] initWithDictionary: aBase] aut... ~~~~~~~~~~~~~~~~~~~~~~~ ^ BCNucleotideDNA.m:445:43: warning: 'BCNucleotideDNA' may not respond to 'initWithDictionary:' aBase = [[[BCNucleotideDNA alloc] initWithDictionary: aBase] aut... ~~~~~~~~~~~~~~~~~~~~~~~ ^ 1 warning generated. 1 warning generated. /usr/local/bin/clang80 -nostdlib -Wl,-r -L/usr/local/lib -pthread -fexceptions -o ./obj/subproject.o obj/BCSymbol.obj/BCAminoAcid.m.o obj/BCSymbol.obj/BCNucleotide.m.o obj/BCSymbol.obj/BCSymbol.m.o obj/BCSymbol.obj/BCNucleotideDNA.m.o obj/BCSymbol.obj/BCNucleotideRNA.m.o obj/BCSymbol.obj/BCSymbolSet.m.o ; clang-8: warning: argument unused during compilation: '-pthread' [-Wunused-command-line-argument] gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCSymbol' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCTools' cd .; \ /usr/local/GNUstep/System/Library/Makefiles/mkinstalldirs ./obj Making all for subproject BCTools... cd .; \ /usr/local/GNUstep/System/Library/Makefiles/mkinstalldirs ./obj/BCTools.obj/ /usr/local/bin/clang80 BCSequenceTool.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCTools.obj/BCSequenceTool.m.o /usr/local/bin/clang80 BCToolDigest.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCTools.obj/BCToolDigest.m.o /usr/local/bin/clang80 BCToolHydropathyCalculator.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCTools.obj/BCToolHydropathyCalculator.m.o /usr/local/bin/clang80 BCToolMassCalculator.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCTools.obj/BCToolMassCalculator.m.o /usr/local/bin/clang80 BCToolComplement.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCTools.obj/BCToolComplement.m.o /usr/local/bin/clang80 BCToolSequenceFinder.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCTools.obj/BCToolSequenceFinder.m.o /usr/local/bin/clang80 BCToolSymbolCounter.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCTools.obj/BCToolSymbolCounter.m.o /usr/local/bin/clang80 BCToolTranslator.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCTools.obj/BCToolTranslator.m.o /usr/local/bin/clang80 BCToolTranslatorDNA.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCTools.obj/BCToolTranslatorDNA.m.o /usr/local/bin/clang80 -nostdlib -Wl,-r -L/usr/local/lib -pthread -fexceptions -o ./obj/subproject.o obj/BCTools.obj/BCSequenceTool.m.o obj/BCTools.obj/BCToolDigest.m.o obj/BCTools.obj/BCToolHydropathyCalculator.m.o obj/BCTools.obj/BCToolMassCalculator.m.o obj/BCTools.obj/BCToolComplement.m.o obj/BCTools.obj/BCToolSequenceFinder.m.o obj/BCTools.obj/BCToolSymbolCounter.m.o obj/BCTools.obj/BCToolTranslator.m.o obj/BCTools.obj/BCToolTranslatorDNA.m.o ; clang-8: warning: argument unused during compilation: '-pthread' [-Wunused-command-line-argument] gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCTools' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCUtils' cd .; \ /usr/local/GNUstep/System/Library/Makefiles/mkinstalldirs ./obj Making all for subproject BCUtils... cd .; \ /usr/local/GNUstep/System/Library/Makefiles/mkinstalldirs ./obj/BCUtils.obj/ /usr/local/bin/clang80 BCDataMatrix.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCUtils.obj/BCDataMatrix.m.o /usr/local/bin/clang80 BCUtilData.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCUtils.obj/BCUtilData.m.o /usr/local/bin/clang80 BCUtilStrings.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I.. -I../BCAnalysis -I../BCGeneticCode -I../BCProteinStructure -I../BCSequence -I../BCSequenceIO -I../BCSymbol -I../BCTools -I../BCTools/BCDigest -I../BCTools/BCSequenceProperty -I../BCTools/BCSequenceTools -I../BCTools/BCTranslation -I../BCUtils -I./../../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCUtils.obj/BCUtilStrings.m.o BCUtilStrings.m:98:23: warning: incompatible pointer types sending 'id' to parameter of type 'int *' [-Wincompatible-pointer-types] if ([scanner scanInt:nil]) ^~~ /usr/local/include/objc/runtime.h:212:14: note: expanded from macro 'nil' # define nil ((id)_OBJC_NULL_PTR) ^~~~~~~~~~~~~~~~~~~~ /usr/local/GNUstep/System/Library/Headers/Foundation/NSScanner.h:94:25: note: passing argument to parameter 'value' here - (BOOL) scanInt: (int*)value; ^ BCUtilStrings.m:100:24: warning: incompatible pointer types sending 'id' to parameter of type 'int *' [-Wincompatible-pointer-types] if ([scanner scanInt:nil]) ^~~ /usr/local/include/objc/runtime.h:212:14: note: expanded from macro 'nil' # define nil ((id)_OBJC_NULL_PTR) ^~~~~~~~~~~~~~~~~~~~ /usr/local/GNUstep/System/Library/Headers/Foundation/NSScanner.h:94:25: note: passing argument to parameter 'value' here - (BOOL) scanInt: (int*)value; ^ 2 warnings generated. BCDataMatrix.m:261:93: warning: format specifies type 'int' but the argument has type 'NSUInteger' (aka 'unsigned long') [-Wformat] ...for data matrix, expected %d items, got %d", expectCols, [a count]); ~~ ^~~~~~~~~ %lu BCDataMatrix.m:341:77: warning: format specifies type 'int' but the argument has type 'NSUInteger' (aka 'unsigned long') [-Wformat] ...list format for data matrix, expected 3 items, got %d", [a count]); ~~ ^~~~~~~~~ %lu 2 warnings generated. /usr/local/bin/clang80 -nostdlib -Wl,-r -L/usr/local/lib -pthread -fexceptions -o ./obj/subproject.o obj/BCUtils.obj/BCDataMatrix.m.o obj/BCUtils.obj/BCUtilData.m.o obj/BCUtils.obj/BCUtilStrings.m.o ; clang-8: warning: argument unused during compilation: '-pthread' [-Wunused-command-line-argument] gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCUtils' Making all for subproject BCFoundation... cd .; \ /usr/local/GNUstep/System/Library/Makefiles/mkinstalldirs ./obj/BCFoundation.obj/ /usr/local/bin/clang80 BCStringDefinitions.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I. -I./BCAnalysis -I./BCGeneticCode -I./BCProteinStructure -I./BCSequence -I./BCSequenceIO -I./BCSymbol -I./BCTools -I./BCTools/BCDigest -I./BCTools/BCSequenceProperty -I./BCTools/BCSequenceTools -I./BCTools/BCTranslation -I./BCUtils -I./../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCFoundation.obj/BCStringDefinitions.m.o /usr/local/bin/clang80 BCPreferences.m -c \ -MMD -MP -Wno-import -Wno-unknown-pragmas -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -fconstant-string-class=NSConstantString -I. -I./BCAnalysis -I./BCGeneticCode -I./BCProteinStructure -I./BCSequence -I./BCSequenceIO -I./BCSymbol -I./BCTools -I./BCTools/BCDigest -I./BCTools/BCSequenceProperty -I./BCTools/BCSequenceTools -I./BCTools/BCTranslation -I./BCUtils -I./../derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers \ -o obj/BCFoundation.obj/BCPreferences.m.o /usr/local/bin/clang80 -nostdlib -Wl,-r -L/usr/local/lib -pthread -fexceptions -o ./obj/subproject.o obj/BCFoundation.obj/BCStringDefinitions.m.o obj/BCFoundation.obj/BCPreferences.m.o BCAlignment/obj/subproject.o BCAnalysis/obj/subproject.o BCGeneExpression/obj/subproject.o BCGeneticCode/obj/subproject.o BCProteinStructure/obj/subproject.o BCSequence/obj/subproject.o BCSequenceIO/obj/subproject.o BCSymbol/obj/subproject.o BCTools/obj/subproject.o BCUtils/obj/subproject.o ; clang-8: warning: argument unused during compilation: '-pthread' [-Wunused-command-line-argument] gmake[2]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation' Making all for framework BioCocoa... cd .; \ /usr/local/GNUstep/System/Library/Makefiles/mkinstalldirs ./obj/BioCocoa.obj/ classes=""; \ for object_file in ./BCFoundation/obj/subproject.o __dummy__; do \ if [ "$object_file" != "__dummy__" ]; then \ sym=`nm -Pg $object_file | sed -n -e '/^__objc_class_name_[A-Za-z0-9_.]* [^U]/ {s/^__objc_class_name_\([A-Za-z0-9_.]*\) [^U].*/\1/p;}'`; \ classes="$classes $sym"; \ fi; \ done; \ classlist=""; \ classarray=""; \ for f in $classes __dummy__ ; do \ if [ "$f" != "__dummy__" ]; then \ if [ "$classlist" = "" ]; then \ classlist="@\"$f\""; \ classarray="(\"$f\""; \ else \ classlist="$classlist, @\"$f\""; \ classarray="$classarray, \"$f\""; \ fi; \ fi; \ done; \ if [ "$classlist" = "" ]; then \ classlist="NULL"; \ classarray="()"; \ else \ classlist="$classlist, NULL"; \ classarray="$classarray)"; \ fi; \ echo "$classarray" > ./derived_src/BioCocoa-class-list; \ echo "#include " > derived_src/NSFramework_BioCocoa.m; \ echo "#include " > derived_src/NSFramework_BioCocoa.m; \ echo "@interface NSFramework_BioCocoa : NSObject" >> derived_src/NSFramework_BioCocoa.m; \ echo "+ (NSString *)frameworkVersion;" >> derived_src/NSFramework_BioCocoa.m; \ echo "+ (NSString *const*)frameworkClasses;" >> derived_src/NSFramework_BioCocoa.m; \ echo "@end" >> derived_src/NSFramework_BioCocoa.m; \ echo "@implementation NSFramework_BioCocoa" >> derived_src/NSFramework_BioCocoa.m; \ echo "+ (NSString *)frameworkVersion { return @\"2\"; }" >> derived_src/NSFramework_BioCocoa.m; \ echo "static NSString *allClasses[] = {$classlist};" >> derived_src/NSFramework_BioCocoa.m; \ echo "+ (NSString *const*)frameworkClasses { return allClasses; }" >> derived_src/NSFramework_BioCocoa.m;\ echo "@end" >> derived_src/NSFramework_BioCocoa.m /usr/local/bin/clang80 derived_src/NSFramework_BioCocoa.m -c -MMD -MP -DGNUSTEP -DGNUSTEP_BASE_LIBRARY=1 -DGNU_GUI_LIBRARY=1 -DGNUSTEP_RUNTIME=1 -D_NONFRAGILE_ABI=1 -DGNUSTEP_BASE_LIBRARY=1 -fno-strict-aliasing -fexceptions -fobjc-exceptions -D_NATIVE_OBJC_EXCEPTIONS -pthread -fPIC -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -Wall -DGSWARN -DGSDIAGNOSE -Wno-import -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fobjc-runtime=gnustep-1.8 -fblocks -pipe -O2 -fno-strict-aliasing -Wno-import -I/usr/local/include -fconstant-string-class=NSConstantString -I./derived_src -I. -I/construction/biology/biococoa/GNUstep/Library/Headers -I/usr/local/GNUstep/Local/Library/Headers -I/usr/local/GNUstep/System/Library/Headers -o obj/BioCocoa.obj/NSFramework_BioCocoa.o \ /usr/local/bin/clang80 -shared -Wl,-soname,libBioCocoa.so.2 -L/usr/local/lib -rdynamic -rdynamic -rdynamic -L/usr/local/lib -pthread -fexceptions -o ./BioCocoa.framework/Versions/2/./libBioCocoa.so.2.2.2 obj/BioCocoa.obj/NSFramework_BioCocoa.o BCFoundation/obj/subproject.o -L/construction/biology/biococoa/GNUstep/Library/Libraries -L/usr/local/GNUstep/Local/Library/Libraries -L/usr/local/GNUstep/System/Library/Libraries && (cd ./BioCocoa.framework/Versions/2/.; rm -f libBioCocoa.so; if [ "libBioCocoa.so.2" != "libBioCocoa.so.2.2.2" ]; then rm -f libBioCocoa.so.2; ln -s libBioCocoa.so.2.2.2 libBioCocoa.so.2; fi; ln -s libBioCocoa.so.2 libBioCocoa.so) || rm -f ./BioCocoa.framework/Versions/2/./libBioCocoa.so.2.2.2 ; \ (cd ./BioCocoa.framework/Versions/2/.; \ rm -f BioCocoa; \ ln -s libBioCocoa.so BioCocoa) \ BCFoundation/obj/subproject.o:BCSuffixArray.m:function _i_BCSuffixArray__constructFromSequenceArray_strand_: warning: warning: mktemp() possibly used unsafely; consider using mkstemp() BCFoundation/obj/subproject.o:BCSuffixArray.m:function _i_BCSuffixArray__constructFromSequenceArray_strand_: warning: warning: mktemp() possibly used unsafely; consider using mkstemp() for f in BCFoundation/BCSymbol/SymbolTemplates/nucleotides.plist BCFoundation/BCSymbol/SymbolTemplates/aminoacids.plist; do \ if [ -f .//$f -o -d .//$f ]; then \ cp -fr .//$f ./BioCocoa.framework/Versions/2/Resources/; \ else \ echo "Warning: .//$f not found - ignoring"; \ fi; \ done for subproject in BCFoundation; do \ if [ -d $subproject/Resources/Subproject ]; then \ for f in $subproject/Resources/Subproject/*; do \ if [ $f != $subproject'/Resources/Subproject/*' ]; then \ cp -fr $f ./BioCocoa.framework/Versions/2/Resources/; \ fi; \ done; \ fi; \ done (echo "{"; echo ' NOTE = "Automatically generated, do not edit!";'; \ echo " NSExecutable = \"BioCocoa\";"; \ echo " NSMainNibFile = \"\";"; \ echo " NSPrincipalClass = \"BioCocoa\";"; \ echo " Classes = "; \ cat ./derived_src/BioCocoa-class-list; \ echo " ;"; \ echo "}") >BioCocoa.framework/Versions/2/Resources/Info-gnustep.plist if [ -r "" ]; then \ plmerge BioCocoa.framework/Versions/2/Resources/Info-gnustep.plist ; \ fi cd ./BioCocoa.framework/.; \ rm -f BioCocoa libBioCocoa.so; \ ln -s `/usr/local/GNUstep/System/Library/Makefiles/relative_path.sh . \ Versions/Current/./BioCocoa short` \ BioCocoa; \ ln -s `/usr/local/GNUstep/System/Library/Makefiles/relative_path.sh . \ Versions/Current/./libBioCocoa.so short` \ libBioCocoa.so gmake[1]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2' SUCCEEDED 00:00:10 ------------------------------------------------------------------------------- -- Phase: run-depends ------------------------------------------------------------------------------- ===> biococoa-2.2.2_6 depends on package: gnustep-back>0 - found SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: stage ------------------------------------------------------------------------------- ===> Staging for biococoa-2.2.2_6 ===> biococoa-2.2.2_6 depends on package: gnustep-back>0 - found ===> Generating temporary packing list gmake[1]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2' This is gnustep-make 2.7.0. Type 'gmake print-gnustep-make-help' for help. Running in gnustep-make version 2 strict mode. Making build-headers in subprojects of framework BioCocoa... gmake[2]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation' Making build-headers in subprojects of subproject BCFoundation... gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCAlignment' Making build-headers for subproject BCAlignment... gmake[4]: Nothing to be done for 'internal-subproject-build-headers'. gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCAlignment' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCAnalysis' Making build-headers for subproject BCAnalysis... gmake[4]: Nothing to be done for 'internal-subproject-build-headers'. gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCAnalysis' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCGeneExpression' Making build-headers for subproject BCGeneExpression... gmake[4]: Nothing to be done for 'internal-subproject-build-headers'. gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCGeneExpression' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCGeneticCode' Making build-headers for subproject BCGeneticCode... gmake[4]: Nothing to be done for 'internal-subproject-build-headers'. gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCGeneticCode' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCProteinStructure' Making build-headers for subproject BCProteinStructure... gmake[4]: Nothing to be done for 'internal-subproject-build-headers'. gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCProteinStructure' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCSequence' Making build-headers for subproject BCSequence... gmake[4]: Nothing to be done for 'internal-subproject-build-headers'. gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCSequence' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCSequenceIO' Making build-headers for subproject BCSequenceIO... gmake[4]: Nothing to be done for 'internal-subproject-build-headers'. gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCSequenceIO' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCSymbol' Making build-headers for subproject BCSymbol... gmake[4]: Nothing to be done for 'internal-subproject-build-headers'. gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCSymbol' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCTools' Making build-headers for subproject BCTools... gmake[4]: Nothing to be done for 'internal-subproject-build-headers'. gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCTools' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCUtils' Making build-headers for subproject BCUtils... gmake[4]: Nothing to be done for 'internal-subproject-build-headers'. gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCUtils' Making build-headers for subproject BCFoundation... gmake[3]: Nothing to be done for 'internal-subproject-build-headers'. gmake[2]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation' Making build-headers for framework BioCocoa... cd ./BioCocoa.framework; \ if [ ! -h "Resources" ]; then \ rm -f Resources; \ ln -s Versions/Current/Resources Resources; \ fi; \ if [ ! -h "Headers" ]; then \ rm -f Headers; \ ln -s Versions/Current/Headers Headers; \ fi cd ./derived_src; \ if [ ! -h "BioCocoa" ]; then \ rm -f ./BioCocoa; \ ln -s ../BioCocoa.framework/Headers \ ./BioCocoa; \ fi Making all in subprojects of framework BioCocoa... gmake[2]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation' Making all in subprojects of subproject BCFoundation... gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCAlignment' Making all for subproject BCAlignment... gmake[5]: Nothing to be done for 'internal-subproject-compile'. gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCAlignment' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCAnalysis' Making all for subproject BCAnalysis... gmake[5]: Nothing to be done for 'internal-subproject-compile'. gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCAnalysis' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCGeneExpression' Making all for subproject BCGeneExpression... gmake[5]: Nothing to be done for 'internal-subproject-compile'. gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCGeneExpression' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCGeneticCode' Making all for subproject BCGeneticCode... gmake[5]: Nothing to be done for 'internal-subproject-compile'. gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCGeneticCode' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCProteinStructure' Making all for subproject BCProteinStructure... gmake[5]: Nothing to be done for 'internal-subproject-compile'. gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCProteinStructure' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCSequence' Making all for subproject BCSequence... gmake[5]: Nothing to be done for 'internal-subproject-compile'. gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCSequence' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCSequenceIO' Making all for subproject BCSequenceIO... gmake[5]: Nothing to be done for 'internal-subproject-compile'. gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCSequenceIO' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCSymbol' Making all for subproject BCSymbol... gmake[5]: Nothing to be done for 'internal-subproject-compile'. gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCSymbol' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCTools' Making all for subproject BCTools... gmake[5]: Nothing to be done for 'internal-subproject-compile'. gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCTools' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCUtils' Making all for subproject BCUtils... gmake[5]: Nothing to be done for 'internal-subproject-compile'. gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCUtils' Making all for subproject BCFoundation... gmake[4]: Nothing to be done for 'internal-subproject-compile'. gmake[2]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation' Making all for framework BioCocoa... gmake[3]: Nothing to be done for 'internal-framework-compile'. for f in BCFoundation/BCSymbol/SymbolTemplates/nucleotides.plist BCFoundation/BCSymbol/SymbolTemplates/aminoacids.plist; do \ if [ -f .//$f -o -d .//$f ]; then \ cp -fr .//$f ./BioCocoa.framework/Versions/2/Resources/; \ else \ echo "Warning: .//$f not found - ignoring"; \ fi; \ done for subproject in BCFoundation; do \ if [ -d $subproject/Resources/Subproject ]; then \ for f in $subproject/Resources/Subproject/*; do \ if [ $f != $subproject'/Resources/Subproject/*' ]; then \ cp -fr $f ./BioCocoa.framework/Versions/2/Resources/; \ fi; \ done; \ fi; \ done cd ./BioCocoa.framework/.; \ rm -f BioCocoa libBioCocoa.so; \ ln -s `/usr/local/GNUstep/System/Library/Makefiles/relative_path.sh . \ Versions/Current/./BioCocoa short` \ BioCocoa; \ ln -s `/usr/local/GNUstep/System/Library/Makefiles/relative_path.sh . \ Versions/Current/./libBioCocoa.so short` \ libBioCocoa.so Making install in subprojects of framework BioCocoa... gmake[2]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation' Making install in subprojects of subproject BCFoundation... gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCAlignment' Making install for subproject BCAlignment... gmake[4]: Nothing to be done for 'internal-subproject-install'. gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCAlignment' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCAnalysis' Making install for subproject BCAnalysis... gmake[4]: Nothing to be done for 'internal-subproject-install'. gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCAnalysis' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCGeneExpression' Making install for subproject BCGeneExpression... gmake[4]: Nothing to be done for 'internal-subproject-install'. gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCGeneExpression' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCGeneticCode' Making install for subproject BCGeneticCode... gmake[4]: Nothing to be done for 'internal-subproject-install'. gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCGeneticCode' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCProteinStructure' Making install for subproject BCProteinStructure... gmake[4]: Nothing to be done for 'internal-subproject-install'. gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCProteinStructure' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCSequence' Making install for subproject BCSequence... gmake[4]: Nothing to be done for 'internal-subproject-install'. gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCSequence' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCSequenceIO' Making install for subproject BCSequenceIO... gmake[4]: Nothing to be done for 'internal-subproject-install'. gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCSequenceIO' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCSymbol' Making install for subproject BCSymbol... gmake[4]: Nothing to be done for 'internal-subproject-install'. gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCSymbol' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCTools' Making install for subproject BCTools... gmake[4]: Nothing to be done for 'internal-subproject-install'. gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCTools' gmake[3]: Entering directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCUtils' Making install for subproject BCUtils... gmake[4]: Nothing to be done for 'internal-subproject-install'. gmake[3]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation/BCUtils' Making install for subproject BCFoundation... gmake[3]: Nothing to be done for 'internal-subproject-install'. gmake[2]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2/BCFoundation' Making install for framework BioCocoa... /usr/local/GNUstep/System/Library/Makefiles/mkinstalldirs /construction/biology/biococoa/stage//usr/local/GNUstep/System/Library/Frameworks /usr/local/GNUstep/System/Library/Makefiles/mkinstalldirs /construction/biology/biococoa/stage//usr/local/GNUstep/System/Library/Libraries/. /usr/local/GNUstep/System/Library/Makefiles/mkinstalldirs /construction/biology/biococoa/stage//usr/local/GNUstep/System/Library/Headers (cd .; \ tar cfX - /usr/local/GNUstep/System/Library/Makefiles/tar-exclude-list \ BioCocoa.framework) \ | (cd /construction/biology/biococoa/stage//usr/local/GNUstep/System/Library/Frameworks; tar xf -) cd /construction/biology/biococoa/stage//usr/local/GNUstep/System/Library/Headers; \ rm -f BioCocoa; \ ln -s `/usr/local/GNUstep/System/Library/Makefiles/relative_path.sh /construction/biology/biococoa/stage//usr/local/GNUstep/System/Library/Headers /construction/biology/biococoa/stage//usr/local/GNUstep/System/Library/Frameworks/BioCocoa.framework/Headers short` BioCocoa; \ cd /construction/biology/biococoa/stage//usr/local/GNUstep/System/Library/Libraries/.; \ rm -f libBioCocoa.so; \ rm -f libBioCocoa.so.2; \ rm -f libBioCocoa.so.2.2.2; \ ln -s `/usr/local/GNUstep/System/Library/Makefiles/relative_path.sh /construction/biology/biococoa/stage//usr/local/GNUstep/System/Library/Libraries/. /construction/biology/biococoa/stage//usr/local/GNUstep/System/Library/Frameworks/BioCocoa.framework/Versions/Current/./libBioCocoa.so short` libBioCocoa.so; \ if test -r "/construction/biology/biococoa/stage//usr/local/GNUstep/System/Library/Frameworks/BioCocoa.framework/Versions/2/./libBioCocoa.so.2"; then \ ln -s `/usr/local/GNUstep/System/Library/Makefiles/relative_path.sh /construction/biology/biococoa/stage//usr/local/GNUstep/System/Library/Libraries/. /construction/biology/biococoa/stage//usr/local/GNUstep/System/Library/Frameworks/BioCocoa.framework/Versions/2/./libBioCocoa.so.2 short` libBioCocoa.so.2; \ fi; \ ln -s `/usr/local/GNUstep/System/Library/Makefiles/relative_path.sh /construction/biology/biococoa/stage//usr/local/GNUstep/System/Library/Libraries/. /construction/biology/biococoa/stage//usr/local/GNUstep/System/Library/Frameworks/BioCocoa.framework/Versions/2/./libBioCocoa.so.2.2.2 short` libBioCocoa.so.2.2.2 gmake[1]: Leaving directory '/construction/biology/biococoa/biococoa-2.2.2' ====> Compressing man pages (compress-man) ====> Running Q/A tests (stage-qa) Warning: 'GNUstep/System/Library/Frameworks/BioCocoa.framework/Versions/2/libBioCocoa.so.2.2.2' is not stripped consider trying INSTALL_TARGET=install-strip or using ${STRIP_CMD} Warning: You have disabled the licenses framework with DISABLE_LICENSES, unable to run checks SUCCEEDED 00:00:02 ------------------------------------------------------------------------------- -- Phase: check-plist ------------------------------------------------------------------------------- ====> Checking for pkg-plist issues (check-plist) ===> Parsing plist ===> Checking for items in STAGEDIR missing from pkg-plist ===> Checking for items in pkg-plist which are not in STAGEDIR ===> No pkg-plist issues found (check-plist) SUCCEEDED 00:00:01 ------------------------------------------------------------------------------- -- Phase: package ------------------------------------------------------------------------------- ===> Building package for biococoa-2.2.2_6 file sizes/checksums [65]: 0% file sizes/checksums [65]: 100% packing files [65]: 0% packing files [65]: 100% packing directories [0]: 0% packing directories [0]: 100% SUCCEEDED 00:00:01 TOTAL TIME 00:01:06