------------------------------------------------------------------------------- -- 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 SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: check-sanity ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: pkg-depends ------------------------------------------------------------------------------- ===> fastp-0.20.1 depends on file: /usr/local/sbin/pkg - found SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: fetch-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: fetch ------------------------------------------------------------------------------- ===> fastp-0.20.1 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by fastp-0.20.1 for building SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: checksum ------------------------------------------------------------------------------- ===> fastp-0.20.1 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by fastp-0.20.1 for building => SHA256 Checksum OK for OpenGene-fastp-v0.20.1_GH0.tar.gz. SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: extract-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: extract ------------------------------------------------------------------------------- ===> fastp-0.20.1 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by fastp-0.20.1 for building ===> Extracting for fastp-0.20.1 => SHA256 Checksum OK for OpenGene-fastp-v0.20.1_GH0.tar.gz. Extracted Memory Use: 0.71M SUCCEEDED 00:00:01 ------------------------------------------------------------------------------- -- Phase: patch-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: patch ------------------------------------------------------------------------------- ===> Patching for fastp-0.20.1 ===> Applying ports patches for fastp-0.20.1 from /xports/biology/fastp/files SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: build-depends ------------------------------------------------------------------------------- ===> fastp-0.20.1 depends on package: gmake>=4.3 - found SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: lib-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: configure ------------------------------------------------------------------------------- ===> fastp-0.20.1 depends on package: gmake>=4.3 - found ===> Configuring for fastp-0.20.1 SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: build ------------------------------------------------------------------------------- ===> Building for fastp-0.20.1 gmake[1]: Entering directory '/construction/biology/fastp/fastp-0.20.1' c++ -c src/adaptertrimmer.cpp -o obj/adaptertrimmer.o -pipe -O2 -fno-strict-aliasing -std=c++11 -I./inc c++ -c src/basecorrector.cpp -o obj/basecorrector.o -pipe -O2 -fno-strict-aliasing -std=c++11 -I./inc c++ -c src/duplicate.cpp -o obj/duplicate.o -pipe -O2 -fno-strict-aliasing -std=c++11 -I./inc c++ -c src/evaluator.cpp -o obj/evaluator.o -pipe -O2 -fno-strict-aliasing -std=c++11 -I./inc c++ -c src/fastareader.cpp -o obj/fastareader.o -pipe -O2 -fno-strict-aliasing -std=c++11 -I./inc c++ -c src/fastqreader.cpp -o obj/fastqreader.o -pipe -O2 -fno-strict-aliasing -std=c++11 -I./inc c++ -c src/filter.cpp -o obj/filter.o -pipe -O2 -fno-strict-aliasing -std=c++11 -I./inc c++ -c src/filterresult.cpp -o obj/filterresult.o -pipe -O2 -fno-strict-aliasing -std=c++11 -I./inc c++ -c src/htmlreporter.cpp -o obj/htmlreporter.o -pipe -O2 -fno-strict-aliasing -std=c++11 -I./inc c++ -c src/jsonreporter.cpp -o obj/jsonreporter.o -pipe -O2 -fno-strict-aliasing -std=c++11 -I./inc c++ -c src/main.cpp -o obj/main.o -pipe -O2 -fno-strict-aliasing -std=c++11 -I./inc c++ -c src/nucleotidetree.cpp -o obj/nucleotidetree.o -pipe -O2 -fno-strict-aliasing -std=c++11 -I./inc c++ -c src/options.cpp -o obj/options.o -pipe -O2 -fno-strict-aliasing -std=c++11 -I./inc c++ -c src/overlapanalysis.cpp -o obj/overlapanalysis.o -pipe -O2 -fno-strict-aliasing -std=c++11 -I./inc c++ -c src/peprocessor.cpp -o obj/peprocessor.o -pipe -O2 -fno-strict-aliasing -std=c++11 -I./inc c++ -c src/polyx.cpp -o obj/polyx.o -pipe -O2 -fno-strict-aliasing -std=c++11 -I./inc c++ -c src/processor.cpp -o obj/processor.o -pipe -O2 -fno-strict-aliasing -std=c++11 -I./inc c++ -c src/read.cpp -o obj/read.o -pipe -O2 -fno-strict-aliasing -std=c++11 -I./inc c++ -c src/seprocessor.cpp -o obj/seprocessor.o -pipe -O2 -fno-strict-aliasing -std=c++11 -I./inc c++ -c src/sequence.cpp -o obj/sequence.o -pipe -O2 -fno-strict-aliasing -std=c++11 -I./inc c++ -c src/stats.cpp -o obj/stats.o -pipe -O2 -fno-strict-aliasing -std=c++11 -I./inc c++ -c src/threadconfig.cpp -o obj/threadconfig.o -pipe -O2 -fno-strict-aliasing -std=c++11 -I./inc c++ -c src/umiprocessor.cpp -o obj/umiprocessor.o -pipe -O2 -fno-strict-aliasing -std=c++11 -I./inc c++ -c src/unittest.cpp -o obj/unittest.o -pipe -O2 -fno-strict-aliasing -std=c++11 -I./inc c++ -c src/writer.cpp -o obj/writer.o -pipe -O2 -fno-strict-aliasing -std=c++11 -I./inc c++ -c src/writerthread.cpp -o obj/writerthread.o -pipe -O2 -fno-strict-aliasing -std=c++11 -I./inc c++ ./obj/adaptertrimmer.o ./obj/basecorrector.o ./obj/duplicate.o ./obj/evaluator.o ./obj/fastareader.o ./obj/fastqreader.o ./obj/filter.o ./obj/filterresult.o ./obj/htmlreporter.o ./obj/jsonreporter.o ./obj/main.o ./obj/nucleotidetree.o ./obj/options.o ./obj/overlapanalysis.o ./obj/peprocessor.o ./obj/polyx.o ./obj/processor.o ./obj/read.o ./obj/seprocessor.o ./obj/sequence.o ./obj/stats.o ./obj/threadconfig.o ./obj/umiprocessor.o ./obj/unittest.o ./obj/writer.o ./obj/writerthread.o -o fastp -lz -lpthread gmake[1]: Leaving directory '/construction/biology/fastp/fastp-0.20.1' SUCCEEDED 00:00:17 ------------------------------------------------------------------------------- -- Phase: run-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: stage ------------------------------------------------------------------------------- ===> Staging for fastp-0.20.1 ===> Generating temporary packing list gmake[1]: Entering directory '/construction/biology/fastp/fastp-0.20.1' install fastp /construction/biology/fastp/stage/usr/local/bin/fastp Installed. gmake[1]: Leaving directory '/construction/biology/fastp/fastp-0.20.1' /usr/bin/strip /construction/biology/fastp/stage/usr/local/bin/fastp ====> Compressing man pages (compress-man) ====> Running Q/A tests (stage-qa) Warning: You have disabled the licenses framework with DISABLE_LICENSES, unable to run checks SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- 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 00:00:00 ------------------------------------------------------------------------------- -- Phase: package ------------------------------------------------------------------------------- ===> Building package for fastp-0.20.1 file sizes/checksums [1]: 0% file sizes/checksums [1]: 100% packing files [1]: 0% packing files [1]: 100% packing directories [0]: 0% packing directories [0]: 100% SUCCEEDED 00:00:01 TOTAL TIME 00:00:20