=> Bootstrap dependency digest>=20211023: found digest-20220214 ===> Building for fastx-toolkit-0.0.14.6nb1 --- all --- /opt/pkg/bin/bmake all-recursive --- all-recursive --- Making all in m4 Making all in src --- all-recursive --- Making all in libfastx --- chomp.o --- --- fastx.o --- --- fastx_args.o --- --- chomp.o --- clang -DHAVE_CONFIG_H -I. -I../.. -I/opt/pkg/include -pipe -Os -I/opt/pkg/include -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -MT chomp.o -MD -MP -MF .deps/chomp.Tpo -c -o chomp.o chomp.c --- fastx.o --- clang -DHAVE_CONFIG_H -I. -I../.. -I/opt/pkg/include -pipe -Os -I/opt/pkg/include -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -MT fastx.o -MD -MP -MF .deps/fastx.Tpo -c -o fastx.o fastx.c --- fastx_args.o --- clang -DHAVE_CONFIG_H -I. -I../.. -I/opt/pkg/include -pipe -Os -I/opt/pkg/include -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -MT fastx_args.o -MD -MP -MF .deps/fastx_args.Tpo -c -o fastx_args.o fastx_args.c --- chomp.o --- mv -f .deps/chomp.Tpo .deps/chomp.Po --- fastx_args.o --- mv -f .deps/fastx_args.Tpo .deps/fastx_args.Po --- sequence_alignment.o --- clang++ -DHAVE_CONFIG_H -I. -I../.. -I/opt/pkg/include -pipe -Os -I/opt/pkg/include -std=c++11 -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -MT sequence_alignment.o -MD -MP -MF .deps/sequence_alignment.Tpo -c -o sequence_alignment.o sequence_alignment.cpp --- fastx.o --- mv -f .deps/fastx.Tpo .deps/fastx.Po --- sequence_alignment.o --- mv -f .deps/sequence_alignment.Tpo .deps/sequence_alignment.Po --- libfastx.a --- rm -f libfastx.a ar cru libfastx.a chomp.o fastx.o fastx_args.o sequence_alignment.o ranlib libfastx.a Making all in fastx_clipper --- fastx_clipper.o --- clang++ -DHAVE_CONFIG_H -I. -I../.. -I../../src/libfastx -I/opt/pkg/include -pipe -Os -I/opt/pkg/include -std=c++11 -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -MT fastx_clipper.o -MD -MP -MF .deps/fastx_clipper.Tpo -c -o fastx_clipper.o fastx_clipper.cpp mv -f .deps/fastx_clipper.Tpo .deps/fastx_clipper.Po --- fastx_clipper --- /opt/pkg/bin/mksh ../../libtool --tag=CXX --mode=link clang++ -pipe -Os -I/opt/pkg/include -std=c++11 -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -L/opt/pkg/lib -o fastx_clipper fastx_clipper.o ../libfastx/libfastx.a libtool: link: clang++ -pipe -Os -I/Users/pbulk/build/biology/fastx-toolkit/work/.buildlink/include -std=c++11 -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -o fastx_clipper fastx_clipper.o -L/Users/pbulk/build/biology/fastx-toolkit/work/.buildlink/lib ../libfastx/libfastx.a Making all in fastx_trimmer --- fastx_trimmer.o --- clang -DHAVE_CONFIG_H -I. -I../.. -I../../src/libfastx -I/opt/pkg/include -pipe -Os -I/opt/pkg/include -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -MT fastx_trimmer.o -MD -MP -MF .deps/fastx_trimmer.Tpo -c -o fastx_trimmer.o fastx_trimmer.c mv -f .deps/fastx_trimmer.Tpo .deps/fastx_trimmer.Po --- fastx_trimmer --- /opt/pkg/bin/mksh ../../libtool --tag=CC --mode=link clang -pipe -Os -I/opt/pkg/include -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -L/opt/pkg/lib -o fastx_trimmer fastx_trimmer.o ../libfastx/libfastx.a libtool: link: clang -pipe -Os -I/Users/pbulk/build/biology/fastx-toolkit/work/.buildlink/include -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -o fastx_trimmer fastx_trimmer.o -L/Users/pbulk/build/biology/fastx-toolkit/work/.buildlink/lib ../libfastx/libfastx.a Making all in fastx_quality_stats --- fastx_quality_stats.o --- clang -DHAVE_CONFIG_H -I. -I../.. -I../../src/libfastx -I/opt/pkg/include -pipe -Os -I/opt/pkg/include -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -MT fastx_quality_stats.o -MD -MP -MF .deps/fastx_quality_stats.Tpo -c -o fastx_quality_stats.o fastx_quality_stats.c mv -f .deps/fastx_quality_stats.Tpo .deps/fastx_quality_stats.Po --- fastx_quality_stats --- /opt/pkg/bin/mksh ../../libtool --tag=CC --mode=link clang -pipe -Os -I/opt/pkg/include -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -L/opt/pkg/lib -o fastx_quality_stats fastx_quality_stats.o ../libfastx/libfastx.a libtool: link: clang -pipe -Os -I/Users/pbulk/build/biology/fastx-toolkit/work/.buildlink/include -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -o fastx_quality_stats fastx_quality_stats.o -L/Users/pbulk/build/biology/fastx-toolkit/work/.buildlink/lib ../libfastx/libfastx.a Making all in fastq_quality_converter --- fastq_quality_converter.o --- clang -DHAVE_CONFIG_H -I. -I../.. -I../../src/libfastx -I/opt/pkg/include -pipe -Os -I/opt/pkg/include -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -MT fastq_quality_converter.o -MD -MP -MF .deps/fastq_quality_converter.Tpo -c -o fastq_quality_converter.o fastq_quality_converter.c mv -f .deps/fastq_quality_converter.Tpo .deps/fastq_quality_converter.Po --- fastq_quality_converter --- /opt/pkg/bin/mksh ../../libtool --tag=CC --mode=link clang -pipe -Os -I/opt/pkg/include -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -L/opt/pkg/lib -o fastq_quality_converter fastq_quality_converter.o ../libfastx/libfastx.a libtool: link: clang -pipe -Os -I/Users/pbulk/build/biology/fastx-toolkit/work/.buildlink/include -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -o fastq_quality_converter fastq_quality_converter.o -L/Users/pbulk/build/biology/fastx-toolkit/work/.buildlink/lib ../libfastx/libfastx.a Making all in fastq_to_fasta --- fastq_to_fasta.o --- clang -DHAVE_CONFIG_H -I. -I../.. -I../../src/libfastx -I/opt/pkg/include -pipe -Os -I/opt/pkg/include -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -MT fastq_to_fasta.o -MD -MP -MF .deps/fastq_to_fasta.Tpo -c -o fastq_to_fasta.o fastq_to_fasta.c mv -f .deps/fastq_to_fasta.Tpo .deps/fastq_to_fasta.Po --- fastq_to_fasta --- /opt/pkg/bin/mksh ../../libtool --tag=CC --mode=link clang -pipe -Os -I/opt/pkg/include -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -L/opt/pkg/lib -o fastq_to_fasta fastq_to_fasta.o ../libfastx/libfastx.a libtool: link: clang -pipe -Os -I/Users/pbulk/build/biology/fastx-toolkit/work/.buildlink/include -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -o fastq_to_fasta fastq_to_fasta.o -L/Users/pbulk/build/biology/fastx-toolkit/work/.buildlink/lib ../libfastx/libfastx.a Making all in fastq_quality_filter --- fastq_quality_filter.o --- clang -DHAVE_CONFIG_H -I. -I../.. -I../../src/libfastx -I/opt/pkg/include -pipe -Os -I/opt/pkg/include -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -MT fastq_quality_filter.o -MD -MP -MF .deps/fastq_quality_filter.Tpo -c -o fastq_quality_filter.o fastq_quality_filter.c mv -f .deps/fastq_quality_filter.Tpo .deps/fastq_quality_filter.Po --- fastq_quality_filter --- /opt/pkg/bin/mksh ../../libtool --tag=CC --mode=link clang -pipe -Os -I/opt/pkg/include -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -L/opt/pkg/lib -o fastq_quality_filter fastq_quality_filter.o ../libfastx/libfastx.a libtool: link: clang -pipe -Os -I/Users/pbulk/build/biology/fastx-toolkit/work/.buildlink/include -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -o fastq_quality_filter fastq_quality_filter.o -L/Users/pbulk/build/biology/fastx-toolkit/work/.buildlink/lib ../libfastx/libfastx.a Making all in fastq_quality_trimmer --- fastq_quality_trimmer.o --- clang -DHAVE_CONFIG_H -I. -I../.. -I../../src/libfastx -I/opt/pkg/include -pipe -Os -I/opt/pkg/include -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -MT fastq_quality_trimmer.o -MD -MP -MF .deps/fastq_quality_trimmer.Tpo -c -o fastq_quality_trimmer.o fastq_quality_trimmer.c mv -f .deps/fastq_quality_trimmer.Tpo .deps/fastq_quality_trimmer.Po --- fastq_quality_trimmer --- /opt/pkg/bin/mksh ../../libtool --tag=CC --mode=link clang -pipe -Os -I/opt/pkg/include -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -L/opt/pkg/lib -o fastq_quality_trimmer fastq_quality_trimmer.o ../libfastx/libfastx.a libtool: link: clang -pipe -Os -I/Users/pbulk/build/biology/fastx-toolkit/work/.buildlink/include -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -o fastq_quality_trimmer fastq_quality_trimmer.o -L/Users/pbulk/build/biology/fastx-toolkit/work/.buildlink/lib ../libfastx/libfastx.a Making all in fastx_artifacts_filter --- fastx_artifacts_filter.o --- clang -DHAVE_CONFIG_H -I. -I../.. -I../../src/libfastx -I/opt/pkg/include -pipe -Os -I/opt/pkg/include -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -MT fastx_artifacts_filter.o -MD -MP -MF .deps/fastx_artifacts_filter.Tpo -c -o fastx_artifacts_filter.o fastx_artifacts_filter.c fastx_artifacts_filter.c:58:6: error: variable 'n_count' set but not used [-Werror,-Wunused-but-set-variable] int n_count=0; ^ 1 error generated. *** [fastx_artifacts_filter.o] Error code 1 bmake[3]: stopped in /Users/pbulk/build/biology/fastx-toolkit/work/fastx_toolkit-ea0ca83ba24dce80c20ca589b838a281fe5deb0c/src/fastx_artifacts_filter 1 error bmake[3]: stopped in /Users/pbulk/build/biology/fastx-toolkit/work/fastx_toolkit-ea0ca83ba24dce80c20ca589b838a281fe5deb0c/src/fastx_artifacts_filter *** [all-recursive] Error code 1 bmake[2]: stopped in /Users/pbulk/build/biology/fastx-toolkit/work/fastx_toolkit-ea0ca83ba24dce80c20ca589b838a281fe5deb0c/src 1 error bmake[2]: stopped in /Users/pbulk/build/biology/fastx-toolkit/work/fastx_toolkit-ea0ca83ba24dce80c20ca589b838a281fe5deb0c/src *** [all-recursive] Error code 1 bmake[1]: stopped in /Users/pbulk/build/biology/fastx-toolkit/work/fastx_toolkit-ea0ca83ba24dce80c20ca589b838a281fe5deb0c 1 error bmake[1]: stopped in /Users/pbulk/build/biology/fastx-toolkit/work/fastx_toolkit-ea0ca83ba24dce80c20ca589b838a281fe5deb0c *** [all] Error code 2 bmake: stopped in /Users/pbulk/build/biology/fastx-toolkit/work/fastx_toolkit-ea0ca83ba24dce80c20ca589b838a281fe5deb0c 1 error bmake: stopped in /Users/pbulk/build/biology/fastx-toolkit/work/fastx_toolkit-ea0ca83ba24dce80c20ca589b838a281fe5deb0c *** Error code 2 Stop. bmake[1]: stopped in /Volumes/data/jenkins/workspace/pkgsrc-macos11-trunk-arm64/biology/fastx-toolkit *** Error code 1 Stop. bmake: stopped in /Volumes/data/jenkins/workspace/pkgsrc-macos11-trunk-arm64/biology/fastx-toolkit