[Debian-med-packaging] Bug#1082721: khmer: FTBFS: failing tests
Santiago Vila
sanvila at debian.org
Tue Sep 24 23:30:17 BST 2024
Package: src:khmer
Version: 3.0.0~a3+dfsg-8
Severity: serious
Tags: ftbfs
Dear maintainer:
During a rebuild of all packages in unstable, your package failed to build:
--------------------------------------------------------------------------------
[...]
debian/rules binary
dh binary --with sphinxdoc --buildsystem=pybuild
dh_update_autotools_config -O--buildsystem=pybuild
dh_autoreconf -O--buildsystem=pybuild
dh_auto_configure -O--buildsystem=pybuild
pybuild --configure -i python{version} -p 3.12
I: pybuild base:311: python3.12 setup.py config
/<<PKGBUILDDIR>>/versioneer.py:421: SyntaxWarning: invalid escape sequence '\s'
LONG_VERSION_PY['git'] = '''
*** NOTE: Found Cython, extension files will be transpiled if this is an install invocation.
/usr/lib/python3/dist-packages/setuptools/dist.py:452: SetuptoolsDeprecationWarning: Invalid dash-separated options
!!
********************************************************************************
[... snipped ...]
| ^~~~~~~~~~~~~~~
/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here
131 | struct binary_function
| ^~~~~~~~~~~~~~~
third-party/seqan/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template<class _Arg1, class _Arg2, class _Result> struct std::binary_function’ is deprecated [-Wdeprecated-declarations]
256 | public ::std::binary_function<TGapAnchor, TGapAnchor, bool>
| ^~~~~~~~~~~~~~~
/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here
131 | struct binary_function
| ^~~~~~~~~~~~~~~
In file included from third-party/seqan/core/include/seqan/bam_io.h:107,
from third-party/seqan/core/include/seqan/store.h:41:
third-party/seqan/core/include/seqan/bam_io/bam_stream.h:180:10: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
180 | std::auto_ptr<XamWriter_> _writer;
| ^~~~~~~~
/usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here
59 | template<typename> class auto_ptr;
| ^~~~~~~~
third-party/seqan/core/include/seqan/bam_io/bam_stream.h:182:10: warning: ‘template<class> class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
182 | std::auto_ptr<XamReader_> _reader;
| ^~~~~~~~
/usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here
59 | template<typename> class auto_ptr;
| ^~~~~~~~
In file included from third-party/seqan/core/include/seqan/store.h:59:
third-party/seqan/core/include/seqan/store/store_align.h:322:23: warning: ‘template<class _Arg1, class _Arg2, class _Result> struct std::binary_function’ is deprecated [-Wdeprecated-declarations]
322 | public ::std::binary_function<TAlignedRead, TAlignedRead, bool>
| ^~~~~~~~~~~~~~~
/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here
131 | struct binary_function
| ^~~~~~~~~~~~~~~
third-party/seqan/core/include/seqan/store/store_align.h:332:23: warning: ‘template<class _Arg1, class _Arg2, class _Result> struct std::binary_function’ is deprecated [-Wdeprecated-declarations]
332 | public ::std::binary_function<TAlignedRead, TAlignedRead, bool>
| ^~~~~~~~~~~~~~~
/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here
131 | struct binary_function
| ^~~~~~~~~~~~~~~
third-party/seqan/core/include/seqan/store/store_align.h:342:23: warning: ‘template<class _Arg1, class _Arg2, class _Result> struct std::binary_function’ is deprecated [-Wdeprecated-declarations]
342 | public ::std::binary_function<TAlignedRead, TAlignedRead, bool>
| ^~~~~~~~~~~~~~~
/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here
131 | struct binary_function
| ^~~~~~~~~~~~~~~
third-party/seqan/core/include/seqan/store/store_align.h:352:23: warning: ‘template<class _Arg1, class _Arg2, class _Result> struct std::binary_function’ is deprecated [-Wdeprecated-declarations]
352 | public ::std::binary_function<TAlignedRead, TAlignedRead, bool>
| ^~~~~~~~~~~~~~~
/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here
131 | struct binary_function
| ^~~~~~~~~~~~~~~
third-party/seqan/core/include/seqan/store/store_align.h:362:23: warning: ‘template<class _Arg1, class _Arg2, class _Result> struct std::binary_function’ is deprecated [-Wdeprecated-declarations]
362 | public ::std::binary_function<TAlignedRead, TAlignedRead, bool>
| ^~~~~~~~~~~~~~~
/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here
131 | struct binary_function
| ^~~~~~~~~~~~~~~
third-party/seqan/core/include/seqan/store/store_align.h:372:23: warning: ‘template<class _Arg1, class _Arg2, class _Result> struct std::binary_function’ is deprecated [-Wdeprecated-declarations]
372 | public ::std::binary_function<TAlignedRead, TAlignedRead, bool>
| ^~~~~~~~~~~~~~~
/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here
131 | struct binary_function
| ^~~~~~~~~~~~~~~
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=3.0.0a3 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Ithird-party/seqan/core/include -Ithird-party/smhasher -Ithird-party/cqf -Ithird-party/rollinghash -I/usr/include/python3.12 -c src/oxli/storage.cc -o build/temp.linux-x86_64-cpython-312/src/oxli/storage.o -O3 -std=c++11 -fopenmp
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=3.0.0a3 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Ithird-party/seqan/core/include -Ithird-party/smhasher -Ithird-party/cqf -Ithird-party/rollinghash -I/usr/include/python3.12 -c src/oxli/subset.cc -o build/temp.linux-x86_64-cpython-312/src/oxli/subset.o -O3 -std=c++11 -fopenmp
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=3.0.0a3 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Ithird-party/seqan/core/include -Ithird-party/smhasher -Ithird-party/cqf -Ithird-party/rollinghash -I/usr/include/python3.12 -c src/oxli/traversal.cc -o build/temp.linux-x86_64-cpython-312/src/oxli/traversal.o -O3 -std=c++11 -fopenmp
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION=3.0.0a3 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -UNO_UNIQUE_RC -Iinclude -I. -Ithird-party/seqan/core/include -Ithird-party/smhasher -Ithird-party/cqf -Ithird-party/rollinghash -I/usr/include/python3.12 -c third-party/smhasher/MurmurHash3.cc -o build/temp.linux-x86_64-cpython-312/third-party/smhasher/MurmurHash3.o -O3 -std=c++11 -fopenmp
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-312/src/khmer/_cpy_khmer.o build/temp.linux-x86_64-cpython-312/src/khmer/_cpy_readparsers.o build/temp.linux-x86_64-cpython-312/src/khmer/_cpy_utils.o build/temp.linux-x86_64-cpython-312/src/oxli/alphabets.o build/temp.linux-x86_64-cpython-312/src/oxli/assembler.o build/temp.linux-x86_64-cpython-312/src/oxli/hashgraph.o build/temp.linux-x86_64-cpython-312/src/oxli/hashtable.o build/temp.linux-x86_64-cpython-312/src/oxli/hllcounter.o build/temp.linux-x86_64-cpython-312/src/oxli/kmer_filters.o build/temp.linux-x86_64-cpython-312/src/oxli/kmer_hash.o build/temp.linux-x86_64-cpython-312/src/oxli/labelhash.o build/temp.linux-x86_64-cpython-312/src/oxli/read_aligner.o build/temp.linux-x86_64-cpython-312/src/oxli/read_parsers.o build/temp.linux-x86_64-cpython-312/src/oxli/storage.o build/temp.linux-x86_64-cpython-312/src/oxli/subset.o build/temp.linux-x86_64-cpython-312/src/oxli/traversal.o build/temp.linux-x86_64-cpython-312/third-party/smhasher/MurmurHash3.o third-party/cqf/gqf.o -L/usr/lib/x86_64-linux-gnu -lz -lbz2 -o /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_khmer.cpython-312-x86_64-linux-gnu.so -fopenmp
running build_scripts
running install_lib
creating /<<PKGBUILDDIR>>/debian/khmer
creating /<<PKGBUILDDIR>>/debian/khmer/usr
creating /<<PKGBUILDDIR>>/debian/khmer/usr/lib
creating /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12
creating /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages
creating /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/thread_utils.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_version.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/utils.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/khmer_logger.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer
creating /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/parsing.cpython-312-x86_64-linux-gnu.so -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/legacy_partitioning.cpp -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/hllcounter.pxd -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/parsing.pxd -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/traversal.cpython-312-x86_64-linux-gnu.so -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/legacy_partitioning.cpython-312-x86_64-linux-gnu.so -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/graphs.cpython-312-x86_64-linux-gnu.so -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/hashset.pyx -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/graphs.cpp -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/readaligner.cpp -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/utils.pyx -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/oxli_exception_convert.cc -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/readaligner.pxd -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/legacy_partitioning.pyx -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/labeling.pyx -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/hashset.cpython-312-x86_64-linux-gnu.so -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/assembly.pxd -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/assembly.cpp -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/graphs.pyx -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/utils.pxd -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/utils.cpp -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/parsing.pyx -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/hashing.pyx -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/graphs.pxd -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/assembly.pyx -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/labeling.cpp -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/hllcounter.pyx -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/hashing.cpython-312-x86_64-linux-gnu.so -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/hashing.pxd -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/hashset.cpp -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/__init__.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/hashset.pxd -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/traversal.pyx -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/parsing.cpp -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/hashing.cpp -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/readaligner.cpython-312-x86_64-linux-gnu.so -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/hllcounter.cpp -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/oxli_types.pxd -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/utils.cpython-312-x86_64-linux-gnu.so -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/legacy_partitioning.pxd -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/traversal.cpp -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/traversal.pxd -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/labeling.pxd -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/assembly.cpython-312-x86_64-linux-gnu.so -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/labeling.cpython-312-x86_64-linux-gnu.so -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/oxli_exception_convert.hh -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/readaligner.pyx -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_oxli/hllcounter.cpython-312-x86_64-linux-gnu.so -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/_khmer.cpython-312-x86_64-linux-gnu.so -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/kfile.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/khmer_args.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/__init__.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer
creating /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test_assembly.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test_cython_parsing.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test_lump.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test_scripts.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test_filter_abund.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/graph_features.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test_banding.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test_script_arguments.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test_streaming_io.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test_nodegraph.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/table_fixtures.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test_tabletype.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test_sequence_validation.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test_oxli_functions.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test_sandbox_scripts.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test_read_parsers.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test_script_output.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test_cpython_hierarchy.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/__init__.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test_countgraph.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test_labelhash.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test_threaded_sequence_processor.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test_subset_graph.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test_qfstorage.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test_counttable.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test_graph.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test_hashset.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test_normalize_by_median.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests
creating /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/paired-slash1.fq.2 -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/goodversion-k12.ht -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/random-20-a.fa.gz -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/paired-slash1.fq -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/simple-genome.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/100-reads.fq.truncated.gz -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/test-abund-read-2.paired2.fq -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/test-abund-read-2.fq -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/real-partition-tiny.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/paired.malformat.fq -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/test-abund-read-paired.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/test-abund-read-3.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/paired-broken.fq.paired_bad -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/goodversion-k32.tagset -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/filter-test-A.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/badversion-k32.stoptags -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/goodversion-k12.ht.gz -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/truncated.fq -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/test-abund-read-paired.fq -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/test-abund-read-2.fa.bz2 -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/dn-test-all-paired-all-keep.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/badversion-k12.ct -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/test-abund-read-2.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/test-reads.fq.bz2 -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/paired-broken.fq.badright -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/real-partition-small.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/random-20-a.fa.bz2 -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/test-error-reads.fq -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/random-20-a.fq.gz -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/test-filter-abund-Ns.fq -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/single-read.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/dn-test-none-paired.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/test-abund-read-2.paired.fq -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/test-fastq-reads.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/paired-mixed.fq -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/paired-mixed-witherror.fa.pe -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/banding-reads.fq -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/simple-genome-reads.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/paired.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/test-reads.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/random-20-a.fq -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/random-20-b.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/paired-mixed.fq.se -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/paired-broken.fq.badleft -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/old-style-format-w-comments.fq -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/test-abund-read.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/badversion-k12.ht -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/unclean-reads.fastq -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/random-20-a.odd.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/test-empty.fa.bz2 -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/all-A.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/test-fastq-reads.fq -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/random-20-X2.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/paired-broken2.fq.1 -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/normC20k20.ct -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/test-sweep-contigs.fp -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/test-short.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/random-31-c.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/filter-test-B.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/casava_18-pe.fq -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/fakelump.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/test-overlap2.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/test-graph5.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/test-reads.fq.gz -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/paired.fq.1 -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/random-20-a.fa.part -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/seq-b.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/test-abund-read-2.fa.gz -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/paired.fa.1 -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/test-labels.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/paired.fa.2 -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/paired-mixed.fa.pe -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/test-empty.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/random-20-a.even.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/paired.fq.2 -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/branched-genome.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/bogus.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/paired-broken.fq.2 -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/README.rst -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/paired-broken4.fq.1 -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/paired-mixed-2.fq -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/100-reads.fq.bz2 -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/empty-file.bz2 -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/test-sweep-reads.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/test-multi.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/100-reads.fq.gz -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/dn-test-some-paired-all-keep.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/paired-mixed.fa.se -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/readaligner-k12.json -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/paired-broken2.fq.2 -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/multi-output.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/combine_parts_1.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/test-graph.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/badversion-k32.tagset -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/test-abund-read-impaired.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/paired-slash1.fq.1 -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/paired-broken3.fq.2 -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/empty-file.gz -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/empty-file -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/paired-mixed.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/paired-broken.fq.1 -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/readaligner-default.json -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/test-overlap1.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/test-graph2.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/test-fastq-n-reads.fq -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/goodversion-k32.stoptags -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/100-reads.fq.truncated.bz2 -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/valid-read-testing.fq -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/biglump-random-20-a.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/paired-mixed.fq.pe -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/test-large.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/paired_one.base.dif.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/seq-a.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/single-read.fq -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/paired-mixed-broken.fq -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/random-20-a.fq.bz2 -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/test-transcript.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/paired-broken3.fq.1 -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/paired.fq -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/test-output-partitions.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/fakelump.fa.stoptags.txt -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/random-20-a.fa -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/paired.malformat.fq.2 -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/paired-broken4.fq.2 -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test-data/test-sweep-reads.fq -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test-data
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test_counting_single.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test_functions.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test_hll.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/.gitignore -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test_version.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test_read_aligner.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test_nibblestorage.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/khmer_tst_utils.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test_memory.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/tests/test_read_handling.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/khmer/trimming.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer
creating /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/oxli/partition.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/oxli/build_graph.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/oxli/__init__.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/oxli
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/oxli/functions.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/oxli
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/thread_utils.py to thread_utils.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_version.py to _version.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/utils.py to utils.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/khmer_logger.py to khmer_logger.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/_oxli/__init__.py to __init__.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/kfile.py to kfile.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/khmer_args.py to khmer_args.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/__init__.py to __init__.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test_assembly.py to test_assembly.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test_cython_parsing.py to test_cython_parsing.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test_lump.py to test_lump.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test_scripts.py to test_scripts.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test_filter_abund.py to test_filter_abund.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/graph_features.py to graph_features.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test_banding.py to test_banding.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test_script_arguments.py to test_script_arguments.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test_streaming_io.py to test_streaming_io.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test_nodegraph.py to test_nodegraph.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/table_fixtures.py to table_fixtures.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test_tabletype.py to test_tabletype.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test_sequence_validation.py to test_sequence_validation.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test_oxli_functions.py to test_oxli_functions.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test_sandbox_scripts.py to test_sandbox_scripts.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test_read_parsers.py to test_read_parsers.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test_script_output.py to test_script_output.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test_cpython_hierarchy.py to test_cpython_hierarchy.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/__init__.py to __init__.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test_countgraph.py to test_countgraph.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test_labelhash.py to test_labelhash.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test_threaded_sequence_processor.py to test_threaded_sequence_processor.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test_subset_graph.py to test_subset_graph.cpython-312.pyc
/usr/lib/python3.12/dist-packages/khmer/tests/test_subset_graph.py:61: SyntaxWarning: "is" with 'int' literal. Did you mean "=="?
/usr/lib/python3.12/dist-packages/khmer/tests/test_subset_graph.py:82: SyntaxWarning: "is" with 'int' literal. Did you mean "=="?
/usr/lib/python3.12/dist-packages/khmer/tests/test_subset_graph.py:278: SyntaxWarning: "is" with 'int' literal. Did you mean "=="?
/usr/lib/python3.12/dist-packages/khmer/tests/test_subset_graph.py:476: SyntaxWarning: "is" with 'int' literal. Did you mean "=="?
/usr/lib/python3.12/dist-packages/khmer/tests/test_subset_graph.py:509: SyntaxWarning: "is" with 'int' literal. Did you mean "=="?
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test_qfstorage.py to test_qfstorage.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test_counttable.py to test_counttable.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test_graph.py to test_graph.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test_hashset.py to test_hashset.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test_normalize_by_median.py to test_normalize_by_median.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test_counting_single.py to test_counting_single.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test_functions.py to test_functions.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test_hll.py to test_hll.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test_version.py to test_version.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test_read_aligner.py to test_read_aligner.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test_nibblestorage.py to test_nibblestorage.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/khmer_tst_utils.py to khmer_tst_utils.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test_memory.py to test_memory.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/tests/test_read_handling.py to test_read_handling.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer/trimming.py to trimming.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/oxli/partition.py to partition.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/oxli/build_graph.py to build_graph.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/oxli/__init__.py to __init__.cpython-312.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/oxli/functions.py to functions.cpython-312.pyc
running install_egg_info
Copying khmer.egg-info to /<<PKGBUILDDIR>>/debian/khmer/usr/lib/python3.12/dist-packages/khmer-3.0.0a3.egg-info
Skipping SOURCES.txt
running install_scripts
creating /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer
creating /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin
copying build/scripts-3.12/abundance-dist.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin
copying build/scripts-3.12/normalize-by-median.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin
copying build/scripts-3.12/count-median.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin
copying build/scripts-3.12/abundance-dist-single.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin
copying build/scripts-3.12/filter-abund-single.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin
copying build/scripts-3.12/extract-paired-reads.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin
copying build/scripts-3.12/filter-abund.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin
copying build/scripts-3.12/readstats.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin
copying build/scripts-3.12/merge-partitions.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin
copying build/scripts-3.12/partition-graph.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin
copying build/scripts-3.12/extract-long-sequences.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin
copying build/scripts-3.12/find-knots.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin
copying build/scripts-3.12/sample-reads-randomly.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin
copying build/scripts-3.12/fastq-to-fasta.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin
copying build/scripts-3.12/load-into-counting.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin
copying build/scripts-3.12/load-graph.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin
copying build/scripts-3.12/do-partition.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin
copying build/scripts-3.12/split-paired-reads.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin
copying build/scripts-3.12/extract-partitions.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin
copying build/scripts-3.12/unique-kmers.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin
copying build/scripts-3.12/filter-stoptags.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin
copying build/scripts-3.12/annotate-partitions.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin
copying build/scripts-3.12/interleave-reads.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin
copying build/scripts-3.12/trim-low-abund.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin
copying build/scripts-3.12/make-initial-stoptags.py -> /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin
changing mode of /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin/abundance-dist.py to 755
changing mode of /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin/normalize-by-median.py to 755
changing mode of /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin/count-median.py to 755
changing mode of /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin/abundance-dist-single.py to 755
changing mode of /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin/filter-abund-single.py to 755
changing mode of /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin/extract-paired-reads.py to 755
changing mode of /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin/filter-abund.py to 755
changing mode of /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin/readstats.py to 755
changing mode of /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin/merge-partitions.py to 755
changing mode of /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin/partition-graph.py to 755
changing mode of /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin/extract-long-sequences.py to 755
changing mode of /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin/find-knots.py to 755
changing mode of /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin/sample-reads-randomly.py to 755
changing mode of /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin/fastq-to-fasta.py to 755
changing mode of /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin/load-into-counting.py to 755
changing mode of /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin/load-graph.py to 755
changing mode of /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin/do-partition.py to 755
changing mode of /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin/split-paired-reads.py to 755
changing mode of /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin/extract-partitions.py to 755
changing mode of /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin/unique-kmers.py to 755
changing mode of /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin/filter-stoptags.py to 755
changing mode of /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin/annotate-partitions.py to 755
changing mode of /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin/interleave-reads.py to 755
changing mode of /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin/trim-low-abund.py to 755
changing mode of /<<PKGBUILDDIR>>/debian/khmer/usr/lib/khmer/bin/make-initial-stoptags.py to 755
PYBUILD_SYSTEM=custom \
PYBUILD_TEST_ARGS="cd {dir}; export PATH={destdir}/usr/lib/khmer/bin:$PATH ; \
cd {build_dir}; export PYTHONPATH=$(pwd); {interpreter} -m pytest \
-m 'not known_failing and not jenkins and not huge and not noroot'\
-q" dh_auto_test
pybuild --test --test-pytest -i python{version} -p 3.12
I: pybuild base:311: cd '/<<PKGBUILDDIR>>'; export PATH='/<<PKGBUILDDIR>>/debian/khmer'/usr/lib/khmer/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games ; cd '/<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build'; export PYTHONPATH=/<<PKGBUILDDIR>>; python3.12 -m pytest -m 'not known_failing and not jenkins and not huge and not noroot' -q
============================= test session starts ==============================
platform linux -- Python 3.12.6, pytest-8.3.3, pluggy-1.5.0
rootdir: /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build
configfile: pytest.ini
testpaths: tests
plugins: typeguard-4.3.0
collected 1492 items / 47 deselected / 1445 selected
tests/test_assembly.py ................................................. [ 3%]
........................................................................ [ 8%]
........................................................................ [ 13%]
........................................................................ [ 18%]
........................................................................ [ 23%]
.................... [ 24%]
tests/test_banding.py ............ [ 25%]
tests/test_countgraph.py ................................Fatal Python error: Aborted
Current thread 0x00007f01a5290080 (most recent call first):
File "/<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build/tests/test_countgraph.py", line 661 in test_save_load_occupied_small
File "/usr/lib/python3/dist-packages/_pytest/python.py", line 159 in pytest_pyfunc_call
File "/usr/lib/python3/dist-packages/pluggy/_callers.py", line 103 in _multicall
File "/usr/lib/python3/dist-packages/pluggy/_manager.py", line 120 in _hookexec
File "/usr/lib/python3/dist-packages/pluggy/_hooks.py", line 513 in __call__
File "/usr/lib/python3/dist-packages/_pytest/python.py", line 1627 in runtest
File "/usr/lib/python3/dist-packages/_pytest/runner.py", line 174 in pytest_runtest_call
File "/usr/lib/python3/dist-packages/pluggy/_callers.py", line 103 in _multicall
File "/usr/lib/python3/dist-packages/pluggy/_manager.py", line 120 in _hookexec
File "/usr/lib/python3/dist-packages/pluggy/_hooks.py", line 513 in __call__
File "/usr/lib/python3/dist-packages/_pytest/runner.py", line 242 in <lambda>
File "/usr/lib/python3/dist-packages/_pytest/runner.py", line 341 in from_call
File "/usr/lib/python3/dist-packages/_pytest/runner.py", line 241 in call_and_report
File "/usr/lib/python3/dist-packages/_pytest/runner.py", line 132 in runtestprotocol
File "/usr/lib/python3/dist-packages/_pytest/runner.py", line 113 in pytest_runtest_protocol
File "/usr/lib/python3/dist-packages/pluggy/_callers.py", line 103 in _multicall
File "/usr/lib/python3/dist-packages/pluggy/_manager.py", line 120 in _hookexec
File "/usr/lib/python3/dist-packages/pluggy/_hooks.py", line 513 in __call__
File "/usr/lib/python3/dist-packages/_pytest/main.py", line 362 in pytest_runtestloop
File "/usr/lib/python3/dist-packages/pluggy/_callers.py", line 103 in _multicall
File "/usr/lib/python3/dist-packages/pluggy/_manager.py", line 120 in _hookexec
File "/usr/lib/python3/dist-packages/pluggy/_hooks.py", line 513 in __call__
File "/usr/lib/python3/dist-packages/_pytest/main.py", line 337 in _main
File "/usr/lib/python3/dist-packages/_pytest/main.py", line 283 in wrap_session
File "/usr/lib/python3/dist-packages/_pytest/main.py", line 330 in pytest_cmdline_main
File "/usr/lib/python3/dist-packages/pluggy/_callers.py", line 103 in _multicall
File "/usr/lib/python3/dist-packages/pluggy/_manager.py", line 120 in _hookexec
File "/usr/lib/python3/dist-packages/pluggy/_hooks.py", line 513 in __call__
File "/usr/lib/python3/dist-packages/_pytest/config/__init__.py", line 175 in main
File "/usr/lib/python3/dist-packages/_pytest/config/__init__.py", line 201 in console_main
File "/usr/lib/python3/dist-packages/pytest/__main__.py", line 9 in <module>
File "<frozen runpy>", line 88 in _run_code
File "<frozen runpy>", line 198 in _run_module_as_main
Extension modules: khmer._khmer, khmer._oxli.hashing, khmer._oxli.utils, khmer._oxli.parsing, khmer._oxli.hashset, khmer._oxli.traversal, khmer._oxli.graphs, khmer._oxli.legacy_partitioning, khmer._oxli.labeling, khmer._oxli.assembly, khmer._oxli.readaligner, khmer._oxli.hllcounter (total: 12)
Aborted
E: pybuild pybuild:389: test: plugin custom failed with: exit code=134: cd '/<<PKGBUILDDIR>>'; export PATH='/<<PKGBUILDDIR>>/debian/khmer'/usr/lib/khmer/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games ; cd '/<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_khmer/build'; export PYTHONPATH=/<<PKGBUILDDIR>>; python3.12 -m pytest -m 'not known_failing and not jenkins and not huge and not noroot' -q
rm -fr -- /tmp/dh-xdg-rundir-Kn_fBcP6
dh_auto_test: error: pybuild --test --test-pytest -i python{version} -p 3.12 returned exit code 13
make[1]: *** [debian/rules:29: override_dh_auto_test] Error 25
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
make: *** [debian/rules:16: binary] Error 2
dpkg-buildpackage: error: debian/rules binary subprocess returned exit status 2
--------------------------------------------------------------------------------
The above is just how the build ends and not necessarily the most relevant part.
If required, the full build log is available here:
https://people.debian.org/~sanvila/build-logs/202409/
About the archive rebuild: The build was made on virtual machines from AWS,
using sbuild and a reduced chroot with only build-essential packages.
If you could not reproduce the bug please contact me privately, as I
am willing to provide ssh access to a virtual machine where the bug is
fully reproducible.
If this is really a bug in one of the build-depends, please use
reassign and affects, so that this is still visible in the BTS web
page for this package.
Thanks.
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