Bug#955662: marked as done (python-biom-format: FTBFS: ERROR: Failure: ModuleNotFoundError (No module named 'matplotlib'))

[Debian Bug Tracking System]

Your message dated Fri, 03 Apr 2020 21:49:12 +0000
with message-id <e1jkubc-0006fs...@fasolo.debian.org>
and subject line Bug#955662: fixed in python-biom-format 2.1.8+dfsg-2
has caused the Debian Bug report #955662,
regarding python-biom-format: FTBFS: ERROR: Failure: ModuleNotFoundError (No 
module named 'matplotlib')
to be marked as done.

This means that you claim that the problem has been dealt with.
If this is not the case it is now your responsibility to reopen the
Bug report if necessary, and/or fix the problem forthwith.

(NB: If you are a system administrator and have no idea what this
message is talking about, this may indicate a serious mail system
misconfiguration somewhere. Please contact ow...@bugs.debian.org
immediately.)


-- 
955662: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=955662
Debian Bug Tracking System
Contact ow...@bugs.debian.org with problems

--- Begin Message ---

Source: python-biom-format
Version: 2.1.8+dfsg-1
Severity: serious
Justification: FTBFS on amd64
Tags: bullseye sid ftbfs
Usertags: ftbfs-20200402 ftbfs-bullseye

Hi,

During a rebuild of all packages in sid, your package failed to build
on amd64.

Relevant part (hopefully):
> make[1]: Entering directory '/<<PKGBUILDDIR>>'
> # arch
> USE_CYTHON=true dh_auto_build
>       pybuild --build --test-nose -i python{version} -p "3.7 3.8"
> I: pybuild base:217: /usr/bin/python3.7 setup.py build 
> running build
> running build_py
> creating /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom
> copying biom/__init__.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom
> copying biom/parse.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom
> copying biom/err.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom
> copying biom/exception.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom
> copying biom/util.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom
> copying biom/table.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom
> creating /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests
> copying biom/tests/__init__.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests
> copying biom/tests/test_util.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests
> copying biom/tests/long_lines.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests
> copying biom/tests/test_err.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests
> copying biom/tests/test_table.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests
> copying biom/tests/test_parse.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests
> creating /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/cli
> copying biom/cli/table_validator.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/cli
> copying biom/cli/table_subsetter.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/cli
> copying biom/cli/__init__.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/cli
> copying biom/cli/table_normalizer.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/cli
> copying biom/cli/table_ids.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/cli
> copying biom/cli/uc_processor.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/cli
> copying biom/cli/table_summarizer.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/cli
> copying biom/cli/metadata_exporter.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/cli
> copying biom/cli/table_head.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/cli
> copying biom/cli/metadata_adder.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/cli
> copying biom/cli/util.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/cli
> copying biom/cli/table_converter.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/cli
> copying biom/cli/installation_informer.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/cli
> creating 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/test_data
> copying biom/tests/test_data/__init__.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/test_data
> creating 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/test_cli
> copying biom/tests/test_cli/test_show_install_info.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/test_cli
> copying biom/tests/test_cli/test_table_normalizer.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/test_cli
> copying biom/tests/test_cli/__init__.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/test_cli
> copying biom/tests/test_cli/test_table_converter.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/test_cli
> copying biom/tests/test_cli/test_add_metadata.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/test_cli
> copying biom/tests/test_cli/test_subset_table.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/test_cli
> copying biom/tests/test_cli/test_uc_processor.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/test_cli
> copying biom/tests/test_cli/test_summarize_table.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/test_cli
> copying biom/tests/test_cli/test_validate_table.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/test_cli
> running egg_info
> creating biom_format.egg-info
> writing biom_format.egg-info/PKG-INFO
> writing dependency_links to biom_format.egg-info/dependency_links.txt
> writing entry points to biom_format.egg-info/entry_points.txt
> writing requirements to biom_format.egg-info/requires.txt
> writing top-level names to biom_format.egg-info/top_level.txt
> writing manifest file 'biom_format.egg-info/SOURCES.txt'
> reading manifest file 'biom_format.egg-info/SOURCES.txt'
> reading manifest template 'MANIFEST.in'
> warning: no directories found matching 'support_files'
> warning: no directories found matching 'tests/test_data'
> no previously-included directories found matching 'docs/_build'
> warning: no previously-included files matching '*.pyc' found anywhere in 
> distribution
> warning: no previously-included files matching '*.pyo' found anywhere in 
> distribution
> warning: no previously-included files matching '.git' found anywhere in 
> distribution
> warning: no previously-included files matching '*.so' found anywhere in 
> distribution
> warning: no previously-included files matching '.*.swp' found anywhere in 
> distribution
> writing manifest file 'biom_format.egg-info/SOURCES.txt'
> copying biom/_filter.c -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom
> copying biom/_filter.pyx -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom
> copying biom/_subsample.c -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom
> copying biom/_subsample.pyx -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom
> copying biom/_transform.c -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom
> copying biom/_transform.pyx -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom
> creating /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/assets
> copying biom/assets/exercise_api.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/assets
> copying biom/assets/exercise_cli.sh -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/assets
> creating 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x10000x0.001_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x10000x0.001_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x10000x0.010_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x10000x0.010_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x10000x0.100_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x10000x0.100_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x1000x0.001_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x1000x0.001_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x1000x0.010_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x1000x0.010_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x1000x0.100_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x1000x0.100_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x100x0.001_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x100x0.001_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x100x0.010_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x100x0.010_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x100x0.100_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x100x0.100_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x10x0.001_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x10x0.001_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x10x0.010_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x10x0.010_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x10x0.100_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x10x0.100_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x10000x0.001_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x10000x0.001_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x10000x0.010_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x10000x0.010_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x10000x0.100_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x10000x0.100_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x1000x0.001_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x1000x0.001_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x1000x0.010_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x1000x0.010_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x1000x0.100_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x1000x0.100_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x100x0.001_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x100x0.001_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x100x0.010_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x100x0.010_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x100x0.100_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x100x0.100_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x10x0.001_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x10x0.001_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x10x0.010_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x10x0.010_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x10x0.100_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x10x0.100_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x10000x0.001_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x10000x0.001_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x10000x0.010_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x10000x0.010_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x10000x0.100_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x10000x0.100_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x1000x0.001_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x1000x0.001_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x1000x0.010_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x1000x0.010_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x1000x0.100_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x1000x0.100_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x100x0.001_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x100x0.001_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x100x0.010_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x100x0.010_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x100x0.100_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x100x0.100_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x10x0.001_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x10x0.001_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x10x0.010_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x10x0.010_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x10x0.100_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x10x0.100_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x10000x0.001_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x10000x0.001_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x10000x0.010_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x10000x0.010_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x10000x0.100_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x10000x0.100_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x1000x0.001_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x1000x0.001_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x1000x0.010_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x1000x0.010_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x1000x0.100_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x1000x0.100_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x100x0.001_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x100x0.001_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x100x0.010_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x100x0.010_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x100x0.100_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x100x0.100_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x10x0.001_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x10x0.001_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x10x0.010_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x10x0.010_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x10x0.100_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x10x0.100_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/bench_tables
> copying biom/tests/test_data/bad_table.txt -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/test_data
> copying biom/tests/test_data/bad_table.txt.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/test_data
> copying biom/tests/test_data/empty.biom -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/test_data
> copying biom/tests/test_data/no-contents.biom -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/test_data
> copying biom/tests/test_data/test.biom -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/test_data
> copying biom/tests/test_data/test.json -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/test_data
> copying biom/tests/test_data/test.json.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/test_data
> creating 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/test_cli/test_data
> copying biom/tests/test_cli/test_data/json_obs_collapsed.biom -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/test_cli/test_data
> copying biom/tests/test_cli/test_data/json_sample_collapsed.biom -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/test_cli/test_data
> copying biom/tests/test_cli/test_data/test.biom -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/test_cli/test_data
> copying biom/tests/test_cli/test_data/test.json -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/tests/test_cli/test_data
> running build_ext
> building 'biom._filter' extension
> creating build
> creating build/temp.linux-x86_64-3.7
> creating build/temp.linux-x86_64-3.7/biom
> x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g 
> -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat 
> -Werror=format-security -g -fwrapv -O2 -g -O2 
> -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat 
> -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC 
> -I/usr/lib/python3/dist-packages/numpy/core/include 
> -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.7m 
> -c biom/_filter.c -o build/temp.linux-x86_64-3.7/biom/_filter.o
> In file included from 
> /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1830,
>                  from 
> /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12,
>                  from 
> /usr/lib/python3/dist-packages/numpy/core/include/numpy/arrayobject.h:4,
>                  from biom/_filter.c:617:
> /usr/lib/python3/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2:
>  warning: #warning "Using deprecated NumPy API, disable it with " "#define 
> NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
>    17 | #warning "Using deprecated NumPy API, disable it with " \
>       |  ^~~~~~~
> x86_64-linux-gnu-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions 
> -Wl,-z,relro -Wl,-z,relro -Wl,-z,now -g -O2 
> -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat 
> -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 
> build/temp.linux-x86_64-3.7/biom/_filter.o -o 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/_filter.cpython-37m-x86_64-linux-gnu.so
> building 'biom._transform' extension
> x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g 
> -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat 
> -Werror=format-security -g -fwrapv -O2 -g -O2 
> -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat 
> -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC 
> -I/usr/lib/python3/dist-packages/numpy/core/include 
> -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.7m 
> -c biom/_transform.c -o build/temp.linux-x86_64-3.7/biom/_transform.o
> In file included from 
> /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1830,
>                  from 
> /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12,
>                  from 
> /usr/lib/python3/dist-packages/numpy/core/include/numpy/arrayobject.h:4,
>                  from biom/_transform.c:617:
> /usr/lib/python3/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2:
>  warning: #warning "Using deprecated NumPy API, disable it with " "#define 
> NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
>    17 | #warning "Using deprecated NumPy API, disable it with " \
>       |  ^~~~~~~
> x86_64-linux-gnu-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions 
> -Wl,-z,relro -Wl,-z,relro -Wl,-z,now -g -O2 
> -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat 
> -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 
> build/temp.linux-x86_64-3.7/biom/_transform.o -o 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/_transform.cpython-37m-x86_64-linux-gnu.so
> building 'biom._subsample' extension
> x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g 
> -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat 
> -Werror=format-security -g -fwrapv -O2 -g -O2 
> -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat 
> -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC 
> -I/usr/lib/python3/dist-packages/numpy/core/include 
> -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.7m 
> -c biom/_subsample.c -o build/temp.linux-x86_64-3.7/biom/_subsample.o
> In file included from 
> /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1830,
>                  from 
> /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12,
>                  from 
> /usr/lib/python3/dist-packages/numpy/core/include/numpy/arrayobject.h:4,
>                  from biom/_subsample.c:617:
> /usr/lib/python3/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2:
>  warning: #warning "Using deprecated NumPy API, disable it with " "#define 
> NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
>    17 | #warning "Using deprecated NumPy API, disable it with " \
>       |  ^~~~~~~
> x86_64-linux-gnu-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions 
> -Wl,-z,relro -Wl,-z,relro -Wl,-z,now -g -O2 
> -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat 
> -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 
> build/temp.linux-x86_64-3.7/biom/_subsample.o -o 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/_subsample.cpython-37m-x86_64-linux-gnu.so
> I: pybuild base:217: /usr/bin/python3 setup.py build 
> running build
> running build_py
> creating /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom
> copying biom/__init__.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom
> copying biom/parse.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom
> copying biom/err.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom
> copying biom/exception.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom
> copying biom/util.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom
> copying biom/table.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom
> creating /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests
> copying biom/tests/__init__.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests
> copying biom/tests/test_util.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests
> copying biom/tests/long_lines.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests
> copying biom/tests/test_err.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests
> copying biom/tests/test_table.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests
> copying biom/tests/test_parse.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests
> creating /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/cli
> copying biom/cli/table_validator.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/cli
> copying biom/cli/table_subsetter.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/cli
> copying biom/cli/__init__.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/cli
> copying biom/cli/table_normalizer.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/cli
> copying biom/cli/table_ids.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/cli
> copying biom/cli/uc_processor.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/cli
> copying biom/cli/table_summarizer.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/cli
> copying biom/cli/metadata_exporter.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/cli
> copying biom/cli/table_head.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/cli
> copying biom/cli/metadata_adder.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/cli
> copying biom/cli/util.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/cli
> copying biom/cli/table_converter.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/cli
> copying biom/cli/installation_informer.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/cli
> creating 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/test_data
> copying biom/tests/test_data/__init__.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/test_data
> creating 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/test_cli
> copying biom/tests/test_cli/test_show_install_info.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/test_cli
> copying biom/tests/test_cli/test_table_normalizer.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/test_cli
> copying biom/tests/test_cli/__init__.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/test_cli
> copying biom/tests/test_cli/test_table_converter.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/test_cli
> copying biom/tests/test_cli/test_add_metadata.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/test_cli
> copying biom/tests/test_cli/test_subset_table.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/test_cli
> copying biom/tests/test_cli/test_uc_processor.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/test_cli
> copying biom/tests/test_cli/test_summarize_table.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/test_cli
> copying biom/tests/test_cli/test_validate_table.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/test_cli
> running egg_info
> writing biom_format.egg-info/PKG-INFO
> writing dependency_links to biom_format.egg-info/dependency_links.txt
> writing entry points to biom_format.egg-info/entry_points.txt
> writing requirements to biom_format.egg-info/requires.txt
> writing top-level names to biom_format.egg-info/top_level.txt
> reading manifest file 'biom_format.egg-info/SOURCES.txt'
> reading manifest template 'MANIFEST.in'
> warning: no directories found matching 'support_files'
> warning: no directories found matching 'tests/test_data'
> no previously-included directories found matching 'docs/_build'
> warning: no previously-included files matching '*.pyc' found anywhere in 
> distribution
> warning: no previously-included files matching '*.pyo' found anywhere in 
> distribution
> warning: no previously-included files matching '.git' found anywhere in 
> distribution
> warning: no previously-included files matching '*.so' found anywhere in 
> distribution
> warning: no previously-included files matching '.*.swp' found anywhere in 
> distribution
> writing manifest file 'biom_format.egg-info/SOURCES.txt'
> copying biom/_filter.c -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom
> copying biom/_filter.pyx -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom
> copying biom/_subsample.c -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom
> copying biom/_subsample.pyx -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom
> copying biom/_transform.c -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom
> copying biom/_transform.pyx -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom
> creating /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/assets
> copying biom/assets/exercise_api.py -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/assets
> copying biom/assets/exercise_cli.sh -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/assets
> creating 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x10000x0.001_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x10000x0.001_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x10000x0.010_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x10000x0.010_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x10000x0.100_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x10000x0.100_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x1000x0.001_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x1000x0.001_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x1000x0.010_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x1000x0.010_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x1000x0.100_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x1000x0.100_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x100x0.001_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x100x0.001_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x100x0.010_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x100x0.010_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x100x0.100_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x100x0.100_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x10x0.001_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x10x0.001_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x10x0.010_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x10x0.010_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x10x0.100_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10000x10x0.100_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x10000x0.001_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x10000x0.001_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x10000x0.010_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x10000x0.010_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x10000x0.100_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x10000x0.100_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x1000x0.001_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x1000x0.001_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x1000x0.010_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x1000x0.010_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x1000x0.100_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x1000x0.100_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x100x0.001_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x100x0.001_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x100x0.010_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x100x0.010_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x100x0.100_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x100x0.100_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x10x0.001_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x10x0.001_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x10x0.010_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x10x0.010_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x10x0.100_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/1000x10x0.100_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x10000x0.001_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x10000x0.001_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x10000x0.010_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x10000x0.010_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x10000x0.100_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x10000x0.100_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x1000x0.001_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x1000x0.001_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x1000x0.010_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x1000x0.010_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x1000x0.100_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x1000x0.100_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x100x0.001_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x100x0.001_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x100x0.010_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x100x0.010_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x100x0.100_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x100x0.100_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x10x0.001_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x10x0.001_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x10x0.010_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x10x0.010_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x10x0.100_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/100x10x0.100_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x10000x0.001_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x10000x0.001_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x10000x0.010_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x10000x0.010_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x10000x0.100_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x10000x0.100_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x1000x0.001_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x1000x0.001_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x1000x0.010_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x1000x0.010_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x1000x0.100_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x1000x0.100_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x100x0.001_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x100x0.001_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x100x0.010_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x100x0.010_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x100x0.100_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x100x0.100_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x10x0.001_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x10x0.001_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x10x0.010_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x10x0.010_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x10x0.100_bench.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/bench_tables/10x10x0.100_bench_hdf5.biom.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/bench_tables
> copying biom/tests/test_data/bad_table.txt -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/test_data
> copying biom/tests/test_data/bad_table.txt.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/test_data
> copying biom/tests/test_data/empty.biom -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/test_data
> copying biom/tests/test_data/no-contents.biom -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/test_data
> copying biom/tests/test_data/test.biom -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/test_data
> copying biom/tests/test_data/test.json -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/test_data
> copying biom/tests/test_data/test.json.gz -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/test_data
> creating 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/test_cli/test_data
> copying biom/tests/test_cli/test_data/json_obs_collapsed.biom -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/test_cli/test_data
> copying biom/tests/test_cli/test_data/json_sample_collapsed.biom -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/test_cli/test_data
> copying biom/tests/test_cli/test_data/test.biom -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/test_cli/test_data
> copying biom/tests/test_cli/test_data/test.json -> 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/tests/test_cli/test_data
> running build_ext
> building 'biom._filter' extension
> creating build/temp.linux-x86_64-3.8
> creating build/temp.linux-x86_64-3.8/biom
> x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g 
> -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat 
> -Werror=format-security -g -fwrapv -O2 -g -O2 
> -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat 
> -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC 
> -I/usr/lib/python3/dist-packages/numpy/core/include 
> -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.8 
> -c biom/_filter.c -o build/temp.linux-x86_64-3.8/biom/_filter.o
> In file included from 
> /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1830,
>                  from 
> /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12,
>                  from 
> /usr/lib/python3/dist-packages/numpy/core/include/numpy/arrayobject.h:4,
>                  from biom/_filter.c:617:
> /usr/lib/python3/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2:
>  warning: #warning "Using deprecated NumPy API, disable it with " "#define 
> NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
>    17 | #warning "Using deprecated NumPy API, disable it with " \
>       |  ^~~~~~~
> x86_64-linux-gnu-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions 
> -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 
> -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat 
> -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 
> build/temp.linux-x86_64-3.8/biom/_filter.o -o 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/_filter.cpython-38-x86_64-linux-gnu.so
> building 'biom._transform' extension
> x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g 
> -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat 
> -Werror=format-security -g -fwrapv -O2 -g -O2 
> -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat 
> -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC 
> -I/usr/lib/python3/dist-packages/numpy/core/include 
> -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.8 
> -c biom/_transform.c -o build/temp.linux-x86_64-3.8/biom/_transform.o
> In file included from 
> /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1830,
>                  from 
> /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12,
>                  from 
> /usr/lib/python3/dist-packages/numpy/core/include/numpy/arrayobject.h:4,
>                  from biom/_transform.c:617:
> /usr/lib/python3/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2:
>  warning: #warning "Using deprecated NumPy API, disable it with " "#define 
> NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
>    17 | #warning "Using deprecated NumPy API, disable it with " \
>       |  ^~~~~~~
> x86_64-linux-gnu-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions 
> -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 
> -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat 
> -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 
> build/temp.linux-x86_64-3.8/biom/_transform.o -o 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/_transform.cpython-38-x86_64-linux-gnu.so
> building 'biom._subsample' extension
> x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g 
> -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat 
> -Werror=format-security -g -fwrapv -O2 -g -O2 
> -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat 
> -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC 
> -I/usr/lib/python3/dist-packages/numpy/core/include 
> -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.8 
> -c biom/_subsample.c -o build/temp.linux-x86_64-3.8/biom/_subsample.o
> In file included from 
> /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1830,
>                  from 
> /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12,
>                  from 
> /usr/lib/python3/dist-packages/numpy/core/include/numpy/arrayobject.h:4,
>                  from biom/_subsample.c:617:
> /usr/lib/python3/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2:
>  warning: #warning "Using deprecated NumPy API, disable it with " "#define 
> NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
>    17 | #warning "Using deprecated NumPy API, disable it with " \
>       |  ^~~~~~~
> x86_64-linux-gnu-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions 
> -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 
> -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat 
> -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 
> build/temp.linux-x86_64-3.8/biom/_subsample.o -o 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.8_biom-format/build/biom/_subsample.cpython-38-x86_64-linux-gnu.so
> # indep:
> PYTHONPATH=. http_proxy='127.0.0.1:9' sphinx-build -N -b html doc build/html
> Running Sphinx v1.8.5
> making output directory...
> [autosummary] generating autosummary for: BIOM_LICENSE.rst, 
> documentation/adding_metadata.rst, documentation/biom_conversion.rst, 
> documentation/biom_format.rst, documentation/index.rst, 
> documentation/quick_usage_examples.rst, 
> documentation/summarizing_biom_tables.rst, documentation/table_objects.rst, 
> index.rst
> Failed to import 'biom.table': no module named biom.table
> Failed to import 'biom': no module named biom
> building [mo]: targets for 0 po files that are out of date
> building [html]: targets for 12 source files that are out of date
> updating environment: 12 added, 0 changed, 0 removed
> reading sources... [  8%] BIOM_LICENSE
> reading sources... [ 16%] documentation/adding_metadata
> reading sources... [ 25%] documentation/biom_conversion
> reading sources... [ 33%] documentation/biom_format
> reading sources... [ 41%] documentation/format_versions/biom-1.0
> reading sources... [ 50%] documentation/format_versions/biom-2.0
> reading sources... [ 58%] documentation/format_versions/biom-2.1
> reading sources... [ 66%] documentation/index
> reading sources... [ 75%] documentation/quick_usage_examples
> reading sources... [ 83%] documentation/summarizing_biom_tables
> reading sources... [ 91%] documentation/table_objects
> reading sources... [100%] index
> 
> WARNING: autodoc: failed to import module 'biom'; the following exception was 
> raised:
> No module named 'matplotlib'
> WARNING: autodoc: failed to import module 'table' from module 'biom'; the 
> following exception was raised:
> No module named 'matplotlib'
> looking for now-outdated files... none found
> pickling environment... done
> checking consistency... done
> preparing documents... done
> writing output... [  8%] BIOM_LICENSE
> writing output... [ 16%] documentation/adding_metadata
> writing output... [ 25%] documentation/biom_conversion
> writing output... [ 33%] documentation/biom_format
> writing output... [ 41%] documentation/format_versions/biom-1.0
> writing output... [ 50%] documentation/format_versions/biom-2.0
> writing output... [ 58%] documentation/format_versions/biom-2.1
> writing output... [ 66%] documentation/index
> writing output... [ 75%] documentation/quick_usage_examples
> writing output... [ 83%] documentation/summarizing_biom_tables
> writing output... [ 91%] documentation/table_objects
> writing output... [100%] index
> 
> /<<PKGBUILDDIR>>/doc/documentation/index.rst:11: WARNING: toctree contains 
> reference to document 'documentation/quick_usage_examples' that doesn't have 
> a title: no link will be generated
> /<<PKGBUILDDIR>>/doc/documentation/index.rst:11: WARNING: toctree contains 
> reference to document 'documentation/table_objects' that doesn't have a 
> title: no link will be generated
> /<<PKGBUILDDIR>>/doc/documentation/index.rst:11: WARNING: toctree contains 
> reference to document 'documentation/quick_usage_examples' that doesn't have 
> a title: no link will be generated
> /<<PKGBUILDDIR>>/doc/documentation/index.rst:11: WARNING: toctree contains 
> reference to document 'documentation/table_objects' that doesn't have a 
> title: no link will be generated
> generating indices...
> writing additional pages... search
> copying images... [100%] _static/biom-format.png
> 
> copying static files... done
> copying extra files... done
> dumping search index in English (code: en) ... done
> dumping object inventory... done
> build succeeded, 6 warnings.
> 
> The HTML pages are in build/html.
> PYTHONPATH=. http_proxy='127.0.0.1:9' sphinx-build -N -b man doc build/man
> Running Sphinx v1.8.5
> making output directory...
> [autosummary] generating autosummary for: BIOM_LICENSE.rst, 
> documentation/adding_metadata.rst, documentation/biom_conversion.rst, 
> documentation/biom_format.rst, documentation/index.rst, 
> documentation/quick_usage_examples.rst, 
> documentation/summarizing_biom_tables.rst, documentation/table_objects.rst, 
> index.rst
> Failed to import 'biom.table': no module named biom.table
> Failed to import 'biom': no module named biom
> building [mo]: targets for 0 po files that are out of date
> building [man]: all manpages
> updating environment: 12 added, 0 changed, 0 removed
> reading sources... [  8%] BIOM_LICENSE
> reading sources... [ 16%] documentation/adding_metadata
> reading sources... [ 25%] documentation/biom_conversion
> reading sources... [ 33%] documentation/biom_format
> reading sources... [ 41%] documentation/format_versions/biom-1.0
> reading sources... [ 50%] documentation/format_versions/biom-2.0
> reading sources... [ 58%] documentation/format_versions/biom-2.1
> reading sources... [ 66%] documentation/index
> reading sources... [ 75%] documentation/quick_usage_examples
> reading sources... [ 83%] documentation/summarizing_biom_tables
> reading sources... [ 91%] documentation/table_objects
> reading sources... [100%] index
> 
> WARNING: autodoc: failed to import module 'biom'; the following exception was 
> raised:
> No module named 'matplotlib'
> WARNING: autodoc: failed to import module 'table' from module 'biom'; the 
> following exception was raised:
> No module named 'matplotlib'
> looking for now-outdated files... none found
> pickling environment... done
> checking consistency... done
> writing... biom.1 { documentation/index documentation/biom_format 
> documentation/format_versions/biom-1.0 documentation/format_versions/biom-2.0 
> documentation/format_versions/biom-2.1 documentation/quick_usage_examples 
> documentation/table_objects documentation/biom_conversion 
> documentation/adding_metadata documentation/summarizing_biom_tables 
> BIOM_LICENSE } 
> build succeeded, 2 warnings.
> 
> The manual pages are in build/man.
> make[1]: Leaving directory '/<<PKGBUILDDIR>>'
>    dh_auto_test -O--buildsystem=pybuild
>       pybuild --test --test-nose -i python{version} -p "3.7 3.8"
> I: pybuild pybuild:284: cp -r /<<PKGBUILDDIR>>/examples 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build
> I: pybuild base:217: cd 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build; python3.7 -m nose 
> -v 
> Failure: ModuleNotFoundError (No module named 'matplotlib') ... ERROR
> 
> ======================================================================
> ERROR: Failure: ModuleNotFoundError (No module named 'matplotlib')
> ----------------------------------------------------------------------
> Traceback (most recent call last):
>   File "/usr/lib/python3/dist-packages/nose/failure.py", line 39, in runTest
>     raise self.exc_val.with_traceback(self.tb)
>   File "/usr/lib/python3/dist-packages/nose/loader.py", line 417, in 
> loadTestsFromName
>     addr.filename, addr.module)
>   File "/usr/lib/python3/dist-packages/nose/importer.py", line 47, in 
> importFromPath
>     return self.importFromDir(dir_path, fqname)
>   File "/usr/lib/python3/dist-packages/nose/importer.py", line 94, in 
> importFromDir
>     mod = load_module(part_fqname, fh, filename, desc)
>   File "/usr/lib/python3.7/imp.py", line 244, in load_module
>     return load_package(name, filename)
>   File "/usr/lib/python3.7/imp.py", line 216, in load_package
>     return _load(spec)
>   File "<frozen importlib._bootstrap>", line 696, in _load
>   File "<frozen importlib._bootstrap>", line 677, in _load_unlocked
>   File "<frozen importlib._bootstrap_external>", line 728, in exec_module
>   File "<frozen importlib._bootstrap>", line 219, in _call_with_frames_removed
>   File 
> "/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/__init__.py", 
> line 53, in <module>
>     from .table import Table
>   File 
> "/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build/biom/table.py", 
> line 189, in <module>
>     import pandas as pd
>   File "/usr/lib/python3/dist-packages/pandas/__init__.py", line 182, in 
> <module>
>     import pandas.testing
>   File "/usr/lib/python3/dist-packages/pandas/testing.py", line 7, in <module>
>     from pandas.util.testing import (
>   File "/usr/lib/python3/dist-packages/pandas/util/testing.py", line 18, in 
> <module>
>     from matplotlib.cbook import MatplotlibDeprecationWarning
> ModuleNotFoundError: No module named 'matplotlib'
> 
> ----------------------------------------------------------------------
> Ran 1 test in 0.360s
> 
> FAILED (errors=1)
> E: pybuild pybuild:352: test: plugin distutils failed with: exit code=1: cd 
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_biom-format/build; python3.7 -m nose 
> -v 
> dh_auto_test: error: pybuild --test --test-nose -i python{version} -p "3.7 
> 3.8" returned exit code 13

The full build log is available from:
   
http://qa-logs.debian.net/2020/04/02/python-biom-format_2.1.8+dfsg-1_unstable.log

A list of current common problems and possible solutions is available at
http://wiki.debian.org/qa.debian.org/FTBFS . You're welcome to contribute!

About the archive rebuild: The rebuild was done on EC2 VM instances from
Amazon Web Services, using a clean, minimal and up-to-date chroot. Every
failed build was retried once to eliminate random failures.

--- End Message ---

--- Begin Message ---

Source: python-biom-format
Source-Version: 2.1.8+dfsg-2
Done: Andreas Tille <ti...@debian.org>

We believe that the bug you reported is fixed in the latest version of
python-biom-format, which is due to be installed in the Debian FTP archive.

A summary of the changes between this version and the previous one is
attached.

Thank you for reporting the bug, which will now be closed.  If you
have further comments please address them to 955...@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.

Debian distribution maintenance software
pp.
Andreas Tille <ti...@debian.org> (supplier of updated python-biom-format 
package)

(This message was generated automatically at their request; if you
believe that there is a problem with it please contact the archive
administrators by mailing ftpmas...@ftp-master.debian.org)


-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA256

Format: 1.8
Date: Fri, 03 Apr 2020 23:18:06 +0200
Source: python-biom-format
Architecture: source
Version: 2.1.8+dfsg-2
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Andreas Tille <ti...@debian.org>
Closes: 955662
Changes:
 python-biom-format (2.1.8+dfsg-2) unstable; urgency=medium
 .
   * Build-Depends: python3-matplotlib
     Closes: #955662
   * Standards-Version: 4.5.0 (routine-update)
   * Add salsa-ci file (routine-update)
   * Rules-Requires-Root: no (routine-update)
   * Use secure URI in Homepage field.
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python-biom-format_2.1.8+dfsg-2.debian.tar.xz
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--- End Message ---