[Debian-med-packaging] Bug#1042046: pyranges: FTBFS: dh_auto_test: error: pybuild --test --test-pytest -i python{version} -p 3.11 returned exit code 13
Lucas Nussbaum
lucas at debian.org
Tue Jul 25 21:54:43 BST 2023
Source: pyranges
Version: 0.0.111+ds-4
Severity: serious
Justification: FTBFS
Tags: trixie sid ftbfs
User: lucas at debian.org
Usertags: ftbfs-20230724 ftbfs-trixie
Hi,
During a rebuild of all packages in sid, your package failed to build
on amd64.
Relevant part (hopefully):
> make[1]: Entering directory '/<<PKGBUILDDIR>>'
> dh_auto_build
> I: pybuild base:240: /usr/bin/python3 setup.py build
> echo 'Generating corresponding files ...'
> Generating corresponding files ...
> cat debian/missing-sources/test_sorted.sam| samtools view -Sb - > tests/test_data/test_sorted.bam
> cat debian/missing-sources/control.sam| samtools view -Sb - > pyranges/example_data/control.bam
> samtools index tests/test_data/test_sorted.bam tests/test_data/test_sorted.bam.bai
> samtools index pyranges/example_data/control.bam pyranges/example_data/control.bam.bai
> make[1]: Leaving directory '/<<PKGBUILDDIR>>'
> dh_auto_test -O--buildsystem=pybuild
> I: pybuild pybuild:307: cp -av /<<PKGBUILDDIR>>/tests/*.bed /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/tests && cp -av /<<PKGBUILDDIR>>/tests/test_data /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/tests && cp -av /<<PKGBUILDDIR>>/tests/data /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/tests && cp -av /<<PKGBUILDDIR>>/pyranges/example_data /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/pyranges
> '/<<PKGBUILDDIR>>/tests/chip_10.bed' -> '/<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/tests/chip_10.bed'
> '/<<PKGBUILDDIR>>/tests/f1.bed' -> '/<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/tests/f1.bed'
> '/<<PKGBUILDDIR>>/tests/f2.bed' -> '/<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/tests/f2.bed'
> '/<<PKGBUILDDIR>>/tests/test_data' -> '/<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/tests/test_data'
> '/<<PKGBUILDDIR>>/tests/test_data/ensembl.gtf' -> '/<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/tests/test_data/ensembl.gtf'
> '/<<PKGBUILDDIR>>/tests/test_data/gencode.gff3' -> '/<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/tests/test_data/gencode.gff3'
> '/<<PKGBUILDDIR>>/tests/test_data/ucsc_df_to_parse.txt' -> '/<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/tests/test_data/ucsc_df_to_parse.txt'
> '/<<PKGBUILDDIR>>/tests/test_data/test_sorted.bam' -> '/<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/tests/test_data/test_sorted.bam'
> '/<<PKGBUILDDIR>>/tests/test_data/test_sorted.bam.bai' -> '/<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/tests/test_data/test_sorted.bam.bai'
> '/<<PKGBUILDDIR>>/tests/data' -> '/<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/tests/data'
> '/<<PKGBUILDDIR>>/tests/data/test_data.py' -> '/<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/tests/data/test_data.py'
> '/<<PKGBUILDDIR>>/pyranges/example_data/exons.bed' -> '/<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/pyranges/example_data/exons.bed'
> '/<<PKGBUILDDIR>>/pyranges/example_data/ensembl.gtf' -> '/<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/pyranges/example_data/ensembl.gtf'
> '/<<PKGBUILDDIR>>/pyranges/example_data/ucsc_human.bed.gz' -> '/<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/pyranges/example_data/ucsc_human.bed.gz'
> '/<<PKGBUILDDIR>>/pyranges/example_data/chipseq_background.bed' -> '/<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/pyranges/example_data/chipseq_background.bed'
> '/<<PKGBUILDDIR>>/pyranges/example_data/f2.bed' -> '/<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/pyranges/example_data/f2.bed'
> '/<<PKGBUILDDIR>>/pyranges/example_data/bw.bw' -> '/<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/pyranges/example_data/bw.bw'
> '/<<PKGBUILDDIR>>/pyranges/example_data/f1.bed' -> '/<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/pyranges/example_data/f1.bed'
> '/<<PKGBUILDDIR>>/pyranges/example_data/cpg.bed' -> '/<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/pyranges/example_data/cpg.bed'
> '/<<PKGBUILDDIR>>/pyranges/example_data/lamina.bed' -> '/<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/pyranges/example_data/lamina.bed'
> '/<<PKGBUILDDIR>>/pyranges/example_data/gencode_human.gtf.gz' -> '/<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/pyranges/example_data/gencode_human.gtf.gz'
> '/<<PKGBUILDDIR>>/pyranges/example_data/chipseq.bed' -> '/<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/pyranges/example_data/chipseq.bed'
> '/<<PKGBUILDDIR>>/pyranges/example_data/aorta.bed' -> '/<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/pyranges/example_data/aorta.bed'
> '/<<PKGBUILDDIR>>/pyranges/example_data/ensembl_human.gtf.gz' -> '/<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/pyranges/example_data/ensembl_human.gtf.gz'
> '/<<PKGBUILDDIR>>/pyranges/example_data/chromsizes.bed' -> '/<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/pyranges/example_data/chromsizes.bed'
> '/<<PKGBUILDDIR>>/pyranges/example_data/aorta2.bed' -> '/<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/pyranges/example_data/aorta2.bed'
> '/<<PKGBUILDDIR>>/pyranges/example_data/control.bam' -> '/<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/pyranges/example_data/control.bam'
> '/<<PKGBUILDDIR>>/pyranges/example_data/control.bam.bai' -> '/<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/pyranges/example_data/control.bam.bai'
> I: pybuild base:240: cd /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build; python3.11 -m pytest -n 8
> ============================= test session starts ==============================
> platform linux -- Python 3.11.4, pytest-7.4.0, pluggy-1.2.0
> rootdir: /<<PKGBUILDDIR>>
> plugins: xdist-3.3.1, hypothesis-6.82.0
> created: 8/8 workers
> 8 workers [531 items]
>
> ........................................................................ [ 13%]
> ........................................................................ [ 27%]
> ........................................................................ [ 40%]
> ........................................................................ [ 54%]
> ........................................................................ [ 67%]
> ........................................................................ [ 81%]
> ........................................................................ [ 94%]
> ....................F...... [100%]
> =================================== FAILURES ===================================
> _________________________________ test_getitem _________________________________
> [gw3] linux -- Python 3.11.4 /usr/bin/python3.11
>
> @settings(
> > max_examples=max_examples,
> deadline=deadline,
> suppress_health_check=HealthCheck.all())
> E hypothesis.errors.FailedHealthCheck: Tests run under @given should return None, but test_getitem returned Empty PyRanges instead.
> E See https://hypothesis.readthedocs.io/en/latest/healthchecks.html for more information about this. If you want to disable just this health check, add HealthCheck.return_value to the suppress_health_check settings for this test.
>
> tests/test_unary.py:290: FailedHealthCheck
> ---------------------------------- Hypothesis ----------------------------------
> You can add @seed(38673206842016826684023353536273025751) to this test or run pytest with --hypothesis-seed=38673206842016826684023353536273025751 to reproduce this failure.
> =============================== warnings summary ===============================
> tests/conftest.py:83
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/tests/conftest.py:83: DeprecationWarning: invalid escape sequence '\s'
> sep="\s+",
>
> pyranges/__init__.py:18
> pyranges/__init__.py:18
> pyranges/__init__.py:18
> pyranges/__init__.py:18
> pyranges/__init__.py:18
> pyranges/__init__.py:18
> pyranges/__init__.py:18
> pyranges/__init__.py:18
> pyranges/__init__.py:18
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/pyranges/__init__.py:18: DeprecationWarning: pkg_resources is deprecated as an API. See https://setuptools.pypa.io/en/latest/pkg_resources.html
> import pkg_resources
>
> tests/test_binary.py:118
> tests/test_binary.py:118
> tests/test_binary.py:118
> tests/test_binary.py:118
> tests/test_binary.py:118
> tests/test_binary.py:118
> tests/test_binary.py:118
> tests/test_binary.py:118
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/tests/test_binary.py:118: HypothesisDeprecationWarning: `Healthcheck.all()` is deprecated; use `list(HealthCheck)` instead.
> The `hypothesis codemod` command-line tool can automatically refactor your code to fix this warning.
> suppress_health_check=HealthCheck.all())
>
> tests/test_binary.py:139
> tests/test_binary.py:139
> tests/test_binary.py:139
> tests/test_binary.py:139
> tests/test_binary.py:139
> tests/test_binary.py:139
> tests/test_binary.py:139
> tests/test_binary.py:139
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/tests/test_binary.py:139: HypothesisDeprecationWarning: `Healthcheck.all()` is deprecated; use `list(HealthCheck)` instead.
> The `hypothesis codemod` command-line tool can automatically refactor your code to fix this warning.
> suppress_health_check=HealthCheck.all())
>
> tests/test_binary.py:160
> tests/test_binary.py:160
> tests/test_binary.py:160
> tests/test_binary.py:160
> tests/test_binary.py:160
> tests/test_binary.py:160
> tests/test_binary.py:160
> tests/test_binary.py:160
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/tests/test_binary.py:160: HypothesisDeprecationWarning: `Healthcheck.all()` is deprecated; use `list(HealthCheck)` instead.
> The `hypothesis codemod` command-line tool can automatically refactor your code to fix this warning.
> suppress_health_check=HealthCheck.all())
>
> tests/test_binary.py:187
> tests/test_binary.py:187
> tests/test_binary.py:187
> tests/test_binary.py:187
> tests/test_binary.py:187
> tests/test_binary.py:187
> tests/test_binary.py:187
> tests/test_binary.py:187
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/tests/test_binary.py:187: HypothesisDeprecationWarning: `Healthcheck.all()` is deprecated; use `list(HealthCheck)` instead.
> The `hypothesis codemod` command-line tool can automatically refactor your code to fix this warning.
> suppress_health_check=HealthCheck.all())
>
> tests/test_binary.py:212
> tests/test_binary.py:212
> tests/test_binary.py:212
> tests/test_binary.py:212
> tests/test_binary.py:212
> tests/test_binary.py:212
> tests/test_binary.py:212
> tests/test_binary.py:212
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/tests/test_binary.py:212: HypothesisDeprecationWarning: `Healthcheck.all()` is deprecated; use `list(HealthCheck)` instead.
> The `hypothesis codemod` command-line tool can automatically refactor your code to fix this warning.
> suppress_health_check=HealthCheck.all())
>
> tests/test_binary.py:291
> tests/test_binary.py:291
> tests/test_binary.py:291
> tests/test_binary.py:291
> tests/test_binary.py:291
> tests/test_binary.py:291
> tests/test_binary.py:291
> tests/test_binary.py:291
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/tests/test_binary.py:291: HypothesisDeprecationWarning: `Healthcheck.all()` is deprecated; use `list(HealthCheck)` instead.
> The `hypothesis codemod` command-line tool can automatically refactor your code to fix this warning.
> suppress_health_check=HealthCheck.all())
>
> tests/test_binary.py:329
> tests/test_binary.py:329
> tests/test_binary.py:329
> tests/test_binary.py:329
> tests/test_binary.py:329
> tests/test_binary.py:329
> tests/test_binary.py:329
> tests/test_binary.py:329
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/tests/test_binary.py:329: HypothesisDeprecationWarning: `Healthcheck.all()` is deprecated; use `list(HealthCheck)` instead.
> The `hypothesis codemod` command-line tool can automatically refactor your code to fix this warning.
> suppress_health_check=HealthCheck.all())
>
> tests/test_binary.py:368
> tests/test_binary.py:368
> tests/test_binary.py:368
> tests/test_binary.py:368
> tests/test_binary.py:368
> tests/test_binary.py:368
> tests/test_binary.py:368
> tests/test_binary.py:368
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/tests/test_binary.py:368: HypothesisDeprecationWarning: `Healthcheck.all()` is deprecated; use `list(HealthCheck)` instead.
> The `hypothesis codemod` command-line tool can automatically refactor your code to fix this warning.
> suppress_health_check=HealthCheck.all())
>
> tests/test_binary.py:392
> tests/test_binary.py:392
> tests/test_binary.py:392
> tests/test_binary.py:392
> tests/test_binary.py:392
> tests/test_binary.py:392
> tests/test_binary.py:392
> tests/test_binary.py:392
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/tests/test_binary.py:392: HypothesisDeprecationWarning: `Healthcheck.all()` is deprecated; use `list(HealthCheck)` instead.
> The `hypothesis codemod` command-line tool can automatically refactor your code to fix this warning.
> suppress_health_check=HealthCheck.all())
>
> tests/test_binary.py:426
> tests/test_binary.py:426
> tests/test_binary.py:426
> tests/test_binary.py:426
> tests/test_binary.py:426
> tests/test_binary.py:426
> tests/test_binary.py:426
> tests/test_binary.py:426
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/tests/test_binary.py:426: HypothesisDeprecationWarning: `Healthcheck.all()` is deprecated; use `list(HealthCheck)` instead.
> The `hypothesis codemod` command-line tool can automatically refactor your code to fix this warning.
> suppress_health_check=HealthCheck.all())
>
> tests/test_binary.py:516
> tests/test_binary.py:516
> tests/test_binary.py:516
> tests/test_binary.py:516
> tests/test_binary.py:516
> tests/test_binary.py:516
> tests/test_binary.py:516
> tests/test_binary.py:516
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/tests/test_binary.py:516: HypothesisDeprecationWarning: `Healthcheck.all()` is deprecated; use `list(HealthCheck)` instead.
> The `hypothesis codemod` command-line tool can automatically refactor your code to fix this warning.
> suppress_health_check=HealthCheck.all())
>
> tests/test_binary.py:579
> tests/test_binary.py:579
> tests/test_binary.py:579
> tests/test_binary.py:579
> tests/test_binary.py:579
> tests/test_binary.py:579
> tests/test_binary.py:579
> tests/test_binary.py:579
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/tests/test_binary.py:579: HypothesisDeprecationWarning: `Healthcheck.all()` is deprecated; use `list(HealthCheck)` instead.
> The `hypothesis codemod` command-line tool can automatically refactor your code to fix this warning.
> suppress_health_check=HealthCheck.all())
>
> tests/test_do_not_error.py:46
> tests/test_do_not_error.py:46
> tests/test_do_not_error.py:46
> tests/test_do_not_error.py:46
> tests/test_do_not_error.py:46
> tests/test_do_not_error.py:46
> tests/test_do_not_error.py:46
> tests/test_do_not_error.py:46
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/tests/test_do_not_error.py:46: HypothesisDeprecationWarning: `Healthcheck.all()` is deprecated; use `list(HealthCheck)` instead.
> The `hypothesis codemod` command-line tool can automatically refactor your code to fix this warning.
> suppress_health_check=HealthCheck.all())
>
> tests/test_unary.py:35
> tests/test_unary.py:35
> tests/test_unary.py:35
> tests/test_unary.py:35
> tests/test_unary.py:35
> tests/test_unary.py:35
> tests/test_unary.py:35
> tests/test_unary.py:35
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/tests/test_unary.py:35: HypothesisDeprecationWarning: `Healthcheck.all()` is deprecated; use `list(HealthCheck)` instead.
> The `hypothesis codemod` command-line tool can automatically refactor your code to fix this warning.
> suppress_health_check=HealthCheck.all())
>
> tests/test_unary.py:100
> tests/test_unary.py:100
> tests/test_unary.py:100
> tests/test_unary.py:100
> tests/test_unary.py:100
> tests/test_unary.py:100
> tests/test_unary.py:100
> tests/test_unary.py:100
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/tests/test_unary.py:100: HypothesisDeprecationWarning: `Healthcheck.all()` is deprecated; use `list(HealthCheck)` instead.
> The `hypothesis codemod` command-line tool can automatically refactor your code to fix this warning.
> suppress_health_check=HealthCheck.all())
>
> tests/test_unary.py:164
> tests/test_unary.py:164
> tests/test_unary.py:164
> tests/test_unary.py:164
> tests/test_unary.py:164
> tests/test_unary.py:164
> tests/test_unary.py:164
> tests/test_unary.py:164
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/tests/test_unary.py:164: HypothesisDeprecationWarning: `Healthcheck.all()` is deprecated; use `list(HealthCheck)` instead.
> The `hypothesis codemod` command-line tool can automatically refactor your code to fix this warning.
> suppress_health_check=HealthCheck.all())
>
> tests/test_unary.py:206
> tests/test_unary.py:206
> tests/test_unary.py:206
> tests/test_unary.py:206
> tests/test_unary.py:206
> tests/test_unary.py:206
> tests/test_unary.py:206
> tests/test_unary.py:206
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/tests/test_unary.py:206: HypothesisDeprecationWarning: `Healthcheck.all()` is deprecated; use `list(HealthCheck)` instead.
> The `hypothesis codemod` command-line tool can automatically refactor your code to fix this warning.
> suppress_health_check=HealthCheck.all())
>
> tests/test_unary.py:235
> tests/test_unary.py:235
> tests/test_unary.py:235
> tests/test_unary.py:235
> tests/test_unary.py:235
> tests/test_unary.py:235
> tests/test_unary.py:235
> tests/test_unary.py:235
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/tests/test_unary.py:235: HypothesisDeprecationWarning: `Healthcheck.all()` is deprecated; use `list(HealthCheck)` instead.
> The `hypothesis codemod` command-line tool can automatically refactor your code to fix this warning.
> suppress_health_check=HealthCheck.all())
>
> tests/test_unary.py:274
> tests/test_unary.py:274
> tests/test_unary.py:274
> tests/test_unary.py:274
> tests/test_unary.py:274
> tests/test_unary.py:274
> tests/test_unary.py:274
> tests/test_unary.py:274
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/tests/test_unary.py:274: HypothesisDeprecationWarning: `Healthcheck.all()` is deprecated; use `list(HealthCheck)` instead.
> The `hypothesis codemod` command-line tool can automatically refactor your code to fix this warning.
> suppress_health_check=HealthCheck.all())
>
> tests/test_unary.py:292
> tests/test_unary.py:292
> tests/test_unary.py:292
> tests/test_unary.py:292
> tests/test_unary.py:292
> tests/test_unary.py:292
> tests/test_unary.py:292
> tests/test_unary.py:292
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/tests/test_unary.py:292: HypothesisDeprecationWarning: `Healthcheck.all()` is deprecated; use `list(HealthCheck)` instead.
> The `hypothesis codemod` command-line tool can automatically refactor your code to fix this warning.
> suppress_health_check=HealthCheck.all())
>
> tests/test_unary.py:317
> tests/test_unary.py:317
> tests/test_unary.py:317
> tests/test_unary.py:317
> tests/test_unary.py:317
> tests/test_unary.py:317
> tests/test_unary.py:317
> tests/test_unary.py:317
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/tests/test_unary.py:317: HypothesisDeprecationWarning: `Healthcheck.all()` is deprecated; use `list(HealthCheck)` instead.
> The `hypothesis codemod` command-line tool can automatically refactor your code to fix this warning.
> suppress_health_check=HealthCheck.all())
>
> .pybuild/cpython3_3.11_pyranges/build/tests/test_binary.py: 18000 warnings
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/tests/test_binary.py:349: FutureWarning: In a future version of pandas all arguments of DataFrame.drop except for the argument 'labels' will be keyword-only.
> bedtools_df = bedtools_df.drop("Chromosome2", 1)
>
> .pybuild/cpython3_3.11_pyranges/build/tests/test_binary.py: 18000 warnings
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/tests/test_binary.py:544: FutureWarning: In a future version of pandas all arguments of DataFrame.drop except for the argument 'labels' will be keyword-only.
> bedtools_df = bedtools_df.drop("Chromosome2", 1)
>
> .pybuild/cpython3_3.11_pyranges/build/tests/test_binary.py: 11940 warnings
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/pyranges/pyranges.py:2503: FutureWarning: is_monotonic is deprecated and will be removed in a future version. Use is_monotonic_increasing instead.
> if not result.__IX__.is_monotonic:
>
> .pybuild/cpython3_3.11_pyranges/build/tests/test_genomicfeatures.py: 119 warnings
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/tests/test_genomicfeatures.py:40: DeprecationWarning: In a future version, `df.iloc[:, i] = newvals` will attempt to set the values inplace instead of always setting a new array. To retain the old behavior, use either `df[df.columns[i]] = newvals` or, if columns are non-unique, `df.isetitem(i, newvals)`
> x.loc[:, "Start"] = x.Start.astype(int)
>
> .pybuild/cpython3_3.11_pyranges/build/tests/test_unary.py: 2000 warnings
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/tests/test_unary.py:119: FutureWarning: The squeeze argument has been deprecated and will be removed in a future version. Append .squeeze("columns") to the call to squeeze.
>
>
> bedtools_df = pd.read_csv(
>
> .pybuild/cpython3_3.11_pyranges/build/tests/test_unary.py: 2000 warnings
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/tests/test_unary.py:193: DeprecationWarning: In a future version, `df.iloc[:, i] = newvals` will attempt to set the values inplace instead of always setting a new array. To retain the old behavior, use either `df[df.columns[i]] = newvals` or, if columns are non-unique, `df.isetitem(i, newvals)`
> expected.loc[:, "Cluster"] = expected.Cluster.astype(np.int32)
>
> .pybuild/cpython3_3.11_pyranges/build/tests/test_concat.py::test_concat_stranded_unstranded
> .pybuild/cpython3_3.11_pyranges/build/tests/test_concat.py::test_concat_unstranded_stranded
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/pyranges/methods/concat.py:47: DeprecationWarning: In a future version, `df.iloc[:, i] = newvals` will attempt to set the values inplace instead of always setting a new array. To retain the old behavior, use either `df[df.columns[i]] = newvals` or, if columns are non-unique, `df.isetitem(i, newvals)`
> v.loc[:, "Strand"] = type_v.cat.add_categories(["."])
>
> .pybuild/cpython3_3.11_pyranges/build/tests/test_count_overlaps.py::test_strand_vs_strand_same
> .pybuild/cpython3_3.11_pyranges/build/tests/test_count_overlaps.py::test_strand_vs_strand_same
> .pybuild/cpython3_3.11_pyranges/build/tests/test_count_overlaps.py::test_strand_vs_strand_same
> .pybuild/cpython3_3.11_pyranges/build/tests/test_count_overlaps.py::test_strand_vs_strand_same
> .pybuild/cpython3_3.11_pyranges/build/tests/test_count_overlaps.py::test_strand_vs_strand_same
> .pybuild/cpython3_3.11_pyranges/build/tests/test_count_overlaps.py::test_strand_vs_strand_same
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/pyranges/multioverlap.py:155: DeprecationWarning: In a future version, `df.iloc[:, i] = newvals` will attempt to set the values inplace instead of always setting a new array. To retain the old behavior, use either `df[df.columns[i]] = newvals` or, if columns are non-unique, `df.isetitem(i, newvals)`
> df.loc[:, names] = df[names].astype(np.int32)
>
> .pybuild/cpython3_3.11_pyranges/build/tests/test_unary.py: 1000 warnings
> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build/tests/test_unary.py:251: FutureWarning: The squeeze argument has been deprecated and will be removed in a future version. Append .squeeze("columns") to the call to squeeze.
>
>
> bedtools_df = pd.read_csv(
>
> -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html
> =========================== short test summary info ============================
> FAILED tests/test_unary.py::test_getitem - hypothesis.errors.FailedHealthChec...
> ========== 1 failed, 530 passed, 53245 warnings in 3159.08s (0:52:39) ==========
> E: pybuild pybuild:388: test: plugin distutils failed with: exit code=1: cd /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11_pyranges/build; python3.11 -m pytest -n 8
> dh_auto_test: error: pybuild --test --test-pytest -i python{version} -p 3.11 returned exit code 13
The full build log is available from:
http://qa-logs.debian.net/2023/07/24/pyranges_0.0.111+ds-4_unstable.log
All bugs filed during this archive rebuild are listed at:
https://bugs.debian.org/cgi-bin/pkgreport.cgi?tag=ftbfs-20230724;users=lucas@debian.org
or:
https://udd.debian.org/bugs/?release=na&merged=ign&fnewerval=7&flastmodval=7&fusertag=only&fusertagtag=ftbfs-20230724&fusertaguser=lucas@debian.org&allbugs=1&cseverity=1&ctags=1&caffected=1#results
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!
If you reassign this bug to another package, please mark it as 'affects'-ing
this package. See https://www.debian.org/Bugs/server-control#affects
If you fail to reproduce this, please provide a build log and diff it with mine
so that we can identify if something relevant changed in the meantime.
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