Your message dated Sat, 15 Sep 2018 07:35:09 +0200 with message-id <20180915053509.jj6mk7wjcpzaw...@an3as.eu> and subject line Closing with new version has caused the Debian Bug report #905548, regarding python-pysam: FTBFS - tests fail: AttributeError: 'module' object has no attribute 'HAVE_LIBCURL' 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.) -- 905548: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=905548 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
--- Begin Message ---Source: python-pysam Version: 0.15.0.1+ds-1 Severity: serious Tags: ftbfs Justification: fails to build from source (but built successfully in the past) Hi, python-pysam FTBFS on all architectures with testsuite errors. I can also reproduce this on amd64 in a clean pbuilder environment. https://buildd.debian.org/status/package.php?p=python-pysam&suite=experimental =================================== FAILURES =================================== ________________ TestEmptyHeader.test_bam_without_seq_in_header ________________ self = <AlignmentFile_test.TestEmptyHeader testMethod=test_bam_without_seq_in_header> def test_bam_without_seq_in_header(self): > s = pysam.AlignmentFile(os.path.join(BAM_DATADIR, > "example_no_seq_in_header.bam")) tests/AlignmentFile_test.py:1406: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ pysam/libcalignmentfile.pyx:734: in pysam.libcalignmentfile.AlignmentFile.__cinit__ ??? _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ > ??? E IOError: [Errno 2] could not open alignment file `/<<BUILDDIR>>/python-pysam-0.15.0.1+ds/.pybuild/cpython2_2.7_pysam/build/tests/pysam_data/example_no_seq_in_header.bam`: No such file or directory pysam/libcalignmentfile.pyx:933: IOError _______________________ TestRemoteFileHTTP.testFetchAll ________________________ self = <tabix_test.TestRemoteFileHTTP testMethod=testFetchAll> def setUp(self): > if not pysam.config.HAVE_LIBCURL or not check_url(self.url): E AttributeError: 'module' object has no attribute 'HAVE_LIBCURL' tests/tabix_test.py:1049: AttributeError ________________________ TestRemoteFileHTTP.testHeader _________________________ self = <tabix_test.TestRemoteFileHTTP testMethod=testHeader> def setUp(self): > if not pysam.config.HAVE_LIBCURL or not check_url(self.url): E AttributeError: 'module' object has no attribute 'HAVE_LIBCURL' tests/tabix_test.py:1049: AttributeError __________________ TestRemoteFileHTTPWithHeader.testFetchAll ___________________ self = <tabix_test.TestRemoteFileHTTPWithHeader testMethod=testFetchAll> def setUp(self): > if not pysam.config.HAVE_LIBCURL or not check_url(self.url): E AttributeError: 'module' object has no attribute 'HAVE_LIBCURL' tests/tabix_test.py:1088: AttributeError ___________________ TestRemoteFileHTTPWithHeader.testHeader ____________________ self = <tabix_test.TestRemoteFileHTTPWithHeader testMethod=testHeader> def setUp(self): > if not pysam.config.HAVE_LIBCURL or not check_url(self.url): E AttributeError: 'module' object has no attribute 'HAVE_LIBCURL' tests/tabix_test.py:1088: AttributeError =============================== warnings summary =============================== .pybuild/cpython2_2.7_pysam/build/tests/AlignmentFile_test.py::TestTruncatedBAM::testTruncatedBam2 /<<BUILDDIR>>/python-pysam-0.15.0.1+ds/.pybuild/cpython2_2.7_pysam/build/tests/AlignmentFile_test.py:1441: UserWarning: no BGZF EOF marker; file may be truncated ignore_truncation=True) .pybuild/cpython2_2.7_pysam/build/tests/samtools_test.py::SamtoolsTest::testStatements /<<BUILDDIR>>/python-pysam-0.15.0.1+ds/.pybuild/cpython2_2.7_pysam/build/tests/samtools_test.py:140: UserWarning: versions of pysam.samtools and samtools differ: 1.9 != 1.7 samtools_version)) -- Docs: http://doc.pytest.org/en/latest/warnings.html ======== 5 failed, 903 passed, 17 skipped, 2 warnings in 94.95 seconds ========= E: pybuild pybuild:338: test: plugin distutils failed with: exit code=1: cd /<<BUILDDIR>>/python-pysam-0.15.0.1+ds/.pybuild/cpython2_2.7_pysam/build; python2.7 -m pytest tests dh_auto_test: pybuild --test --test-pytest -i python{version} -p 2.7 returned exit code 13 make[1]: *** [debian/rules:31: override_dh_auto_test] Error 25 make[1]: Leaving directory '/<<BUILDDIR>>/python-pysam-0.15.0.1+ds' make: *** [debian/rules:24: build-arch] Error 2 dpkg-buildpackage: error: debian/rules build-arch subprocess returned exit status 2 Network access (beyond localhost) is not available during build. Andreas
--- End Message ---
--- Begin Message ---Hi, I had fixed this issue in the upload of 0.15.0.1+ds-2 to unstable without noticing the bug. Thus closing. Kind regards Andreas. -- http://fam-tille.de
--- End Message ---
