Maybe not the best way to fix this, but it is only a test-specific thingy, no big deal. Please add this as well to calendar.
Regards, Nilesh -------- Forwarded Message -------- Subject: Bug#1001535: marked as done (busco: (autopkgtest) needs update for python3.10) Date: Sun, 12 Dec 2021 16:39:03 +0000 From: Debian Bug Tracking System <ow...@bugs.debian.org> Reply-To: 1001...@bugs.debian.org To: Nilesh Patra <nil...@debian.org> Your message dated Sun, 12 Dec 2021 16:34:17 +0000 with message-id <e1mwrnl-000c81...@fasolo.debian.org> and subject line Bug#1001535: fixed in busco 5.2.2-2 has caused the Debian Bug report #1001535, regarding busco: (autopkgtest) needs update for python3.10 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.) -- 1001535: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1001535 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
--- Begin Message ---Source: busco Version: 5.2.2-1 Severity: serious X-Debbugs-CC: debian...@lists.debian.org User: debian...@lists.debian.org Usertags: needs-update User: debian-pyt...@lists.debian.org Usertags: python3.10 Control: affects -1 src:python3-defaults Hi Maintainer As can be seen [1], the autopkgtests of busco fail when python3.10 is a supported version. This currently blocks the migration of python3-defaults to testing [2]. I've copied what I hope is the relevant part of the log below. Regards Graham [1] https://ci.debian.net/packages/b/busco/unstable/amd64/ [2] https://qa.debian.org/excuses.php?package=python3-defaults ====================================================================== ERROR: test_init_tools_eukaryota_metaeuk (tests.unittests.GenomeAnalysis_unittests.TestConfigManager) ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib/python3.10/unittest/mock.py", line 1366, in patched with self.decoration_helper(patched, File "/usr/lib/python3.10/contextlib.py", line 135, in __enter__ return next(self.gen) File "/usr/lib/python3.10/unittest/mock.py", line 1348, in decoration_helper arg = exit_stack.enter_context(patching) File "/usr/lib/python3.10/contextlib.py", line 492, in enter_context result = _cm_type.__enter__(cm) File "/usr/lib/python3.10/unittest/mock.py", line 1528, in __enter__ raise InvalidSpecError( unittest.mock.InvalidSpecError: Cannot autospec attr 'config' from target 'BuscoAnalysis' as it has already been mocked out. [target=<class 'busco.analysis.BuscoAnalysis.BuscoAnalysis'>, attr=<Mock id='140560674098768'>] ====================================================================== ERROR: test_init_tools_prokaryota (tests.unittests.GenomeAnalysis_unittests.TestConfigManager) ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib/python3.10/unittest/mock.py", line 1366, in patched with self.decoration_helper(patched, File "/usr/lib/python3.10/contextlib.py", line 135, in __enter__ return next(self.gen) File "/usr/lib/python3.10/unittest/mock.py", line 1348, in decoration_helper arg = exit_stack.enter_context(patching) File "/usr/lib/python3.10/contextlib.py", line 492, in enter_context result = _cm_type.__enter__(cm) File "/usr/lib/python3.10/unittest/mock.py", line 1528, in __enter__ raise InvalidSpecError( unittest.mock.InvalidSpecError: Cannot autospec attr 'config' from target 'BuscoAnalysis' as it has already been mocked out. [target=<class 'busco.analysis.BuscoAnalysis.BuscoAnalysis'>, attr=<Mock id='140560674098768'>] ====================================================================== ERROR: test_run_analysis_metaeuk (tests.unittests.GenomeAnalysis_unittests.TestConfigManager) ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib/python3.10/unittest/mock.py", line 1366, in patched with self.decoration_helper(patched, File "/usr/lib/python3.10/contextlib.py", line 135, in __enter__ return next(self.gen) File "/usr/lib/python3.10/unittest/mock.py", line 1348, in decoration_helper arg = exit_stack.enter_context(patching) File "/usr/lib/python3.10/contextlib.py", line 492, in enter_context result = _cm_type.__enter__(cm) File "/usr/lib/python3.10/unittest/mock.py", line 1528, in __enter__ raise InvalidSpecError( unittest.mock.InvalidSpecError: Cannot autospec attr 'config' from target 'BuscoAnalysis' as it has already been mocked out. [target=<class 'busco.analysis.BuscoAnalysis.BuscoAnalysis'>, attr=<Mock id='140560674098768'>] ---------------------------------------------------------------------- Ran 99 tests in 2.065s FAILED (errors=3, skipped=1) autopkgtest [19:49:27]: test run-unit-test: -----------------------] autopkgtest [19:49:28]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - run-unit-test FAIL non-zero exit status 1
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--- Begin Message ---Source: busco Source-Version: 5.2.2-2 Done: Nilesh Patra <nil...@debian.org> We believe that the bug you reported is fixed in the latest version of busco, 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 1001...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Nilesh Patra <nil...@debian.org> (supplier of updated busco 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: SHA512 Format: 1.8 Date: Sun, 12 Dec 2021 21:54:24 +0530 Source: busco Architecture: source Version: 5.2.2-2 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Nilesh Patra <nil...@debian.org> Closes: 1001535 Changes: busco (5.2.2-2) unstable; urgency=medium . * Do not autospec mocked instances (Closes: #1001535) Checksums-Sha1: 0566d896eb0af84ead22edfc9e585f82d86d99df 2039 busco_5.2.2-2.dsc b191e02fea89ec727c3b1d8b6fb750ed87e842e5 6652 busco_5.2.2-2.debian.tar.xz 7f6cfd9ee7a63949e006aa0967e1018710dd22ee 6355 busco_5.2.2-2_amd64.buildinfo Checksums-Sha256: df9b245beed17b2ecc8056514380bdaa5d42bfdb9c8b1cbb818081762a81b96e 2039 busco_5.2.2-2.dsc 628588deb0bee8c6aa0b8b0d6d3d1b55b9610671fac473c8b80469b998200e43 6652 busco_5.2.2-2.debian.tar.xz 9310353ff7b9841500d1bc385a5086bc9c763c445210b2afd4685becd03bac9c 6355 busco_5.2.2-2_amd64.buildinfo Files: 4a7261d91785c7464f58b8dcadd5ea08 2039 science optional busco_5.2.2-2.dsc bb2b543ca30d9b7be7ea7a66507d0b80 6652 science optional busco_5.2.2-2.debian.tar.xz d00beaae5b383337bd4382e12fef6143 6355 science optional busco_5.2.2-2_amd64.buildinfo -----BEGIN PGP SIGNATURE----- iQJGBAEBCgAwFiEEPpmlJvXcwMu/HO6mALrnSzQzafEFAmG2JB8SHG5pbGVzaEBk ZWJpYW4ub3JnAAoJEAC650s0M2nx1vcQAIGtRYtrk7YKoAoEb0eB9lZWjFMSIdGn MOiVg7/TDias6kLhmHjTWg55k6sYtmHH4q1eUARxcLbatpyuM9W3a1ebg/t7av05 HDFSVdWZIDEc6PcsRru1na48cyUjNkQ9a1t/5EIEPFgYVIOTVWXd+e8g9drVuawU 1AIx3HwGIV+qFoyCsu8AYKYctmvqFd3XulF98SdNZzakSXRiqjkcfAjCm3NJK6Cb 1w26iSAvmHBLdqk7poZlegvTtZHuI7n1905hNvOuYPms0PNK7dyqE0EKqLCfzvzq j7BcfqFIHyuHa7SgQfWDDx2fI5a9YLFXl2fZ6jxquWlj4ZGwRdZ6finf77nXjysU JTQ3hefafn1QjmBPxmuZKRRTF8czRgGkV6ohqMWy41rLOeUA1rhDq7MGgFiHcaMe nqAnwJYTIWSm9KmRYbJQpZkiqx8UeNQYPo5wWvFlZFZWW4shiEVwbawTHoCx302j Z+Yph2QYTBjK755OS29eL8Jco4DaHPo1mVX4MD/7iCU4i9dJ2RVNX5wg49DIYu1y K5tSm1Vy1vOcxpcsDjoHlZdLRTTm4/ZV7aJ9aPaKOwSoWaSXgKMvF9/mhbPeIVu/ IsmCSl+Qmn8i9K1R09xCBtnEHP45WRRYdE/+mJqSlcfP09y3GBs853ZZ3IMfuLlx lze5heC6Hxqb =8yby -----END PGP SIGNATURE-----
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