[From nobody Fri Oct 23 20:23:07 2026 Received: (at submit) by bugs.debian.org; 29 Sep 2026 14:08:47 +0000 X-Spam-Checker-Version: SpamAssassin 4.0.1-bugs.debian.org_2005_01_02 (2024-03-25) on buxtehude.debian.org X-Spam-Level: X-Spam-Status: No, score=-118.3 required=4.0 tests=ALL_TRUSTED,BAYES_00, BODY_INCLUDES_PACKAGE,DKIMWL_WL_HIGH,DKIM_SIGNED,DKIM_VALID, DKIM_VALID_AU,FOURLA,FROMDEVELOPER,HAS_PACKAGE,SPF_HELO_NONE,SPF_PASS, USER_IN_DKIM_WELCOMELIST autolearn=ham autolearn_force=no version=4.0.1-bugs.debian.org_2005_01_02 X-Spam-Bayes: score:0.0000 Tokens: new, 112; hammy, 150; neutral, 148; spammy, 0. spammytokens: hammytokens:0.000-+--Hx-spam-relays-external:sk:stravin, 0.000-+--H*RT:sk:stravin, 0.000-+--Hx-spam-relays-external:311, 0.000-+--H*RT:311, 0.000-+--H*RT:108 Return-path: <marga@debian.org> Received: from stravinsky.debian.org ([2001:41b8:202:deb::311:108]:50254) by buxtehude.debian.org with esmtps (TLS1.3:ECDHE_SECP256R1__RSA_PSS_RSAE_SHA256__AES_256_GCM:256) (Exim 4.96) (envelope-from <marga@debian.org>) id 1xBYVj-00BQS1-0B for submit@bugs.debian.org; Tue, 29 Sep 2026 14:08:47 +0000 DKIM-Signature: v=1; a=rsa-sha256; q=dns/txt; c=relaxed/relaxed; d=debian.org; s=smtpauto.stravinsky; h=X-Debian-User:Content-Transfer-Encoding:Content-Type :MIME-Version:Message-ID:Subject:To:From:Date:Reply-To:Cc:Content-ID: Content-Description:In-Reply-To:References; bh=WShbY5AUW+y9SHT5A4rqhTpWDcK8W6YNZVDZCMLqbk8=; b=WrO3LfixOFhTZp2BwXxffySmJY 4IW73JuRiJ/wcdUPM/Jtb/Z2hojnncqBIjqGS3KcUJXm3BdaMurH59ZARPHtHdmI9A+LTSb+eH8kt bV/4LbLDbsToorRRxHc06O1Ps0RhZcHN4DwxVvvnS4UDWDVRGkzAzitRwt4obnxIOJkwWnA+V18on WlgOO6v+E/Kd9Z7sRePnf9ciHJCm3HMYCQXyDsk5FgNPUzVrLe19wIUOCwVko8ZUeZlBwCayAYPhf m/Kdzvhre9lRvPd2YsnpuMbj1jSpv4U1Xa4U8X1SF3vbNVXfhQBFXhsA3cI/iOrr1AlwaoNPmgoMc lFVyDZ4A==; Received: from authenticated-user by stravinsky.debian.org with esmtpsa (TLS1.3:ECDHE_X25519__RSA_PSS_RSAE_SHA256__AES_256_GCM:256) (Exim 4.96) (envelope-from <marga@debian.org>) id 1xBYVh-008SnE-0L for submit@bugs.debian.org; Tue, 29 Sep 2026 14:08:45 +0000 Authentication-Results: nefele.gnuservers.com.ar; dmarc=fail (p=none dis=none) header.from=debian.org Authentication-Results: nefele.gnuservers.com.ar; dkim=none; dkim-atps=neutral Received: from freak.gnuservers.com.ar (unknown [153.100.179.182]) by nefele.gnuservers.com.ar (Postfix) with ESMTPSA id 9A4451B35102 for <submit@bugs.debian.org>; Tue, 29 Sep 2026 14:08:43 +0000 (UTC) Received: by freak.gnuservers.com.ar (Postfix, from userid 1001) id 747915805C0; Tue, 29 Sep 2026 16:08:42 +0200 (CEST) Date: Tue, 29 Sep 2026 16:08:42 +0200 From: Margarita Manterola <marga@debian.org> To: submit@bugs.debian.org Subject: python-csb: FTBFS against python 3.15rc2 (several failing tests) Message-ID: <arvGakm57U-xGD7w@localhost> MIME-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Disposition: inline Content-Transfer-Encoding: quoted-printable X-Debian-User: marga Delivered-To: submit@bugs.debian.org Package: src:python-csb Version: 1.2.5+dfsg-10 User: debian-python@lists.debian.org Usertags: python3.15 Tags: ftbfs, forky, sid Severity: important Hi! While rebuilding the python related packages against the Python 3.15rc2 ver= sion we found that python-csb fails to build from source: https://debusine.debian.net/debian/r-python-python3.15/artifact/4856727/ =46rom the log, the error seems to be: =3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D= =3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D= =3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D ERROR: testRotationMatrix (build/reproducible-path/python-csb-1-2-5+dfsg/-p= ybuild/cpython3_3-14_csb/build/csb/test/cases/numeric.TestMath.testRotation= Matrix) ---------------------------------------------------------------------- Traceback (most recent call last): File "/build/reproducible-path/python-csb-1.2.5+dfsg/.pybuild/cpython3_3.= 14_csb/build/csb/test/cases/numeric/__init__.py", line 109, in testRotation= Matrix R2 =3D rotation_matrix([0, 0, 1], np.pi / 2.0) File "/build/reproducible-path/python-csb-1.2.5+dfsg/.pybuild/cpython3_3.= 14_csb/build/csb/numeric/__init__.py", line 155, in rotation_matrix axis =3D numpy.asfarray(axis) / norm(axis) ^^^^^^^^^^^^^^ File "/usr/lib/python3/dist-packages/numpy/__init__.py", line 778, in __g= etattr__ raise AttributeError( ...<3 lines>... ) AttributeError: `np.asfarray` was removed in the NumPy 2.0 release. Use `np= =2Easarray` with a proper dtype instead. =3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D= =3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D= =3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D ERROR: testRead (build/reproducible-path/python-csb-1-2-5+dfsg/-pybuild/cpy= thon3_3-14_csb/build/csb/test/cases/bio/io/mrc.TestDensityMapReader.testRea= d) ---------------------------------------------------------------------- Traceback (most recent call last): File "/build/reproducible-path/python-csb-1.2.5+dfsg/.pybuild/cpython3_3.= 14_csb/build/csb/test/cases/bio/io/mrc/__init__.py", line 36, in testRead density =3D self.reader.read() File "/build/reproducible-path/python-csb-1.2.5+dfsg/.pybuild/cpython3_3.= 14_csb/build/csb/bio/io/mrc.py", line 248, in read array =3D numpy.fromstring(map_data, numpy.float32, count) ValueError: The binary mode of fromstring is removed, use frombuffer instead =3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D= =3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D= =3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D ERROR: testReconstructHeader (build/reproducible-path/python-csb-1-2-5+dfsg= /-pybuild/cpython3_3-14_csb/build/csb/test/cases/bio/io/mrc.TestDensityMapW= riter.testReconstructHeader) ---------------------------------------------------------------------- Traceback (most recent call last): File "/build/reproducible-path/python-csb-1.2.5+dfsg/.pybuild/cpython3_3.= 14_csb/build/csb/test/cases/bio/io/mrc/__init__.py", line 55, in setUp self.density =3D self.reader.read() ~~~~~~~~~~~~~~~~^^ File "/build/reproducible-path/python-csb-1.2.5+dfsg/.pybuild/cpython3_3.= 14_csb/build/csb/bio/io/mrc.py", line 248, in read array =3D numpy.fromstring(map_data, numpy.float32, count) ValueError: The binary mode of fromstring is removed, use frombuffer instead =3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D= =3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D= =3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D ERROR: testWriteDensity (build/reproducible-path/python-csb-1-2-5+dfsg/-pyb= uild/cpython3_3-14_csb/build/csb/test/cases/bio/io/mrc.TestDensityMapWriter= =2EtestWriteDensity) ---------------------------------------------------------------------- Traceback (most recent call last): File "/build/reproducible-path/python-csb-1.2.5+dfsg/.pybuild/cpython3_3.= 14_csb/build/csb/test/cases/bio/io/mrc/__init__.py", line 55, in setUp self.density =3D self.reader.read() ~~~~~~~~~~~~~~~~^^ File "/build/reproducible-path/python-csb-1.2.5+dfsg/.pybuild/cpython3_3.= 14_csb/build/csb/bio/io/mrc.py", line 248, in read array =3D numpy.fromstring(map_data, numpy.float32, count) ValueError: The binary mode of fromstring is removed, use frombuffer instead =3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D= =3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D= =3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D ERROR: testFiveReplicas (build/reproducible-path/python-csb-1-2-5+dfsg/-pyb= uild/cpython3_3-14_csb/build/csb/test/cases/statistics/samplers.TestReplica= History.testFiveReplicas) ---------------------------------------------------------------------- Traceback (most recent call last): File "/build/reproducible-path/python-csb-1.2.5+dfsg/.pybuild/cpython3_3.= 14_csb/build/csb/test/cases/statistics/samplers/__init__.py", line 899, in = testFiveReplicas assert(self._assertIdenticalProjTrajs(samples, swap_interval)) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^ File "/build/reproducible-path/python-csb-1.2.5+dfsg/.pybuild/cpython3_3.= 14_csb/build/csb/test/cases/statistics/samplers/__init__.py", line 866, in = _assertIdenticalProjTrajs ok.append(True in [np.all(np.array(t1) =3D=3D np.array(t2)) for t1 in t= rajs1 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ValueError: operands could not be broadcast together with shapes (85,) (75,) =3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D= =3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D= =3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D ERROR: testFiveReplicasOffset (build/reproducible-path/python-csb-1-2-5+dfs= g/-pybuild/cpython3_3-14_csb/build/csb/test/cases/statistics/samplers.TestR= eplicaHistory.testFiveReplicasOffset) ---------------------------------------------------------------------- Traceback (most recent call last): File "/build/reproducible-path/python-csb-1.2.5+dfsg/.pybuild/cpython3_3.= 14_csb/build/csb/test/cases/statistics/samplers/__init__.py", line 909, in = testFiveReplicasOffset assert(self._assertIdenticalProjTrajs(samples, swap_interval, first_swa= p)) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^= ^^ File "/build/reproducible-path/python-csb-1.2.5+dfsg/.pybuild/cpython3_3.= 14_csb/build/csb/test/cases/statistics/samplers/__init__.py", line 866, in = _assertIdenticalProjTrajs ok.append(True in [np.all(np.array(t1) =3D=3D np.array(t2)) for t1 in t= rajs1 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ValueError: operands could not be broadcast together with shapes (103,) (73= ,) =3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D= =3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D= =3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D ERROR: testFourReplicas (build/reproducible-path/python-csb-1-2-5+dfsg/-pyb= uild/cpython3_3-14_csb/build/csb/test/cases/statistics/samplers.TestReplica= History.testFourReplicas) ---------------------------------------------------------------------- Traceback (most recent call last): File "/build/reproducible-path/python-csb-1.2.5+dfsg/.pybuild/cpython3_3.= 14_csb/build/csb/test/cases/statistics/samplers/__init__.py", line 889, in = testFourReplicas assert(self._assertIdenticalProjTrajs(samples, swap_interval)) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^ File "/build/reproducible-path/python-csb-1.2.5+dfsg/.pybuild/cpython3_3.= 14_csb/build/csb/test/cases/statistics/samplers/__init__.py", line 866, in = _assertIdenticalProjTrajs ok.append(True in [np.all(np.array(t1) =3D=3D np.array(t2)) for t1 in t= rajs1 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ValueError: operands could not be broadcast together with shapes (125,) (10= 5,) =3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D= =3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D= =3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D ERROR: testTwoReplicas (build/reproducible-path/python-csb-1-2-5+dfsg/-pybu= ild/cpython3_3-14_csb/build/csb/test/cases/statistics/samplers.TestReplicaH= istory.testTwoReplicas) ---------------------------------------------------------------------- Traceback (most recent call last): File "/build/reproducible-path/python-csb-1.2.5+dfsg/.pybuild/cpython3_3.= 14_csb/build/csb/test/cases/statistics/samplers/__init__.py", line 879, in = testTwoReplicas assert(self._assertIdenticalProjTrajs(samples, swap_interval)) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^ File "/build/reproducible-path/python-csb-1.2.5+dfsg/.pybuild/cpython3_3.= 14_csb/build/csb/test/cases/statistics/samplers/__init__.py", line 866, in = _assertIdenticalProjTrajs ok.append(True in [np.all(np.array(t1) =3D=3D np.array(t2)) for t1 in t= rajs1 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ValueError: operands could not be broadcast together with shapes (195,) (30= 5,) =3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D= =3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D= =3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D ERROR: runTest (build/reproducible-path/python-csb-1-2-5+dfsg/-pybuild/cpyt= hon3_3-14_csb/build/csb/test/cases/core.TestDeepCopy.runTest) ---------------------------------------------------------------------- Traceback (most recent call last): File "/build/reproducible-path/python-csb-1.2.5+dfsg/.pybuild/cpython3_3.= 14_csb/build/csb/test/cases/core/__init__.py", line 21, in runTest self.assertNotEquals(id(obj), id(copy)) ^^^^^^^^^^^^^^^^^^^^ AttributeError: 'TestDeepCopy' object has no attribute 'assertNotEquals'. D= id you mean: 'assertNotEqual'? =3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D= =3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D= =3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D FAIL: testRecusionLimit (build/reproducible-path/python-csb-1-2-5+dfsg/-pyb= uild/cpython3_3-14_csb/build/csb/test/cases/io.TestDumpLoad.testRecusionLim= it) ---------------------------------------------------------------------- Traceback (most recent call last): File "/build/reproducible-path/python-csb-1.2.5+dfsg/.pybuild/cpython3_3.= 14_csb/build/csb/test/cases/io/__init__.py", line 528, in testRecusionLimit with self.assertRaises(RuntimeError): ~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^ AssertionError: RuntimeError not raised =3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D= =3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D= =3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D FAIL: testComparison (build/reproducible-path/python-csb-1-2-5+dfsg/-pybuil= d/cpython3_3-14_csb/build/csb/test/cases/core.TestEnum.testComparison) ---------------------------------------------------------------------- Traceback (most recent call last): File "/build/reproducible-path/python-csb-1.2.5+dfsg/.pybuild/cpython3_3.= 14_csb/build/csb/test/cases/core/__init__.py", line 73, in testComparison self.assertFalse(self.enum.C =3D=3D 66) ~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^^ AssertionError: True is not false ---------------------------------------------------------------------- Please note that while we ran into this error during the rebuild against Py= thon 3.15, that doesn't mean that the root cause for the failure is necessarily = the new Python version. Setting the severity to important for now. Once Python 3.15 is released and later added to python3-defaults, this bug will become release critical. --=20 Cheers, Marga ]