[From nobody Wed May 13 13:39:06 2026 Received: (at maintonly) by bugs.debian.org; 17 Mar 2026 10:46:02 +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=-105.1 required=4.0 tests=BAYES_00,DKIMWL_WL_HIGH, DKIM_SIGNED,DKIM_VALID,DKIM_VALID_AU,DKIM_VALID_EF,FOURLA, FROMDEVELOPER,SPF_HELO_NONE,SPF_NONE,UNPARSEABLE_RELAY, 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, 29; hammy, 143; neutral, 31; 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: <roehling@debian.org> Received: from stravinsky.debian.org ([2001:41b8:202:deb::311:108]:48394) by buxtehude.debian.org with esmtps (TLS1.3:ECDHE_SECP256R1__RSA_PSS_RSAE_SHA256__AES_256_GCM:256) (Exim 4.96) (envelope-from <roehling@debian.org>) id 1w2Rw2-00DNtA-2j for maintonly@bugs.debian.org; Tue, 17 Mar 2026 10:46:02 +0000 DKIM-Signature: v=1; a=rsa-sha256; q=dns/txt; c=relaxed/relaxed; d=debian.org; s=smtpauto.stravinsky; h=X-Debian-User:Date:Subject:To:From:Message-ID: Reply-To:Cc:MIME-Version:Content-Type:Content-Transfer-Encoding:Content-ID: Content-Description:In-Reply-To:References; bh=ukCfLiHU/fsrQX6q5MxFjWQmCnr0RvH+Od5+w0ispCs=; b=nIkQ/LqY5q9TTxCyphuCiBH9fk RkdfBr9DXWz8m0Ni6Nc5aD3e3wDFxgOgBRONdqROyv4WhsxpN3WgL4UDfpggjN1CJhdEH/I4nS+ub ihOT/iMUDyzIwp5TPzF16+xbtxyxMLBAKsnPGoiqancy5rh6nuHYJMgT8YKaaE5NUViOrTXvuH7mX 4vyiOXQJDxyM7PSOF9IGu6dmvAG50al376NPT6Z4rjoyY/7gS26NISDLz61jimtIU6clMN3hALlvB 5kP1EtmW3kAGL6RHxZMrbPEDa9sV4xjJkpPBIkzlROyXjtke/4Rb+8Avc7o17MO7Hto+I4T6ZZOUE RPiU5LLg==; Received: from authenticated user by stravinsky.debian.org with esmtpsa (TLS1.3:ECDHE_SECP256R1__RSA_PSS_RSAE_SHA256__AES_256_GCM:256) (Exim 4.94.2) (envelope-from <roehling@debian.org>) id 1w2Rw2-002pU2-Hk for maintonly@bugs.debian.org; Tue, 17 Mar 2026 10:46:01 +0000 Message-ID: <bf8753baa4697f2677ec8478223dbf9d@debian.org> From: roehling@debian.org To: maintonly@bugs.debian.org Subject: insilicoseq: autopkgtest regression with NumPy 2.4 Date: Tue, 17 Mar 2026 11:46:00 +0100 X-Generator: mass-bug from devscripts 2.26.6 X-Debian-User: roehling Delivered-To: maintonly@bugs.debian.org Source: insilicoseq Version: 2.0.1-2 Severity: important User: debian-python@lists.debian.org Usertags: numpy2.4 Dear maintainer, According to https://ci.debian.net data, your package insilicoseq has an autopkgtest regression with numpy. The following architectures failed: amd64, arm64. Hopefully relevant excerpt from https://ci.debian.net/packages/i/insilicoseq/unstable/amd64/69506600/ follows: 86s test/test_bam.py::test_to_model FAILED [ 23%] 88s test/test_modeller.py::test_kde_qualities FAILED [ 65%] 88s =================================== FAILURES =================================== 88s E numpy.linalg.LinAlgError: 1-th leading minor of the array is not positive definite 88s E numpy.linalg.LinAlgError: The data appears to lie in a lower-dimensional subspace of the space in which it is expressed. This has resulted in a singular data covariance matrix, which cannot be treated using the algorithms implemented in `gaussian_kde`. Consider performing principal component analysis / dimensionality reduction and using `gaussian_kde` with the transformed data. 88s > except np.linalg.linalg.LinAlgError: 88s E AttributeError: module 'numpy.linalg' has no attribute 'linalg' 88s E numpy.linalg.LinAlgError: 1-th leading minor of the array is not positive definite 88s E numpy.linalg.LinAlgError: The data appears to lie in a lower-dimensional subspace of the space in which it is expressed. This has resulted in a singular data covariance matrix, which cannot be treated using the algorithms implemented in `gaussian_kde`. Consider performing principal component analysis / dimensionality reduction and using `gaussian_kde` with the transformed data. 88s > except np.linalg.linalg.LinAlgError: 88s E AttributeError: module 'numpy.linalg' has no attribute 'linalg' 88s FAILED test/test_bam.py::test_to_model - AttributeError: module 'numpy.linalg... 88s FAILED test/test_modeller.py::test_kde_qualities - AttributeError: module 'nu... 88s ============= 2 failed, 43 passed, 1 skipped, 7 warnings in 2.63s ============== 89s run-unit-test FAIL non-zero exit status 1 89s run-unit-test FAIL non-zero exit status 1 ]