[From nobody Thu Sep 24 14:21:08 2026 Received: (at 1113466-close) by bugs.debian.org; 24 Sep 2026 13:19:37 +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=-112.2 required=4.0 tests=ALL_TRUSTED,BAYES_00, DKIM_SIGNED,DKIM_VALID,DKIM_VALID_AU,DKIM_VALID_EF,FVGT_m_MULTI_ODD, HAS_BUG_NUMBER,MD5_SHA1_SUM,MEDS2,PGPSIGNATURE,SPF_HELO_PASS,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, 11; hammy, 150; neutral, 469; spammy, 0. spammytokens: hammytokens:0.000-+--HX-Debian:DAK, 0.000-+--H*rp:D*ftp-master.debian.org, 0.000-+--HX-DAK:process-upload, 0.000-+--UD:debian.tar.xz, 0.000-+--H*r:sk:fasolo. Return-path: <envelope@ftp-master.debian.org> Received: from mailly.debian.org ([2001:41b8:202:deb:6564:a62:52c3:4b72]:34202) by buxtehude.debian.org with esmtps (TLS1.3:ECDHE_SECP256R1__RSA_PSS_RSAE_SHA256__AES_256_GCM:256) (Exim 4.96) (envelope-from <envelope@ftp-master.debian.org>) id 1x9jMP-00AC9Y-00 for 1113466-close@bugs.debian.org; Thu, 24 Sep 2026 13:19:37 +0000 Received: via submission from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA, CN=fasolo.debian.org, EMAIL=hostmaster@fasolo.debian.org (verified) by mailly.debian.org with esmtps (TLS1.3:ECDHE_SECP256R1__RSA_PSS_RSAE_SHA256__AES_256_GCM:256) (Exim 4.96) (envelope-from <envelope@ftp-master.debian.org>) id 1x9jMN-00675F-20 for 1113466-close@bugs.debian.org; Thu, 24 Sep 2026 13:19:35 +0000 DKIM-Signature: v=1; a=rsa-sha256; q=dns/txt; c=relaxed/relaxed; d=ftp-master.debian.org; s=smtpauto.fasolo; h=Date:Message-Id:Content-Type: Subject:MIME-Version:To:Reply-To:From:Cc:Content-Transfer-Encoding:Content-ID :Content-Description:In-Reply-To:References; bh=iq5aNelYdLHrH3AnUTY1Xvhz0dGTYIgpuMj5y/JG8lM=; b=HSQCkRIYxzo5MxRP+vuLtyFzEW lXlub9rEBgaVI27FmIFOnaMP0N3fKjwyMXB5MUL1SxGjTpeHagIcWL1uhfb5+Lzrayjzi5MPwNE6V TWdvUqMfEn3lm9Ug2TQKTiqBo3WfgMnCPL+DTeRYhzmwuU4SrMm6fKxednYwZNGo81xMqFWTCa5HZ qpFx1hL+QSHR5PJBQV0YCGEkjSVuXL17GgbPlsLf+SAmjAyWSeqpqon3Y3yWjUzhNpsgVRA037tsJ vpH3NXSSadd6Y6Jys1O20slF25jYlPMNyUzydu752iqt8/vkD/New43EKKOaUBsr/5Ulk5fU4RuB5 LZihsLmQ==; Received: from dak by fasolo.debian.org with local (Exim 4.98.2) (envelope-from <envelope@ftp-master.debian.org>) id 1x9jMM-00000003ZG7-3F62; Thu, 24 Sep 2026 13:19:34 +0000 From: Debian FTP Masters <ftpmaster@ftp-master.debian.org> Reply-To: Andreas Tille <tille@debian.org> To: 1113466-close@bugs.debian.org X-DAK: dak process-upload X-Debian: DAK X-Debian-Package: relion Debian: DAK Debian-Changes: relion_5.1.0+dfsg-1_source.changes Debian-Source: relion Debian-Version: 5.1.0+dfsg-1 Debian-Architecture: source Debian-Suite: unstable Debian-Archive-Action: accept MIME-Version: 1.0 Subject: Bug#1113466: fixed in relion 5.1.0+dfsg-1 Content-Type: multipart/signed; micalg="pgp-sha256"; protocol="application/pgp-signature"; boundary="===============8772285486835871172==" Message-Id: <E1x9jMM-00000003ZG7-3F62@fasolo.debian.org> Date: Thu, 24 Sep 2026 13:19:34 +0000 X-CrossAssassin-Score: 2 --===============8772285486835871172== Content-Type: text/plain; charset="utf-8" Content-Transfer-Encoding: quoted-printable Source: relion Source-Version: 5.1.0+dfsg-1 Done: Andreas Tille <tille@debian.org> We believe that the bug you reported is fixed in the latest version of relion, 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 1113466@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Andreas Tille <tille@debian.org> (supplier of updated relion 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 ftpmaster@ftp-master.debian.org) -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 1.8 Date: Thu, 24 Sep 2026 14:27:25 +0200 Source: relion Architecture: source Version: 5.1.0+dfsg-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debi= an.org> Changed-By: Andreas Tille <tille@debian.org> Closes: 1097784 1113466 Changes: relion (5.1.0+dfsg-1) unstable; urgency=3Dmedium . [ Pierre Gruet ] * New upstream version 5.0.1+dfsg: - Repacking without embedded copy of Eigen * Adding B-D on libtorch-dev * Raising Standards version to 4.7.3: - Removing Priority: optional, which is default . [ Yavor Doganov ] * New upstream release: + Fixes FTBFS with GCC 15 (Closes: #1097784). * debian/patches/0001-Repair-wrong-comment-sign...patch: Delete; was cherry-picked from upstream. * debian/patches/typos.patch: Remove hunks applied upstream; fix more spelling errors. * debian/patches/format-security.patch: New; fix FTBFS with -Werror=3Dformat-security. * debian/patches/python3.patch: New; migrate the relion_it script from Python 2 to 3 as it's the core of on-the-fly processing. * debian/patches/system-eigen.patch: New; use the system Eigen library. * Run wrap-and-sort -ast. * debian/control - (Build-Depends): Remove fluid (unnecessary). Add libpng-dev, dh-sequence-python3, python3 and libeigen3-dev. - (relion) <Depends>: Add ctffind (<< 5). <Recommends>: Add ghostscript (for generating PDF files), pbzip2, xz-utils and zstd (for reading compressed MRC movies). - (relion-gui) <Depends>: Add ${python3:Depends} and python3-tk. (Breaks, Replaces): Remove; obsolete. (Rules-Requires-Root): Remove; it's the default. * debian/rules: Enable full hardening. (CONFIGURE_COMMON): Remove redundant flags that are already set by debhelper's cmake build system. Fix FTBFS with CMake 4 by adding -DCMAKE_POLICY_VERSION_MINIMUM=3D3.5 (Closes: #1113466). Add -DPYTHON_EXE_PATH=3D/usr/bin/python3 to override upstream's test which relies on a Conda environment. (NUMJOBS, MAKE_-J): Remove; gymnastics no longer necessary. (override_dh_auto_configure): Run dh_auto_configure. (override_dh_auto_build): Remove; redundant. (override_dh_auto_clean): Likewise. (override_dh_auto_install): Run dh_auto_install --destdir. Rename scripts with .py extension to fix W: script-with-language-extension. Delete Python/Bash scripts which will fail due to missing modules. * debian/relion-gui.install: Install schemes in /usr/share/relion. * debian/README.Debian: New file; document missing functionality. * debian/watch: Upgrade to version 5. * debian/salsa-ci.yml: Use the default recipe. * debian/copyright: Update copyright years, fix superfluous patterns, add EPL and MPL-2 licenses. . [ Andreas Tille ] * New upstream version * Standards-Version: 4.7.4 (routine-update) * Build-Depends: pybuild-plugin-pyproject (routine-update) * Add missing build-dependency on python3-setuptools. * debputy lint --auto-fix (routine-update) * d/copyright: - Drop unused licenses - Do not mention removed src/Eigen - Use link to /usr/share/common-licenses/MPL-2.0 instead of full text * Fix FTBFS with Eigen 5 * debian/rules: relion_schemegui is installed without a .py suffix since upstream 5.1.0; adjust the script renaming in override_dh_auto_install. 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