[From nobody Thu Sep 24 21:25:09 2026 Received: (at 1040128-close) by bugs.debian.org; 24 Sep 2026 20:22:49 +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=-112.1 required=4.0 tests=ALL_TRUSTED,BAYES_00, DKIM_SIGNED,DKIM_VALID,DKIM_VALID_AU,DKIM_VALID_EF,FOURLA, 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, 90; hammy, 150; neutral, 398; 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]:34886) 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 1x9pxx-00BeFJ-1h for 1040128-close@bugs.debian.org; Thu, 24 Sep 2026 20:22:49 +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 1x9pxw-006Q7W-0e for 1040128-close@bugs.debian.org; Thu, 24 Sep 2026 20:22:48 +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=GwA2liDCvhcC0fmagEOa1Jcnt44QYBhYJChLNklSCXc=; b=WQk57HnAH6KpzCPXfJNMBxQE8u zjgyf7WQmDNYeuGs1WAxvSahV2z7aAQrCPaZUMYaM2Co3SD6ZUYHz2ptyvCSSXNk9QnqzL5I1pOrj 8JWwbav/KbiRF48Ntjv9IShFBw7H1CbKf5vkXQZoxR+UTjnw4Ae62nIy375lSqIdVNiPrS0Jc4Ubp EWYPK0Hu67xfg+ApFhOB/pbHSrz6sE4kSViyt6Vr8ZVWQfkKTnAIjmpPYfspL7lFAG3VV7Wqa9ZDE GgEI8euGU2evIrGdoVkwIctzFXmY42WJa6PVQY+5ruxFdQl1Bzuo0vherOtCe+dl11TYL7zTvodk6 m+2XmAvw==; Received: from dak by fasolo.debian.org with local (Exim 4.98.2) (envelope-from <envelope@ftp-master.debian.org>) id 1x9pxv-00000004zuv-1Sd9; Thu, 24 Sep 2026 20:22:47 +0000 From: Debian FTP Masters <ftpmaster@ftp-master.debian.org> Reply-To: Andreas Tille <tille@debian.org> To: 1040128-close@bugs.debian.org X-DAK: dak process-upload X-Debian: DAK X-Debian-Package: relion-cuda Debian: DAK Debian-Changes: relion-cuda_5.1.0+dfsg-1_source.changes Debian-Source: relion-cuda Debian-Version: 5.1.0+dfsg-1 Debian-Architecture: source Debian-Suite: unstable Debian-Archive-Action: accept MIME-Version: 1.0 Subject: Bug#1040128: fixed in relion-cuda 5.1.0+dfsg-1 Content-Type: multipart/signed; micalg="pgp-sha256"; protocol="application/pgp-signature"; boundary="===============8011177005223411322==" Message-Id: <E1x9pxv-00000004zuv-1Sd9@fasolo.debian.org> Date: Thu, 24 Sep 2026 20:22:47 +0000 --===============8011177005223411322== Content-Type: text/plain; charset="utf-8" Content-Transfer-Encoding: quoted-printable Source: relion-cuda 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-cuda, 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 1040128@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-cuda 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 20:56:51 +0200 Source: relion-cuda 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: 1036681 1040128 1147432 Changes: relion-cuda (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. * 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-cuda) <Depends>: Add ctffind (<< 5). <Recommends>: Add ghostscript (for generating PDF files), pbzip2, xz-utils and zstd (for reading compressed MRC movies). - (relion-gui-cuda) <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. 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 with CUDA=3DON and CMAKE_CUDA_HOST_COMPILER=3D/usr/bin/cuda-gcc. (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-cuda.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. * New upstream release fixes relion-cuda FTBFS with CUDA 12 (nvcc no longer supports sm_35) and with cub 2.0.1. 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