{"bugs":[{"bugid":898114,"firstseen":"2025-07-11T02:48:40.189262","severity":"normal","status":"CONFIRMED","summary":"sci-biology\/clustalw-2.1-r2 fails to compile (MUSL-CLANG-SYSTEM): FileParser.cpp:37:5: error: ISO C++17 does not allow register storage class specifier [-Wregister]"},{"bugid":913591,"firstseen":"2025-07-11T02:48:40.189262","severity":"normal","status":"CONFIRMED","summary":"sci-biology\/clustalw-2.1-r2 - [clang] .\/...\/FileReader.h: error: no template named auto_ptr"}],"categories":[{"categoryid":353,"name":"sci-biology","summary":"The sci-biology category contains software that can be used in biological and related scientific environments."},{"categoryid":416,"name":"sci-chemistry","summary":"The sci-chemistry category contains software that can be used in chemistral scientific environments."}],"changelog":[{"authoremail":"repomirrorci@gentoo.org","authorname":"Repository mirror & CI","commitid":"a198e862478387fe37b4d232d51a3edb558cd3e0","committime":"2025-12-19T10:01:01","packageid":52977,"repoid":1,"summary":"Merge updates from master"},{"authoremail":"grobian@gentoo.org","authorname":"Fabian Groffen","body":"Bug: https:\/\/bugs.gentoo.org\/473598\nBug: https:\/\/bugs.gentoo.org\/720224\nSigned-off-by: Fabian Groffen ","commitid":"2d25fad95cbaa525c8945d8e582c749d49524f49","committime":"2025-12-19T09:25:43","packageid":52977,"repoid":1,"summary":"*\/*: drop *-linux keywords"},{"authoremail":"repomirrorci@gentoo.org","authorname":"Repository mirror & CI","commitid":"b082176271c4f0d63a97962e4b75785991196236","committime":"2025-12-17T15:16:13","packageid":52977,"repoid":1,"summary":"Merge updates from master"},{"authoremail":"grobian@gentoo.org","authorname":"Fabian Groffen","body":"The arch and OS that matches it are obsolete.\n\nSigned-off-by: Fabian Groffen ","commitid":"0a7ffce789e36042bac35ea5e0b8b2b654e5b490","committime":"2025-12-17T15:07:23","packageid":52977,"repoid":1,"summary":"*: remove ppc-macos keyword"},{"authoremail":"repomirrorci@gentoo.org","authorname":"Repository mirror & CI","commitid":"30e2fcd0b492ae2bcb6f03ac571b6d5f82f733a6","committime":"2025-09-02T17:19:36","packageid":52977,"repoid":1,"summary":"Merge updates from master"},{"authoremail":"arthurzam@gentoo.org","authorname":"Arthur Zamarin","body":"Result of running the command:\n grep --include=\"*.ebuild\" -r . -e 'KEYWORDS=.*[\" ]sparc' -l | xargs ekeyword ~sparc\n\nSigned-off-by: Arthur Zamarin ","commitid":"0ad96e879b651cc7e8214159d5841d6b633bef8a","committime":"2025-09-02T16:20:20","packageid":52977,"repoid":1,"summary":"*\/*: destable sparc"},{"authoremail":"repomirrorci@gentoo.org","authorname":"Repository mirror & CI","commitid":"f2979793991144637956e4225ce4d0235900c1a2","committime":"2023-06-09T15:16:56","packageid":52977,"repoid":1,"summary":"Merge updates from master"},{"authoremail":"arthurzam@gentoo.org","authorname":"Arthur Zamarin","body":"Signed-off-by: Arthur Zamarin ","commitid":"6aca455566cb8ae599c6b40a40f246abb716f946","committime":"2023-06-03T14:45:48","packageid":52977,"repoid":1,"summary":"sci-biology\/clustalw: destabilize for ~x86"},{"authoremail":"repomirrorci@gentoo.org","authorname":"Repository mirror & CI","commitid":"d51c9d5c19ebb657362f470b725a146d71c2d18f","committime":"2023-05-25T20:02:08","packageid":52977,"repoid":1,"summary":"Merge updates from master"},{"authoremail":"grobian@gentoo.org","authorname":"Fabian Groffen","body":"Signed-off-by: Fabian Groffen ","commitid":"4aebe55f8c434205f2ea3d28ffacb834a401bc1f","committime":"2023-05-25T19:49:16","packageid":52977,"repoid":1,"summary":"*\/*: remove sparc-solaris keyword"},{"authoremail":"repomirrorci@gentoo.org","authorname":"Repository mirror & CI","commitid":"af6f0e8ef0bcb907ba1d0760fbc87f04990100a3","committime":"2022-07-07T20:01:37","packageid":52977,"repoid":1,"summary":"Merge updates from master"},{"authoremail":"soap@gentoo.org","authorname":"David Seifert","body":"Signed-off-by: David Seifert ","commitid":"5614c448ff01e391e77776c8e8b105bb3ea082b5","committime":"2022-07-07T19:56:49","packageid":52977,"repoid":1,"summary":"sci-biology\/clustalw: update EAPI 6 -> 8 (2.1)"},{"authoremail":"soap@gentoo.org","authorname":"David Seifert","body":"Closes: https:\/\/bugs.gentoo.org\/741180\nSigned-off-by: David Seifert ","commitid":"823eb4522246d520868149c751ee325c7b75b742","committime":"2022-07-07T19:56:48","packageid":52977,"repoid":1,"summary":"sci-biology\/clustalw: update EAPI 6 -> 8 (1.83)"},{"authoremail":"repomirrorci@gentoo.org","authorname":"Repository mirror & CI","commitid":"39da18b49f0f1c5486a1cddc64d32bac28abc59b","committime":"2021-11-19T00:07:44","packageid":52977,"repoid":1,"summary":"Merge updates from master"},{"authoremail":"gyakovlev@gentoo.org","authorname":"Georgy Yakovlev","body":"Bug: https:\/\/bugs.gentoo.org\/823768\nSigned-off-by: Georgy Yakovlev ","commitid":"3568d2170e8a80c763c729c58f5327947e0261b1","committime":"2021-11-18T23:44:45","packageid":52977,"repoid":1,"summary":"sci-biology\/clustalw: de-stabilize for ~ppc, bug #823768"},{"authoremail":"repomirrorci@gentoo.org","authorname":"Repository mirror & CI","commitid":"58cb1e82f4d31edb0e691cc80d6ceda365a5ea08","committime":"2020-07-19T14:06:11","packageid":52977,"repoid":1,"summary":"Merge updates from master"},{"authoremail":"slyfox@gentoo.org","authorname":"Sergei Trofimovich","body":"keyworded wrt bug #732334\n\nPackage-Manager: Portage-2.3.103, Repoman-2.3.23\nRepoMan-Options: --include-arches=\"sparc\"\nSigned-off-by: Sergei Trofimovich ","commitid":"7e1326f6e20d7dce107dd49bc6715ac1974ddb39","committime":"2020-07-19T13:35:17","packageid":52977,"repoid":1,"summary":"sci-biology\/clustalw: keyworded 2.1-r1 for sparc"},{"authoremail":"repomirrorci@gentoo.org","authorname":"Repository mirror & CI","commitid":"de350b2c08e3e326e28b28ca173144f63b97ab03","committime":"2020-07-17T01:05:11","packageid":52977,"repoid":1,"summary":"Merge updates from master"},{"authoremail":"sam@gentoo.org","authorname":"Sam James","body":"Package-Manager: Portage-2.3.103, Repoman-2.3.23\nSigned-off-by: Sam James ","commitid":"bea04315b1a4c7238213ea0f7ba7904ec78f1f8e","committime":"2020-07-17T00:29:48","packageid":52977,"repoid":1,"summary":"sci-biology\/clustalw: ppc keyworded (bug #732334)"},{"authoremail":"repomirrorci@gentoo.org","authorname":"Repository mirror & CI","commitid":"2349f5438cbbf88d364d6be8b727efdcce70f6d3","committime":"2020-07-12T13:05:13","packageid":52977,"repoid":1,"summary":"Merge updates from master"},{"authoremail":"slyfox@gentoo.org","authorname":"Sergei Trofimovich","body":"keyworded wrt bug #732334\n\nPackage-Manager: Portage-2.3.103, Repoman-2.3.23\nRepoMan-Options: --include-arches=\"ppc64\"\nSigned-off-by: Sergei Trofimovich ","commitid":"14f6dddbfa7b7dc66afd35be989238de99341c88","committime":"2020-07-12T12:33:01","packageid":52977,"repoid":1,"summary":"sci-biology\/clustalw: keyworded 2.1-r1 for ppc64"},{"authoremail":"repomirrorci@gentoo.org","authorname":"Repository mirror & CI","commitid":"d12d709714905c10d6f7c9a4bb872643f05319be","committime":"2020-03-16T07:07:18","packageid":52977,"repoid":1,"summary":"Merge updates from master"},{"authoremail":"mattst88@gentoo.org","authorname":"Matt Turner","body":"Signed-off-by: Matt Turner ","commitid":"6eea6820a8ab87cbf3ff6b9d4c09ab0a57072415","committime":"2020-03-16T06:27:33","packageid":52977,"repoid":1,"summary":"sci-biology\/clustalw: Drop alpha keywords"},{"authoremail":"repomirrorci@gentoo.org","authorname":"Repository mirror & CI","commitid":"a8d907e4b2acb38467b494e36313788750592b3d","committime":"2020-02-11T17:48:59","packageid":52977,"repoid":1,"summary":"Merge updates from master"},{"authoremail":"mgorny@gentoo.org","authorname":"Michał Górny","body":"Update the copyright notice on all files that were touched since\nJanuary 1st but did not have the notice updated.\n\nSigned-off-by: Michał Górny ","commitid":"6568a730a830fd8a93b28162a01787600d19d307","committime":"2020-02-11T17:05:13","packageid":52977,"repoid":1,"summary":"*\/*: Bump copyright on files touched this year"},{"authoremail":"repomirrorci@gentoo.org","authorname":"Repository mirror & CI","commitid":"ec1eddd5e7b3f69cadcdbf1547a742a3ce22097d","committime":"2020-01-26T00:28:29","packageid":52977,"repoid":1,"summary":"Merge updates from master"},{"authoremail":"mattst88@gentoo.org","authorname":"Matt Turner","body":"Signed-off-by: Matt Turner ","commitid":"5671613f07850086a11a1ace34816b498e9b69b7","committime":"2020-01-26T00:18:19","packageid":52977,"repoid":1,"summary":"*\/*: Drop stable alpha keywords"},{"authoremail":"repo-qa-checks@gentoo.org","authorname":"Repository QA checks","commitid":"25093d6359f778b8d1052f66ba9e26fc29ded21a","committime":"2017-02-28T20:35:29","packageid":52977,"repoid":1,"summary":"Merge updates from master"},{"authoremail":"robbat2@gentoo.org","authorname":"Robin H. Johnson","body":"Signed-off-by: Robin H. Johnson ","commitid":"61b861acd7b49083dab687e133f30f3331cb7480","committime":"2017-02-28T19:47:27","packageid":52977,"repoid":1,"summary":"Drop $Id$ per council decision in bug #611234."},{"authoremail":"repo-qa-checks@gentoo.org","authorname":"Repository QA checks","commitid":"b583ec0b9c3b3626c085c83dddb55bc4810b9e12","committime":"2017-02-25T15:42:13","packageid":52977,"repoid":1,"summary":"Merge updates from master"},{"authoremail":"soap@gentoo.org","authorname":"David Seifert","body":"Package-Manager: Portage-2.3.3, Repoman-2.3.1","commitid":"ee8afc8624d23ec0bd41a5b63ca03ab40973af00","committime":"2017-02-25T15:16:26","packageid":52977,"repoid":1,"summary":"sci-biology\/clustalw: Modernise to EAPI 6"},{"authoremail":"soap@gentoo.org","authorname":"David Seifert","body":"Package-Manager: Portage-2.3.3, Repoman-2.3.1","commitid":"200b406609b2534985901bd7ce1e13a3135b5720","committime":"2017-02-25T15:11:09","packageid":52977,"repoid":1,"summary":"sci-biology\/clustalw: Modernise to EAPI 6"},{"authoremail":"repo-qa-checks@gentoo.org","authorname":"Repository QA checks","commitid":"945f0d2a26da4f944fd06ad6a874f69d37ce1e06","committime":"2015-08-09T09:26:46","packageid":52977,"repoid":1,"summary":"2015-08-09 09:26:21 UTC"},{"authoremail":"robbat2@gentoo.org","authorname":"Robin H. Johnson","body":"This commit represents a new era for Gentoo:\nStoring the gentoo-x86 tree in Git, as converted from CVS.\n\nThis commit is the start of the NEW history.\nAny historical data is intended to be grafted onto this point.\n\nCreation process:\n1. Take final CVS checkout snapshot\n2. Remove ALL ChangeLog* files\n3. Transform all Manifests to thin\n4. Remove empty Manifests\n5. Convert all stale $Header$\/$Id$ CVS keywords to non-expanded Git $Id$\n5.1. Do not touch files with -kb\/-ko keyword flags.\n\nSigned-off-by: Robin H. Johnson \nX-Thanks: Alec Warner - did the GSoC 2006 migration tests\nX-Thanks: Robin H. Johnson - infra guy, herding this project\nX-Thanks: Nguyen Thai Ngoc Duy - Former Gentoo developer, wrote Git features for the migration\nX-Thanks: Brian Harring - wrote much python to improve cvs2svn\nX-Thanks: Rich Freeman - validation scripts\nX-Thanks: Patrick Lauer - Gentoo dev, running new 2014 work in migration\nX-Thanks: Michał Górny - scripts, QA, nagging\nX-Thanks: All of other Gentoo developers - many ideas and lots of paint on the bikeshed","commitid":"56bd759df1d0c750a065b8c845e93d5dfa6b549d","committime":"2015-08-08T20:49:04","packageid":52977,"repoid":1,"summary":"proj\/gentoo: Initial commit"},{"authoremail":"repo-qa-checks@gentoo.org","authorname":"Repository QA checks","commitid":"a637bd65b7fef8e2be4e7fc6e9097479372e0e2e","committime":"2015-06-19T16:38:33","packageid":52977,"repoid":1,"summary":"2015-06-19 16:35:30 UTC"}],"dependencies":[],"depending":[{"block":false,"categoryid":353,"description":"A multiple sequence alignment package","ebuildids":[755480],"firstseen":"2010-05-04T00:54:45.661860","maintainer":"sci-biology@gentoo.org","maintainername":"Gentoo Biology Project","name":"t-coffee","packageid":49483,"summary":"T-Coffee is a multiple sequence alignment package. Given a set of sequences (Proteins or DNA), T-Coffee generates a multiple sequence alignment. Version 2.00 and higher can mix sequences and structures. T-Coffee allows the combination of a collection of multiple\/pairwise, global or local alignments into a single model. It also allows to estimate the level of consistency of each position within the new alignment with the rest of the alignments."},{"block":false,"categoryid":353,"description":"A graphical multiple sequence alignment editor","ebuildids":[849074,849074],"firstseen":"2010-05-04T00:54:45.661860","maintainer":"sci-biology@gentoo.org","maintainername":"Gentoo Biology Project","name":"seaview","packageid":54725,"summary":"SeaView is a graphical multiple sequence alignment editor developped by Manolo Gouy. SeaView is able to read and write various alignment formats (NEXUS, MSF, CLUSTAL, FASTA, PHYLIP, MASE). It allows to manually edit the alignment, and also to run DOT-PLOT or CLUSTALW programs to locally improve the alignment."},{"block":false,"categoryid":416,"description":"Maximum likelihood superpositioning and analysis of macromolecular structures","ebuildids":[713620,713620],"firstseen":"2012-03-21T20:52:40.034466","maintainer":"sci-chemistry@gentoo.org","maintainername":"Gentoo Chemistry Project","name":"theseus","packageid":59040}],"ebuilds":[{"archs":["amd64","~ppc","~ppc64","~sparc","~x86"],"ebuildid":755457,"firstseen":"2022-07-07T21:10:47.213865","license":"GPL-3 LGPL-3","moddate":"2025-12-19T10:14:53","packageid":52977,"repoid":1,"slot":"2","uses":[],"version":"2.1-r2"},{"archs":["amd64","ppc64","~ppc","~sparc","~x86"],"ebuildid":16857,"firstseen":"2017-02-26T14:36:33.693601","license":"clustalw","moddate":"2026-03-22T20:20:57","packageid":52977,"repoid":1,"slot":"1","uses":[],"version":"1.83-r4"}],"masks":[],"package":{"categoryid":353,"description":"General purpose multiple alignment program for DNA and proteins","firstseen":"2010-05-04T00:54:45.661860","maintainer":"sci-biology@gentoo.org","maintainername":"Gentoo Biology Project","name":"clustalw","packageid":52977},"rdependencies":[],"repos":[{"branch":"master","lastcommit":"82366aa45a35f6900f43023917c2c86ccdbb00a3","name":"gentoo","path":"\/usr\/portage","repoid":1,"upstream":"origin"}],"tracked":false,"urls":["http:\/\/www.clustal.org\/"],"uses":[]}