{"bugs":[{"bugid":710968,"firstseen":"2025-07-11T02:48:40.189262","severity":"normal","status":"CONFIRMED","summary":"sci-biology\/seaview-4.6 : ebuild uses colon (:) as a sed delimiter"},{"bugid":940561,"firstseen":"2025-07-11T02:48:40.189262","severity":"normal","status":"CONFIRMED","summary":"sci-biology\/seaview-4.6-r1 - [ncurses-6.5] [meson] [libtool] [gcc-15] treedraw.cxx: error: type struct branche violates the C++ One Definition Rule [-Werror=odr]"},{"bugid":946999,"firstseen":"2025-07-11T02:48:40.189262","severity":"normal","status":"CONFIRMED","summary":"sci-biology\/seaview-4.6-r2 fails to compile: pdf_or_ps.h:44:75: error: cannot convert Fl_PostScript_Graphics_Driver to Fl_Graphics_Driver in return"}],"categories":[{"categoryid":353,"name":"sci-biology","summary":"The sci-biology category contains software that can be used in biological and related scientific environments."},{"categoryid":318,"name":"sci-libs","summary":"The sci-libs category contains various science-related libraries."},{"categoryid":396,"name":"virtual","summary":"The virtual category contains packages which satisfy virtual dependencies."},{"categoryid":330,"name":"x11-libs","summary":"The x11-libs category contains various X11-related libraries."}],"changelog":[{"authoremail":"repomirrorci@gentoo.org","authorname":"Repository mirror & CI","commitid":"00b4cc6bb3b864fbeaa6dca1da399c3716afed16","committime":"2025-11-04T09:50:46","packageid":54725,"repoid":1,"summary":"Merge updates from master"},{"authoremail":"mgorny@gentoo.org","authorname":"Michał Górny","body":"Done via:\n\n```\ngit grep -l virtual\/zlib$ | xargs sed -i -e 's@virtual\/zlib$@&:=@'\n```\n\nSigned-off-by: Michał Górny ","commitid":"6a3644bf2f9aace46ad9bbab2e4f3bccd747079e","committime":"2025-11-04T09:36:27","packageid":54725,"repoid":1,"summary":"*\/*: Add := to virtual\/zlib deps, part 1"},{"authoremail":"repomirrorci@gentoo.org","authorname":"Repository mirror & CI","commitid":"5a1adb610b1d91ab6683cbe671e266f424224c16","committime":"2025-11-04T08:35:48","packageid":54725,"repoid":1,"summary":"Merge updates from master"},{"authoremail":"mgorny@gentoo.org","authorname":"Michał Górny","body":"Update done using:\n\n```\ngit grep -l sys-libs\/zlib dev-* | xargs sed -i -e s@sys-libs\/zlib@virtual\/zlib@g\ngit diff --name-only | xargs copybump\ngit diff --name-only | xargs grep -l PYTHON_COMPAT | xargs gpy-impl -@dead\npkgcheck scan --commits -c SourcingCheck,VisibilityCheck --exit error\n```\n\nSigned-off-by: Michał Górny ","commitid":"f1351833569f8b22abc3dc9e74abeed7e8641096","committime":"2025-11-04T08:17:06","packageid":54725,"repoid":1,"summary":"sci-*\/*: update for virtual\/zlib"},{"authoremail":"repomirrorci@gentoo.org","authorname":"Repository mirror & CI","commitid":"cb5e13e885c4e26f03bd44b963bc4087aabf65f5","committime":"2024-12-26T18:05:24","packageid":54725,"repoid":1,"summary":"Merge updates from master"},{"authoremail":"ionen@gentoo.org","authorname":"Ionen Wolkens","body":"Also update [xft] due to the USE being dropped in fltk-1.4\n\nSigned-off-by: Ionen Wolkens ","commitid":"de9ecbda077d0cd433039e2b900b7e85fff35ddb","committime":"2024-12-26T08:24:57","packageid":54725,"repoid":1,"summary":"sci-biology\/seaview: add binding := to fltk, soname changed"},{"authoremail":"repomirrorci@gentoo.org","authorname":"Repository mirror & CI","commitid":"e332bcf48978c21cd488743047c02d61bc77bcce","committime":"2020-11-01T19:05:14","packageid":54725,"repoid":1,"summary":"Merge updates from master"},{"authoremail":"soap@gentoo.org","authorname":"David Seifert","body":"Closes: https:\/\/bugs.gentoo.org\/588506\nPackage-Manager: Portage-3.0.8, Repoman-3.0.2\nSigned-off-by: David Seifert ","commitid":"6c107298cc9dd9838f6ee259253dae994b67dc22","committime":"2020-11-01T18:36:17","packageid":54725,"repoid":1,"summary":"sci-biology\/seaview: Remove old 4.5.4"},{"authoremail":"soap@gentoo.org","authorname":"David Seifert","body":"* Fix building against GCC 10 \/ -fno-common\n* Fix building against Clang\n\nCloses: https:\/\/bugs.gentoo.org\/707842\nCloses: https:\/\/bugs.gentoo.org\/741198\nPackage-Manager: Portage-3.0.8, Repoman-3.0.2\nSigned-off-by: David Seifert ","commitid":"cc1e91fc1e8a7302af0ab19c8ad3c5ef5721ec92","committime":"2020-11-01T18:36:14","packageid":54725,"repoid":1,"summary":"sci-biology\/seaview: Port to EAPI 7"},{"authoremail":"repomirrorci@gentoo.org","authorname":"Repository mirror & CI","commitid":"1cdaf96b840c3adfc5401975b3c60ab859cc83d7","committime":"2020-09-24T20:05:17","packageid":54725,"repoid":1,"summary":"Merge updates from master"},{"authoremail":"bman@gentoo.org","authorname":"Aaron Bauman","body":"Signed-off-by: Aaron Bauman ","commitid":"795f43845983c6fcfed8c831b28dd8de417ad33d","committime":"2020-09-24T19:01:22","packageid":54725,"repoid":1,"summary":"sci-biology\/seaview: drop old EAPI=5"},{"authoremail":"repo-qa-checks@gentoo.org","authorname":"Repository QA checks","commitid":"25093d6359f778b8d1052f66ba9e26fc29ded21a","committime":"2017-02-28T20:35:29","packageid":54725,"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":54725,"repoid":1,"summary":"Drop $Id$ per council decision in bug #611234."},{"authoremail":"repo-qa-checks@gentoo.org","authorname":"Repository QA checks","commitid":"e276789fbac1f63ee217f1146713347048bdbfe3","committime":"2017-02-06T21:38:43","packageid":54725,"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\nCloses: https:\/\/github.com\/gentoo\/gentoo\/pull\/3856","commitid":"6dd0dd96facec0ad0720d696d535ea39dc9d5f2a","committime":"2017-02-06T20:48:01","packageid":54725,"repoid":1,"summary":"sci-biology\/seaview: Remove ppc from KEYWORDS"},{"authoremail":"repo-qa-checks@gentoo.org","authorname":"Repository QA checks","commitid":"ecb5abffce104c77b69da7ca8dea75308b209e41","committime":"2016-07-31T12:42:07","packageid":54725,"repoid":1,"summary":"Merge updates from master"},{"authoremail":"soap@gentoo.org","authorname":"David Seifert","body":"* EAPI=6\n\nPackage-Manager: portage-2.3.0","commitid":"924e136387717515e0531c0a6657677f7edfdcb8","committime":"2016-07-31T12:10:31","packageid":54725,"repoid":1,"summary":"sci-biology\/seaview: version bump"},{"authoremail":"repo-qa-checks@gentoo.org","authorname":"Repository QA checks","commitid":"06f2c0610e3c177a8c68e647d88c7896bf86feba","committime":"2016-03-16T12:02:33","packageid":54725,"repoid":1,"summary":"Merge updates from master"},{"authoremail":"ago@gentoo.org","authorname":"Agostino Sarubbo","body":"Package-Manager: portage-2.2.26\nRepoMan-Options: --include-arches=\"ppc\"\nSigned-off-by: Agostino Sarubbo ","commitid":"b540f635acb7794c4584e7e9dd9fec70e76f401c","committime":"2016-03-16T11:47:56","packageid":54725,"repoid":1,"summary":"sci-biology\/seaview: ppc stable wrt bug #575914"},{"authoremail":"repo-qa-checks@gentoo.org","authorname":"Repository QA checks","commitid":"5b5844ad88c417b2d4b2bf117e2695c7accffe38","committime":"2016-03-15T15:46:46","packageid":54725,"repoid":1,"summary":"Merge updates from master"},{"authoremail":"ago@gentoo.org","authorname":"Agostino Sarubbo","body":"Package-Manager: portage-2.2.26\nRepoMan-Options: --include-arches=\"x86\"\nSigned-off-by: Agostino Sarubbo ","commitid":"95baf88f2e7278eebdbd7504cc54b57e557e6725","committime":"2016-03-15T15:25:18","packageid":54725,"repoid":1,"summary":"sci-biology\/seaview: x86 stable wrt bug #575914"},{"authoremail":"idella4@gentoo.org","authorname":"Ian Delaney","body":"Pull Request: https:\/\/github.com\/gentoo\/gentoo\/pull\/990","commitid":"2ce51dd9de78846a6d3a34877c097b8939056f15","committime":"2016-03-07T06:42:48","packageid":54725,"repoid":1,"summary":"Merge remote-tracking branch 'remotes\/sbraz\/syncthing'"},{"authoremail":"repo-qa-checks@gentoo.org","authorname":"Repository QA checks","commitid":"83554a7c28f2cc5eb947f8cf1d7605aec2a27d75","committime":"2016-03-06T13:02:36","packageid":54725,"repoid":1,"summary":"Merge updates from master"},{"authoremail":"ago@gentoo.org","authorname":"Agostino Sarubbo","body":"Package-Manager: portage-2.2.26\nRepoMan-Options: --include-arches=\"amd64\"\nSigned-off-by: Agostino Sarubbo ","commitid":"f5a1a42e55297ac80c28481c12f7243d08f8f688","committime":"2016-03-06T12:53:49","packageid":54725,"repoid":1,"summary":"sci-biology\/seaview: amd64 stable wrt bug #575914"},{"authoremail":"repo-qa-checks@gentoo.org","authorname":"Repository QA checks","commitid":"b51851b3420b18f0c779401ab50f46975fca5827","committime":"2015-11-20T11:41:44","packageid":54725,"repoid":1,"summary":"Merge updates from master"},{"authoremail":"jlec@gentoo.org","authorname":"Justin Lecher","body":"fixes compilation problems with newer fltk\n\nGentoo-Bug: https:\/\/bugs.gentoo.org\/show_bug.cgi?id=556750\n\nPackage-Manager: portage-2.2.25\nSigned-off-by: Justin Lecher ","commitid":"68d94399d2dbcc0efa6835df6bef41475d5ddbc2","committime":"2015-11-20T10:14:23","packageid":54725,"repoid":1,"summary":"sci-biology\/seaview: Version Bump"},{"authoremail":"repo-qa-checks@gentoo.org","authorname":"Repository QA checks","commitid":"945f0d2a26da4f944fd06ad6a874f69d37ce1e06","committime":"2015-08-09T09:26:46","packageid":54725,"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":54725,"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":54725,"repoid":1,"summary":"2015-06-19 16:35:30 UTC"}],"dependencies":[{"block":false,"categoryid":318,"description":"Library for sci-biology\/mauve","ebuildids":[849074],"firstseen":"2010-05-04T00:54:45.661860","maintainer":"sci-biology@gentoo.org","maintainername":"Gentoo Biology Project","name":"libmuscle","packageid":44815},{"block":false,"categoryid":330,"description":"Fast Light GUI Toolkit","ebuildids":[849074],"firstseen":"2010-05-04T00:54:45.661860","maintainer":"desktop-misc@gentoo.org","maintainername":"Gentoo Desktop Miscellaneous Project","name":"fltk","packageid":46789,"summary":"The Fast Light ToolKit is a cross-platform C++ user interface toolkit for X and OpenGL. FLTK (pronounced \"fulltick\") provides GUI functionality and supports 3D graphics via OpenGL and its built-in GLUT emulation. FLTK also includes a UI builder called FLUID that can be used to create applications."},{"block":false,"categoryid":353,"description":"Estimation of large phylogenies by maximum likelihood","ebuildids":[849074],"firstseen":"2010-05-04T00:54:45.661860","maintainer":"sci-biology@gentoo.org","maintainername":"Gentoo Biology Project","name":"phyml","packageid":47059,"summary":"Phyml is a simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Given input sequence files, it estimates phylogenies using maximum likelihood, and is capable of processing large amounts of phylogenetic data."},{"block":false,"categoryid":330,"description":"X.Org X11 library","ebuildids":[849074],"firstseen":"2010-05-04T00:54:45.661860","maintainer":"x11@gentoo.org","maintainername":"X11","name":"libX11","packageid":47861},{"block":false,"categoryid":353,"description":"General purpose multiple alignment program for DNA and proteins","ebuildids":[849074],"firstseen":"2010-05-04T00:54:45.661860","maintainer":"sci-biology@gentoo.org","maintainername":"Gentoo Biology Project","name":"clustalw","packageid":52977},{"block":false,"categoryid":353,"description":"Multiple sequence comparison by log-expectation","ebuildids":[849074],"firstseen":"2010-05-04T00:54:45.661860","maintainer":"sci-biology@gentoo.org","maintainername":"Gentoo Biology Project","name":"muscle","packageid":53549},{"block":false,"categoryid":330,"description":"X.Org Xft library","ebuildids":[849074],"firstseen":"2010-05-04T00:54:45.661860","maintainer":"x11@gentoo.org","maintainername":"X11","name":"libXft","packageid":54139},{"block":false,"categoryid":396,"description":"Virtual for libz.so providers","ebuildids":[849074],"firstseen":"2025-11-04T07:31:41.418357","name":"zlib","packageid":78605}],"depending":[],"ebuilds":[{"archs":["~amd64","~x86"],"ebuildid":849074,"firstseen":"2024-12-26T18:19:43.929829","license":"public-domain","moddate":"2026-03-22T20:20:57","packageid":54725,"repoid":1,"slot":"0","uses":["xft"],"version":"4.6-r2"}],"masks":[],"package":{"categoryid":353,"description":"A graphical multiple sequence alignment editor","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."},"rdependencies":[{"block":false,"categoryid":318,"description":"Library for sci-biology\/mauve","ebuildids":[849074],"firstseen":"2010-05-04T00:54:45.661860","maintainer":"sci-biology@gentoo.org","maintainername":"Gentoo Biology Project","name":"libmuscle","packageid":44815},{"block":false,"categoryid":330,"description":"Fast Light GUI Toolkit","ebuildids":[849074],"firstseen":"2010-05-04T00:54:45.661860","maintainer":"desktop-misc@gentoo.org","maintainername":"Gentoo Desktop Miscellaneous Project","name":"fltk","packageid":46789,"summary":"The Fast Light ToolKit is a cross-platform C++ user interface toolkit for X and OpenGL. FLTK (pronounced \"fulltick\") provides GUI functionality and supports 3D graphics via OpenGL and its built-in GLUT emulation. FLTK also includes a UI builder called FLUID that can be used to create applications."},{"block":false,"categoryid":353,"description":"Estimation of large phylogenies by maximum likelihood","ebuildids":[849074],"firstseen":"2010-05-04T00:54:45.661860","maintainer":"sci-biology@gentoo.org","maintainername":"Gentoo Biology Project","name":"phyml","packageid":47059,"summary":"Phyml is a simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Given input sequence files, it estimates phylogenies using maximum likelihood, and is capable of processing large amounts of phylogenetic data."},{"block":false,"categoryid":330,"description":"X.Org X11 library","ebuildids":[849074],"firstseen":"2010-05-04T00:54:45.661860","maintainer":"x11@gentoo.org","maintainername":"X11","name":"libX11","packageid":47861},{"block":false,"categoryid":353,"description":"General purpose multiple alignment program for DNA and proteins","ebuildids":[849074],"firstseen":"2010-05-04T00:54:45.661860","maintainer":"sci-biology@gentoo.org","maintainername":"Gentoo Biology Project","name":"clustalw","packageid":52977},{"block":false,"categoryid":353,"description":"Multiple sequence comparison by log-expectation","ebuildids":[849074],"firstseen":"2010-05-04T00:54:45.661860","maintainer":"sci-biology@gentoo.org","maintainername":"Gentoo Biology Project","name":"muscle","packageid":53549},{"block":false,"categoryid":330,"description":"X.Org Xft library","ebuildids":[849074],"firstseen":"2010-05-04T00:54:45.661860","maintainer":"x11@gentoo.org","maintainername":"X11","name":"libXft","packageid":54139},{"block":false,"categoryid":396,"description":"Virtual for libz.so providers","ebuildids":[849074],"firstseen":"2025-11-04T07:31:41.418357","name":"zlib","packageid":78605}],"repos":[{"branch":"master","lastcommit":"52197549fd3431fa256b8edbafdcd3702dd0e134","name":"gentoo","path":"\/usr\/portage","repoid":1,"upstream":"origin"}],"tracked":false,"urls":["http:\/\/pbil.univ-lyon1.fr\/software\/seaview.html"],"uses":[{"defaultflag":true,"description":"Build with support for XFT font renderer (x11-libs\/libXft)","isdefault":true,"use":"xft"}]}