Our automated repository checks [1] have detected that the 'science' repository contains ebuilds that trigger fatal errors during the cache regeneration. This usually means that the ebuilds call 'die' in global scope indicating serious issues or have other serious QA violations. Global-scope failures prevent the ebuild not only from being installed but also from being properly processed by the Package Manager. Since metadata can not be obtained for those ebuilds, no cache entries are created for them and the Package Manager needs to retry running them every time it stumbles upon them. This involves both a serious slowdown and repeating error output while performing dependency resolution. The most common cause of global-scope failures is use of removed or banned APIs in old ebuilds. In particular, this includes eclasses being removed or removing support for old EAPIs. Nonetheless there are also other issues such as performing illegal operations in global scope (external program calls), malformed bash in ebuilds or malformed metadata.xml. The error log for the repository can be found at: https://qa-reports.gentoo.org/output/repos/science.html In particular, please look for highlighted error messages. Please fix the issue ASAP, possibly via removing unmaintained, old ebuilds. We reserve the right to remove the repository from our list if we do not receive any reply within 4 weeks. [1]:https://wiki.gentoo.org/wiki/Project:Repository_mirror_and_CI
The bug has been referenced in the following commit(s): https://gitweb.gentoo.org/proj/sci.git/commit/?id=5e5957838e87a4a97682cebea339f682650cf380 commit 5e5957838e87a4a97682cebea339f682650cf380 Author: Benda Xu <heroxbd@gentoo.org> AuthorDate: 2020-02-03 03:59:59 +0000 Commit: Benda Xu <heroxbd@gentoo.org> CommitDate: 2020-02-03 04:02:36 +0000 sci-mathematics/mdp: remove from tree. No maintenance since 2011. No updates since Python target 3.3. Bug: https://bugs.gentoo.org/707558 Signed-off-by: Benda Xu <heroxbd@gentoo.org> sci-mathematics/mdp/Manifest | 2 -- sci-mathematics/mdp/mdp-3.3.ebuild | 35 ----------------------------------- sci-mathematics/mdp/mdp-3.5.ebuild | 34 ---------------------------------- sci-mathematics/mdp/mdp-9999.ebuild | 33 --------------------------------- sci-mathematics/mdp/metadata.xml | 23 ----------------------- 5 files changed, 127 deletions(-) https://gitweb.gentoo.org/proj/sci.git/commit/?id=a1e9a011645237b0401e65acdeb2a2f039bbdbaf commit a1e9a011645237b0401e65acdeb2a2f039bbdbaf Author: Benda Xu <heroxbd@gentoo.org> AuthorDate: 2020-02-03 03:56:58 +0000 Commit: Benda Xu <heroxbd@gentoo.org> CommitDate: 2020-02-03 04:02:36 +0000 sci-mathematics/cadabra: remove from tree. SRC_URI is dead, simple version bump did not work. Bug: https://bugs.gentoo.org/707558 Signed-off-by: Benda Xu <heroxbd@gentoo.org> sci-mathematics/cadabra/Manifest | 1 - sci-mathematics/cadabra/cadabra-1.39.ebuild | 88 ----------- .../cadabra/files/cadabra-1.33-FLAGS.patch | 171 --------------------- .../cadabra/files/cadabra-1.39-FLAGS.patch | 171 --------------------- sci-mathematics/cadabra/metadata.xml | 9 -- 5 files changed, 440 deletions(-) https://gitweb.gentoo.org/proj/sci.git/commit/?id=da731f1940288b009bf57a13ad7bbb132ea2ed8e commit da731f1940288b009bf57a13ad7bbb132ea2ed8e Author: Benda Xu <heroxbd@gentoo.org> AuthorDate: 2020-02-03 03:50:42 +0000 Commit: Benda Xu <heroxbd@gentoo.org> CommitDate: 2020-02-03 04:02:35 +0000 sci-chemistry/openbabel-ruby: remove from tree. The ebuild is under maintained and without any normal ebuild verions. The ruby targets are not updated since ruby21. Bug: https://bugs.gentoo.org/707558 Signed-off-by: Benda Xu <heroxbd@gentoo.org> sci-chemistry/openbabel-ruby/metadata.xml | 18 ----- .../openbabel-ruby/openbabel-ruby-9999.ebuild | 81 ---------------------- 2 files changed, 99 deletions(-) https://gitweb.gentoo.org/proj/sci.git/commit/?id=1b3fdb740a49af440e5f0956f9c64b00be9b7ace commit 1b3fdb740a49af440e5f0956f9c64b00be9b7ace Author: Benda Xu <heroxbd@gentoo.org> AuthorDate: 2020-02-03 03:39:43 +0000 Commit: Benda Xu <heroxbd@gentoo.org> CommitDate: 2020-02-03 04:02:35 +0000 sci-biology/ugene: remove from tree. SRC_URI is dead. Upstream is alive, but it is not trivial to figure out the source tarball download of the new version. Feel free to add this package back to tree. Bug: https://bugs.gentoo.org/707558 Signed-off-by: Benda Xu <heroxbd@gentoo.org> sci-biology/ugene/Manifest | 1 - sci-biology/ugene/metadata.xml | 12 ---------- sci-biology/ugene/ugene-1.20.0.ebuild | 42 ----------------------------------- 3 files changed, 55 deletions(-) https://gitweb.gentoo.org/proj/sci.git/commit/?id=4b71324f723868c8e6c4bef7f95776ba556e7932 commit 4b71324f723868c8e6c4bef7f95776ba556e7932 Author: Benda Xu <heroxbd@gentoo.org> AuthorDate: 2020-02-03 03:34:38 +0000 Commit: Benda Xu <heroxbd@gentoo.org> CommitDate: 2020-02-03 04:02:34 +0000 sci-biology/consed2gap: remove from tree. 1. No upstream updates since 2005. 2. perl-app eclass is removed from main repo. Bug: https://bugs.gentoo.org/707558 Signed-off-by: Benda Xu <heroxbd@gentoo.org> sci-biology/consed2gap/Manifest | 1 - sci-biology/consed2gap/consed2gap-20050520.ebuild | 37 ----------------------- sci-biology/consed2gap/metadata.xml | 12 -------- 3 files changed, 50 deletions(-) https://gitweb.gentoo.org/proj/sci.git/commit/?id=435cdfbb48bf8efd38cb3198230758bd599aeac3 commit 435cdfbb48bf8efd38cb3198230758bd599aeac3 Author: Benda Xu <heroxbd@gentoo.org> AuthorDate: 2020-02-03 03:22:24 +0000 Commit: Benda Xu <heroxbd@gentoo.org> CommitDate: 2020-02-03 04:02:34 +0000 sci-biology/amos: remove from tree. 1. No upstream development since 2011. 2. Does not support Python 3. Bug: https://bugs.gentoo.org/707558 Signed-off-by: Benda Xu <heroxbd@gentoo.org> sci-biology/amos/Manifest | 1 - sci-biology/amos/amos-3.1.0-r2.ebuild | 76 ---------------------- sci-biology/amos/amos-9999.ebuild | 76 ---------------------- sci-biology/amos/files/amos-3.1.0-gcc-4.7.patch | 15 ----- ...mos-3.1.0-goBambus2.py-indent-and-cleanup.patch | 25 ------- .../files/amos-3.1.0-rename_to_jellyfish1.patch | 43 ------------ .../amos/files/amos-9999-fix-include-paths.patch | 13 ---- sci-biology/amos/metadata.xml | 21 ------ 8 files changed, 270 deletions(-)
I am sorry that I went ahead and tree-cleaned the above ebuilds causing overlay CI to fail. I attempted naive fixes in vain. Feel free to make the version bumps and re-add them to the overlay. If you need assistance please contact me.
The bug seems to be fixed in the repository. Closing.
Thanks Michał!
