Gentoo Websites Logo
Go to: Gentoo Home Documentation Forums Lists Bugs Planet Store Wiki Get Gentoo!

Bug 718468

Summary: sci-biology/bedtools: need py3.7, 3.8 port
Product: Gentoo Linux Reporter: Michał Górny <mgorny>
Component: Current packagesAssignee: Gentoo Science Biology related packages <sci-biology>
Status: RESOLVED FIXED    
Severity: normal CC: treecleaner
Priority: Normal    
Version: unspecified   
Hardware: All   
OS: Linux   
Whiteboard:
Package list:
Runtime testing required: ---
Bug Depends on:    
Bug Blocks: 695996    

Description Michał Górny archtester Gentoo Infrastructure gentoo-dev Security 2020-04-19 20:07:10 UTC
The packages are stuck on py3.6 which means they will be pain once we switch to 3.7.  Please test them on 3.7 *and* 3.8 (so we don't to revisit this in a few months), and update PYTHON_COMPAT appropriately.  If it doesn't work, please either fix it, remove Python or issue last rites.  Please consider this urgent.
Comment 1 Michał Górny archtester Gentoo Infrastructure gentoo-dev Security 2020-08-16 10:06:11 UTC
ping.
Comment 2 Larry the Git Cow gentoo-dev 2020-08-16 20:50:09 UTC
The bug has been closed via the following commit(s):

https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=e242a698ff6c378fa19286f02c735606e6a66fd6

commit e242a698ff6c378fa19286f02c735606e6a66fd6
Author:     David Seifert <soap@gentoo.org>
AuthorDate: 2020-08-16 20:49:52 +0000
Commit:     David Seifert <soap@gentoo.org>
CommitDate: 2020-08-16 20:49:52 +0000

    sci-biology/bedtools: Remove old
    
    Closes: https://bugs.gentoo.org/718468
    Package-Manager: Portage-3.0.2, Repoman-2.3.23
    Signed-off-by: David Seifert <soap@gentoo.org>

 sci-biology/bedtools/Manifest               |  2 --
 sci-biology/bedtools/bedtools-2.26.0.ebuild | 44 -----------------------------
 2 files changed, 46 deletions(-)

Additionally, it has been referenced in the following commit(s):

https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=3a1f5a9faf6dfeb828e148cd397290d670c93744

commit 3a1f5a9faf6dfeb828e148cd397290d670c93744
Author:     David Seifert <soap@gentoo.org>
AuthorDate: 2020-08-16 20:49:49 +0000
Commit:     David Seifert <soap@gentoo.org>
CommitDate: 2020-08-16 20:49:49 +0000

    sci-biology/bedtools: Version bump to 2.29.2
    
    Bug: https://bugs.gentoo.org/718468
    Package-Manager: Portage-3.0.2, Repoman-2.3.23
    Signed-off-by: David Seifert <soap@gentoo.org>

 sci-biology/bedtools/Manifest                      |  1 +
 sci-biology/bedtools/bedtools-2.29.2.ebuild        | 48 +++++++++++++
 .../files/bedtools-2.29.2-buildsystem.patch        | 82 ++++++++++++++++++++++
 .../bedtools/files/bedtools-2.29.2-python.patch    | 41 +++++++++++
 .../files/bedtools-2.29.2-samtools-1.10.patch      | 13 ++++
 5 files changed, 185 insertions(+)