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sci-biology/tigmint

Correct misassemblies using linked reads from 10x Genomics Chromium

Screenshots

  • tigmint-1.2.4-r1
    ~amd64 ~x86
    test python_targets_python3_10

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    Overlay: science

ChangeLog

commit c2ff6c611eadc2af7f46a00d538901f84f45889b
Author: Paul Zander <negril.nx+gentoo@gmail.com>
Date: Thu Dec 12 13:09:00 2024 +0100

move {sci-biology,dev-python}/pybedtools

Signed-off-by: Paul Zander <negril.nx+gentoo@gmail.com>

commit 68cf951482f7c6cfc4e238b28f4f4c2dd7844128
Author: Horea Christian <chr@chymera.eu>
Date: Fri Jan 13 02:42:22 2023 -0500

sci-biology/tigmint: enable py3.10 and disable py3.8, py3.9

Signed-off-by: Horea Christian <chr@chymera.eu>

commit 7b40dd3b9eb83ed33a243cbc61baca5d6c5b3ac1
Author: Martin Mokrejs <mmokrejs@gmail.com>
Date: Thu Oct 21 10:59:06 2021 +0200

sci-biology/tigmint: add undocumented DEPENDency on zsh

Package-Manager: Portage-3.0.28, Repoman-3.0.3
Signed-off-by: Martin Mokrejs <mmokrejs@gmail.com>

commit 9a13af8737903d7bb70f8667fa53e6056fd3d429
Author: Andrew Ammerlaan <andrewammerlaan@gentoo.org>
Date: Wed Oct 20 15:12:14 2021 +0200

sci-biology/tigmint: properly install python things

Package-Manager: Portage-3.0.28, Repoman-3.0.3
Signed-off-by: Andrew Ammerlaan <andrewammerlaan@gentoo.org>

commit 6c45174a480dae72e147dbf764bda33b72404a56
Author: Martin Mokrejs <mmokrejs@gmail.com>
Date: Tue Oct 19 17:06:25 2021 +0200

sci-biology/tigmint: drop KEYWORDS until python install path is fixed

The 'from read_fasta import read_fasta' is supposed to work but Makefile
places the file into $prefix.

Package-Manager: Portage-3.0.28, Repoman-3.0.3
Signed-off-by: Martin Mokrejs <mmokrejs@gmail.com>

commit 60b98c5ebef8040cd4d47494fc8e6ee5aa3e26b0
Author: Martin Mokrejs <mmokrejs@gmail.com>
Date: Tue Oct 19 16:24:00 2021 +0200

sci-biology/tigmint: add missing dependencies not listed by upstream

Package-Manager: Portage-3.0.28, Repoman-3.0.3
Signed-off-by: Martin Mokrejs <mmokrejs@gmail.com>

commit 63dcb460ddbccacd2c2b7deb9a66bdd5705eb7ec
Author: Martin Mokrejs <mmokrejs@gmail.com>
Date: Sun Oct 17 18:21:54 2021 +0200

sci-biology/tigmint: any python3 is supported

Package-Manager: Portage-3.0.28, Repoman-3.0.3
Signed-off-by: Martin Mokrejs <mmokrejs@gmail.com>

commit 12a8a79abb8942a51cd8e15db9668bd0683221d3
Author: Martin Mokrejs <mmokrejs@gmail.com>
Date: Sun Oct 17 14:08:06 2021 +0200

sci-biology/tigmint: version bump, update SRC_URI

Package-Manager: Portage-3.0.28, Repoman-3.0.3
Signed-off-by: Martin Mokrejs <mmokrejs@gmail.com>

commit 34fb671e52382f1d6c2196917dc43014d413ddde
Author: Andrew Ammerlaan <andrewammerlaan@riseup.net>
Date: Mon Jan 4 14:11:07 2021 +0100

sci-biology/tigmint: version bump, bump py targets, add keywords

Package-Manager: Portage-3.0.12, Repoman-3.0.2
Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
Signed-off-by: Horea Christian <chr@chymera.eu>

commit 61199804d047b3bb60a69643a79263d4d9f9ff6c
Author: Martin Mokrejs <mmokrejs@gmail.com>
Date: Fri Jan 10 17:13:53 2020 +0100

sci-biology/tigmint: fix package name

Package-Manager: Portage-2.3.84, Repoman-2.3.20
Signed-off-by: Martin Mokrejs <mmokrejs@gmail.com>

commit 9b2792faf3aac9829d3c30dc8ea5c5ec92fc9a8f
Author: Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
Date: Sat Apr 21 13:39:30 2018 +0200

sci-biology/tigmint: new package

It is not yet enabled because an install procedure is missing.

Bug: https://github.com/bcgsc/tigmint/issues/10
Package-Manager: Portage-2.3.28, Repoman-2.3.9