From: | Martin Mokrejs <mmokrejs@×××××××××××××××.cz> |
---|---|
To: | gentoo-commits@l.g.o |
Subject: | [gentoo-commits] proj/sci:master commit in: sci-biology/SPAdes/ |
Date: | Tue, 16 Oct 2018 17:47:37 |
Message-Id: | 1539712028.f7eaea4317cca5c6ca5566c05c69b604d7312bc8.mmokrejs@gentoo |
1 | commit: f7eaea4317cca5c6ca5566c05c69b604d7312bc8 |
2 | Author: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> |
3 | AuthorDate: Tue Oct 16 17:47:08 2018 +0000 |
4 | Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> |
5 | CommitDate: Tue Oct 16 17:47:08 2018 +0000 |
6 | URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=f7eaea43 |
7 | |
8 | sci-biology/SPAdes: version bump, drop old and buggy version |
9 | |
10 | SPAdes 3.13.0 |
11 | CHANGE: Switched to multi-k-mer mode in rnaSPAdes, k-mer values are detected |
12 | automatically based on read length. |
13 | CHANGE: Added manual as README.md in markdown format for github. |
14 | FIX: Updated BWA and switched to RopeBWT, which allows to handle large graphs. |
15 | FIX: Assert for path.length() > 0 in rnaSPAdes. |
16 | FIX: CQF and k-mer counting. |
17 | REMOVE: dipSPAdes module. |
18 | Package-Manager: Portage-2.3.51, Repoman-2.3.10 |
19 | |
20 | sci-biology/SPAdes/{SPAdes-3.12.0.ebuild => SPAdes-3.13.0.ebuild} | 1 - |
21 | 1 file changed, 1 deletion(-) |
22 | |
23 | diff --git a/sci-biology/SPAdes/SPAdes-3.12.0.ebuild b/sci-biology/SPAdes/SPAdes-3.13.0.ebuild |
24 | similarity index 96% |
25 | rename from sci-biology/SPAdes/SPAdes-3.12.0.ebuild |
26 | rename to sci-biology/SPAdes/SPAdes-3.13.0.ebuild |
27 | index b56180a1a..00ccc4f27 100644 |
28 | --- a/sci-biology/SPAdes/SPAdes-3.12.0.ebuild |
29 | +++ b/sci-biology/SPAdes/SPAdes-3.13.0.ebuild |
30 | @@ -12,7 +12,6 @@ HOMEPAGE="http://cab.spbu.ru/software/spades" |
31 | SRC_URI=" |
32 | https://github.com/ablab/spades/releases/download/v${PV}/${P}.tar.gz |
33 | http://cab.spbu.ru/files/release${PV}/manual.html -> ${P}_manual.html |
34 | - http://cab.spbu.ru/files/release${PV}/manual.md -> ${P}_manual.md |
35 | http://cab.spbu.ru/files/release${PV}/rnaspades_manual.html -> ${P}_rnaspades_manual.html |
36 | http://cab.spbu.ru/files/release${PV}/truspades_manual.html -> ${P}_truspades_manual.html |
37 | http://spades.bioinf.spbau.ru/release3.11.1/dipspades_manual.html -> ${P}_dipspades_manual.html" |