diff mbox series

[bug#47821] Update htslib, bcftools, samtools, bedtools

Message ID 9345d6a11fd99f1a8eefeb3664508938255e1287.camel@gnu.org
State Accepted
Headers show
Series [bug#47821] Update htslib, bcftools, samtools, bedtools | expand

Checks

Context Check Description
cbaines/submitting builds success
cbaines/comparison success View comparision
cbaines/git branch success View Git branch
cbaines/applying patch fail View Laminar job
cbaines/issue success View issue

Commit Message

Roel Janssen April 16, 2021, 9:55 a.m. UTC 
Hi Guix,

The following patches update htslib, bcftools, samtools, and bedtools.
I've succesfully built bedtools with the latest samtools instead of the
1.9 version.

Kind regards,
Roel Janssen

Comments

Efraim Flashner April 27, 2021, 7:32 a.m. UTC | #1 
On Fri, Apr 16, 2021 at 11:55:39AM +0200, Roel Janssen wrote:
> Hi Guix,
> 
> The following patches update htslib, bcftools, samtools, and bedtools.
> I've succesfully built bedtools with the latest samtools instead of the
> 1.9 version.

These look good and are ready for merging. Can you take a look at
python-pybedtools? There's a new version out which I hope builds with
the newer version of bedtools.

Thanks.
diff mbox series

Patch

From 45e578976cd0c77e60d2188385adcda51b23b92a Mon Sep 17 00:00:00 2001
From: Roel Janssen <roel@gnu.org>
Date: Fri, 16 Apr 2021 11:49:49 +0200
Subject: [PATCH 1/4] gnu: htslib: Update to 1.12.

* gnu/packages/bioinformatics.scm (htslib): Update to 1.12.
---
 gnu/packages/bioinformatics.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 41ef4cd513..e385e07cea 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -4476,7 +4476,7 @@  performance.")
 (define-public htslib
   (package
     (name "htslib")
-    (version "1.11")
+    (version "1.12")
     (source (origin
               (method url-fetch)
               (uri (string-append
@@ -4484,7 +4484,7 @@  performance.")
                     version "/htslib-" version ".tar.bz2"))
               (sha256
                (base32
-                "1mrq4mihzx37yqhj3sfz6da6mw49niia808bzsw2gkkgmadxvyng"))))
+                "1jplnvizgr0fyyvvmkfmnsywrrpqhid3760vw15bllz98qdi9012"))))
     (build-system gnu-build-system)
     ;; Let htslib translate "gs://" and "s3://" to regular https links with
     ;; "--enable-gcs" and "--enable-s3". For these options to work, we also
-- 
2.30.2