From 7881fd95bcddc0fee4717fab30dbb276745825d8 Mon Sep 17 00:00:00 2001
From: Roel Janssen <roel@gnu.org>
Date: Fri, 13 Nov 2020 11:29:20 +0100
Subject: [PATCH 2/3] gnu: Add samtools-1.9.

* gnu/packages/bioinformatics.scm (samtools-1.9): New variable.
---
 gnu/packages/bioinformatics.scm | 25 +++++++++++++++++++++++++
 1 file changed, 25 insertions(+)

diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index ba86333fc3..e047aebd1d 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -5699,6 +5699,31 @@ variant calling (in conjunction with bcftools), and a simple alignment
 viewer.")
     (license license:expat)))
 
+(define-public samtools-1.9
+  (package (inherit samtools)
+    (name "samtools")
+    (version "1.9")
+    (source
+     (origin
+       (method url-fetch)
+       (uri
+        (string-append "mirror://sourceforge/samtools/samtools/"
+                       version "/samtools-" version ".tar.bz2"))
+       (sha256
+        (base32
+         "10ilqbmm7ri8z431sn90lvbjwizd0hhkf9rcqw8j823hf26nhgq8"))
+       (modules '((guix build utils)))
+       (snippet '(begin
+                   ;; Delete bundled htslib.
+                   (delete-file-recursively "htslib-1.9")
+                   #t))))
+    (inputs
+     `(("htslib" ,htslib-1.9)
+       ("ncurses" ,ncurses)
+       ("perl" ,perl)
+       ("python" ,python)
+       ("zlib" ,zlib)))))
+
 (define-public samtools-0.1
   ;; This is the most recent version of the 0.1 line of samtools.  The input
   ;; and output formats differ greatly from that used and produced by samtools
-- 
2.29.2