From 303c93c04c65a2dbf0c8ad8e27b5e6c849848d06 Mon Sep 17 00:00:00 2001
From: pjotrp
Date: Sat, 25 Feb 2017 08:09:19 +0000
Subject: sambamba: patch main bin

---
 gn/packages/sambamba.scm | 3 ++-
 1 file changed, 2 insertions(+), 1 deletion(-)

(limited to 'gn')

diff --git a/gn/packages/sambamba.scm b/gn/packages/sambamba.scm
index 221aeb6..6463689 100644
--- a/gn/packages/sambamba.scm
+++ b/gn/packages/sambamba.scm
@@ -87,7 +87,8 @@
               (lambda* (#:key inputs #:allow-other-keys)
                 (substitute* "sambamba/pileup.d"
                              (("string samtoolsBin     = null;") (string-append "string samtoolsBin = \"" (which "samtools") "\";"))
-                             (("string bcftoolsBin     = null;") (string-append "string bcftoolsBin = \"" (which "bcftools") "\";")))))
+                             (("string samtoolsBin     = null;") (string-append "string samtoolsBin = \"" (which "samtools") "\";"))
+                             (("    this_app = args[0];") (string-append "    this_app = \"" (which "sambamba") "\";")))))
            (add-after 'unpack 'unpack-htslib-sources
              (lambda* (#:key inputs #:allow-other-keys)
                ;; The current build compiles htslib statically into the
-- 
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