From 98e79735080b379e9a674a69771707951bbdc1ac Mon Sep 17 00:00:00 2001
From: Justin Bedo <cu@cua0.org>
Date: Thu, 22 Nov 2018 10:44:16 +1100
Subject: samtools-sort: handle missing 'none' sorting case

---
 tools/samtools-sort.nix | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/tools/samtools-sort.nix b/tools/samtools-sort.nix
index 5a02dab..e77f3db 100644
--- a/tools/samtools-sort.nix
+++ b/tools/samtools-sort.nix
@@ -19,7 +19,7 @@ assert (matchFiletype "samtools-sort" { bam = _: true; sam = _: true; cram = _:
 let
   outfmtR = if outfmt != null then outfmt input else input.filetype;
   outFmtFlags = matchFiletype "samtools-sort-outfmt" { bam = _: "-O BAM"; sam = _: "-O SAM"; cram = ref: "-O CRAM -T ${ref}"; } {filetype = outfmtR;};
-  alreadySorted = matchFileSorting "samtools-sort" { name = _: nameSort; coord = _: !nameSort; } input;
+  alreadySorted = matchFileSorting "samtools-sort" { name = _: nameSort; coord = _: !nameSort; none = _: false;} input;
 in stdenv.mkDerivation {
   name = "samtools-sort";
   buildInputs = [ samtools ];
-- 
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