From 21d71e6892f529f89d419bd9b2fa1a127a1dc003 Mon Sep 17 00:00:00 2001
From: Justin Bedo <cu@cua0.org>
Date: Wed, 26 Sep 2018 16:41:05 +1000
Subject: Add GRIDSS

---
 default.nix    |  1 +
 references.nix | 10 +++++++++-
 2 files changed, 10 insertions(+), 1 deletion(-)

diff --git a/default.nix b/default.nix
index 6050857..25bbf34 100644
--- a/default.nix
+++ b/default.nix
@@ -6,6 +6,7 @@ let
     in with self; {
       bwa = callBionix ./tools/bwa.nix;
       fastqc = callBionix ./tools/fastqc.nix;
+      gridss = callBionix ./tools/gridss.nix;
       mosdepth = callBionix ./tools/mosdepth.nix;
       platypus = callBionix ./tools/platypus.nix;
       ref = callBionix ./references.nix;
diff --git a/references.nix b/references.nix
index e7f1c7a..282b62c 100644
--- a/references.nix
+++ b/references.nix
@@ -5,7 +5,7 @@ with nixpkgs;
 rec {
   grch38 = grch38-p12;
   grch38-p12 = {
-    seq = stdenv.mkDerivation rec {
+    seq = stdenvNoCC.mkDerivation rec {
         name = "seq-grch38.${version}";
         version = "p12";
         src = fetchurl {
@@ -14,5 +14,13 @@ rec {
         };
         buildCommand = "gunzip < $src > $out";
       };
+    blacklist = stdenvNoCC.mkDerivation {
+      name = "blacklist-grch38";
+      src = fetchurl {
+        url = "http://mitra.stanford.edu/kundaje/akundaje/release/blacklists/hg38-human/hg38.blacklist.bed.gz";
+        sha256 = "1lpnqq1mjidbdxj5i6x26rxa8x1rs8q3hlf0z1z49j3jsnkgffky";
+      };
+      buildCommand = "gunzip < $src > $out";
+    };
   };
 }
-- 
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