From a1d18efc18772a233aa759b622c3a9960824f109 Mon Sep 17 00:00:00 2001
From: Justin Bedo <cu@cua0.org>
Date: Tue, 30 Apr 2019 09:47:49 +1000
Subject: cleanup examples and stray files

---
 examples/tnpair.nix | 26 --------------------------
 1 file changed, 26 deletions(-)
 delete mode 100644 examples/tnpair.nix

(limited to 'examples/tnpair.nix')

diff --git a/examples/tnpair.nix b/examples/tnpair.nix
deleted file mode 100644
index 2939db4..0000000
--- a/examples/tnpair.nix
+++ /dev/null
@@ -1,26 +0,0 @@
-# This is an example tumour-normal calling pipeline using strelka
-{ bionix ? import <bionix> {}
-, normal
-, tumour
-, ref
-}:
-
-with bionix;
-with lib;
-
-let
-  input = mapAttrs (_: fetchFastQGZ);
-
-  preprocess = pipe [
-    input
-    (bwa.align { ref = fetchFastA ref; })
-    (samtools.fixmate {})
-    (samtools.sort {})
-    (samtools.markdup {})
-  ];
-
-in linkDrv [
-  (ln (strelka.call {} {normal = preprocess normal; tumour = preprocess tumour;}) "strelka")
-  (ln (preprocess normal) "normal.bam")
-  (ln (preprocess tumour) "tumour.bam")
-]
-- 
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