diff options
| -rw-r--r-- | test-tnpair.nix | 2 | ||||
| -rw-r--r-- | test.nix | 2 |
2 files changed, 2 insertions, 2 deletions
diff --git a/test-tnpair.nix b/test-tnpair.nix index 40cb442..b3a41cb 100644 --- a/test-tnpair.nix +++ b/test-tnpair.nix @@ -13,7 +13,7 @@ let normal = {name = "mysample2"; files = {input1 = ./example/sample2-1.fq; input2 = ./example/sample2-1.fq;};};}; processPair = { tumour, normal }: rec { - alignments = { normal = sort(alignWithRG normal.name normal.files); tumour = sort (alignWithRG tumour.name tumour.files); }; + alignments = mapAttrs (_: x: sort (alignWithRG x.name x.files)) { inherit normal tumour; }; variants = callVariants alignments; }; @@ -10,7 +10,7 @@ let callVariants = callPackage ./tools/platypus.nix { inherit ref; }; samples = [ {name = "mysample1"; files = {input1 = ./example/sample1-1.fq; input2 = ./example/sample1-2.fq;};} - {name = "mysample2"; files = {input1 = ./example/sample2-1.fq; input2 = ./example/sample2-1.fq;};} ]; + {name = "mysample2"; files = {input1 = ./example/sample2-1.fq; input2 = ./example/sample2-1.fq;};} ]; alignments = map (i: sort (alignWithRG i.name i.files)) samples; variants = callVariants alignments; |