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| author | l-d-s <distefano.l@wehi.edu.au> | 2018-11-15 17:07:29 +1100 |
|---|---|---|
| committer | l-d-s <distefano.l@wehi.edu.au> | 2018-11-15 17:07:29 +1100 |
| commit | 01401aaee74dac39e0502688654ef02771a88cd7 (patch) | |
| tree | 41feaf3f65846302b365f4905df8db9d0781cfe3 /test-tnpair.nix | |
| parent | bd033ea570312052316d2586525a9b07a27aad1d (diff) | |
test-tnpair: avoid gridss.call while it's broken
Diffstat (limited to 'test-tnpair.nix')
| -rw-r--r-- | test-tnpair.nix | 1 |
1 files changed, 0 insertions, 1 deletions
diff --git a/test-tnpair.nix b/test-tnpair.nix index a6ea163..0f6a441 100644 --- a/test-tnpair.nix +++ b/test-tnpair.nix @@ -54,7 +54,6 @@ let ln -s ${tnpairResult.variants} $out/strelka mkdir $out/alignments ln -s ${gridss.callVariants {} (with tnpairResult.alignments; [tumour])} $out/gridss - ln -s ${gridss.call (with tnpairResult.alignments; [tumour])} $out/gridss2 ln -s ${samtools.merge {} [tnpairResult.alignments.tumour tnpairResult.alignments.normal]} $out/alignments/merged.bam ln -s ${samtools.view { outfmt = types.toCram; } (tnpairResult.alignments.tumour)} $out/alignments/${tnpair.tumour.name}.cram ln -s ${samtools.view { outfmt = types.toCram; } (tnpairResult.alignments.normal)} $out/alignments/${tnpair.normal.name}.cram |