diff options
| author | Justin Bedo <cu@cua0.org> | 2019-05-09 13:42:47 +1000 |
|---|---|---|
| committer | Justin Bedo <cu@cua0.org> | 2019-05-09 13:42:47 +1000 |
| commit | 795c1ce6b03bfa1cefb628026e08371f39b86296 (patch) | |
| tree | 9afd0f0228f93c0cdb25dac39b5db145282135fe /test-tnpair.nix | |
| parent | 8f4b321c07f13ebe8597d1ab4ef3c6bda16f38af (diff) | |
test: enable minimap and snap tests
Diffstat (limited to 'test-tnpair.nix')
| -rw-r--r-- | test-tnpair.nix | 4 |
1 files changed, 2 insertions, 2 deletions
diff --git a/test-tnpair.nix b/test-tnpair.nix index 153a4c3..2ea93ae 100644 --- a/test-tnpair.nix +++ b/test-tnpair.nix @@ -55,8 +55,8 @@ let (ln (strelka.snvs tnpairResult.variants) "strelka.snvs.vcf") (ln (strelka.variants tnpairResult.glvariants) "strelka.gl.vcf") (ln (bowtie.align {inherit ref;} tnpair.normal.files) "alignments/bowtie-normal.bam") - #(ln (minimap2.align {inherit ref; preset = "sr"; } tnpair.normal.files) "alignments/minimap2-normal.bam") - #(ln (snap.align {inherit ref; } tnpair.normal.files) "alignments/snap-normal.bam") + (ln (minimap2.align {inherit ref; preset = "sr"; } tnpair.normal.files) "alignments/minimap2-normal.bam") + (ln (snap.align {inherit ref; } tnpair.normal.files) "alignments/snap-normal.bam") (ln (gridss.callVariants {} (with tnpairResult.alignments; [normal tumour])) "gridss") (ln (gridss.call (with tnpairResult.alignments; [normal tumour])) "gridss2") (ln (gridss.callAndAssemble (with tnpairResult.alignments; [normal tumour])) "gridss3") |