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Commit 2b33c106 authored by van den Berg's avatar van den Berg
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Add tests to check * variants are removed

parent d3f4c595
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1 merge request!2Add testing to vcf-to-varda
Pipeline #3739 passed
Stage: sanity
Stage: dry-run
Stage: integration
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test/test-integration.yml
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...@@ -46,7 +46,7 @@ ...@@ -46,7 +46,7 @@
--singularity-args ' --containall --bind /tmp' --singularity-args ' --containall --bind /tmp'
--notemp --notemp
--cores 1 --cores 1
16699289_trimmed.vcf 16699289_variants_ucsc.varda
files: files:
- path: 16699289_trimmed.vcf - path: 16699289_trimmed.vcf
must_not_contain: must_not_contain:
...@@ -57,3 +57,11 @@ ...@@ -57,3 +57,11 @@
- "chrM\t195\t.\tC\t*" - "chrM\t195\t.\tC\t*"
- "chrM\t410\t.\tA\tC" - "chrM\t410\t.\tA\tC"
- "chrM\t2261\t.\tC\tT" - "chrM\t2261\t.\tC\tT"
- path: 16699289_single.vcf
- path: 16699289_no_alt_star.vcf
must_not_contain:
- "chrM\t195\t.\tC\t*"
contains:
- "chrM\t152\t.\tT\tC"
- "chrM\t410\t.\tA\tC"
- path: 16699289_variants_ucsc.varda
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