Commit 29cc1c8c authored by van den Berg's avatar van den Berg
Browse files

Add specific tests for content vcf file

parent 7a6274f5
- name: test-integration-no-cluster
tags:
- integration
command: >
snakemake
--use-singularity
......@@ -11,7 +13,6 @@
DBSNP=tests/data/database.vcf.gz
KNOWN_SITES=tests/data/database.vcf.gz
SAMPLE_CONFIG=tests/data/sample_config.json
exit_code: 0
stderr:
contains:
- "Job counts"
......@@ -19,5 +20,19 @@
- "(100%) done"
must_not_contain:
- "rror"
tags:
- integration
files:
- path: "micro/vcf/micro_single.vcf.gz"
contains:
- "chrM\t152\t.\tT\tC\t3960.77\t."
- "GT:AD:DP:GQ:PL\t1/1:0,130:130:99:3989,388,0"
- "chrM\t263\t.\tA\tG\t3233.06\t."
- "GT:AD:DP:GQ:PL\t1/1:0,108:108:99:3263,323,0"
- "chrM\t4745\t.\tA\tG\t5655.77\t."
- "GT:AD:DP:GQ:PGT:PID:PL\t1/1:1,133:134:99:1|1:4745_A_G:5684,404,0"
- "chrM\t4769\t.\tA\tG\t5182.77\t."
- "GT:AD:DP:GQ:PGT:PID:PL\t1/1:1,120:121:99:1|1:4745_A_G:5211,363,0"
- "chrM\t16023\t.\tG\tA\t1878.77\t."
- "GT:AD:DP:GQ:PL\t0/1:73,73:146:99:1907,0,1879"
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