add one more test json

ICGC-ARGO-Structural-Variation-CN-WG · Oct 5, 2021 · e05ed8f · e05ed8f
1 parent dfa4edf
commit e05ed8f
Showing 1 changed file with 21 additions and 0 deletions.
diff --git a/argo-sv-cnv-calling/tests/local.test-job-3.json b/argo-sv-cnv-calling/tests/local.test-job-3.json
@@ -0,0 +1,21 @@
+{
+    "tumour_aln_seq" : "TEST-PR.DO250183.SA610229.wgs.20200404.aln.cram",
+    "tumour_aln_seq_idx" : "TEST-PR.DO250183.SA610229.wgs.20200404.aln.cram.crai",
+    "normal_aln_seq" : "TEST-PR.DO250183.SA610228.wgs.20200404.aln.cram",
+    "normal_aln_seq_idx" : "TEST-PR.DO250183.SA610228.wgs.20200404.aln.cram.crai",
+    "cpus": 12,
+    "mem": 48,
+    "max_retries": 3,
+    "first_retry_wait_time": 5,
+    "ref_genome_build": "hg38",
+    "ref_genome_fa": "/home/ubuntu/references/reference_genome/GRCh38_hla_decoy_ebv.fa.gz",
+    "tumour_id": "test-tumour-1",
+    "donor_sex": "female",
+    "gcwiggle": "https://object.cancercollaboratory.org:9080/swift/v1/genomics-public-data/sequenza_references/hg38.gc50Base.wig.gz",
+    "dbsnp_file": "https://object.cancercollaboratory.org:9080/swift/v1/genomics-public-data/gatk-resources/af-only-gnomad.pass-only.hg38.vcf.gz",
+    "battenberg_ref_dir": "input/battenberg_references",
+    "expected_output": "expected/expected.test_rg_3.bam",
+    "is_test": false,
+    "publish_dir": "outdir",
+    "cleanup": true
+}