repliseq test json

4dn-dcic · Feb 27, 2019 · d2e74b8 · d2e74b8
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diff --git a/test_json/unicorn/4dn_repliseq_parta.v15.pe_size1_nthread1.json b/test_json/unicorn/4dn_repliseq_parta.v15.pe_size1_nthread1.json
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+{
+  "args": {
+    "app_name": "repliseq-parta",
+    "input_parameters": { "nthreads": 4 },
+    "cwl_child_filenames": ["clip.cwl","align.cwl","filtersort.cwl","dedup.cwl","count.cwl"],
+    "cwl_version": "v1",
+    "output_target": {
+       "filtered_sorted_deduped_bam": "repliseq-test/pe_size1_nthread1.filtered_sorted.deduped.bam",
+       "dedup_qc_report": "repliseq-test/pe_size1_nthread1.filtered_sorted.rmdup.log.qc_report.zip",
+       "count_bg": "repliseq-test/pe_size1_nthread1.count.bg"
+    },
+    "secondary_output_target": {},
+    "cwl_main_filename": "repliseq-parta.cwl",
+    "secondary_files": {},
+    "output_S3_bucket": "soos-4dn-bucket",
+    "app_version": "v15",
+    "cwl_directory_url": "https://raw.githubusercontent.com/4dn-dcic/docker-4dn-repliseq/v15/cwl/",
+    "input_files": {
+      "fastq": {
+        "bucket_name": "soos-4dn-bucket",
+        "object_key": "repliseq-test/4DNFI76PUMCP.r10M.fastq.gz"
+      },
+      "fastq2": {
+        "bucket_name": "soos-4dn-bucket",
+        "object_key": "repliseq-test/4DNFI4JT8F8L.r10M.fastq.gz"
+      },
+      "bwaIndex": {
+        "bucket_name": "elasticbeanstalk-fourfront-webdev-files",
+        "object_key": "1f53df95-4cf3-41cc-971d-81bb16c486dd/4DNFIZQZ39L9.bwaIndex.tgz"
+      },
+      "chromsizes": {
+        "object_key": "4a6d10ee-2edb-4402-a98f-0edb1d58f5e9/4DNFI823LSII.chrom.sizes",
+        "bucket_name": "elasticbeanstalk-fourfront-webdev-files"
+      }
+    }
+  },
+  "config": {
+    "shutdown_min": "now",
+    "log_bucket": "tibanna-output",
+    "key_name": "4dn-encode",
+    "run_name": "repliseq-test"
+  }
+}
diff --git a/test_json/unicorn/4dn_repliseq_parta.v15.se_size1_nthread1.json b/test_json/unicorn/4dn_repliseq_parta.v15.se_size1_nthread1.json
@@ -0,0 +1,39 @@
+{
+  "args": {
+    "app_name": "repliseq-parta",
+    "input_parameters": { "nthreads": 4 },
+    "cwl_child_filenames": ["clip.cwl","align.cwl","filtersort.cwl","dedup.cwl","count.cwl"],
+    "cwl_version": "v1",
+    "output_target": {
+       "filtered_sorted_deduped_bam": "repliseq-test/pe_size1_nthread1.filtered_sorted.deduped.bam",
+       "dedup_qc_report": "repliseq-test/pe_size1_nthread1.filtered_sorted.rmdup.log.qc_report.zip",
+       "count_bg": "repliseq-test/pe_size1_nthread1.count.bg"
+    },
+    "secondary_output_target": {},
+    "cwl_main_filename": "repliseq-parta.cwl",
+    "secondary_files": {},
+    "output_S3_bucket": "soos-4dn-bucket",
+    "app_version": "v15",
+    "cwl_directory_url": "https://raw.githubusercontent.com/4dn-dcic/docker-4dn-repliseq/v15/cwl/",
+    "input_files": {
+      "fastq": {
+        "bucket_name": "soos-4dn-bucket",
+        "object_key": "repliseq-test/4DNFI76PUMCP.r10M.fastq.gz"
+      },
+      "bwaIndex": {
+        "bucket_name": "elasticbeanstalk-fourfront-webdev-files",
+        "object_key": "1f53df95-4cf3-41cc-971d-81bb16c486dd/4DNFIZQZ39L9.bwaIndex.tgz"
+      },
+      "chromsizes": {
+        "object_key": "4a6d10ee-2edb-4402-a98f-0edb1d58f5e9/4DNFI823LSII.chrom.sizes",
+        "bucket_name": "elasticbeanstalk-fourfront-webdev-files"
+      }
+    }
+  },
+  "config": {
+    "shutdown_min": "now",
+    "log_bucket": "tibanna-output",
+    "key_name": "4dn-encode",
+    "run_name": "repliseq-test"
+  }
+}