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Merge branch '12409-cwl-v1.2' refs #12409
[arvados.git]
/
doc
/
examples
/
pipeline_templates
/
gatk-exome-fq-snp.json
diff --git
a/doc/examples/pipeline_templates/gatk-exome-fq-snp.json
b/doc/examples/pipeline_templates/gatk-exome-fq-snp.json
index f8c08d146a37f243762c3d1931a15caadb8b6f0e..481dda38ca70153dd4cda2154e4754a55eef12f2 100644
(file)
--- a/
doc/examples/pipeline_templates/gatk-exome-fq-snp.json
+++ b/
doc/examples/pipeline_templates/gatk-exome-fq-snp.json
@@
-13,7
+13,7
@@
],
"input":"d237a90bae3870b3b033aea1e99de4a9+10820+K@qr1hi"
},
],
"input":"d237a90bae3870b3b033aea1e99de4a9+10820+K@qr1hi"
},
- "output_
is_persistent
":false
+ "output_
name
":false
},
"bwa-index":{
"repository":"arvados",
},
"bwa-index":{
"repository":"arvados",
@@
-28,7
+28,7
@@
"required":true
}
},
"required":true
}
},
- "output_
is_persistent
":false
+ "output_
name
":false
},
"bwa-aln":{
"repository":"arvados",
},
"bwa-aln":{
"repository":"arvados",
@@
-54,7
+54,7
@@
"runtime_constraints":{
"max_tasks_per_node":1
},
"runtime_constraints":{
"max_tasks_per_node":1
},
- "output_
is_persistent
":false
+ "output_
name
":false
},
"picard-gatk2-prep":{
"repository":"arvados",
},
"picard-gatk2-prep":{
"repository":"arvados",
@@
-75,7
+75,7
@@
"runtime_constraints":{
"max_tasks_per_node":1
},
"runtime_constraints":{
"max_tasks_per_node":1
},
- "output_
is_persistent
":false
+ "output_
name
":false
},
"GATK2-realign":{
"repository":"arvados",
},
"GATK2-realign":{
"repository":"arvados",
@@
-107,7
+107,7
@@
"runtime_constraints":{
"max_tasks_per_node":2
},
"runtime_constraints":{
"max_tasks_per_node":2
},
- "output_
is_persistent
":false
+ "output_
name
":false
},
"GATK2-bqsr":{
"repository":"arvados",
},
"GATK2-bqsr":{
"repository":"arvados",
@@
-130,7
+130,7
@@
"required":true
}
},
"required":true
}
},
- "output_
is_persistent
":false
+ "output_
name
":false
},
"GATK2-merge-call":{
"repository":"arvados",
},
"GATK2-merge-call":{
"repository":"arvados",
@@
-169,7
+169,7
@@
]
}
},
]
}
},
- "output_
is_persistent":true
+ "output_
name":"Variant calls from UnifiedGenotyper"
}
}
}
}
}
}