diff --git a/src/harpy/__main__.py b/src/harpy/__main__.py index 826252b03..1e2e27545 100644 --- a/src/harpy/__main__.py +++ b/src/harpy/__main__.py @@ -176,7 +176,7 @@ def preflight(): ], "harpy demultiplex gen1": [ { - "name": "Configuration", + "name": "Module Parameters", "options": ["--samplesheet"], }, { @@ -186,7 +186,7 @@ def preflight(): ], "harpy qc": [ { - "name": "Configuration", + "name": "Module Parameters", "options": ["--max-length", "--ignore-adapters", "--extra-params"], }, { @@ -196,7 +196,7 @@ def preflight(): ], "harpy align bwa": [ { - "name": "Configuration", + "name": "Module Parameters", "options": ["--genome", "--quality-filter", "--molecule-distance", "--extra-params"], }, { @@ -206,7 +206,7 @@ def preflight(): ], "harpy align ema": [ { - "name": "Configuration", + "name": "Module Parameters", "options": ["--platform", "--whitelist", "--genome", "--quality-filter", "--ema-bins", "--extra-params"], }, { @@ -216,7 +216,7 @@ def preflight(): ], "harpy snp mpileup": [ { - "name": "Configuration", + "name": "Module Parameters", "options": ["--genome", "--populations", "--ploidy", "--windowsize", "--extra-params"], }, { @@ -226,7 +226,7 @@ def preflight(): ], "harpy snp freebayes": [ { - "name": "Configuration", + "name": "Module Parameters", "options": ["--genome", "--populations", "--ploidy", "--windowsize", "--extra-params"], }, { @@ -236,7 +236,7 @@ def preflight(): ], "harpy sv leviathan": [ { - "name": "Configuration", + "name": "Module Parameters", "options": ["--genome", "--populations", "--extra-params"], }, { @@ -246,7 +246,7 @@ def preflight(): ], "harpy sv naibr": [ { - "name": "Configuration", + "name": "Module Parameters", "options": ["--genome", "--vcf", "--molecule-distance", "--populations", "--extra-params"], }, { @@ -256,7 +256,7 @@ def preflight(): ], "harpy impute": [ { - "name": "Configuration", + "name": "Module Parameters", "options": ["--vcf", "--parameters", "--extra-params", "--vcf-samples"], }, { @@ -266,7 +266,7 @@ def preflight(): ], "harpy phase": [ { - "name": "Configuration", + "name": "Module Parameters", "options": ["--vcf", "--molecule-distance", "--genome", "--prune-threshold", "--ignore-bx", "--extra-params", "--vcf-samples"], }, {