Commit 6e23233e authored by aknecht2's avatar aknecht2
Browse files

Fixed arguments for pepr peak calling. Updated params in peak_call module to...

Fixed arguments for pepr peak calling.  Updated params in peak_call module to correctly reflect the output files produced by hidden domains.
parent 0a6048fd
......@@ -339,7 +339,7 @@ peak_call:
prefix:
param_name: prefix
outputs:
result.bed:
analysis.bed:
param_name: result_peaks
vis.bed:
param_name: enriched_bins
......@@ -351,7 +351,7 @@ peak_call:
param_name: treatment_bins
- hiddendomains_format:
inputs:
result.bed:
analysis.bed:
param_name: result_peaks
outputs:
results_sorted.bed:
......
......@@ -20,7 +20,7 @@ pepr_callpeak:
command: PePr
arguments:
- "-c":
type: list
type: file_list
separator: ","
changeable: false
required: true
......@@ -29,7 +29,7 @@ pepr_callpeak:
- $control.bed
- $control.bed
- "-i":
type: list
type: file_list
separator: ","
changeable: false
required: true
......@@ -54,18 +54,11 @@ pepr_callpeak:
changeable: true
required: false
has_value: true
default: 10
- "-w":
type: numeric
changeable: true
required: false
has_value: true
default: 100
- "--diff":
type: string
changeable: false
required: true
has_value: false
- "--threshold":
type: string
changeable: true
......@@ -89,7 +82,6 @@ pepr_callpeak:
changeable: true
required: false
has_value: true
default: 10000000
- "--num-processors":
type: numeric
changeable: true
......
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