diff --git a/wiseguy.wdl b/wisestork.wdl similarity index 85% rename from wiseguy.wdl rename to wisestork.wdl index c5e8b17b8d621d102bcdc7c62f3e33cfd570e879..ffae33c0d7772e894617abd4c909fd172ad7f87c 100644 --- a/wiseguy.wdl +++ b/wisestork.wdl @@ -29,12 +29,13 @@ task Count { File inputBam File inputBamIndex String outputBed = "output.bed" + String dockerImage = "quay.io/biocontainers/wisestork:0.1.2--pyh24bf2e0_0" } command { set -e mkdir -p $(dirname ~{outputBed}) - wiseguy count \ + wisestork count \ ~{"--binsize " + binSize} \ --reference ~{reference} \ ~{"--bin-file " + binFile} \ @@ -47,8 +48,7 @@ task Count { } runtime { - # FIXME: Not reproducible. But wiseguy does not have a fix release yet. - docker: "biowdl/wiseguy:latest" + docker: dockerImage } } @@ -63,12 +63,13 @@ task GcCorrect { Float? fracN Int? iter Float? fracLowess + String dockerImage = "quay.io/biocontainers/wisestork:0.1.2--pyh24bf2e0_0" } command { set -e mkdir -p $(dirname ~{outputBed}) - wiseguy gc-correct \ + wisestork gc-correct \ ~{"--binsize " + binSize} \ --reference ~{reference} \ ~{"--bin-file " + binFile} \ @@ -84,8 +85,7 @@ task GcCorrect { } runtime { - # FIXME: Not reproducible. But wiseguy does not have a fix release yet. - docker: "biowdl/wiseguy:latest" + docker: dockerImage } } @@ -98,12 +98,13 @@ task Newref { Array[File]+ inputBeds String outputBed = "output.bed" Int? nBins + String dockerImage = "quay.io/biocontainers/wisestork:0.1.2--pyh24bf2e0_0" } command { set -e mkdir -p $(dirname ~{outputBed}) - wiseguy newref \ + wisestork newref \ ~{"--binsize " + binSize} \ --reference ~{reference} \ ~{"--bin-file " + binFile} \ @@ -117,8 +118,7 @@ task Newref { } runtime { - # FIXME: Not reproducible. But wiseguy does not have a fix release yet. - docker: "biowdl/wiseguy:latest" + docker: dockerImage } } @@ -133,12 +133,13 @@ task Zscore { File dictionaryFile File dictionaryFileIndex String outputBed = "output.bed" + String dockerImage = "quay.io/biocontainers/wisestork:0.1.2--pyh24bf2e0_0" } command { set -e mkdir -p $(dirname ~{outputBed}) - wiseguy zscore \ + wisestork zscore \ ~{"--binsize " + binSize} \ --reference ~{reference} \ ~{"--bin-file " + binFile} \ @@ -152,8 +153,7 @@ task Zscore { } runtime { - # FIXME: Not reproducible. But wiseguy does not have a fix release yet. - docker: "biowdl/wiseguy:latest" + docker: dockerImage } }