diff --git a/gridss.wdl b/gridss.wdl index 03193cca1dfa068a9824035037ce6da7cf66369a..b36d6598a2b1d4f2d8b00ee9cc5ac310f171ba86 100644 --- a/gridss.wdl +++ b/gridss.wdl @@ -207,6 +207,7 @@ task Virusbreakend { File bam File bamIndex File referenceFasta + File referenceImg File virusbreakendDB String outputPath = "./virusbreakend.vcf" @@ -246,6 +247,7 @@ task Virusbreakend { bam: {description: "A BAM file.", category: "required"} bamIndex: {description: "The index for the BAM file.", category: "required"} referenceFasta: {description: "The fasta of the reference genome.", category: "required"} + referenceImg: {description: "The BWA index image (generated with GATK BwaMemIndexImageCreator) of the reference.", category: "required"} virusbreakendDB: {description: "A .tar.gz containing the virusbreakend database.", category: "required"} outputPath: {description: "The path the output should be written to.", category: "common"} memory: {description: "The amount of memory this job will use.", category: "advanced"}