diff --git a/gridss.wdl b/gridss.wdl index 5c267e79eb9893530ab0d9e66cc0214f3f23e06d..1f14e23b457ceb73b5b6bb615b2a7845be1835f5 100644 --- a/gridss.wdl +++ b/gridss.wdl @@ -34,7 +34,7 @@ task AnnotateInsertedSequence { Int threads = 8 String javaXmx = "8G" String memory = "9G" - String dockerImage = "quay.io/biocontainers/gridss:2.11.1--hdfd78af_1" + String dockerImage = "quay.io/biocontainers/gridss:2.12.2--h270b39a_0" Int timeMinutes = 120 } @@ -96,7 +96,7 @@ task GRIDSS { Int jvmHeapSizeGb = 64 Int threads = 8 Int timeMinutes = ceil(4320 / threads) + 10 - String dockerImage = "quay.io/biocontainers/gridss:2.11.1--hdfd78af_1" + String dockerImage = "quay.io/biocontainers/gridss:2.12.2--h270b39a_0" } command { @@ -165,14 +165,14 @@ task GridssAnnotateVcfRepeatmasker { String memory = "25G" Int threads = 8 - String dockerImage = "quay.io/biocontainers/gridss:2.11.1--hdfd78af_1" + String dockerImage = "quay.io/biocontainers/gridss:2.12.2--h270b39a_0" Int timeMinutes = 1440 } command { gridss_annotate_vcf_repeatmasker \ --output ~{outputPath} \ - --jar /usr/local/share/gridss-2.12.0-1/gridss.jar \ + --jar /usr/local/share/gridss-2.12.2-0/gridss.jar \ -w . \ -t ~{threads} \ ~{gridssVcf} @@ -213,7 +213,7 @@ task Virusbreakend { String memory = "75G" Int threads = 8 - String dockerImage = "quay.io/biocontainers/gridss:2.11.1--hdfd78af_1" + String dockerImage = "quay.io/biocontainers/gridss:2.12.2--h270b39a_0" Int timeMinutes = 180 } @@ -226,7 +226,7 @@ task Virusbreakend { --workingdir . \ --reference ~{referenceFasta} \ --db virusbreakenddb \ - --jar /usr/local/share/gridss-2.12.0-1/gridss.jar \ + --jar /usr/local/share/gridss-2.12.2-0/gridss.jar \ -t ~{threads} \ ~{bam} }