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Commit b742bffc authored by Ruben Vorderman's avatar Ruben Vorderman
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explain the why

parent 732552c4
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1 merge request!92Dockerize GATK. Scattering now works with containers. Tabix another docker image.
...@@ -248,9 +248,13 @@ task ScatterRegions { ...@@ -248,9 +248,13 @@ task ScatterRegions {
Int memory = 4 Int memory = 4
Float memoryMultiplier = 3.0 Float memoryMultiplier = 3.0
String dockerTag = "0.2--0" String dockerTag = "0.2--0"
String outputDirPath = "scatters"
} }
# OutDirPath must be defined here because the glob process relies on
# linking. This path must be in the containers filesystem, otherwise the
# linking does not work.
String outputDirPath = "scatters"
command { command {
set -e -o pipefail set -e -o pipefail
mkdir -p ~{outputDirPath} mkdir -p ~{outputDirPath}
......
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