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add heatmap

master
YaqingLiu 4 years ago
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471c711429
1 changed files with 4 additions and 3 deletions
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    -3
      tasks/export.wdl

+ 4
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tasks/export.wdl View File

String disk_size String disk_size


command <<< command <<<
# mkdir -p /cromwell_root/tmp/cnvkit
cp -r ${sep=" " results} . cp -r ${sep=" " results} .
# cd /cromwell_root/tmp/cnvkit
# this version app just provides seg
# seg
cnvkit.py export seg *.cns -o ${sample_id}.seg cnvkit.py export seg *.cns -o ${sample_id}.seg
# heatmap
cnvkit.py heatmap *.cns -o ${sample_id}.heatmap
>>> >>>
runtime { runtime {


output { output {
File seg = "${sample_id}.seg" File seg = "${sample_id}.seg"
File heatmap = "${sample_id}.heatmap"
} }
} }

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