Add task for bowtie aligner
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bowtie.wdl
0 → 100644
+ 43
− 0
You added threads here, but did not include a runtime section that uses the threads.
runtime { cpu: ${default=1 threads} }
You can also set the default here
Int? threads = 1
Which looks cleaner. And then use:
runtime { cpu: select_first([threads]) }
But I have had issues with overriding this default from the config file. I should file a bug for that.
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bowtie.wdl
will be imported asbowtie
by default. Which means these tasks are called asbowtie.Bowtie_se
. I propose that you change this to justtask se {
the task can then be called asbowtie.se