Argument tags in Queue

LouisBLouisB Broad InstitutePosts: 25Member, Third-party Developer, GSA Collaborator, Broadie, Cancer Tools Developer

Is the a way to access argument tags in the arguments to a Qscript?

I have a script that takes a number of bam files as input and I would like to be able to tag them. i.e.

--input:whole-genome some_long_name.bam --input:exome a_different_bam.bam

In a walker I do this and then look up the tags by calling getToolkit().getTags(argumentValue), but this isn't available to a qscript. Is there a good way to do this?

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  • LouisBLouisB Broad InstitutePosts: 25Member, Third-party Developer, GSA Collaborator, Broadie, Cancer Tools Developer

    Thanks for the response. I thought maybe there was a tricky way to get to them at the script level. I'll just use a separate argument like you suggest.

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