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Input folders for WDL

Hi @KateN @Geraldine_VdAuwera
So I'm trying to use WDL to write a pipeline that runs STAR, and in particular, one of those steps involves creating an index for STAR. (Note: I know STAR is not a Broad product and this question is not about its specifics). STAR creates about 15 files for its indices, and this is a real pain to drag around into the header of every file that uses them downstream. What would be super ideal is if I could output these all into a FOLDER and then have that folder be an output that I can in turn put into other functions. Is that possible?



Best Answers


  • dannykwellsdannykwells San FranciscoMember

    Hey @Geraldine_VdAuwera did this ever happen? Still facing similar issues a year later, let me know if anything has changed!

  • Geraldine_VdAuweraGeraldine_VdAuwera Cambridge, MAMember, Administrator, Broadie

    No unfortunately it was not prioritized like I thought. We still want to do it though. I'll ping the team and see if they can give a status update.

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