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DiltheyLab / HLA-LA

Fast HLA type inference from whole-genome data
GNU General Public License v3.0
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Picard errors #62

Closed juliandwillett closed 2 years ago

juliandwillett commented 2 years ago

I have been getting errors through Picard where the script tries to run it as "picard" when for my server, it needs to be run as java -jar ../picard.jar. There does not seem to be a nice place to edit the code, any tips?

juliandwillett commented 2 years ago

I solved this on my computer cluster by manually downloading the version of picard cited in the paths.ini file. While there was later an error when the script tried to pass a "FU" parameter to the picard function, it bypassed the original error.