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broadinstitute / pilon

Pilon is an automated genome assembly improvement and variant detection tool
GNU General Public License v2.0
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unable to access jarfile pilon-1.24.jar #161

Open tbazilegith opened 11 months ago

tbazilegith commented 11 months ago

I pulled the container from docker hub. I my nextflow.config I have this: container = 'staphb/pilon'

I ran pilon : java -Xmx16G -jar "pilon-1.24.jar" pilon --genome ... But I got this error nable to access jarfile pilon-1.24.jar Any thought? (seems to be a path probem)

Thanks, TJ

tbazilegith commented 10 months ago

the error message is unable to access jarfile pilon-1.24.jar

tbazilegith commented 10 months ago

Got it with java -jar -Xmx16G /pilon/pilon.jar --genome ... Thanks