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unable to access jarfile pilon-1.24.jar #161

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tbazilegith opened this issue Aug 23, 2023 · 2 comments
Open

unable to access jarfile pilon-1.24.jar #161

tbazilegith opened this issue Aug 23, 2023 · 2 comments

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

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

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@tbazilegith