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usegalaxy-no / galaxyadmin

A repository for managing the work of the usegalaxy.no GalaxyAdmin team
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BamLeftAlign fails. #37

Closed ehj000 closed 3 years ago

ehj000 commented 3 years ago

A user reports that the tools fails with the following error: data/part0/tmp/jobs/015/15270/tool_script.sh: 9: /data/part0/tmp/jobs/015/15270/tool_script.sh: samtools: not found /data/part0/tmp/jobs/015/15270/tool_script.sh: 9: /data/part0/tmp/jobs/015/15270/tool_script.sh: bamleftalign: not found

Both samtools and bamleftalign are installed, so I don't understand the error

torfinnnome commented 3 years ago

There seems to be two versions of bamleftalign installed.

This version works for me: toolshed.g2.bx.psu.edu/repos/devteam/freebayes/bamleftalign/1.3.1

Could you test?

ehj000 commented 3 years ago

Yes, it works. Thank you