Galaxy - bigWigToBedGraph: command not found
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10 months ago

Hi everyone,

I am trying to convert a BigWig file to a Bedgraph format by using local Galaxy. The tool that I added is called bigwig_to_bedgraph (https://toolshed.g2.bx.psu.edu/repository?repository_id=0dddb124b53a7bfd&changeset_revision=3799012ce2ff) and it was installed according to the Galaxy tool tutorial (https://galaxyproject.org/admin/tools/add-tool-from-toolshed-tutorial/). No errors occurred during this process.

When I apply the tool to my BigWig file I get the following error: /Home/galaxy/database/jobs_directory/000/8/tool_script.sh: line 9: bigWigToBedGraph: command not found.

I can't figure out how to fix this problem although I am quite sure it is rather simple.

Any help is much appreciated.

galaxy bigwig bigwigtobedgraph • 471 views
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Galaxy related questions are more promptly addressed at Galaxy help forum: https://help.galaxyproject.org/

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Most of the time this "issue" is related to conda if you want a quick tip. So conda is not installed or configured so it did not installed bigWigToBedGraph. But like it is already mentioned, it is better to ask this at the galaxy help forum.

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