Question: Problem with toolshed installed deepTools on CloudMan instance
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Marco Blanchette • 10 wrote:
I successfully installed deepTools using the toolShed from the Galaxy main repos. The problem is that when users try to do analysis with deepTools, they always get the following message:
ERROR: Unable to read builds for site file /mnt/galaxy/galaxy-app/lib/galaxy/util/../../../tool-data/shared/ucsc/ucsc_build_sites.txt
Incidentally, this is the same message I get after successfully downloading genomes from UCSC using dataManagers.
Could someone shed some lights on how to fix this issue?
thanks
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modified 4.5 years ago
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Jennifer Hillman Jackson ♦ 25k
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4.5 years ago by
Marco Blanchette • 10
Hi Marco,
can you check if the file /mnt/galaxy/tool-data/shared/ucsc/ucsc_build_sites.txt exists? It seems to be a Galaxy problem with reference genomes and not deepTools related.
You probably meant to say /mnt/galaxy/galaxy-app/tool-data/shared/ucsc/ucsc_build_sites.txt, right?
In fact, on the CloudMan instance there is none... there is
/mnt/galaxy/galaxy-app/tool-data/shared/ucsc/ucsc_build_sites.txt.new
and
/mnt/galaxy/galaxy-app/tool-data/shared/ucsc/ucsc_build_sites.txt.sample
But no .txt file... Is your suggestion to make one of them the txt file?