Galaxy error "FATAL: container creation failed"
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23 months ago

Hello! I am new to sc-RNA analysis and I am trying to run my first project on real 10x-Chromium data. Because I don't have the resources to run the analysis locally (my desktop has 12 cores and 64 GB RAM, but not all is available for Cellranger), I decided to find a web-based solution. I found the following tutorial, which uses a Galaxy-workflow with a similar method as Cellranger, RNA STAR solo.

https://training.galaxyproject.org/training-material/topics/transcriptomics/tutorials/scrna-preprocessing-tenx/tutorial.html

I ran the workflow on usegalaxy.org multiple times, but I received the following error message every time

FATAL:   container creation failed: mount /cvmfs/main.galaxyproject.org/galaxy->/cvmfs/main.galaxyproject.org/galaxy error: while mounting /cvmfs/main.galaxyproject.org/galaxy: while getting stat for /cvmfs/main.galaxyproject.org/galaxy: stat /cvmfs/main

What can I do to fix this?

Alternatively, is there any kind of solution, either local and requiring less than 64 GB RAM or web-based and actually working? Thanks

cellranger galaxy pipeline containercreation scrna-seq • 858 views
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Please post this to Galaxy help forum for resolution of the specific error you are getting: https://help.galaxyproject.org/

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