Hi Amelia

Does this happen with "Auto-detect" or do you pre-set the data type to 'bam' ?



Regards, Hans-Rudolf


On 03/22/2016 07:28 PM, Amelia Ireland wrote:
I'm setting up a Galaxy instance on a new server and am having some
issues with BAM file uploads. I'm using the BAM files supplied with
JBrowse for testing purposes. I have Galaxy installed on my laptop and
file uploads are working fine, so it's evidently an issue with the
server and/or OS configuration.

Attempting to upload a BAM file returns the message

"The uploaded binary file contains inappropriate content"

and the upload is empty.

The server is running Scientific Linux and uses the Environment Modules
system for dependency management. I can successfully upload bed and
bigwig files, which suggests that samtools is being loaded and
functioning correctly.

If someone can suggest some troubleshooting steps, I would be most grateful.

Thanks!
Amelia

Integrated Microbial Genomics (IMG)
JGI / LBL



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