Hello dear galaxy developpers,
I'm facing a weird bug when trying to upload files in Galaxy.
When I want to upload, let's say for example a csv file, the dataset turns
green but the file is empty. I checked in the galaxy datasets directory, the
file is here but empty.
And this happens only when configuring Galaxy to work with SGE on a cluster,
not when running "locally".
I did take a look at the script upload.py and I found that if I replace the
call to shutil.move( dataset.path, output_path ) by calling
shutil.copy(dataset.path, output_path) at the end of the add_file function,
then it works.
Both Galaxy temp and dataset directories are on the same partition, and when I
try from a cluster execution node to manually do a shutil.move from the temp
directory to the dataset directory with the galaxy user, it works well.
Any idea of what could go wrong here ?
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