Hi all,
My colleague tried to upload via filesystem path a file with an approximate
size of 2GB. It was a compressed file (filename.fq.gz). No error was
reported, so I thought everything went fine, but when he tried running a
tool, the uploaded file did not show in the input dropdown. But when he
Hi Ciara,
Galaxy supports compressed files like gz [1] by default.
Keep in mind that large files like yours are not guaranteed to upload
properly, please use other techniques to get your data in galaxy.
For example with FTP:
http://wiki.g2.bx.psu.edu/FTPUpload
Hope that helps,
Bjoern
[1] .gz/.
Thanks for the quick reply.
I've already checked how to configure our Galaxy instance for FTP upload,
but due to security reasons, I cannot use that option. I read the wiki for
Data Libraries and found that uploading via filesystem path can be used
for putting files with size greater than 2GB in
When using the 'upload via filesystem path' option for data libraries, Galaxy
will use the file "as is" without decompressing it. In practice, this means
that you'll need to decompress it before uploading it to a library because
Galaxy tools expect the dataset to be uncompressed.
This is, of co
Thank you for explaining it further, Jeremy. We'll keep that in mind next
time we use that method. Anyway, I'm sorry for this redundant post, but I'm
getting an error every time I am uploading a file into a data library using
my non-admin user account. Galaxy says that there is no valid file within
