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Question: Upload large files to localhost
1
gravatar for Marc
3.6 years ago by
Marc • 30
United Kingdom
Marc • 30 wrote:

Hi, I'm trying to upload some large reference files to my galaxy localhost, but i can't figure out how. I've tried to upload using FileZilla but it could connect to my localhost, do I need to do any configuration before connecting? And is there another way for me do this? 
galaxy • 1.6k views
ADD COMMENT • link •
modified 3.6 years ago by Dannon Baker ♦ 3.7k • written 3.6 years ago by Marc • 30

BTW, this is the error message from FileZilla

Status:           Resolving address of localhost

Status:           Connecting to 127.0.0.1:8080...

Status:           Connection established, waiting for welcome message...

Error:             Connection timed out after 20 seconds of inactivity

Error:             Could not connect to server

ADD REPLY • link written 3.6 years ago by Marc • 30
3
gravatar for Dannon Baker
3.6 years ago by
Dannon Baker ♦ 3.7k
United States
Dannon Baker ♦ 3.7k wrote:

Hi Marc,

Galaxy outsources it's FTP integration, so unless you've set up FTP like here: https://wiki.galaxyproject.org/Admin/Config/UploadviaFTP, you'll want to pursue another method.

For very large resource files, one thing I'd suggest is maybe to upload via filepath (which is a direct import, and bypasses the webserver), which is detailed here:  https://wiki.galaxyproject.org/Admin/DataLibraries/UploadingLibraryFiles

Since it's a local galaxy, you'll can just make yourself an admin user, create a data library, and use it for these large references with the direct *much faster* import detailed here.
ADD COMMENT • link written 3.6 years ago by Dannon Baker ♦ 3.7k

Hi Dannon, 

I've tried your way, the thing is I'm trying to upload a 10.8G reference file and in the "Upload files to a data library 
" page I only got two options, one is upload files and the other one is import from history. I have to choose the upload files option and it has been taking forever. The message column does say "This dataset is uploading", but I don't know if that's working properly.

ADD REPLY • link written 3.6 years ago by Marc • 30
2

Got it.  You need to enable "allow_library_path_paste = True" in your galaxy.ini and restart, then you'll be able to do the direct path upload.

ADD REPLY • link written 3.6 years ago by Dannon Baker ♦ 3.7k

I think it worked! Thanks a lot!

ADD REPLY • link written 3.6 years ago by Marc • 30
1

Glad to hear it!

ADD REPLY • link written 3.6 years ago by Dannon Baker ♦ 3.7k
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