Re: [galaxy-dev] Uploading large files as AdminŠ Still slow!
What probably happened here is that due to the filesize, the browser upload failed but this went undetected. The good news is that you *can* tell galaxy to copy directly, or you could even use the files exactly where they are without any copy. What you want to do is enable this section in your universe_wsgi.ini, and then restart galaxy, after which you'll be able to just paste in the local path and galaxy will handle the rest. # Add an option to the admin library upload tool allowing admins to paste # filesystem paths to files and directories in a box, and these paths will be # added to a library. Set to True to enable. Please note the security # implication that this will give Galaxy Admins access to anything your Galaxy # user has access to. #allow_library_path_paste = False -Dannon On Jan 28, 2013, at 8:21 AM, Jackie Lighten jackie.ligh...@dal.ca wrote: Hi, I am trying to upload 2x 2.5GB files to my data libraries (in Admin on a local instance) but it has so far been running over night and not completed. How can I speed this up? Can I upload compressed files? Can I not just copy these files directly in to $galaxy-dist/database/files/000 ? Thanks, Jack ___ Please keep all replies on the list by using reply all in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ ___ Please keep all replies on the list by using reply all in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/
Re: [galaxy-dev] Uploading large files as AdminŠ Still slow!
Thanks. I now have the option to upload via directory path. How do I create the ability to use files in their current location without a copy into Galaxy database ? Thanks, J On 2013-01-28 9:30 AM, Dannon Baker dannonba...@me.com wrote: What probably happened here is that due to the filesize, the browser upload failed but this went undetected. The good news is that you *can* tell galaxy to copy directly, or you could even use the files exactly where they are without any copy. What you want to do is enable this section in your universe_wsgi.ini, and then restart galaxy, after which you'll be able to just paste in the local path and galaxy will handle the rest. # Add an option to the admin library upload tool allowing admins to paste # filesystem paths to files and directories in a box, and these paths will be # added to a library. Set to True to enable. Please note the security # implication that this will give Galaxy Admins access to anything your Galaxy # user has access to. #allow_library_path_paste = False -Dannon On Jan 28, 2013, at 8:21 AM, Jackie Lighten jackie.ligh...@dal.ca wrote: Hi, I am trying to upload 2x 2.5GB files to my data libraries (in Admin on a local instance) but it has so far been running over night and not completed. How can I speed this up? Can I upload compressed files? Can I not just copy these files directly in to $galaxy-dist/database/files/000 ? Thanks, Jack ___ Please keep all replies on the list by using reply all in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ ___ Please keep all replies on the list by using reply all in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/
Re: [galaxy-dev] Uploading large files as AdminŠ Still slow!
Sorry. I got it O the drop down menu. Thanks again. J On 2013-01-28 9:30 AM, Dannon Baker dannonba...@me.com wrote: What probably happened here is that due to the filesize, the browser upload failed but this went undetected. The good news is that you *can* tell galaxy to copy directly, or you could even use the files exactly where they are without any copy. What you want to do is enable this section in your universe_wsgi.ini, and then restart galaxy, after which you'll be able to just paste in the local path and galaxy will handle the rest. # Add an option to the admin library upload tool allowing admins to paste # filesystem paths to files and directories in a box, and these paths will be # added to a library. Set to True to enable. Please note the security # implication that this will give Galaxy Admins access to anything your Galaxy # user has access to. #allow_library_path_paste = False -Dannon On Jan 28, 2013, at 8:21 AM, Jackie Lighten jackie.ligh...@dal.ca wrote: Hi, I am trying to upload 2x 2.5GB files to my data libraries (in Admin on a local instance) but it has so far been running over night and not completed. How can I speed this up? Can I upload compressed files? Can I not just copy these files directly in to $galaxy-dist/database/files/000 ? Thanks, Jack ___ Please keep all replies on the list by using reply all in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ ___ Please keep all replies on the list by using reply all in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/
