On Mon, Aug 27, 2012 at 2:25 PM, greg margeemail@gmail.com wrote:
How do users get data into Galaxy in your system?
Mostly via the "upload" tool, or sometimes the remote data tools (eg from UCSC). Some commonly used files are also setup on our system as shared libraries within Galaxy.
It seems weird to ask them to upload something that's already in their home directory and available to the cluster jobs otherwise.
I was answering about *our* Galaxy, where only a few of the users have a Linux account. In most cases their home directory is on Windows... and not easily accessed from our Linux cluster if at all.
I wonder if there's a way they can copy files to the Galaxy data directory? I guess they'd have to let Galaxy know about the new data somehow?
This is available to a Galaxy administrator for shared libraries of files made available within Galaxy, see: http://wiki.g2.bx.psu.edu/Admin/Data%20Libraries/Uploading%20Library%20Files
Perhaps something like Alban Lermine's upload_local_file or Edward Kirton's data_nfs tool on the ToolShed would work for you?
Peter