Nate Coraor wrote:
Ryan Golhar wrote:
Hi - I recently discovered Galaxy and am just getting started with it... I installed a local instance to test with NGS data.
Hi Ryan,
I moved this over to the galaxy-dev list since it involves a local install.
We have a lot of NGS datasets (both Solid and illumina) on a SAN available via NFS. Each user that has data has an account on the system in a directory tree such as:
/ngsdata/user1 /ngsdata/user2 /ngsdata/project1 /ngsdata/project2
where user1 and user2 are distinct users with their own dataset, and project1, project2 contain datasets shared by multiple users.
I want to import this data in Galaxy and I came across this thread in the mailing list (quoted below).
I set up my Galaxy instance to see this NFS share...btw Galaxy is running as its own user on a virtual machine. The Galaxy user only has read access to this read and nothing else.
If the usernames match your user's email addresses (this could be done with symlinks), users can import their own data, btw. See the user_library_import_dir option.
Let me try this again and see what happens.
When I went to import the files by specifying a local system path on the admin user interface, I got errors importing the data. I checked the paster.log file and I saw errors related to galaxy trying to change the permissions of the files to 0644.
Does this mean all the files need to be owned by Galaxy?
No, this would be a bug. There were a number of bugs like this that I fixed a month or so ago. Could you check your Galaxy version?
I *just* installed Galaxy a week ago maybe. The version is ... how do I find out the version? I installed using the hg tool from the website.