Yeah, there is not currently a great solution to this problem.  Some have 
implemented a tools just like David's.  You could also get around setuid with 
sudo, although the security implications are probably the same.

I think the ideal system would be to start Galaxy as root, drop privileges, and 
then only regain them as necessary for these operations.


On Jan 30, 2012, at 9:31 AM, David Hoover wrote:

> I'd love to know answers to this question as well.  So far, all I've done is 
> create two tools for copying files between Galaxy and a user's personal 
> directories using a rather dangerous setuid executable.
> I have mulled over two possibilities for this problem.  One is to run Galaxy 
> as root.  The other is for each user to kick off their own personal instance 
> of Galaxy as themselves, but accessing the same main database and file 
> repository.  The latter would require all files be read-write accesible to 
> all users.  Neither is good.
> On Jan 30, 2012, at 4:29 AM, Sarah Maman wrote:
>> Dear all,
>> There is currently no link between an user ssh connection on his own account 
>> (own space on Unix) and the Galaxy connection.
>> How to run Galaxy on an Unix user account? How to link the data storage 
>> system and the Unix user account (symlink?)?
>> The goal is to not need to copy or move data.
>> PS : Thanks a lot to David, Gordon, Brad, Christophe and Nate for your help 
>> on LDAP authentification. 
>> I always try to find a solution (Apache configuration). I will inform Galaxy 
>> list when I will find a solution.
>> Thanks in advance,
>> Sarah

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