Hello, The original question/reply is posted here: http://lists.bx.psu.edu/pipermail/galaxy-user/2012-December/005665.html But the dev community is welcomed to add in additional comments/advice to this re-post! Thanks, Jen Galaxy team On 12/14/12 6:49 AM, MONJEAUD wrote:
Hi all,
I created data libraries using options "Upload files from filesystem paths" and "_Link to files without copying into Galaxy_". It worked but I use symbolic links because my data are frequently updated
The problem is that Galaxy takes the real link (inside "external_filename" column in "dataset" table) and doesn't find the files when it is deleted.
For example, I uploaded a dataset for a data library without copying : /databank/uniprot/current/fasta/all.fasta -> /databank/uniprot/01_12_2012/fasta/all.fasta The real path is put in the database and it's a problem when it is deleted.
Is there a way for galaxy to take the symbolic link directly in the database instead of the real path.
Thanks in advance! Cheers, --
Cyril Monjeaud Equipe Symbiose / Plate-forme GenOuest Bureau D156 IRISA-INRIA, Campus de Beaulieu 35042 Rennes cedex, France Tél: +33 (0) 2 99 84 74 17
___________________________________________________________ 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:
-- Jennifer Jackson http://galaxyproject.org