Hi Folks Our current galaxy version is pretty old (git updates are causing problems), and we are running very low on space in our filesystem which hosts /xxx/galaxy/database/files. I need to start with a clean galaxy install (possibly on a new server) on a new file system (a large Lustre volume, which is also mounted on our cluster). I do need to migrate the shared data libs, histories, workflows, etc. from the old Galaxy installation. Most of the shared data lib stuff is symlinks, which will require a change to the root path. Would it possibly be feasible to use a schema-updated copy of our current database for the new install, and do a search-and-replace procedure on the file paths in the database to deal with the new root path for the files? Anyone know which tables are involved? Any tips and advice regarding a migration of Galaxy would be really appreciated. Best regards! Fourie -- -------------- Prof Fourie Joubert Bioinformatics and Computational Biology Unit Department of Biochemistry University of Pretoria fourie.joubert@.up.ac.za http://www.bi.up.ac.za Tel. +27-12-420-5802 Fax. +27-12-420-5800 ------------------------------------------------------------------------- This message and attachments are subject to a disclaimer. Please refer to www.it.up.ac.za/documentation/governance/disclaimer/ for full details.
On Sep 6, 2012, at 9:29 AM, Fourie Joubert wrote:
Hi Folks
Our current galaxy version is pretty old (git updates are causing problems), and we are running very low on space in our filesystem which hosts /xxx/galaxy/database/files.
I need to start with a clean galaxy install (possibly on a new server) on a new file system (a large Lustre volume, which is also mounted on our cluster).
I do need to migrate the shared data libs, histories, workflows, etc. from the old Galaxy installation.
Most of the shared data lib stuff is symlinks, which will require a change to the root path.
Would it possibly be feasible to use a schema-updated copy of our current database for the new install, and do a search-and-replace procedure on the file paths in the database to deal with the new root path for the files? Anyone know which tables are involved?
Any tips and advice regarding a migration of Galaxy would be really appreciated.
Best regards!
Fourie
Hi Fourie, Dumping the database and loading it on the new server, then modifying paths is your best bet. You can update the pats with SQL directly or a small script. The relevant paths are in Galaxy's 'dataset' table. --nate
-- -------------- Prof Fourie Joubert Bioinformatics and Computational Biology Unit Department of Biochemistry University of Pretoria fourie.joubert@.up.ac.za http://www.bi.up.ac.za Tel. +27-12-420-5802 Fax. +27-12-420-5800
------------------------------------------------------------------------- This message and attachments are subject to a disclaimer. Please refer to www.it.up.ac.za/documentation/governance/disclaimer/ for full details.
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participants (2)
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Fourie Joubert -
Nate Coraor