Reinstall Galaxy by keeping database, database files and tools

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Reinstall Galaxy by keeping database, database files and tools

Jochen
Hi,

is it possible to clone a fresh galaxy and reinstall all tools from an
existing galaxy (old) by keeping the database and all files?

Cheers Jochen


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Re: Reinstall Galaxy by keeping database, database files and tools

Nate Coraor (nate@bx.psu.edu)
Hi Jochen,

Yes, this is possible. You shouldn't need to reinstall tools. Everything that Galaxy modifies is in (by default) three places on the filesystem (in addition to the database):

  1. GALAXY_ROOT/database/ - especially GALAXY_ROOT/files/ (datasets) and GALAXY_ROOT/dependencies/ (tool dependencies)
  2. Configs in GALAXY_ROOT/config/ - the ones modified by Galaxy itself are mostly the shed_*.xml files
  3. GALAXY_ROOT/../shed_tools/
Typically the easiest thing to do is to move the old GALAXY_ROOT out of the way and copy your configs to the new config/ directory, and move database/files and database/dependencies to the new database/ directory.

If you need to change any paths things can be quite a bit trickier.

--nate


On Mon, Oct 29, 2018 at 11:34 AM Jochen Bick <[hidden email]> wrote:
Hi,

is it possible to clone a fresh galaxy and reinstall all tools from an
existing galaxy (old) by keeping the database and all files?

Cheers Jochen


___________________________________________________________
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:
  https://lists.galaxyproject.org/

To search Galaxy mailing lists use the unified search at:
  http://galaxyproject.org/search/

___________________________________________________________
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:
  https://lists.galaxyproject.org/

To search Galaxy mailing lists use the unified search at:
  http://galaxyproject.org/search/