Hi Linda, Sorry I wasn't clear before. The fix for that first issue is in galaxy-central's stable branch, which will be migrated to galaxy-dist probably sometime next week. You can always pull directly from -central though, using 'hg pull -u -b stable http://bitbucket.org/galaxy/galaxy-central/' That said, this doesn't resolve the mysql index issues, which I'm currently working on. I hope to have a fix for them available soon, though. -Dannon On Wed, Jun 5, 2013 at 4:47 PM, Linda Cham <lcham@us.ibm.com> wrote:
Hi Bjorn,
Currently seen $ hg tip changeset: 9850:cea3ddf6cdda branch: stable tag: tip user: Nate Coraor <nate@bx.psu.edu> date: Mon Jun 03 16:17:31 2013 -0400 summary: Update tag for stable_2013.06.03
Removed galaxy-dist directory and rerun the hg clone command.
$ hg clone *https://bitbucket.org/galaxy/galaxy-dist#stable*<https://bitbucket.org/galaxy/galaxy-dist> destination directory: galaxy-dist requesting all changes adding changesets adding manifests adding file changes added 9851 changesets with 36400 changes to 7175 files updating to branch stable 4132 files updated, 0 files merged, 0 files removed, 0 files unresolved
$ cd galaxy-dist $ hg heads changeset: 9850:cea3ddf6cdda branch: stable tag: tip user: Nate Coraor <nate@bx.psu.edu> date: Mon Jun 03 16:17:31 2013 -0400 summary: Update tag for stable_2013.06.03
$ hg pull ; hg update stable pulling from https://bitbucket.org/galaxy/galaxy-dist searching for changes no changes found 0 files updated, 0 files merged, 0 files removed, 0 files unresolved
Check the script/manage_db.py: from galaxy import eggs <----- No decorator line eggs.require( "Tempita" ) eggs.require( "SQLAlchemy" ) eggs.require( "sqlalchemy_migrate" )
$ hg update tip 0 files updated, 0 files merged, 0 files removed, 0 files unresolved
$ hg heads changeset: 9850:cea3ddf6cdda branch: stable tag: tip user: Nate Coraor <nate@bx.psu.edu> date: Mon Jun 03 16:17:31 2013 -0400 summary: Update tag for stable_2013.06.03
$ hg update default 82 files updated, 0 files merged, 2 files removed, 0 files unresolved
$ hg heads changeset: 9850:cea3ddf6cdda branch: stable tag: tip user: Nate Coraor <nate@bx.psu.edu> date: Mon Jun 03 16:17:31 2013 -0400 summary: Update tag for stable_2013.06.03
script/manage_db.py still the same as above.
[image: Inactive hide details for Björn Grüning ---06/05/2013 04:30:09 PM---Hi Linda, > Hi Dannon,]Björn Grüning ---06/05/2013 04:30:09 PM---Hi Linda, > Hi Dannon,
From: Björn Grüning <bjoern.gruening@pharmazie.uni-freiburg.de> To: Linda Cham/Poughkeepsie/IBM@IBMUS Cc: Dannon Baker <dannon.baker@gmail.com>, Galaxy Dev < galaxy-dev@lists.bx.psu.edu> Date: 06/05/2013 04:30 PM Subject: Re: [galaxy-dev] Installation of 20130603 Galaxy image with MySQL fails ------------------------------
Hi Linda,
Hi Dannon,
Thanks. I tried to do the hg pull and update and hg tip but I do not see the changes in my working directory. So I added the one liner eggs.require( "decorator" ) to scripts/manage_db.py. Ran the sh manage_db.sh upgrade and get this error:
that is really strange. Can you show us what the output of hg tip is? Do you mind to start with a fresh checkout and that particular change?
Thanks, Björn
