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 <lc...@us.ibm.com> wrote:

> Hi Bjorn,
>
> Currently seen
> $ hg tip
> changeset:   9850:cea3ddf6cdda
> branch:      stable
> tag:         tip
> user:        Nate Coraor <n...@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 <n...@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 <n...@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 <n...@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.gruen...@pharmazie.uni-freiburg.de>
> To: Linda Cham/Poughkeepsie/IBM@IBMUS
> Cc: Dannon Baker <dannon.ba...@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
>
>
>

<<graycol.gif>>

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