Hi Jochen,

I recently took a probably more labour intensive approach.

# backup!
# mv prev-installation to somewhere else
# git clone to old-location
# git checkout -b master origin/master
# and copy over every config, tool xml, tool dependency directory, tool-data loc files from the prev-installation to the new git one
# add your own code changes if you have any that you want to keep
# ./run.sh or manage_db.sh upgrade
# check log and probably copy some more missing files

The upside for me was that I could finally remove all the junk that our installation has been collecting for the last couple of year.


On Tue, Jul 21, 2015 at 12:45 PM, Jochen Bick <jochen.bick@usys.ethz.ch> wrote:
Thanks Marius,

it does not look like it's working for me. There are to many changes in
git diff...

the git pull and cat local_changes.diff |patch -p1 -R gives me an
endless list of differences.

Cheers Jochen

On 21.07.2015 11:41, Marius van den Beek wrote:
> Hi Jochen,
> I recently did this. Instructions are here:
> https://wiki.galaxyproject.org/Develop/SourceCode
> This has worked for me:
> (~/galaxy-dist is my production galaxy dir)
> cd ~
> git clone https://github.com/galaxyproject/galaxy.git
> cd galaxy
> git reset --hard 3f1cec451f6dadee52a70a14fc6f6899f7aacdae
> cd ~/galaxy-dist
> hg update 17115
> mv .hg .hg_backup
> cp -R ~/galaxy/.git .
> git pull (at this point I got a merge error!)
> so I did:
> git diff > local_changes.diff
> cat local_changes.diff |patch -p1 -R
> git pull
> git checkout release_15.05
> Best,
> Marius
> On 21 July 2015 at 11:36, Jochen Bick <jochen.bick@usys.ethz.ch> wrote:
>> Hi,
>> is it possible to change from bitbucket to git? So I would like
>> future-update my galaxy from git instead from bitbucket.
>> Cheers Jochen
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