Hi Dannon, Yes, the "/remote/home/galaxyd/tmp/galaxy2/lib/galaxy/webapps/galaxy/controllers/cloudlaunch.py" does still exist. If it's relevant I did a: git commit -a -m 'changes made locally prior to upgrade to 16.07' git pull origin master I had to move the file "lib/galaxy/datatypes/checkers.py" but otherwise didn't get any other errors On Fri, Aug 26, 2016 at 9:38 AM, Dannon Baker <dannon.baker@gmail.com> wrote:
Can you check to see if that file (/remote/home/galaxyd/tmp/gala xy2/lib/galaxy/webapps/galaxy/controllers/cloudlaunch.py) does still exist? If it does not, it may be a leftover .pyc file (which you can delete safely). If you'd like to just clean out *all* the compiled python (which is also safe), run something like ```find <galaxy/lib> -name "*.pyc" -delete```.
On Fri, Aug 26, 2016 at 12:35 PM, D K <danielfortin86@gmail.com> wrote:
I have modified some files in my own local galaxy commit (I think only the sniffers in lib/galaxy/datatypes)
On Fri, Aug 26, 2016 at 9:31 AM, Dannon Baker <dannon.baker@gmail.com> wrote:
Hey DK,
The cloudlaunch controller was deprecated and should not be in 16.07. Is this a custom modification you have?
-Dannon
On Fri, Aug 26, 2016 at 12:30 PM, D K <danielfortin86@gmail.com> wrote:
Hi Galaxy-devs,
I just tried upgrading to 16.07 from 16.01 and get this error when starting up:
Traceback (most recent call last): File "./scripts/paster.py", line 26, in <module> serve.run() File "/remote/home/galaxyd/tmp/galaxy2/lib/galaxy/util/pastescript/serve.py", line 1061, in run invoke(command, command_name, options, args[1:]) File "/remote/home/galaxyd/tmp/galaxy2/lib/galaxy/util/pastescript/serve.py", line 1067, in invoke exit_code = runner.run(args) File "/remote/home/galaxyd/tmp/galaxy2/lib/galaxy/util/pastescript/serve.py", line 223, in run result = self.command() File "/remote/home/galaxyd/tmp/galaxy2/lib/galaxy/util/pastescript/serve.py", line 639, in command app = loadapp( app_spec, name=app_name, relative_to=base, global_conf=vars) File "/remote/home/galaxyd/tmp/galaxy2/lib/galaxy/util/pastescript/loadwsgi.py", line 292, in loadapp return loadobj(APP, uri, name=name, **kw) File "/remote/home/galaxyd/tmp/galaxy2/lib/galaxy/util/pastescript/loadwsgi.py", line 317, in loadobj return context.create() File "/remote/home/galaxyd/tmp/galaxy2/lib/galaxy/util/pastescript/loadwsgi.py", line 755, in create return self.object_type.invoke(self) File "/remote/home/galaxyd/tmp/galaxy2/lib/galaxy/util/pastescript/loadwsgi.py", line 274, in invoke filtered = context.next_context.create() File "/remote/home/galaxyd/tmp/galaxy2/lib/galaxy/util/pastescript/loadwsgi.py", line 755, in create return self.object_type.invoke(self) File "/remote/home/galaxyd/tmp/galaxy2/lib/galaxy/util/pastescript/loadwsgi.py", line 191, in invoke return fix_call(context.object, context.global_conf, **context.local_conf) File "/remote/home/galaxyd/tmp/galaxy2/lib/galaxy/util/pastescript/loadwsgi.py", line 94, in fix_call val = callable(*args, **kw) File "/remote/home/galaxyd/tmp/galaxy2/lib/galaxy/webapps/galaxy/buildapp.py", line 39, in app_factory return paste_app_factory( global_conf, **kwargs ) File "/remote/home/galaxyd/tmp/galaxy2/lib/galaxy/webapps/galaxy/buildapp.py", line 76, in paste_app_factory webapp.add_ui_controllers( 'galaxy.webapps.galaxy.controllers', app ) File "/remote/home/galaxyd/tmp/galaxy2/lib/galaxy/web/framework/webapp.py", line 115, in add_ui_controllers module = import_module( module_name ) File "/opt/rh/python27/root/usr/lib64/python2.7/importlib/__init__.py", line 37, in import_module __import__(name) File "/remote/home/galaxyd/tmp/galaxy2/lib/galaxy/webapps/galaxy/controllers/cloudlaunch.py", line 16, in <module> from galaxy.util.json import dumps ImportError: cannot import name dumps
Any suggestions?
Thanks!
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