Great! that fixed the issue
On Fri, Aug 26, 2016 at 10:20 AM, Dannon Baker <dannon.ba...@gmail.com> wrote: > Ok, so it should be gone, I guess. Check 'git status', maybe it's just > there as an untracked file (and if so, just rm it)? > > On Fri, Aug 26, 2016 at 12:55 PM, D K <danielforti...@gmail.com> wrote: > >> Hi Dannon, >> >> There's your commit where you describe removing it. So why is it still >> there if I did a git pull (did I do this incorrectly?)? >> >> I did a "git log -- cloudlaunch.py" and got the following: >> >> commit 303597e48a8503aac09c33910aa5482a374f06a1 >> Author: Dannon Baker <dannon.ba...@gmail.com> >> Date: Wed Aug 12 14:17:44 2015 -0400 >> >> Remove old cloudlaunch in favor of https://github.com/galaxyproje >> ct/cloudlaunch, at launch.usegalaxy.org >> >> commit 6049a7446897baea74c33a5286b6c086c9da31a8 >> Author: Dannon Baker <dannon.ba...@gmail.com> >> Date: Tue Jul 21 14:03:22 2015 -0400 >> >> Catch and return error message during key verification in cloudlaunch. >> >> commit 09719b884806fe1da24b2f7be0f159f1d3b06d04 >> Author: dannon <dannon.ba...@gmail.com> >> Date: Sat Mar 7 22:51:35 2015 -0500 >> >> Cleanup in pbed_to_lped converter >> . >> . >> . >> >> >> On Fri, Aug 26, 2016 at 9:49 AM, Dannon Baker <dannon.ba...@gmail.com> >> wrote: >> >>> Can you check the git log for that controller, to see how it got added >>> back to, or remained in, the codebase? >>> >>> On Fri, Aug 26, 2016, 12:40 PM D K <danielforti...@gmail.com> wrote: >>> >>>> 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.ba...@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 <danielforti...@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.ba...@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 <danielforti...@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/gala >>>>>>>>> xy2/lib/galaxy/util/pastescript/serve.py", line 1061, in run >>>>>>>>> invoke(command, command_name, options, args[1:]) >>>>>>>>> File "/remote/home/galaxyd/tmp/gala >>>>>>>>> xy2/lib/galaxy/util/pastescript/serve.py", line 1067, in invoke >>>>>>>>> exit_code = runner.run(args) >>>>>>>>> File "/remote/home/galaxyd/tmp/gala >>>>>>>>> xy2/lib/galaxy/util/pastescript/serve.py", line 223, in run >>>>>>>>> result = self.command() >>>>>>>>> File "/remote/home/galaxyd/tmp/gala >>>>>>>>> xy2/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/gala >>>>>>>>> xy2/lib/galaxy/util/pastescript/loadwsgi.py", line 292, in loadapp >>>>>>>>> return loadobj(APP, uri, name=name, **kw) >>>>>>>>> File "/remote/home/galaxyd/tmp/gala >>>>>>>>> xy2/lib/galaxy/util/pastescript/loadwsgi.py", line 317, in loadobj >>>>>>>>> return context.create() >>>>>>>>> File "/remote/home/galaxyd/tmp/gala >>>>>>>>> xy2/lib/galaxy/util/pastescript/loadwsgi.py", line 755, in create >>>>>>>>> return self.object_type.invoke(self) >>>>>>>>> File "/remote/home/galaxyd/tmp/gala >>>>>>>>> xy2/lib/galaxy/util/pastescript/loadwsgi.py", line 274, in invoke >>>>>>>>> filtered = context.next_context.create() >>>>>>>>> File "/remote/home/galaxyd/tmp/gala >>>>>>>>> xy2/lib/galaxy/util/pastescript/loadwsgi.py", line 755, in create >>>>>>>>> return self.object_type.invoke(self) >>>>>>>>> File "/remote/home/galaxyd/tmp/gala >>>>>>>>> xy2/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/gala >>>>>>>>> xy2/lib/galaxy/util/pastescript/loadwsgi.py", line 94, in fix_call >>>>>>>>> val = callable(*args, **kw) >>>>>>>>> File "/remote/home/galaxyd/tmp/gala >>>>>>>>> xy2/lib/galaxy/webapps/galaxy/buildapp.py", line 39, in >>>>>>>>> app_factory >>>>>>>>> return paste_app_factory( global_conf, **kwargs ) >>>>>>>>> File "/remote/home/galaxyd/tmp/gala >>>>>>>>> xy2/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/gala >>>>>>>>> xy2/lib/galaxy/web/framework/webapp.py", line 115, in >>>>>>>>> add_ui_controllers >>>>>>>>> module = import_module( module_name ) >>>>>>>>> File "/opt/rh/python27/root/usr/lib >>>>>>>>> 64/python2.7/importlib/__init__.py", line 37, in import_module >>>>>>>>> __import__(name) >>>>>>>>> File "/remote/home/galaxyd/tmp/gala >>>>>>>>> xy2/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! >>>>>>>> >>>>>>>> ___________________________________________________________ >>>>>>>> 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/mailinglists/ >>>>>>>> >>>>>>> >>>>>>> >>>>>> >>>>> >>>> >> >
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