Do you have virtualenv installed and available to planemo? If not, might be worth reviewing this thread - http://dev.list.galaxyproject.org/Planemo-0-20-0-and-xunit-td4668334.html and installing it.
In dev, virtualenv is a hard dependency for running Galaxy and this is new, in the past Galaxy would run without it. We (Nate) may find a way around this before the next release (16.01) specifically to allow Galaxy to run in anaconda based environments. If you have virtualenv installed, I really don't think Galaxy's dependency list should require modification especially for Python 2.7, is this for Linux or Mac OS X? -John On Fri, Nov 20, 2015 at 2:27 PM, Christian Brenninkmeijer <christian.brenninkmei...@manchester.ac.uk> wrote: > I have gotten past this stage and an now getting errors which may be my own. > > The fix was to edit > https://github.com/galaxyproject/galaxy/blob/dev/lib/galaxy/dependencies/requirements.txt > and add > twill==1.8.0 > lxml==3.5.0 > cssselect==0.9.1 > NoseHTML==0.4.2 > > There may well be other missing as well so that needs a look. > For example in the old version I found an egg > NoseTestDiff-0.1-py2.7.egg > > Christian > ________________________________________ > From: Peter Cock [p.j.a.c...@googlemail.com] > Sent: Friday, November 20, 2015 12:41 PM > To: Christian Brenninkmeijer > Cc: John Chilton; galaxy-dev@lists.galaxyproject.org > Subject: Re: [galaxy-dev] Unable to up Planemo against latest dev > > Which file are you looking at? There is no nose entry here: > > https://github.com/galaxyproject/planemo/blob/master/requirements.txt > > Perhaps a more recent version of nose is needed? > > Peter > > On Fri, Nov 20, 2015 at 11:51 AM, Christian Brenninkmeijer > <christian.brenninkmei...@manchester.ac.uk> wrote: >> Hi Peter/ John >> requirementx.txt already includes the latest version of nose >> >> nose==1.3.7 >> >> It is nose that is complaining it does not like the sys,args passed in by >> FunctionalTest.py >> >> Christian >> >> ________________________________________ >> From: Peter Cock [p.j.a.c...@googlemail.com] >> Sent: Friday, November 20, 2015 11:30 AM >> To: Christian Brenninkmeijer; John Chilton >> Cc: galaxy-dev@lists.galaxyproject.org >> Subject: Re: [galaxy-dev] Unable to up Planemo against latest dev >> >> On Fri, Nov 20, 2015 at 9:59 AM, Christian Brenninkmeijer >> <christian.brenninkmei...@manchester.ac.uk> wrote: >>> Hi All, >>> >>> I am unable to run Planemo against the latest dev branch. >>> >>> 1. import twill error >>> >>> I was able to fix this by adding to requirements.txt >>> twill==1.8.0 >>> lxml==3.5.0 >>> cssselect==0.9.1 >>> >>> But then I get >>> >>> functional_tests.py: error: no such option: --with-nosehtml >>> functional_tests.py ERROR 2015-11-20 09:57:23,066 Failure running tests >>> Traceback (most recent call last): >>> ... >>> SystemExit: 2 >> >> That's not a very helpful error, is it? It reminds me of a missing >> dependency / installation problem I had long ago when first >> setting up TravisCI to run Galaxy tool tests: >> >> https://github.com/peterjc/pico_galaxy/commit/c8265f4a42caf62eb3bc8b36b475f16cc06f1944#diff-354f30a63fb0907d4ad57269548329e3R126 >> >> @John: My guess is we need to add "nose" to planemo's requirements.txt >> to ensure this gets installed automatically? >> >> Peter ___________________________________________________________ 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/
