Hi Jon, It looks like your tool shed is not returning the information necessary for installing your tool shed repository into your local Galaxy instance. Try putting the following print statement just before line 978 in ~/lib/galaxy/web/controllers/admin_toolshed.py. This will tell you why the information is not "json decodable".
print "raw_text: ", raw_text It will be difficult for me to tell you what caused this since I do not have access to either your tool shed or your local Galaxy instance, so hopefully this will provide enough information for you to determine the cause. Thanks! Greg Von Kuster On Jul 20, 2012, at 8:51 AM, Jon Manning wrote: > Hi all, > > I'm new to Galaxy- so hello, and excuse me while I get to grips with all the > conventions! > > I've successfully got my local Galaxy (galaxy-central) install set up and > working correctly, as well as a local toolshed. I've also linked the two with > a line in tool_sheds_conf.xml. But I'm getting the following problem when I > try to install tools from the local toolshed (either ones I tried to make > myself, or ones I downloaded from the Galaxy public toolshed). > > The following appears when I click 'install to local Galaxy': > > URL: > http://www.my.domain/galaxy/admin_toolshed/prepare_for_install?tool_shed_url=http://www.my.domain/toolshed/&repository_ids=adb5f5c93f827949&changeset_revisions=f5ee1108336b > File > '/var/www/galaxy_home/galaxy-central/eggs/Paste-1.6-py2.6.egg/paste/exceptions/errormiddleware.py', > line 143 in __call__ > app_iter = self.application(environ, start_response) > File > '/var/www/galaxy_home/galaxy-central/eggs/Paste-1.6-py2.6.egg/paste/debug/prints.py', > line 98 in __call__ > environ, self.app) > File > '/var/www/galaxy_home/galaxy-central/eggs/Paste-1.6-py2.6.egg/paste/wsgilib.py', > line 539 in intercept_output > app_iter = application(environ, replacement_start_response) > File > '/var/www/galaxy_home/galaxy-central/eggs/Paste-1.6-py2.6.egg/paste/recursive.py', > line 80 in __call__ > return self.application(environ, start_response) > File > '/var/www/galaxy_home/galaxy-central/lib/galaxy/web/framework/middleware/remoteuser.py', > line 91 in __call__ > return self.app( environ, start_response ) > File > '/var/www/galaxy_home/galaxy-central/eggs/Paste-1.6-py2.6.egg/paste/httpexceptions.py', > line 632 in __call__ > return self.application(environ, start_response) > File '/var/www/galaxy_home/galaxy-central/lib/galaxy/web/framework/base.py', > line 160 in __call__ > body = method( trans, **kwargs ) > File > '/var/www/galaxy_home/galaxy-central/lib/galaxy/web/framework/__init__.py', > line 184 in decorator > return func( self, trans, *args, **kwargs ) > File > '/var/www/galaxy_home/galaxy-central/lib/galaxy/web/controllers/admin_toolshed.py', > line 978 in prepare_for_install > repo_information_dict = from_json_string( raw_text ) > File > '/var/www/galaxy_home/galaxy-central/eggs/simplejson-2.1.1-py2.6-linux-x86_64-ucs4.egg/simplejson/__init__.py', > line 384 in loads > File > '/var/www/galaxy_home/galaxy-central/eggs/simplejson-2.1.1-py2.6-linux-x86_64-ucs4.egg/simplejson/decoder.py', > line 402 in decode > File > '/var/www/galaxy_home/galaxy-central/eggs/simplejson-2.1.1-py2.6-linux-x86_64-ucs4.egg/simplejson/decoder.py', > line 420 in raw_decode > JSONDecodeError: No JSON object could be decoded: line 1 column 0 (char 0) > > The following error sometimes (not always, but that may be due to my use of > Varnish) pops up in my apache logs when the above appears, could this be > linked? > > File does not exist: > /var/www/galaxy_home/galaxy-central/static/scripts/packed/modernizr.js, > referer: http://www.my.domain/galaxy/admin > > Pertinent configuration details: > > * Galaxy and the toolshed proxied from Apache on another machine. > * A Cosign-based authentication system is in place, so 'use_remote_user = > True' in both Galaxy and the toolshed. > * Galaxy's home dir is at /var/www/galaxy_home for consistency with other > things I run. > > All input appreciated. > > Thanks, > > Jon > > -- > Dr Jonathan Manning > Bioinformatics Team > Centre for Cardiovascular Science > University of Edinburgh > Queens Medical Research Institute > 47 Little France Crescent > Edinburgh EH16 4TJ > United Kingdom > T: +44 131 242 6700 > F: +44 131 242 6782 > E: jmann...@staffmail.ed.ac.uk > > > The University of Edinburgh is a charitable body, registered in > Scotland, with registration number SC005336. > > ___________________________________________________________ > 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: > > http://lists.bx.psu.edu/ ___________________________________________________________ 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: http://lists.bx.psu.edu/
