Hello Shantanu, What is the result of typing the following in your Galaxy installation directory? hg heads Als, the result of the following: hg status And finally, the results of the following: hg diff Thanks! Greg Von Kuster On Jun 1, 2012, at 5:12 PM, Shantanu Pavgi wrote:
I am trying to migrate EMBOSS tools from core galaxy code dir to shed_tools directory. I am getting following error with the migration script:
{{{ sh ./scripts/migrate_tools/0002_tools.sh Traceback (most recent call last): File "./scripts/migrate_tools/migrate_tools.py", line 21, in <module> app = MigrateToolsApplication( sys.argv[ 1 ] ) File "/home/pavgi/galaxy-exp/lib/galaxy/tool_shed/migrate/common.py", line 81, in __init__ object_store=self.object_store ) File "/home/pavgi/galaxy-exp/lib/galaxy/model/mapping.py", line 1836, in init load_egg_for_url( url ) File "/home/pavgi/galaxy-exp/lib/galaxy/model/mapping.py", line 1816, in load_egg_for_url dialect = guess_dialect_for_url( url ) File "/home/pavgi/galaxy-exp/lib/galaxy/model/mapping.py", line 1812, in guess_dialect_for_url return (url.split(':', 1))[0] AttributeError: 'bool' object has no attribute 'split' }}}
Following are tool shed related config files:
{{{ $ cat tool_sheds_conf.xml <?xml version="1.0"?> <tool_sheds> <tool_shed name="Galaxy main tool shed" url="http://toolshed.g2.bx.psu.edu/"/> <tool_shed name="Galaxy test tool shed" url="http://testtoolshed.g2.bx.psu.edu/"/> </tool_sheds>
$ cat shed_tool_conf.xml <?xml version="1.0"?> <toolbox tool_path="../shed_tools"> </toolbox>
}}}
I am using system Python 2.6 on CentOS 6.2 system. However, I was able to reproduce this error on CentOS 5.8 system with custom Python 2.6 install as well. Any pointers on what might be wrong here will be really helpful.
-- Thanks, Shantanu
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