Indeed, there is a problem indicated in Paster but I'm not sure what the
traceback is telling me.
galaxy.tools ERROR 2010-09-01 17:00:22,238 error reading tool from path:
macs/macs.xml
Traceback (most recent call last):
File "/home/galaxy/galaxy_dist/lib/galaxy/tools/__init__.py", line 74,
in load_tool
tool = self.load_tool( os.path.join( self.tool_root_dir, path ) )
File "/home/galaxy/galaxy_dist/lib/galaxy/tools/__init__.py", line
141, in load_tool
return ToolClass( config_file, root, self.app )
File "/home/galaxy/galaxy_dist/lib/galaxy/tools/__init__.py", line
282, in __init__
self.parse( root )
File "/home/galaxy/galaxy_dist/lib/galaxy/tools/__init__.py", line
375, in parse
self.parse_inputs( root )
File "/home/galaxy/galaxy_dist/lib/galaxy/tools/__init__.py", line
460, in parse_inputs
display, inputs = self.parse_input_page( page, enctypes )
File "/home/galaxy/galaxy_dist/lib/galaxy/tools/__init__.py", line
599, in parse_input_page
inputs = self.parse_input_elem( input_elem, enctypes )
File "/home/galaxy/galaxy_dist/lib/galaxy/tools/__init__.py", line
679, in parse_input_elem
param = self.parse_param_elem( elem, enctypes, context )
File "/home/galaxy/galaxy_dist/lib/galaxy/tools/__init__.py", line
689, in parse_param_elem
param = ToolParameter.build( self, input_elem )
File "/home/galaxy/galaxy_dist/lib/galaxy/tools/parameters/basic.py",
line 148, in build
return parameter_types[param_type]( tool, param )
File "/home/galaxy/galaxy_dist/lib/galaxy/tools/parameters/basic.py",
line 200, in __init__
raise ValueError( "The settings for this field require a 'value'
setting and optionally a default value which must be an integer" )
ValueError: The settings for this field require a 'value' setting and
optionally a default value which must be an integer
Leandro Hermida wrote:
Hi Branden,
When you start up Galaxy check the log, you will see the messages as
it's loading all the tools and if a tool doesn't show up it is very
likely there is a problem with its xml file and you will see the error
message in the server log.
leandro
On Wed, Sep 1, 2010 at 11:46 PM, Branden Timm <btimm(a)wisc.edu> wrote:
> Hi All,
> I've created a new tool but I'm unable to get it to show up under "My
> Tools". I've added it to tool_conf.xml, as shown here:
>
http://codepad.org/sJHNzabY
> And my tool configuration can be viewed here:
>
http://codepad.org/9r4tnNYV
> The only tool that shows up under My Tools is soap2. I've confirmed that
> both the tools/macs folder and macs.xml itself are owned by the Galaxy user.
> I've tried in several different browsers in case it was a caching issue,
> but that doesn't seem to be it either. Any ideas?
>
> Cheers
>
> --
> Branden Timm
> Great Lakes Bioenergy Research Center
> btimm(a)glbrc.wisc.edu
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>
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>
>