Hi All,
I am trying to add a tool to Galaxy, here is my xml configuration:
## Set params based on whether reads are single-end or paired.
#if $singleOrPair.readType == "paired":
--no_overlap $singleOrPair.readType.no_overlap
#end if
<conditional name="singleOrPair">
<param name="readType" type="select" label="single end or paired
end reads">
<option value="single">single end</option>
<option value="paired">paired end</option>
</param>
<when value="paired">
<param name="no_overlap" type="select" label="">
<option value="no">no</option>
<option value="yes">yes</option>
</param>
</when>
<when value="single" />
</conditional>
I met the following error. Could some let me know what is wrong?
Thank you very much.
Cai
Traceback (most recent call last):
File "/mnt/galaxyTools/galaxy-central/lib/galaxy/jobs/runners/drmaa.py",
line 124, in queue_job
job_wrapper.prepare()
File "/mnt/galaxyTools/galaxy-central/lib/galaxy/jobs/__init__.py",
line 372, in prepare
self.command_line = self.tool.build_command_line( param_dict )
File "/mnt/galaxyTools/galaxy-central/lib/galaxy/tools/__init__.py",
line 1585, in build_command_line
command_line = fill_template( self.command, context=param_dict )
File "/mnt/galaxyTools/galaxy-central/lib/galaxy/util/template.py",
line 9, in fill_template
return str( Template( source=template_text, searchList=[context] ) )
File
"/mnt/galaxyTools/galaxy-central/eggs/Cheetah-2.2.2-py2.6-linux-x86_64-ucs4.egg/Cheetah/Template.py",
line 1004, in __str__
return getattr(self, mainMethName)()
File "cheetah_DynamicallyCompiledCheetahTemplate_1332953248_1_41760.py",
line 96, in respond*NotFound: cannot find 'no_overlap' while searching
for 'singleOrPair.readType.no_overlap'*
___________________________________________________________
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/
