Hello,
Do you mean that you modified the wrapper (py or xml) and now the tool is producing an error in your local Galaxy install?
When modifying a display label/variable, make sure it is consistent across all wrapper components.
But modifying the syntax actually evolved as a parameter in the command line for any tool is bound to be problematic. You must use what the tool expects / see any tool's manual for the correct usage.
Existing tools that function are good models for how to do this. For example, the tool shed will sometimes have alternate versions of wrappers for the same underlying tool - these will show you what can be variable and what must remain consistent.
If your question has been misunderstood, please send more details. You also probably want to post programming questions to the galaxy-dev@bx.psu.edu mailing list instead (development list). Searching that list for prior Q&A is also an option: http://galaxyproject.org -> MailingLists
thanks!
Jen Galaxy Team
Jennifer Hillman-Jackson http://galaxyproject.org
On Mar 28, 2014, at 2:44 AM, do kadya dokadya@gmail.com wrote:
Respected Sir / Ma'am,
I was running Intogen using galaxy, I changes parameters name and then this error came.
Can you please tell what is the meaning of this error ?
Traceback (most recent call last): File "/home/ganit/galaxy_work/galaxy-dist/lib/galaxy/jobs/runners/__init__.py", line 123, in prepare_job job_wrapper.prepare() File "/home/ganit/galaxy_work/galaxy-dist/lib/galaxy/jobs/__init__.py", line 702, in prepare self.command_line = self.tool.build_command_line( param_dict ) File "/home/ganit/galaxy_work/galaxy-dist/lib/galaxy/tools/__init__.py", line 2639, in build_command_line command_line = fill_template( self.command, context=param_dict ) File "/home/ganit/galaxy_work/galaxy-dist/lib/galaxy/util/template.py", line 9, in fill_template return str( Template( source=template_text, searchList=[context] ) ) File "/home/ganit/galaxy_work/galaxy-dist/eggs/Cheetah-2.2.2-py2.7-linux-x86_64-ucs4.egg/Cheetah/Template.py", line 1004, in __str__ return getattr(self, mainMethName)() File "cheetah_DynamicallyCompiledCheetahTemplate_1395998029_86_91764.py", line 100, in respond NotFound: cannot find 'fimpact' ___________________________________________________________ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. Please keep all replies on the list by using "reply all" in your mail client. For discussion of local Galaxy instances and the Galaxy source code, please use the Galaxy Development list:
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