error in freebayes with input parameters

Hi, when I used freebayes to call SNPs with input filter parameters, there is a error in my local galaxy. when I closed the input filter parameters everything is OK. I just want to know how can I solve the problem.
the following is the error details
Traceback (most recent call last):
File “lib/galaxy/jobs/runners/”, line 243, in prepare_job
File “lib/galaxy/jobs/”, line 1161, in prepare
self.command_line, self.extra_filenames, self.environment_variables =
File “lib/galaxy/tools/”, line 462, in build
raise e
File “lib/galaxy/tools/”, line 458, in build
File “lib/galaxy/tools/”, line 483, in __build_command_line
command_line = fill_template(command, context=param_dict, python_template_version=self.tool.python_template_version)
File “lib/galaxy/util/”, line 107, in fill_template
raise first_exception or e
File “lib/galaxy/util/”, line 80, in fill_template
return unicodify(t, log_exception=False)
File “lib/galaxy/util/”, line 1060, in unicodify
value = str(value)
File “/home/ychen1/galaxy/galaxy-test/galaxy/.venv/lib/python3.7/site-packages/Cheetah/”, line 1053, in unicode
return getattr(self, mainMethName)()
File “”, line 438, in respond
File “/home/ychen1/galaxy/galaxy-test/galaxy/.venv/lib/python3.7/site-packages/Cheetah/”, line 293, in valueFromSearchList
_raiseNotFoundException(key, searchList)
File “/home/ychen1/galaxy/galaxy-test/galaxy/.venv/lib/python3.7/site-packages/Cheetah/”, line 178, in _raiseNotFoundException
raise NotFound(excString)
Cheetah.NameMapper.NotFound: cannot find ‘standard_filters’

I will be very pleasure hearing from you,thx

Hi @yangchen,
I’m trying to reproduce the error; which tool version are you using? It would be great if you could do the analysis in; in that way would be easier for us to identify the problem.


Hi gallardoalba,
Thanks for your reply, I use freebayes (1.3.5+galaxy0 1.3.5). I have tried most of versions in galaxy but all of them produced this error. I can analysis in with the same version of freebayes (1.3.5+galaxy0 1.3.5) but it only produce this error in local galaxy. I have installed freebayes in my server and run it by command line without this error.I think my server might be absent of dependence environment but I do not know what I need to install.
My operating system is Ubuntu 20.04.3 LTS (GNU/Linux 5.11.0-40-generic x86_64)

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It could be that you need to re-install the freebayes tool, see:

I see you posted your question 16 days ago, but maybe you already had it installed for a few days.

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thanks for your help, I re-install freebayes and I can use the input-filter parameters successfully. It works well now!

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