On Wed, Jun 6, 2012 at 10:03 AM, Derrick Lin <klin938@gmail.com> wrote:

I guess I know what the issue is (at least for my case). I checked the stdout, it contains:
 MEME — Multiple EM for Motif Elicitation

USAGE:

        meme <dataset> [optional arguments]

      
       <dataset>               file containing sequences in FASTA format
       [-h]                    print this message
       [-o <output dir>]       name of directory for output files will not
                               replace existing directory
       [-oc <output dir>]      name of directory for output files will
                               replace existing directory
       [-text]                 output in text format (default is HTML)
       [-dna]                  sequences use DNA alphabet
       [-protein]              sequences use protein alphabet
       [-mod oops|zoops|anr]   distribution of motifs
.......
Then  I checked the stderr, it has:
mv: cannot stat `/misc/NFS/app/galaxy/galaxy_dist/dev/database/job_working_directory/000/973/dataset_2527_files/meme.html': No such file or directory

Seems  to me, the meme was ran but return its help page and didn't return any result. Still investigating why.
Derrick 
On Wed, Jun 6, 2012 at 9:47 AM, Derrick Lin <klin938@gmail.com> wrote:

Hi,

I am hitting the same issue. meme itself runs fine on commandline.

I suspected the html or xml generated by meme contains non-ascii, thus galaxy throw this error.

Have you been able to fix that?

MEME is not on the public galaxy server either..

Regards,
Derrick

On Thu, May 31, 2012 at 4:37 AM, Anthonius deBoer <thondeboer@me.com> wrote:

Hi,

I am trying to run MEME and I got this error below when running it.

Is this an error complaining about the non-ASCII nature of the OUTPUT or of the program (or input?).

Thanks

Thon

Error Traceback:
View as: Interactive | Text | XML (full)
⇝ UnicodeDecodeError: 'ascii' codec can't decode byte 0xe2 in position 25: ordinal not in range(128)

URL: http://srp106:8080/dataset/errors?id=176856
Module weberror.evalexception.middleware:364 in respond view
>> app_iter = self.application(environ, detect_start_response)

Module paste.debug.prints:98 in __call__ view
>> environ, self.app)
Module paste.wsgilib:539 in intercept_output view
>> app_iter = application(environ, replacement_start_response)

Module paste.recursive:80 in __call__ view
>> return self.application(environ, start_response)
Module paste.httpexceptions:632 in __call__ view
>> return self.application(environ, start_response)

Module galaxy.web.framework.base:160 in __call__ view
>> body = method( trans, **kwargs )
Module galaxy.web.controllers.dataset:160 in errors view
>> return trans.fill_template( "dataset/errors.mako", hda=hda )

Module galaxy.web.framework:733 in fill_template view
>> return self.fill_template_mako( filename, **kwargs )
Module galaxy.web.framework:744 in fill_template_mako view

>> return template.render( **data )
Module mako.template:296 in render view
>> return runtime._render(self, self.callable_, args, data)
Module mako.runtime:660 in _render view

>> **_kwargs_for_callable(callable_, data))
Module mako.runtime:692 in _render_context view
>> _exec_template(inherit, lclcontext, args=args, kwargs=kwargs)
Module mako.runtime:718 in _exec_template view

>> callable_(context, *args, **kwargs)
Module dataset_errors_mako:74 in render_body view
>> __M_writer(filters.html_escape(unicode(job.stdout )))
UnicodeDecodeError: 'ascii' codec can't decode byte 0xe2 in position 25: ordinal not in range(128)

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