Mira doesn’t work on Galaxy. This is the log message I receive.
Tool: Assemble with MIRA v3.4
Name:   MIRA log
Created:        Fri Aug 22 00:24:38 2014 (UTC)
Filesize:       0 bytes
Dbkey:  ?
Format: txt
Galaxy Tool Version:    0.0.10
Tool Version:   None
Tool Standard Output:   
stdout<http://130.56.251.91/datasets/d5f55b83db1f410a/stdout>
Tool Standard Error:    
stderr<http://130.56.251.91/datasets/d5f55b83db1f410a/stderr>
Tool Exit Code: None
API ID: d5f55b83db1f410a
Full Path:      /mnt/galaxy/files/000/dataset_326.dat

Input Parameter Value   Note for rerun
Assembly method         De novo
Assembly type   Genome
Assembly quality grade  Accurate
Backbones/reference chromosomes?        false
Sanger/Capillary reads?         false
454 reads?      false
Solexa/Illumina reads?  false
Ion Torrent reads?      true
Ion Torrent reads file  10: 
R_2011_10_19_14_30_56_user_SN1-36_Auto_SN1-36_38.fastq
Inheritance Chain
MIRA log

Also I can’t install Mira 4. This is the message I receive. Any suggestions.

Thanks.

Marija Tauschek

--
Dr Marija Tauschek/Atanaskovic
Robins-Browne Lab
Dept Microbiology & Immunology,
The University of Melbourne,
at the Peter Doherty Institute for Infection and Immunity,
Victoria 3010, Australia
Tel: +61 3 8344 9927
Email: ma...@unimelb.edu.au
Internal Server Error
Galaxy was unable to successfully complete your request

URL: 
http://130.56.251.91/admin_toolshed/prepare_for_install?tool_shed_url=https://testtoolshed.g2.bx.psu.edu/&repository_ids=4dd4d179ddfb3445&changeset_revisions=aeb3e35f8236
Module galaxy.web.framework.middleware.error:149 in __call__
>>  
>> <http://130.56.251.91/admin_toolshed/prepare_for_install?tool_shed_url=https://testtoolshed.g2.bx.psu.edu/&repository_ids=4dd4d179ddfb3445&changeset_revisions=aeb3e35f8236#>
>>  app_iter = self.application(environ, sr_checker)
Module paste.recursive:84 in __call__
>>  
>> <http://130.56.251.91/admin_toolshed/prepare_for_install?tool_shed_url=https://testtoolshed.g2.bx.psu.edu/&repository_ids=4dd4d179ddfb3445&changeset_revisions=aeb3e35f8236#>
>>  return self.application(environ, start_response)
Module paste.httpexceptions:633 in __call__
>>  
>> <http://130.56.251.91/admin_toolshed/prepare_for_install?tool_shed_url=https://testtoolshed.g2.bx.psu.edu/&repository_ids=4dd4d179ddfb3445&changeset_revisions=aeb3e35f8236#>
>>  return self.application(environ, start_response)
Module galaxy.web.framework.base:132 in __call__
>>  
>> <http://130.56.251.91/admin_toolshed/prepare_for_install?tool_shed_url=https://testtoolshed.g2.bx.psu.edu/&repository_ids=4dd4d179ddfb3445&changeset_revisions=aeb3e35f8236#>
>>  return self.handle_request( environ, start_response )
Module galaxy.web.framework.base:190 in handle_request
>>  
>> <http://130.56.251.91/admin_toolshed/prepare_for_install?tool_shed_url=https://testtoolshed.g2.bx.psu.edu/&repository_ids=4dd4d179ddfb3445&changeset_revisions=aeb3e35f8236#>
>>  body = method( trans, **kwargs )
Module galaxy.web.framework:369 in decorator
>>  
>> <http://130.56.251.91/admin_toolshed/prepare_for_install?tool_shed_url=https://testtoolshed.g2.bx.psu.edu/&repository_ids=4dd4d179ddfb3445&changeset_revisions=aeb3e35f8236#>
>>  return func( self, trans, *args, **kwargs )
Module galaxy.webapps.galaxy.controllers.admin_toolshed:983 in 
prepare_for_install
>>  
>> <http://130.56.251.91/admin_toolshed/prepare_for_install?tool_shed_url=https://testtoolshed.g2.bx.psu.edu/&repository_ids=4dd4d179ddfb3445&changeset_revisions=aeb3e35f8236#>
>>  includes_tool_dependencies )
Module tool_shed.util.common_install_util:97 in get_dependencies_for_repository
>>  
>> <http://130.56.251.91/admin_toolshed/prepare_for_install?tool_shed_url=https://testtoolshed.g2.bx.psu.edu/&repository_ids=4dd4d179ddfb3445&changeset_revisions=aeb3e35f8236#>
>>  repository = suc.get_repository_for_dependency_relationship( trans.app, 
>> tool_shed_url, name, repository_owner, changeset_revision )
Module tool_shed.util.shed_util_common:1036 in 
get_repository_for_dependency_relationship
>>  
>> <http://130.56.251.91/admin_toolshed/prepare_for_install?tool_shed_url=https://testtoolshed.g2.bx.psu.edu/&repository_ids=4dd4d179ddfb3445&changeset_revisions=aeb3e35f8236#>
>>  ( name, owner, changeset_revision ) )
Module tool_shed.util.shed_util_common:1867 in url_join
>>  
>> <http://130.56.251.91/admin_toolshed/prepare_for_install?tool_shed_url=https://testtoolshed.g2.bx.psu.edu/&repository_ids=4dd4d179ddfb3445&changeset_revisions=aeb3e35f8236#>
>>  parts.append( arg.strip( '/' ) )
AttributeError: 'NoneType' object has no attribute 'strip'
extra 
data<http://130.56.251.91/admin_toolshed/prepare_for_install?tool_shed_url=https://testtoolshed.g2.bx.psu.edu/&repository_ids=4dd4d179ddfb3445&changeset_revisions=aeb3e35f8236#extra_data>

full 
traceback<http://130.56.251.91/admin_toolshed/prepare_for_install?tool_shed_url=https://testtoolshed.g2.bx.psu.edu/&repository_ids=4dd4d179ddfb3445&changeset_revisions=aeb3e35f8236#full_traceback>

text 
version<http://130.56.251.91/admin_toolshed/prepare_for_install?tool_shed_url=https://testtoolshed.g2.bx.psu.edu/&repository_ids=4dd4d179ddfb3445&changeset_revisions=aeb3e35f8236#text_version>

This may be an intermittent problem due to load or other unpredictable factors, 
reloading the page may address the problem.

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