Hi Nicola,

 

Now I get this:


 
<http://129.69.102.42/admin_toolshed/manage_repository_tool_dependencies?repository_id=c5770bc5f3721970&operation=browse&tool_dependency_ids=96aaea51084561ca>
 perl

5.18.1

package

Error

  File "lib/tool_shed/galaxy_install/install_manager.py", line 123, in 
install_and_build_package_via_fabric
    tool_dependency = self.install_and_build_package( install_environment, 
tool_dependency, actions_dict )
  File "lib/tool_shed/galaxy_install/install_manager.py", line 108, in 
install_and_build_package
    initial_download=False )
  File 
"lib/tool_shed/galaxy_install/tool_dependencies/recipe/recipe_manager.py", line 
31, in execute_step
    initial_download=initial_download )
  File "lib/tool_shed/galaxy_install/tool_dependencies/recipe/step_handler.py", 
line 1881, in execute_step
    job_name=package_name )
  File 
"lib/tool_shed/galaxy_install/tool_dependencies/recipe/install_environment.py", 
line 118, in handle_command
    self.log_results( cmd, output, os.path.join( self.install_dir, 
basic_util.INSTALLATION_LOG ) )
  File 
"lib/tool_shed/galaxy_install/tool_dependencies/recipe/install_environment.py", 
line 250, in log_results
    logfile = open( file_path, 'wb' )

[Errno 2] No such file or directory: 
u'/galaxy-central/tool_deps/perl/5.18.1/iuc/package_perl_5_18/d905bb415eca/INSTALLATION.log'

 

 

 

From: Nicola Soranzo [mailto:nicola.sora...@gmail.com] On Behalf Of Nicola 
Soranzo
Sent: Mittwoch, 23. März 2016 12:49
To: Rathert, Philipp, Dr. <philipp.rath...@ibc.uni-stuttgart.de>; 
galaxy-dev@lists.galaxyproject.org
Subject: Re: [galaxy-dev] perl version 5.18.1 repository error

 

Hi Philipp,
can you try to reinstall the tool dependency? Go to the Admin interface, 
"Manage installed tools", click on the "package_perl_xml_parser_expat_2_41", 
then from the "Repository Actions" menu select "Manage tool dependencies", 
select the dependency in error and "Uninstall", then select it again and 
"Install" it.

Cheers,
Nicola

On 23/03/16 08:06, Rathert, Philipp, Dr. wrote:

Dear all,





i am trying to install  tool (meme-fimo) which needs 
package_perl_xml_parser_expat_2_41 that has a pearl 5.18.1 dependency.





however, although the tool installs just fine it shows that 
package_perl_xml_parser_expat_2_41 has missing dependencies:





Tool shed repository:package_perl_xml_parser_expat_2_41 

 

Tool shed repository changeset revision:1ce3818a8eb9 

 

Tool dependency status:Error 

 

Tool dependency installation error:Error installing tool dependency perl 
version 5.18.1: Unable to locate the repository directory for revision 
d905bb415eca of installed repository package_perl_5_18 owned by iuc. 

 

Tool dependency installation 
directory:././tool_deps/perl/5.18.1/iuc/package_perl_xml_parser_expat_2_41/1ce3818a8eb9

 

Is this an error of my local instance or is the revision missing on the 
toolshed?

 

Thank you very much for your help.

 

Cheers,

 

philipp 










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