Hi Nicola,


Now I get this:





  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.soranzo@gmail.com] On Behalf Of Nicola Soranzo
Sent: Mittwoch, 23. März 2016 12:49
To: Rathert, Philipp, Dr. <philipp.rathert@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.


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.





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