Hi Nicola,
Now I get this:
<
http://129.69.102.42/admin_toolshed/manage_repository_tool_dependencies?r...
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.soranzo@gmail.com] On Behalf Of Nicola Soranzo
Sent: Mittwoch, 23. März 2016 12:49
To: Rathert, Philipp, Dr. <philipp.rathert(a)ibc.uni-stuttgart.de>;
galaxy-dev(a)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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