Hello -
I pulled down the latest changes today (it was long overdue), and am
running into the following error when I run the tool migration:
sh ./scripts/migrate_tools/0008_tools.sh install_dependencies
No handlers could be found for logger "galaxy.tools.data"
Repositories will be installed into configured tool_path location
../shed_tools
[localhost] local: rm -rf ./database/tmp/tmp-toolshed-mtdWuQjBx
Skipping installation of tool dependency samtools version 0.1.18 since it
is installed in
/users/galaxy/galaxy_deps/bin/samtools/0.1.18/devteam/package_samtools_0_1_18/171cd8bc208d
Traceback (most recent call last):
File "./scripts/migrate_tools/migrate_tools.py", line 21, in <module>
app = MigrateToolsApplication( sys.argv[ 1 ] )
File
"/users/galaxy/galaxy-dist/lib/tool_shed/galaxy_install/migrate/common.py",
line 83, in __init__
install_dependencies=install_dependencies )
File
"/users/galaxy/galaxy-dist/lib/tool_shed/galaxy_install/install_manager.py",
line 121, in __init__
is_repository_dependency=is_repository_dependency )
File
"/users/galaxy/galaxy-dist/lib/tool_shed/galaxy_install/install_manager.py",
line 509, in install_repository
is_repository_dependency=is_repository_dependency )
File
"/users/galaxy/galaxy-dist/lib/tool_shed/galaxy_install/install_manager.py",
line 351, in handle_repository_contents
guid = self.get_guid( repository_clone_url, relative_install_dir,
tool_config )
File
"/users/galaxy/galaxy-dist/lib/tool_shed/galaxy_install/install_manager.py",
line 259, in get_guid
full_path = str( os.path.abspath( os.path.join( root, name ) ) )
UnboundLocalError: local variable 'name' referenced before assignment
Ideas?
Thanks much!
Kerry
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