Hi all,
I'm trying to package my tool wrapper to release it in the ToolShed. I
need to download the associated binary file and change the permissions.
I wrote a tool_dependency xml file with a downlod_binary and chmod actions.
My tool_dependency_dir is well defined in my universe file. The download
is ok, but I get an error during the "chmod" action.
So I tried with your example, faToTwoBit
(https://wiki.galaxyproject.org/DownloadingBinaries), and I get the same
bug. Do you know the problem ? Do I need to configure someting else ?
log :
tool_shed.util.tool_dependency_util DEBUG 2014-07-07 11:28:34,346
Updating an existing record for version 0.0.1 of tool dependency
faToTwoBit for revision 5ac8ed26842c of repository mytool by updating
the status from Never installed to Installing.
tool_shed.galaxy_install.tool_dependencies.recipe.step_handler DEBUG
2014-07-07 11:28:34,374 Attempting to download from
http://hgdownload.cse.ucsc.edu/admin/exe/linux.x86_64/faToTwoBit to bin
127.0.0.1 - - [07/Jul/2014:11:28:36 +0200] "POST
/admin_toolshed/repository_installation_status_updates HTTP/1.1" 200 -
"http://127.0.0.1:8080/admin_toolshed/prepare_for_install"; "Mozilla/5.0
(X11; Linux x86_64; rv:24.0) Gecko/20140610 Firefox/24.0 Iceweasel/24.6.0"
tool_shed.galaxy_install.install_manager ERROR 2014-07-07 11:28:39,038
Error installing tool dependency faToTwoBit version 0.0.1.
Traceback (most recent call last):
File
"/home/nlapalu/Galaxy/galaxy-dist/lib/tool_shed/galaxy_install/install_manager.py",
line 110, in install_and_build_package_via_fabric
tool_dependency = self.install_and_build_package( app,
tool_shed_repository, tool_dependency, actions_dict )
File
"/home/nlapalu/Galaxy/galaxy-dist/lib/tool_shed/galaxy_install/install_manager.py",
line 79, in install_and_build_package
current_dir = os.path.abspath( os.path.join( work_dir, dir ) )
File "/usr/lib/python2.7/posixpath.py", line 75, in join
if b.startswith('/'):
AttributeError: 'NoneType' object has no attribute 'startswith'
Thanks for your help;
nico
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