Hi Peter, I've created the following Trello card for this - we'll take a look and get this resolved as soon as possible. https://trello.com/c/G5hZEajv/210-tool-dependency-installation-may-not-be-pr... Thanks for reporting this! Greg Von Kuster On May 21, 2014, at 7:00 AM, Peter Cock <p.j.a.cock@googlemail.com> wrote:

On Mon, May 12, 2014 at 11:40 AM, Peter Cock <p.j.a.cock@googlemail.com> wrote:

...

On Wed, May 7, 2014 at 3:01 PM, Peter Cock <p.j.a.cock@googlemail.com> wrote:

...

Hi Dave,

Can you tell me any more about this failed tool dependency error: http://testtoolshed.g2.bx.psu.edu/view/peterjc/mira4_assembler

Installation errors Tool dependencies TypeNameVersion MIRA package 4.0 Error File "/var/opt/buildslaves/buildslave-ec2-2/buildbot-install-test-test-tool-shed-py27/build/lib/tool_shed/galaxy_install/tool_dependencies/install_util.py", line 345, in install_and_build_package_via_fabric tool_dependency = fabric_util.install_and_build_package( app, tool_shed_repository, tool_dependency, actions_dict ) File "/var/opt/buildslaves/buildslave-ec2-2/buildbot-install-test-test-tool-shed-py27/build/lib/tool_shed/galaxy_install/tool_dependencies/fabric_util.py", line 93, in install_and_build_package initial_download=False ) File "/var/opt/buildslaves/buildslave-ec2-2/buildbot-install-test-test-tool-shed-py27/build/lib/tool_shed/galaxy_install/tool_dependencies/recipe/recipe_manager.py", line 418, in execute_step initial_download=initial_download ) File "/var/opt/buildslaves/buildslave-ec2-2/buildbot-install-test-test-tool-shed-py27/build/lib/tool_shed/galaxy_install/tool_dependencies/recipe/step_handler.py", line 1312, in execute_step return_output=False ) File "/var/opt/buildslaves/buildslave-ec2-2/buildbot-install-test-test-tool-shed-py27/build/lib/tool_shed/galaxy_install/tool_dependencies/recipe/recipe_manager.py", line 247, in handle_command output = self.handle_complex_command( command ) File "/var/opt/buildslaves/buildslave-ec2-2/buildbot-install-test-test-tool-shed-py27/build/lib/tool_shed/galaxy_install/tool_dependencies/recipe/recipe_manager.py", line 287, in handle_complex_command cwd=state.env[ 'lcwd' ] ) File "/usr/lib/python2.7/subprocess.py", line 711, in __init__ errread, errwrite) File "/usr/lib/python2.7/subprocess.py", line 1308, in _execute_child raise child_exception [Errno 2] No such file or directory: '/var/opt/buildslaves/buildslave-ec2-2/buildbot-install-test-test-tool-shed-py27/build/test/install_and_test_tool_shed_repositories/repositories_with_tools/tmp/tmpxFCguW/tmp-toolshed-mtdt0b857/MIRA'

I presume this was a Python stack trace but the whitespace has been lost when rendered as HTML. However, I don't quite see what is going wrong here...

Still failing. This is presumably something in my tool_dependencies.xml which is breaking... that defines <package name="MIRA" version="4.0">

I've recently been changing the download URL - is it possible that the ToolShed didn't catch a failed download?

Thanks,

Peter

I'm pretty sure the above failure is down to a broken URL - due to a change on the project files for MIRA, see: http://www.freelists.org/post/mira_talk/Stable-download-URLs-on-sourceforge

If I am right, then the ToolShed is not handling the failed download nicely?

I've just updated this to download MIRA v4.0.2, so fingers crossed... http://testtoolshed.g2.bx.psu.edu/view/peterjc/mira4_assembler

Peter ___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/

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