Hi, I am trying to install "join" de21bdbb8d28, from Galaxy main tool shed, but it failed with the following error:
Will skip URL https://pypi.python.org/simple/numpy/1.7.1 when looking for download links for numpy==1.7.1 (from -r /home/wang/galaxy-dist/tool_deps/bx-python/0.7.1/devteam/package_bx_python_0_7/2d0c08728bca/requirements.txt (line 2))
Will skip URL https://pypi.python.org/simple/numpy/ when looking for download links for numpy==1.7.1 (from -r /home/wang/galaxy-dist/tool_deps/bx-python/0.7.1/devteam/package_bx_python_0_7/2d0c08728bca/requirements.txt (line 2))
Could not find any downloads that satisfy the requirement numpy==1.7.1 (from -r /home/wang/galaxy-dist/tool_deps/bx-python/0.7.1/devteam/package_bx_python_0_7/2d0c08728bca/requirements.txt (line 2))
No distributions at all found for numpy==1.7.1 (from -r /home/wang/galaxy-dist/tool_deps/bx-python/0.7.1/devteam/package_bx_python_0_7/2d0c08728bca/requirements.txt (line 2))
Storing complete log in /home/wang/.pip/pip.log
Could not fetch URL https://pypi.python.org/simple/numpy/: There was a problem confirming the ssl certificate: <urlopen error="" [Errno="" 1]="" _ssl.c:497:="" error:14090086:SSL="" routines:SSL3_GET_SERVER_CERTIFICATE:certificate="" verify="" failed="">
Traceback (most recent call last):
File "/home/wang/galaxy-dist/tool_deps/bx-python/0.7.1/devteam/package_bx_python_0_7/2d0c08728bca/venv/bin/pip", line 8, in <module>
load_entry_point('pip==1.3.1', 'console_scripts', 'pip')()
File "/home/wang/galaxy-dist/tool_deps/bx-python/0.7.1/devteam/package_bx_python_0_7/2d0c08728bca/venv/lib/python2.6/site-packages/pip-1.3.1-py2.6.egg/pip/__init__.py", line 149, in main
return command.main(args[1:], options)
File "/home/wang/galaxy-dist/tool_deps/bx-python/0.7.1/devteam/package_bx_python_0_7/2d0c08728bca/venv/lib/python2.6/site-packages/pip-1.3.1-py2.6.egg/pip/basecommand.py", line 181, in main
logger.fatal('Storing complete log in %s' % log_fn)
File "/home/wang/galaxy-dist/tool_deps/bx-python/0.7.1/devteam/package_bx_python_0_7/2d0c08728bca/venv/lib/python2.6/site-packages/pip-1.3.1-py2.6.egg/pip/log.py", line 48, in fatal
self.log(self.FATAL, msg, *args, **kw)
File "/home/wang/galaxy-dist/tool_deps/bx-python/0.7.1/devteam/package_bx_python_0_7/2d0c08728bca/venv/lib/python2.6/site-packages/pip-1.3.1-py2.6.egg/pip/log.py", line 75, in log
backwardcompat.fwrite(consumer, rendered)
File "/home/wang/galaxy-dist/tool_deps/bx-python/0.7.1/devteam/package_bx_python_0_7/2d0c08728bca/venv/lib/python2.6/site-packages/pip-1.3.1-py2.6.egg/pip/backwardcompat/__init__.py", line 88, in fwrite
f.write(s)
ValueError: I/O operation on closed file
tool_shed.galaxy_install.tool_dependencies.recipe.step_handler ERROR 2014-12-17 14:38:54,807 Failed to do setup_virtualenv install, exit code='1'
I am working on SLES 11 SP3. Does anyone know how to fix this? On my OS X, there is no problem to install "join" into galaxy. Thanks,
Cheers,
Yu
