Question: ngs tools missing dependencies
0
gravatar for jhardy
2.4 years ago by
jhardy0
United States
jhardy0 wrote:

Hello!  I am trying to install ngs tools 0.1.8 to galaxy (via fedora 4.0.4) and am getting the following error:

Error Traceback (most recent call last):
  File "/home/neurobd03/galaxy/dependency_dir/ngs-tools/0.1.8/cjav/package_ngs_tools_0_1_8/6106ecedea92/venv/bin/pip", line 8, in <module>
    load_entry_point('pip==1.3.1', 'console_scripts', 'pip')()
  File "/home/neurobd03/galaxy/dependency_dir/ngs-tools/0.1.8/cjav/package_ngs_tools_0_1_8/6106ecedea92/venv/lib/python2.7/site-packages/pip-1.3.1-py2.7.egg/pip/__init__.py", line 149, in main
    return command.main(args[1:], options)
  File "/home/neurobd03/galaxy/dependency_dir/ngs-tools/0.1.8/cjav/package_ngs_tools_0_1_8/6106ecedea92/venv/lib/python2.7/site-packages/pip-1.3.1-py2.7.egg/pip/basecommand.py", line 181, in main
    logger.fatal('Storing complete log in %s' % log_fn)
  File "/home/neurobd03/galaxy/dependency_dir/ngs-tools/0.1.8/cjav/package_ngs_tools_0_1_8/6106ecedea92/venv/lib/python2.7/site-packages/pip-1.3.1-py2.7.egg/pip/log.py", line 48, in fatal
    self.log(self.FATAL, msg, *args, **kw)
  File "/home/neurobd03/galaxy/dependency_dir/ngs-tools/0.1.8/cjav/package_ngs_tools_0_1_8/6106ecedea92/venv/lib/python2.7/site-packages/pip-1.3.1-py2.7.egg/pip/log.py", line 75, in log
    backwardcompat.fwrite(consumer, rendered)
  File "/home/neurobd03/galaxy/dependency_dir/ngs-tools/0.1.8/cjav/package_ngs_tools_0_1_8/6106ecedea92/venv/lib/python2.7/site-packages/pip-1.3.1-py2.7.egg/pip/backwardcompat/__init__.py", line 88, in fwrite
    f.write(s)
ValueError: I/O operation on closed file

I am also getting this error with centOS.  Has anyone else had this problem?  Any suggestions?

Jimmaline

software error • 829 views
ADD COMMENTlink modified 2.4 years ago by Bjoern Gruening4.8k • written 2.4 years ago by jhardy0
0
gravatar for Bjoern Gruening
2.4 years ago by
Bjoern Gruening4.8k
Germany
Bjoern Gruening4.8k wrote:

Hi,

the user `cjav` is maintaining it. I would try to contact the repository maintainer via the TS and ask for support.

Ciao,

Bjoern

ADD COMMENTlink written 2.4 years ago by Bjoern Gruening4.8k
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