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pvanheus/gist:c16a07a2c954741a311881cc7606df8d

Created June 14, 2016 22:40
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gistfile1.txt
EBUG:conda.config:Could not import binstar
DEBUG:conda.fetch:channel_urls=()
INFO:stdoutlog:Fetching package metadata:
DEBUG:requests.packages.urllib3.util.retry:Converted retries value: 3 -> Retry(total=3, connect=None, read=None, redirect=None)
INFO:stdoutlog:
DEBUG:conda.fetch:adding cached pkg to index: python-2.7.11-0.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: sqlite-3.13.0-0.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: pandas-0.18.1-np111py27_0.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: pip-8.1.1-py27_1.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: neomodel-2.0.2-py_2.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: numpy-1.11.0-py27_1.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: pip-8.1.2-py27_0.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: zlib-1.2.8-3.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: appdirs-1.4.0-py27_0.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: py2neo-2.0.8-py27_1.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: tk-8.5.18-0.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: bcbiogff-0.6.2-py27_0.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: requests-2.10.0-py27_0.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: pycrypto-2.6.1-py27_0.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: pycosat-0.6.1-py27_0.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: wheel-0.29.0-py27_0.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: samtools-1.3.1-1.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: biopython-1.66-np111py27_0.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: conda-4.0.5-py27_0.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: python-dateutil-2.5.3-py27_0.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: readline-6.2-2.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: build_ctb_gene-0.0.1-py27_6.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: wrapt-1.10.6-py27_0.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: curl-7.49.0-0.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: bioservices-1.4.10-py27_1.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: mkl-11.3.3-0.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: greenlet-0.4.9-py27_0.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: setuptools-20.3-py27_0.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: grequests-0.3.0-py27_1.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: combat_tb_model-0.0.1-py27_3.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: java-jdk-8.0.45-0.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: pyyaml-3.11-py27_1.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: zlib-1.2.8-0.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: requests-cache-0.4.10-py27_0.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: requests-2.9.1-py27_0.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: six-1.10.0-py27_0.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: click-6.6-py27_0.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: openssl-1.0.2g-0.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: colorama-0.3.7-py27_0.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: easydev-0.9.14-py27_1.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: openssl-1.0.2h-1.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: suds-jurko-0.6-py27_1.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: ncurses-5.9-4.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: conda-env-2.4.5-py27_0.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: pytz-2016.4-py27_0.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: gevent-1.1.1-py27_0.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: beautifulsoup4-4.4.1-py27_0.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: yaml-0.1.6-0.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: fastqc-0.11.4-2.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: sqlite-3.9.2-0.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: setuptools-23.0.0-py27_0.tar.bz2
DEBUG:conda.fetch:adding cached pkg to index: goget-0.0.1-py27_1.tar.bz2
DEBUG:conda.plan:Pinned specs=[]
DEBUG:dotupdate:explicit([MatchSpec('appdirs 1.4.0 py27_0'), MatchSpec('bcbiogff 0.6.2 py27_0'), MatchSpec('beautifulsoup4 4.4.1 py27_0'), MatchSpec('biopython 1.66 np111py27_0'), MatchSpec('bioservices 1.4.10 py27_1'), MatchSpec('build_ctb_gene 0.0.1 py27_6'), MatchSpec('click 6.6 py27_0'), MatchSpec('colorama 0.3.7 py27_0'), MatchSpec('combat_tb_model 0.0.1 py27_3'), MatchSpec('easydev 0.9.14 py27_1'), MatchSpec('gevent 1.1.1 py27_0'), MatchSpec('greenlet 0.4.9 py27_0'), MatchSpec('grequests 0.3.0 py27_1'), MatchSpec('mkl 11.3.3 0'), MatchSpec('neomodel 2.0.2 py_2'), MatchSpec('numpy 1.11.0 py27_1'), MatchSpec('openssl 1.0.2h 1'), MatchSpec('pandas 0.18.1 np111py27_0'), MatchSpec('pip 8.1.2 py27_0'), MatchSpec('py2neo 2.0.8 py27_1'), MatchSpec('python 2.7.11 0'), MatchSpec('python-dateutil 2.5.3 py27_0'), MatchSpec('pytz 2016.4 py27_0'), MatchSpec('readline 6.2 2'), MatchSpec('requests 2.10.0 py27_0'), MatchSpec('requests-cache 0.4.10 py27_0'), MatchSpec('setuptools 23.0.0 py27_0'), MatchSpec('six 1.10.0 py27_0'), MatchSpec('sqlite 3.13.0 0'), MatchSpec('suds-jurko 0.6 py27_1'), MatchSpec('tk 8.5.18 0'), MatchSpec('wheel 0.29.0 py27_0'), MatchSpec('wrapt 1.10.6 py27_0'), MatchSpec('zlib 1.2.8 3')]) finished
DEBUG:conda.resolve:Checking satisfiability of current install
DEBUG:conda.resolve:Checking if the current environment is consistent
INFO:stdoutlog:Solving package specifications:
DEBUG:dotupdate:Solving for [MatchSpec('appdirs 1.4.0 py27_0'), MatchSpec('bcbiogff 0.6.2 py27_0'), MatchSpec('beautifulsoup4 4.4.1 py27_0'), MatchSpec('biopython 1.66 np111py27_0'), MatchSpec('bioservices 1.4.10 py27_1'), MatchSpec('build_ctb_gene 0.0.1 py27_6'), MatchSpec('click 6.6 py27_0'), MatchSpec('colorama 0.3.7 py27_0'), MatchSpec('combat_tb_model 0.0.1 py27_3'), MatchSpec('easydev 0.9.14 py27_1'), MatchSpec('gevent 1.1.1 py27_0'), MatchSpec('greenlet 0.4.9 py27_0'), MatchSpec('grequests 0.3.0 py27_1'), MatchSpec('mkl 11.3.3 0'), MatchSpec('neomodel 2.0.2 py_2'), MatchSpec('numpy 1.11.0 py27_1'), MatchSpec('openssl 1.0.2h 1'), MatchSpec('pandas 0.18.1 np111py27_0'), MatchSpec('pip 8.1.2 py27_0'), MatchSpec('py2neo 2.0.8 py27_1'), MatchSpec('python 2.7.11 0'), MatchSpec('python-dateutil 2.5.3 py27_0'), MatchSpec('pytz 2016.4 py27_0'), MatchSpec('readline 6.2 2'), MatchSpec('requests 2.10.0 py27_0'), MatchSpec('requests-cache 0.4.10 py27_0'), MatchSpec('setuptools 23.0.0 py27_0'), MatchSpec('six 1.10.0 py27_0'), MatchSpec('sqlite 3.13.0 0'), MatchSpec('suds-jurko 0.6 py27_1'), MatchSpec('tk 8.5.18 0'), MatchSpec('wheel 0.29.0 py27_0'), MatchSpec('wrapt 1.10.6 py27_0'), MatchSpec('zlib 1.2.8 3')]
DEBUG:conda.resolve:Retrieving packages for: [MatchSpec('appdirs 1.4.0 py27_0'), MatchSpec('bcbiogff 0.6.2 py27_0'), MatchSpec('beautifulsoup4 4.4.1 py27_0'), MatchSpec('biopython 1.66 np111py27_0'), MatchSpec('bioservices 1.4.10 py27_1'), MatchSpec('build_ctb_gene 0.0.1 py27_6'), MatchSpec('click 6.6 py27_0'), MatchSpec('colorama 0.3.7 py27_0'), MatchSpec('combat_tb_model 0.0.1 py27_3'), MatchSpec('easydev 0.9.14 py27_1'), MatchSpec('gevent 1.1.1 py27_0'), MatchSpec('greenlet 0.4.9 py27_0'), MatchSpec('grequests 0.3.0 py27_1'), MatchSpec('mkl 11.3.3 0'), MatchSpec('neomodel 2.0.2 py_2'), MatchSpec('numpy 1.11.0 py27_1'), MatchSpec('openssl 1.0.2h 1'), MatchSpec('pandas 0.18.1 np111py27_0'), MatchSpec('pip 8.1.2 py27_0'), MatchSpec('py2neo 2.0.8 py27_1'), MatchSpec('python 2.7.11 0'), MatchSpec('python-dateutil 2.5.3 py27_0'), MatchSpec('pytz 2016.4 py27_0'), MatchSpec('readline 6.2 2'), MatchSpec('requests 2.10.0 py27_0'), MatchSpec('requests-cache 0.4.10 py27_0'), MatchSpec('setuptools 23.0.0 py27_0'), MatchSpec('six 1.10.0 py27_0'), MatchSpec('sqlite 3.13.0 0'), MatchSpec('suds-jurko 0.6 py27_1'), MatchSpec('tk 8.5.18 0'), MatchSpec('wheel 0.29.0 py27_0'), MatchSpec('wrapt 1.10.6 py27_0'), MatchSpec('zlib 1.2.8 3')]
INFO:stdoutlog:
Traceback (most recent call last):
File "/home/galaxy/galaxydemo/shed_tools/_conda/bin/conda", line 6, in <module>
sys.exit(main())
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/cli/main.py", line 139, in main
args_func(args, p)
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/cli/main.py", line 146, in args_func
args.func(args, p)
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/cli/main_create.py", line 49, in execute
install.install(args, parser, 'create')
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/cli/install.py", line 334, in install
update_deps=args.update_deps)
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/plan.py", line 413, in install_actions
pkgs = r.install(specs, [d + '.tar.bz2' for d in linked], update_deps=update_deps)
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/resolve.py", line 875, in install
pkgs = self.solve(specs, len0=len0, returnall=returnall)
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/resolve.py", line 909, in solve
dists, new_specs = self.get_dists(specs)
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/resolve.py", line 399, in get_dists
specs, removes, optional, features = self.verify_specs(specs)
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/resolve.py", line 391, in verify_specs
bad_deps.extend(self.invalid_chains(ms, filter))
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/resolve.py", line 359, in invalid_chains
return chains_(spec)
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/resolve.py", line 357, in chains_
notfound.update(chains_(m2))
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/resolve.py", line 357, in chains_
notfound.update(chains_(m2))
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/resolve.py", line 357, in chains_
notfound.update(chains_(m2))
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/resolve.py", line 357, in chains_
notfound.update(chains_(m2))
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/resolve.py", line 357, in chains_
notfound.update(chains_(m2))
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/resolve.py", line 357, in chains_
notfound.update(chains_(m2))
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/resolve.py", line 357, in chains_
notfound.update(chains_(m2))
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/resolve.py", line 357, in chains_
notfound.update(chains_(m2))
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/resolve.py", line 357, in chains_
notfound.update(chains_(m2))
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/resolve.py", line 357, in chains_
notfound.update(chains_(m2))
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/resolve.py", line 357, in chains_
notfound.update(chains_(m2))
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/resolve.py", line 357, in chains_
notfound.update(chains_(m2))
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/resolve.py", line 357, in chains_
notfound.update(chains_(m2))
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/resolve.py", line 357, in chains_
notfound.update(chains_(m2))
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/resolve.py", line 357, in chains_
notfound.update(chains_(m2))
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/resolve.py", line 357, in chains_
notfound.update(chains_(m2))
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/resolve.py", line 357, in chains_
notfound.update(chains_(m2))
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/resolve.py", line 357, in chains_
notfound.update(chains_(m2))
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/resolve.py", line 357, in chains_
notfound.update(chains_(m2))
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/resolve.py", line 357, in chains_
notfound.update(chains_(m2))
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/resolve.py", line 357, in chains_
notfound.update(chains_(m2))
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/resolve.py", line 357, in chains_
notfound.update(chains_(m2))
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/resolve.py", line 357, in chains_
notfound.update(chains_(m2))
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/resolve.py", line 357, in chains_
notfound.update(chains_(m2))
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/resolve.py", line 357, in chains_
notfound.update(chains_(m2))
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/resolve.py", line 357, in chains_
notfound.update(chains_(m2))
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/resolve.py", line 357, in chains_
notfound.update(chains_(m2))
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/resolve.py", line 357, in chains_
notfound.update(chains_(m2))
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/resolve.py", line 357, in chains_
notfound.update(chains_(m2))
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/resolve.py", line 357, in chains_
notfound.update(chains_(m2))
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/resolve.py", line 357, in chains_
notfound.update(chains_(m2))
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/resolve.py", line 357, in chains_
notfound.update(chains_(m2))
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/resolve.py", line 357, in chains_
notfound.update(chains_(m2))
File "/home/galaxy/galaxydemo/shed_tools/_conda/lib/python2.7/site-packages/conda/resolve.py", line 357, in chains_
notfound.update(chains_(m2))
....
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