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db3c285 @chapmanb Provide R and python specific config files for installing from langua…
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1 ---
2 # Configuration file defining python specific libraries on pypi to install
3 # using easy install
4 pypi:
f9efd00 @chapmanb Additional generalization for RPM systems; provide new build targets …
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5 # infrastructure
b58763f @rchekaluk Install current setuptools at beginning of python libraries. Avoids e…
rchekaluk authored
6 - setuptools
f9efd00 @chapmanb Additional generalization for RPM systems; provide new build targets …
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7 - amqplib
8 - BeautifulSoup
9 - fabric
10 - Logbook
11 - lxml
12 - mako
13 - paste
14 - pastescript
ed183b9 @chapmanb Clean up python libraries and include StarCluster distribution
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15 - pycrypto
f9efd00 @chapmanb Additional generalization for RPM systems; provide new build targets …
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16 - python-cjson
17 - pyOpenSSL
18 - routes
19 - simplejson
29e61cf @chapmanb Start work on Ubuntu 11.04; updated configuration, packages and docs
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20 - sphinx
ed183b9 @chapmanb Clean up python libraries and include StarCluster distribution
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21 - StarCluster
f9efd00 @chapmanb Additional generalization for RPM systems; provide new build targets …
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22 - webhelpers
23 - webob
24 - xlrd
25 # build
d0ba7aa @roryk Swap Pyrex to Pyrex-real.
roryk authored
26 - Pyrex-real
a279056 fixed issues with libraries missing from pypi by adding --allow-unver…
Tim Laurent authored
27 - cython # needed for installing pybedtools
28 # concurrency/web
188e275 @chapmanb Additional python libraries; do not install R data files by default
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29 - Twisted
ef60e84 @chapmanb Move ruby and python to library specific installs to work across wide…
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30 # science
20f5d69 @chapmanb Include cutadapt trimmer
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31 - cutadapt
a6c8994 @afgane Add ruffus module for running computational pipelines
afgane authored
32 - ruffus
db3c285 @chapmanb Provide R and python specific config files for installing from langua…
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33 - DendroPy
34 - HTSeq
c3a6b1b @chapmanb Python libraries: pybedtools and PyVCF
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35 - pybedtools
ef60e84 @chapmanb Move ruby and python to library specific installs to work across wide…
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36 - pygr
c3a6b1b @chapmanb Python libraries: pybedtools and PyVCF
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37 - PyVCF
db3c285 @chapmanb Provide R and python specific config files for installing from langua…
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38 - rpy2
3d308ae @chapmanb Update scikit and python machine learning libraries
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39 - ramp
ef60e84 @chapmanb Move ruby and python to library specific installs to work across wide…
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40 # databases
41 - CouchDB
42 - MySQL-python
4ecf40b @chapmanb Add mongo and pymongo to packages
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43 - pymongo
ef60e84 @chapmanb Move ruby and python to library specific installs to work across wide…
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44 - pysqlite
45 - psycopg2
46 # visualization
a279056 fixed issues with libraries missing from pypi by adding --allow-unver…
Tim Laurent authored
47 - gnuplot-py
a064cb1 @chapmanb Custom python libraries with problems from easy_install
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48 - PIL
79ca374 @chapmanb Updated versions of RNA-seq and fastq assessment software. Thanks to …
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49 - pypdf
ef60e84 @chapmanb Move ruby and python to library specific installs to work across wide…
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50 - reportlab
97a28e6 @chapmanb Add python libraries used by CloudMan boot
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51 # cloudman
52 - oca
53 - hoover
54 - Mako
d47db88 @chapmanb Preparation for new release on 13.04. Update package list on 13.04. U…
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55 conda:
56 - boto
57 - biopython
58 - cython
59 - h5py
60 - ipython
61 - matplotlib
62 - networkx
63 - nose
64 - numpy
65 - pandas
66 - pysam
67 - pyyaml
68 - pyzmq
69 - scikit-learn
70 - scipy
71 - SQLAlchemy
72 - statsmodels
73 - tornado
74
f9efd00 @chapmanb Additional generalization for RPM systems; provide new build targets …
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75 ## compile problems
d47db88 @chapmanb Preparation for new release on 13.04. Update package list on 13.04. U…
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76 #- cogent
f9efd00 @chapmanb Additional generalization for RPM systems; provide new build targets …
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77 #- tables
78 #- pygraphviz
ed183b9 @chapmanb Clean up python libraries and include StarCluster distribution
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79 #- pysparse
6d6f390 @chapmanb Small package fixes for ubuntu 12.04 builds
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80 #- sympy
a600df2 @chapmanb Fix version checking with local installation. Support python installa…
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81 #- pydot # references python 3-only pyparsing
0567c58 @chapmanb Mega patch of fixes to get installation working cleanly on localhost …
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82 #- pygooglechart
83 #- rpy2-bioconductor-extensions
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