python-libs.yaml

---
# Configuration file defining python specific libraries on pypi to install
# using easy install
pypi:
  # infrastructure
  - amqplib
  - BeautifulSoup
  - bioblend
  - boto
  - distribute
  - fabric
  - fusepy
  - ipython
  # - Logbook
  # - lxml
  - mako
  - nose
  - numpy
  - paste
  - pastescript
  - pycrypto
  - python-cjson
  - pyOpenSSL
  - pyyaml
  - routes
  - simplejson
  # - sphinx
  # - StarCluster
  - webhelpers
  - webob
  # - xlrd
  # - yolk
  # build
  # - cython
  # - Pyrex
  - virtualenv
  # concurrency/web
  - pyzmq
  # - tornado
  # - Twisted
  # science
  - biopython
  - cython  # reguired by pybedtools
  # - bcbio-nextgen
  - ruffus
  - git+git://github.com/bjpop/rubra.git #rubra from github source
  #- cogent
  # - DendroPy
  - HTSeq
  - jinja2
  - matplotlib
  - networkx
  - pandas
  - patsy
  - pybedtools
  - pygr
  - pysam
  # - PyVCF
  - rpy2
  # - rpy2-bioconductor-extensions
  # - scikit-learn
  - statsmodels
  # - ramp
  - scipy
  # databases
  # - CouchDB
  # - h5py
  # - MySQL-python
  # - pymongo
  - pysqlite
  - psycopg2
  - SQLAlchemy
  # visualization
  # - gnuplot-py
  # - PIL
  - pydot
  # - pygooglechart
  - reportlab

## compile problems
  #- tables
  #- pygraphviz
  #- pysparse
  #- sympy