News

0.2.1.2

Release date: 2013-07-17

version number system adopted to conform to PEP386
This is a hot fix to squash a bug described in github issue: #10
- in short: on a Mac pprocess complained "AttributeError: 'module' object has no attribute 'poll'" when trying to set up a queue.
- the quick fix is to look for that exception and continue without pprocess if encountered to avoid the fatal exception.

0.2.1

Release date: 2013-05-15

git tag: 'v0.2.1'
added new script named blacktie-cummerbund to run cummeRbund
added new class in calls.py CummerbundCall to use blacktie-cummerbund script to add cummeRbund plots to blacktie script
checks for R and rpy2 installations
if cummeRbund R library not found, it walks you through installing it
src/blacktie/utils/calls.py: - fixed _flag_out_dir() so that if the outdir has not been created yet it gracefully moves on
examples/blacktie_config_example.yaml: - added cummerbund_options
requirements.txt: - added rpy2
updated docs

0.2.0rc1

Release date: 2013-04-19

git tag: 'v0.2.0rc1'
Added support for handling biological replicates in cuffdiff runs.
Major changes to yaml config:
- condition_queue[index].group_id --> condition_queue[index].experiment_id
- addition of condition_queue[index].replicate_id to track replicate data
- condition_queue[index].name now represents description of an 'experiemental condition' and will be shared by replicates.

0.1.1

Release date: 2013-03-21

git commit SHA digest: 9d7c02d5e7f4ec8970bb2291c3eb6ff8f4dbe542
git tag: 'v0.1.1'

0.1_dev

Release date: 2013-03-20

git commit SHA digest: 808c11fb396c71af55ff690fa6f2e628e5ffd758
git tag: 'v0.1-dev'
First uploaded to PyPI
This verion is still under active development.