Commits

Author Commit Message Labels Comments Date
Nate Coraor
Add LICENSE to MANIFEST.in so it's included in the source distribution.
Nate Coraor
Add license (MIT) and classifiers for PyPI.
Nate Coraor
Bump version to 0.7.2
sontek
Change raised exceptions from strings to ValueErrors
olgert denas
tagget final bnmapper version
olgert denas
Added tag bnMapper freeze for changeset 83b6d153f889
gertidenas
bnMapper documentation
Tags
bnMapper freeze
olgert denas
bnMapper was ignoring peaks it should have not
Comments 1
James Taylor
maf_tile_2bit.py: fix chromosome name for 2bit access
James Taylor
maf_tile_2bit.py: Variant of maf_tile_2.py that fetches reference sequence data from twoBit format files
James Taylor
bpt_file: fix a bug recursing into the BPT, only encountered for files with large numbers of keys (e.g. scaffolds)
James Taylor
Moving maf_covered_ranges.py util from ESPERR
James Taylor
Don't fail on missing lzo unless actually used
James Taylor
Run everything through Cython 0.18. Fixed a bug in BinnedBitset when the size is larger than the max size, all tests passing
James Taylor
Updating to latest distribute_setup.py
James Taylor
eivindgl
fixed BinnedBitSet memory leak
mruffalo
lrucache.py: remove functools.total_ordering call
mruffalo
lrucache.py: remove __future__.generators import
olgert denas
BED4 output (bnMapper) had a problem
olgert denas
progress message / chromosome
olgert denas
check cached chains are up to date and int chain score
olgert denas
fixed small bugs and added options
olgert denas
fixed issue with peaks spanning multiple chains
olgert denas
scripts for chain to EPO (.out) conversion and feature mapping
jsilter
Alter bbi_file.pyx ZoomLevel._summary_blocks_in_region to be slightly more efficient. Should skip reading data when chrom_id doesn't match equery
mruffalo
If Python 3, use 2to3 distutils builder instead
mruffalo
pstat.py: fix one cmp call, add TODO to another
mruffalo
Fix more usage of old cmp function
mruffalo
phylo.newick: fix old usage of cmp, __cmp__
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