Basic project

Ignore-this: 7ee7b8a623951d159fc22cd70e1ca2de

darcs-hash:20110225204114-fd04d-69a6b6352582edd78a746c6ca8842359809c72de
Pulling in old sequence location structures, with benefit of hindsight

Ignore-this: 2646312210f9d873dd3c7f7803d54a4e

darcs-hash:20110226054752-fd04d-d4b48ddee5727f7e47816e171356b61d19f65938
Reworked Location interfaces to use a basic typeclass

Ignore-this: da8b27a9e441c665b10b26faa0fda538

darcs-hash:20110227194134-fd04d-cd12a200aa29c2eda375b3f49e383204847298d3
Representation of locations on a sequence and text conversions

Ignore-this: a4322f9752326bd33bcb2cd461cde93f

darcs-hash:20110227211645-fd04d-0d734aeb6301575d5078653784084f0215fec42e
Test suite, bug fixes based on tests

Ignore-this: 856737511c594a7ee9fd1cbb148899d8

darcs-hash:20110228004650-fd04d-7a0aa6d211f4057d946efe950b8c78a6aa0d2c80
Split apart packages and prepared a GTF parser

Ignore-this: 474be015ec5c00f4e83ea326cc6f4b46

darcs-hash:20110228204452-fd04d-f7708c5509fb4a3fae5906b9228e9a49c838ba30
Interface changes to hide constructors and enforce validity of locations; data type for transcripts & splice junctions

Ignore-this: b6d7bac1a976d2bfaa436a1a6803891f

darcs-hash:20110301155456-fd04d-e3511c619baa51112413f71031db5d3e01e9d3af
Changed to avoid error programmatically and to deal with constrained valid SpLoc

Ignore-this: 11dcd1e12a75e18102148b25d8d6ec28

darcs-hash:20110301160000-fd04d-17a86ca0b87b61e392fedd3913f53a2d7ed12642
Removed ListLike dependency, atPos now gives a Char

Ignore-this: 1d7c1628eebd87974f801ec9d7c43d60

darcs-hash:20110302212022-fd04d-0f8f46b6f4a87defae4d92beb6e9962030aee3a2
Created BED file parser and updated GTF parser

Ignore-this: bb9e560c82a8c1d1f4550a4d41e2827d

darcs-hash:20110304182809-fd04d-8d7048497f9ea4561cf2d7b2083e43844c314c17
GTF-to-BED converter, BED output functions

Ignore-this: aa6e483235628101401ac077a700b3cf

darcs-hash:20110304224144-fd04d-4aaee534174fb4a696abf96df39a9b4cc8864cc7
Spliced locations into spliced locations, and contig-merging utilities

Ignore-this: d952061376303548c030cfb982e5e934

darcs-hash:20110305203035-fd04d-2a855980bdd3506434856d62a5071ee922963581
Rename SeqData class to SeqLike

Ignore-this: 857daf271bb8a54a06a278373cde58f5

darcs-hash:20110305203613-fd04d-6e79f7bfb3092f866f708b4a56329213689f27c3
Small, useful additions

Ignore-this: f4676d7b4ed73a301404ab2784d06070

darcs-hash:20110326212351-fd04d-afb81b64c8c04dde20c7fa4d189227be3b124754
Cleaned up and prepared for release

Ignore-this: 7bece56a3743c10aa14cf5198ba68e56

darcs-hash:20110327211845-fd04d-5c91733675daa90163d479febfeed4f4fb440402
Added documentation and made it hackage-happy

Ignore-this: e413f235a3161cbe6c6d6ff95a93bf95

darcs-hash:20110327232750-fd04d-57f6109948aa38658a386183f0f9076d415932d9
Change to Int64 offsets

Ignore-this: a92f4144e668869ddcd34900754756a8

darcs-hash:20110328202006-fd04d-084a9306515cb80dcea9c8f700d21d4f54250c7d
Minimilistic documentation, preparation of a cleaner .cabal file

Ignore-this: 1c36f0c582db39cbaaadd4ea0cad67ae

darcs-hash:20110328203522-fd04d-8f98f3e2f00c577a311f9e88a6d63d52fb875458
Specify base version

Ignore-this: dae04135bf4b22ac6f44156fb44c155a

darcs-hash:20110328203657-fd04d-256ef09ed0835ef2063c33ee15b06c0db2e86ad6
Added documentation

Ignore-this: 29a539c7552c831ee6183aa39fd5f2bc

darcs-hash:20110328205317-fd04d-9e908c535e60eda015ee66c76f179c596994e6c4