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f83f71eb86
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Some refactoring details on alignment to switch to Cython 0.12.1
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2010-04-01 10:06:53 +00:00 |
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1d0af91d1b
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Add a manifest template indicating to setup.py to include .pxd, .pyx and .c files in the source distribution.
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2010-04-01 09:52:12 +00:00 |
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e31b47a30c
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modify the install script function to suppress the .py at the end of the command name. So now, fastaGrep.py becomes fastaGrep
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2010-04-01 09:50:18 +00:00 |
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16e1992cdc
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patch of the progress bar printing
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2010-03-09 17:04:05 +00:00 |
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cd7f45f926
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change unsigned long long to unsigned long
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2010-03-02 14:44:11 +00:00 |
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e3997fd4d5
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patch alignSequence function for compatibility with Cython 0.12.1
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2010-03-02 14:23:58 +00:00 |
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83c315db99
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add an internal implementation of bin function (bin2str) that is appeared
only in python 2.6
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2010-03-02 14:14:03 +00:00 |
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30d834cdc3
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Add a -p option to fastaUniq to merge sequences on their prefix identity
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2010-02-25 11:17:05 +00:00 |
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37d6943c3c
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change dequeue usage to match older api
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2010-02-24 17:01:54 +00:00 |
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7e76188c8e
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patch setup.py to take into account new version (0.12) of cython
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2010-02-24 17:00:29 +00:00 |
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22e0a05825
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add a -i option to fastaUniq script
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2010-01-26 10:18:33 +00:00 |
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fcb1e451d6
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add a -i option to fastaUniq script
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2010-01-26 10:16:31 +00:00 |
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088134fd32
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add a -i option to fastaUniq script
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2010-01-26 10:15:35 +00:00 |
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5104a73204
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add a -i option to fastaUniq script
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2010-01-26 10:13:32 +00:00 |
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75c48101bc
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Add new script to convert old format ecoPCR result file to the new format with Tm
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2010-01-22 14:39:14 +00:00 |
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2d4f99c4e7
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Add new script to convert old format ecoPCR result file to the new format with Tm
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2010-01-22 14:37:42 +00:00 |
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838935541d
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Add new script to convert old format ecoPCR result file to the new format with Tm
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2010-01-22 14:05:12 +00:00 |
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147e61f02b
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Add module to compute primer Tm
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2010-01-22 14:04:30 +00:00 |
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55e83bd2dc
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add new obitools script to concat all sequence of a file in one sequences
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2010-01-22 13:26:44 +00:00 |
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315284ce04
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add new obitools script to concat all sequence of a file in one sequences
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2010-01-22 13:13:40 +00:00 |
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cd8a4eeb22
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patch ecoPRC file reader to take into account file format modification
introduce in version 0.2 (Tm computation)
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2010-01-22 09:26:54 +00:00 |
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4249c3f423
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Prototype version of NGSFilter script the substitute of fasta454Filter
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2010-01-19 09:09:45 +00:00 |
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667eb074a9
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patch match length computation to take into account matches with reverse strand
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2010-01-19 09:08:14 +00:00 |
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e39125ef5d
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add a getter to gaps attribute
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2010-01-19 09:06:42 +00:00 |
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e275be24e6
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add the free end gap alignment algorithm
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2010-01-19 09:05:39 +00:00 |
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bd1f1f9c8d
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2010-01-19 09:05:19 +00:00 |
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a81f7b933f
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add the free end gap alignment algorithm
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2010-01-19 09:04:46 +00:00 |
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05ed9e0a5c
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add management of fastq format
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2010-01-18 22:31:43 +00:00 |
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8ab403889e
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Add options relative to fastq format
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2010-01-18 22:30:35 +00:00 |
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d5232e59e3
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add interface to fastq io
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2010-01-18 22:29:25 +00:00 |
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44ff625c05
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patch rawiteritems method from WrappedBioseq
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2010-01-18 22:28:24 +00:00 |
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108e15ecc9
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2010-01-15 14:58:13 +00:00 |
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e560c4296b
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Add a new script to assemble amplicon from solexa pair-end run
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2010-01-15 10:56:51 +00:00 |
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b93d5ced56
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add progress bar during in files reading
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2010-01-05 23:40:53 +00:00 |
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f890e99868
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2010-01-05 23:37:54 +00:00 |
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dd6a6d6dd1
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2010-01-05 23:37:40 +00:00 |
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5304836a55
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patch a bug adding an 'evaluatued' key to sequences
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2009-12-25 15:08:36 +00:00 |
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e61ce3f4cd
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2009-12-18 13:53:52 +00:00 |
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501de6a32b
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Patch taxid merging
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2009-12-17 21:23:07 +00:00 |
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8c593bfb13
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patch the -a selection option
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2009-12-17 21:10:24 +00:00 |
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d4c180122f
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patch on fastaHead and fastaTail
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2009-12-17 07:00:55 +00:00 |
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79c61ca4a8
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script doc...
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2009-12-17 07:00:14 +00:00 |
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024d8a1fe8
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add two new scripts :
fastaHead and fastaTail
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2009-12-15 21:38:16 +00:00 |
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d2fdf6bf0c
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remove extra import
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2009-12-10 20:46:08 +00:00 |
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4b9ad7e9cf
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remove extra import
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2009-12-10 20:44:52 +00:00 |
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d51dc2c612
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remove extra import
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2009-12-10 20:43:58 +00:00 |
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8f364f9e0e
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add filtering option to fastaComplement
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2009-12-10 20:43:12 +00:00 |
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44ec34b386
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remove extra sys import
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2009-12-10 16:54:06 +00:00 |
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782ad9371b
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patch a bug in _extractsequence of ComplementLocation
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2009-12-10 16:53:27 +00:00 |
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87e11a195b
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create AlignedSequence class
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2009-12-10 16:49:26 +00:00 |
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