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20b97c972b
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Add boolean type in the tag evaluation
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2016-04-01 13:42:24 +02:00 |
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efc4a4a3c6
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Reduce the call count to eval. This reduce by 3 the time of fast(q|a)
header processing
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2016-04-01 08:54:06 +02:00 |
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ce6ea89c21
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Add the missing bootstrappip module
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2016-03-31 17:28:03 +02:00 |
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4207db7c17
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Transfers bug patch from orgasm
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2016-03-31 16:53:09 +02:00 |
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1cd35b3359
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firt version of a fastq parser
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2016-03-31 10:47:12 +02:00 |
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f51a6df5b2
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Add a class buffering lines during a text file reading
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2016-03-30 14:53:25 +02:00 |
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94417e1330
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patch the uncompress module to be able to deal with remote file
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2016-03-29 20:57:39 +02:00 |
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2e17dbce55
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Adds a uopen function able to open transparently a local or a remote
file compressed or not
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2016-03-29 20:56:54 +02:00 |
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a9eed1f5d9
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Adds class for uncompressing transparently compressed files on line
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2016-03-29 18:21:04 +02:00 |
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2dfab3f378
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Some changes in relation with the new obitools3.apps module
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2016-03-28 15:05:59 +02:00 |
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e583098a96
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change in the obi programme according to the new obitools3.apps module
creation
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2016-03-28 15:05:02 +02:00 |
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b926ca3997
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A template for a command
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2016-03-28 15:04:06 +02:00 |
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aacfefad26
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A set of utilitaty function for creating commands
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2016-03-28 15:03:26 +02:00 |
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edc4fd7b3e
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Fixed minor warning
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2016-03-25 16:11:52 +01:00 |
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ff6c27acf2
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Implemented the retrieval of values with groups of AVLs
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2016-03-25 15:35:16 +01:00 |
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69856f18dd
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untested (and no possible retrieval) of CRC used to represent data in
AVL trees
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2016-03-24 16:38:11 +01:00 |
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2c084c8cf7
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Switch to 10000000 per avl
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2016-03-23 16:13:28 +01:00 |
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58ac860cc7
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Added macro for the bloom filter parameters and deleted old unused
macros for crc
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2016-03-23 13:33:40 +01:00 |
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d44117d625
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obiimport function for testing purposes
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2016-03-23 13:00:02 +01:00 |
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6bd42132c4
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Minor fixes to silence warnings and replaced two asprintf uses
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2016-03-23 12:58:53 +01:00 |
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4085904362
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Merge branch 'multiple_avls_bloom'
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2016-03-22 14:14:10 +01:00 |
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b04b4b5902
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made POSIX compliant
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2016-03-21 11:33:06 +01:00 |
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383e738ab7
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Merge branch 'master' of git@git.metabarcoding.org:obitools/obitools3.git
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2016-03-18 15:49:53 +01:00 |
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3681cecb4d
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Multiple AVLs with bloom filters (very raw test version)
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2016-03-18 11:06:02 +01:00 |
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545ed8111a
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Code for tests storing data in multiple AVLs.
(note: unretrievable data as implemented)
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2016-03-11 15:34:55 +01:00 |
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86071d30c9
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Minor improvement in AVL initial size calculation
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2016-03-11 14:07:40 +01:00 |
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21d1b2ed3e
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First implementation of taxonomy reading
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2016-03-11 13:56:38 +01:00 |
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6157633137
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prototype for the obi unix command and the count sub command
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2016-03-08 16:06:00 +01:00 |
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a08def47e6
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It is now impossible to create a view with a name identical to one of an
existing written view
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2016-03-01 13:36:54 +01:00 |
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fc5a12bad7
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Closes #34
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2016-02-29 17:56:55 +01:00 |
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e323d8e702
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Cython classes for nucleotide sequences (outside or in the context of a
view)
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2016-02-29 16:33:30 +01:00 |
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b350ea0393
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Fixed minor error
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2016-02-29 16:28:34 +01:00 |
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8e9e21a02e
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Increased the maximum depth of AVL trees
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2016-02-29 16:27:23 +01:00 |
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4df313c54a
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Added Obiviews specialized for the handling of nucleotide sequences
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2016-02-25 09:43:27 +01:00 |
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ffc68d448f
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Deleted a forgotten print statement
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2016-02-18 15:15:42 +01:00 |
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a8f03248a8
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Major update : views
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2016-02-18 10:38:51 +01:00 |
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cfaf069095
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Fixed more typos and formatting imperfections.
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2015-12-11 17:37:25 +01:00 |
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a6144eabe2
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Fixed typos
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2015-12-11 17:26:20 +01:00 |
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c139367555
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DNA sequences and character strings are now handled using AVL trees.
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2015-12-11 17:24:44 +01:00 |
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1586956d57
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Added the lists of opened columns and arrays in the OBIDMS structure,
and a counter in the OBIDMS column structure; fixed some bugs and
created tests for referring columns that are bound to disappear anyway.
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2015-12-02 17:32:07 +01:00 |
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b45b496b0e
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Major update: new type of columns containing indices referring to lines
in other columns
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2015-11-29 11:57:07 +01:00 |
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2cf10cb6f0
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Column type is now passed as a character string when creating the column
(either 'OBI_INT', 'OBI_FLOAT', 'OBI_BOOL', 'OBI_CHAR', 'OBI_STR' or
'OBI_SEQ')
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2015-11-23 15:48:27 +01:00 |
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5a5516303d
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deleting useless .pyc files
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2015-11-23 14:43:34 +01:00 |
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d6a99bafea
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Fixed a major bug with the versioning of columns that was introduced in
f6ec8ba9
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2015-11-23 13:34:51 +01:00 |
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08f2657e18
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Increased maximum line count of columns to 1^9
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2015-11-23 13:23:18 +01:00 |
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6aa2f92930
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DNA sequences are now encoded on 4 bits when they are in IUPAC
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2015-11-20 15:32:09 +01:00 |
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87044b41d8
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modified the encoding function on 2 bits a little
|
2015-11-20 11:32:47 +01:00 |
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6ab1c83302
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New column type for DNA sequences. Only for those coded on 2 bits (only
'ATGCatgc') for now.
|
2015-11-19 18:12:48 +01:00 |
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e371248567
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changed version to 0.0.0
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2015-11-19 18:11:21 +01:00 |
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dbf9463238
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The endianness of a DMS is now stored in the OBIDMS structure
|
2015-11-18 15:35:09 +01:00 |
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