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1941a3785e
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Updated encode functions documentation
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2016-04-21 13:46:02 +02:00 |
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c7b8db6a2e
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Replaced malloc+memset with calloc
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2016-04-21 13:45:39 +02:00 |
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1dc4a3be49
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Documentation for DNA sequence indexing functions
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2016-04-21 13:36:51 +02:00 |
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09597016fd
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Short doc for crc function
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2016-04-21 13:23:52 +02:00 |
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1a2fa0923c
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Documented the functions indexing and retrieving character strings
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2016-04-21 11:35:21 +02:00 |
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00f2f2cc51
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Documented changes made in bloom functions
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2016-04-21 11:22:31 +02:00 |
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7a88ca619a
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First obi import (doesn't import tags yet because NA values aren't
handled)
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2016-04-15 17:00:08 +02:00 |
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eddd19a245
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Changes in obi commands
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2016-04-15 16:59:21 +02:00 |
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2aafecc3b5
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Changed sequence 'description' to 'definition' everywhere
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2016-04-15 16:31:43 +02:00 |
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094b2371e9
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Deleted obsolete directory
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2016-04-15 14:44:31 +02:00 |
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c1034d300d
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merging and fixed git conflict with obiavl.h
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2016-04-15 13:23:29 +02:00 |
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02d67c257f
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The default name of an AVL is now the column name + '_indexer', and when
an AVL is opened (as opposed to created), it is read-only
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2016-04-15 12:55:26 +02:00 |
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e04ea85d1e
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Fixed problematic __str__ method and useless declarations in the
OBI_Nuc_Seq_Stored class
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2016-04-15 11:22:05 +02:00 |
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527d3555f0
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Moved the functions getting full paths for files and directories to
obidms.c/.h files
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2016-04-15 11:11:13 +02:00 |
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71492ad229
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Made the handling of listing and unlisting opened columns and indexers
functions in the obidms files.
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2016-04-15 10:49:12 +02:00 |
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73d64e5aff
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Renamed 'unmap_header' function to 'close_header'
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2016-04-14 15:19:27 +02:00 |
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4cb52e1632
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Made the truncating of columns automatic when closing them (note:
already the case for AVLs)
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2016-04-14 15:13:30 +02:00 |
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9d042f7bd0
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Refactored and relocated the set and get functions of all column types,
both within and out of the context of a view
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2016-04-13 15:10:24 +02:00 |
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5ec2d8842e
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Character string indexer API
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2016-04-12 17:21:01 +02:00 |
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04c9470f7d
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Fixed and cleaned DNA_seq_indexer API
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2016-04-12 17:20:24 +02:00 |
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be05c889e2
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DNA_seq_indexer API
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2016-04-12 16:38:47 +02:00 |
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04e3a7b5a9
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Added more references in cython .cfiles files because it seems necessary
for linux distributions
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2016-04-12 15:10:54 +02:00 |
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d8107533d8
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Obiblob_indexer API
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2016-04-12 14:53:33 +02:00 |
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cd4e65e190
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Fixed typo and includes in obiblob files
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2016-04-12 14:52:27 +02:00 |
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375bfcce8a
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Renamed "Obi_byte_arrays" to "Obiblobs" and moved Obiblob functions to
separate obiblob.c and obiblob.h files
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2016-04-12 11:21:14 +02:00 |
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c225cfd8b6
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Fixed bug with retrieval of values from AVLs (bad cast in byte array
structure)
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2016-04-11 17:07:22 +02:00 |
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6fe4c6134a
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Allows for calling getConfiguration without parametter for geting the
default configuration
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2016-04-11 13:31:09 +02:00 |
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966b1325ed
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Deleted declaration of obsolete public function
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2016-04-11 11:14:20 +02:00 |
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019dfc01b4
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Branch to refactor and debug (AVLs bugged)
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2016-04-08 15:38:57 +02:00 |
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45c9c5075c
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A first version of the fasta parser
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2016-04-01 18:15:54 +02:00 |
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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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