|
|
0eca86107e
|
Pseudo obihead for tests
|
2016-04-27 14:27:28 +02:00 |
|
|
|
0de953a3ef
|
pseudo obigrep for tests
|
2016-04-27 14:19:55 +02:00 |
|
|
|
d159b921eb
|
Fixed obi import trying to print all lines at the end (source of
segfault?)
|
2016-04-27 13:14:19 +02:00 |
|
|
|
4e4cf46b16
|
Added all C files as source files for all cython files to stop having
that kind of problem with linux systems
|
2016-04-27 10:44:24 +02:00 |
|
|
|
6b61533650
|
Added more C source files for _obiseq
|
2016-04-27 10:41:00 +02:00 |
|
|
|
419885485b
|
Added files in _obitaxo C sources for cython
|
2016-04-27 10:30:16 +02:00 |
|
|
|
a6c8d35491
|
import command a bit modified for tests
|
2016-04-26 14:29:54 +02:00 |
|
|
|
366264828e
|
Renamed MurmurHash2.c file to murmurhash2.c as it could be a problem
|
2016-04-26 14:29:17 +02:00 |
|
|
|
87935c6678
|
Fixed all compilation problems with new function names, locations etc
|
2016-04-25 18:35:02 +02:00 |
|
|
|
92980508c0
|
Made the function to clone a column in the context of a view private
|
2016-04-25 18:15:25 +02:00 |
|
|
|
1fbbdd43f9
|
Updated obiversion_t declaration
|
2016-04-25 17:58:37 +02:00 |
|
|
|
8cdfbb379e
|
Documentation for views and reworked the code a little
|
2016-04-25 17:58:12 +02:00 |
|
|
|
7a88ca619a
|
First obi import (doesn't import tags yet because NA values aren't
handled)
|
2016-04-15 17:00:08 +02:00 |
|
|
|
eddd19a245
|
Changes in obi commands
|
2016-04-15 16:59:21 +02:00 |
|
|
|
2aafecc3b5
|
Changed sequence 'description' to 'definition' everywhere
|
2016-04-15 16:31:43 +02:00 |
|
|
|
094b2371e9
|
Deleted obsolete directory
|
2016-04-15 14:44:31 +02:00 |
|
|
|
c1034d300d
|
merging and fixed git conflict with obiavl.h
|
2016-04-15 13:23:29 +02:00 |
|
|
|
02d67c257f
|
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
|
2016-04-15 12:55:26 +02:00 |
|
|
|
e04ea85d1e
|
Fixed problematic __str__ method and useless declarations in the
OBI_Nuc_Seq_Stored class
|
2016-04-15 11:22:05 +02:00 |
|
|
|
73d64e5aff
|
Renamed 'unmap_header' function to 'close_header'
|
2016-04-14 15:19:27 +02:00 |
|
|
|
4cb52e1632
|
Made the truncating of columns automatic when closing them (note:
already the case for AVLs)
|
2016-04-14 15:13:30 +02:00 |
|
|
|
9d042f7bd0
|
Refactored and relocated the set and get functions of all column types,
both within and out of the context of a view
|
2016-04-13 15:10:24 +02:00 |
|
|
|
5ec2d8842e
|
Character string indexer API
|
2016-04-12 17:21:01 +02:00 |
|
|
|
be05c889e2
|
DNA_seq_indexer API
|
2016-04-12 16:38:47 +02:00 |
|
|
|
04e3a7b5a9
|
Added more references in cython .cfiles files because it seems necessary
for linux distributions
|
2016-04-12 15:10:54 +02:00 |
|
|
|
d8107533d8
|
Obiblob_indexer API
|
2016-04-12 14:53:33 +02:00 |
|
|
|
6fe4c6134a
|
Allows for calling getConfiguration without parametter for geting the
default configuration
|
2016-04-11 13:31:09 +02:00 |
|
|
|
019dfc01b4
|
Branch to refactor and debug (AVLs bugged)
|
2016-04-08 15:38:57 +02:00 |
|
|
|
45c9c5075c
|
A first version of the fasta parser
|
2016-04-01 18:15:54 +02:00 |
|
|
|
20b97c972b
|
Add boolean type in the tag evaluation
|
2016-04-01 13:42:24 +02:00 |
|
|
|
efc4a4a3c6
|
Reduce the call count to eval. This reduce by 3 the time of fast(q|a)
header processing
|
2016-04-01 08:54:06 +02:00 |
|
|
|
1cd35b3359
|
firt version of a fastq parser
|
2016-03-31 10:47:12 +02:00 |
|
|
|
f51a6df5b2
|
Add a class buffering lines during a text file reading
|
2016-03-30 14:53:25 +02:00 |
|
|
|
94417e1330
|
patch the uncompress module to be able to deal with remote file
|
2016-03-29 20:57:39 +02:00 |
|
|
|
2e17dbce55
|
Adds a uopen function able to open transparently a local or a remote
file compressed or not
|
2016-03-29 20:56:54 +02:00 |
|
|
|
a9eed1f5d9
|
Adds class for uncompressing transparently compressed files on line
|
2016-03-29 18:21:04 +02:00 |
|
|
|
2dfab3f378
|
Some changes in relation with the new obitools3.apps module
|
2016-03-28 15:05:59 +02:00 |
|
|
|
e583098a96
|
change in the obi programme according to the new obitools3.apps module
creation
|
2016-03-28 15:05:02 +02:00 |
|
|
|
b926ca3997
|
A template for a command
|
2016-03-28 15:04:06 +02:00 |
|
|
|
aacfefad26
|
A set of utilitaty function for creating commands
|
2016-03-28 15:03:26 +02:00 |
|
|
|
ff6c27acf2
|
Implemented the retrieval of values with groups of AVLs
|
2016-03-25 15:35:16 +01:00 |
|
|
|
69856f18dd
|
untested (and no possible retrieval) of CRC used to represent data in
AVL trees
|
2016-03-24 16:38:11 +01:00 |
|
|
|
d44117d625
|
obiimport function for testing purposes
|
2016-03-23 13:00:02 +01:00 |
|
|
|
4085904362
|
Merge branch 'multiple_avls_bloom'
|
2016-03-22 14:14:10 +01:00 |
|
|
|
383e738ab7
|
Merge branch 'master' of git@git.metabarcoding.org:obitools/obitools3.git
|
2016-03-18 15:49:53 +01:00 |
|
|
|
3681cecb4d
|
Multiple AVLs with bloom filters (very raw test version)
|
2016-03-18 11:06:02 +01:00 |
|
|
|
21d1b2ed3e
|
First implementation of taxonomy reading
|
2016-03-11 13:56:38 +01:00 |
|
|
|
6157633137
|
prototype for the obi unix command and the count sub command
|
2016-03-08 16:06:00 +01:00 |
|
|
|
a08def47e6
|
It is now impossible to create a view with a name identical to one of an
existing written view
|
2016-03-01 13:36:54 +01:00 |
|
|
|
fc5a12bad7
|
Closes #34
|
2016-02-29 17:56:55 +01:00 |
|
