|
|
eaf5fd940a
|
remap every 100000 values
|
2016-03-14 17:03:24 +01:00 |
|
|
|
86071d30c9
|
Minor improvement in AVL initial size calculation
|
2016-03-11 14:07:40 +01:00 |
|
|
|
21d1b2ed3e
|
First implementation of taxonomy reading
|
2016-03-11 13:56:38 +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 |
|
|
|
e323d8e702
|
Cython classes for nucleotide sequences (outside or in the context of a
view)
|
2016-02-29 16:33:30 +01:00 |
|
|
|
b350ea0393
|
Fixed minor error
|
2016-02-29 16:28:34 +01:00 |
|
|
|
8e9e21a02e
|
Increased the maximum depth of AVL trees
|
2016-02-29 16:27:23 +01:00 |
|
|
|
4df313c54a
|
Added Obiviews specialized for the handling of nucleotide sequences
|
2016-02-25 09:43:27 +01:00 |
|
|
|
ffc68d448f
|
Deleted a forgotten print statement
|
2016-02-18 15:15:42 +01:00 |
|
|
|
a8f03248a8
|
Major update : views
|
2016-02-18 10:38:51 +01:00 |
|
|
|
cfaf069095
|
Fixed more typos and formatting imperfections.
|
2015-12-11 17:37:25 +01:00 |
|
|
|
a6144eabe2
|
Fixed typos
|
2015-12-11 17:26:20 +01:00 |
|
|
|
c139367555
|
DNA sequences and character strings are now handled using AVL trees.
|
2015-12-11 17:24:44 +01:00 |
|
|
|
1586956d57
|
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.
|
2015-12-02 17:32:07 +01:00 |
|
|
|
b45b496b0e
|
Major update: new type of columns containing indices referring to lines
in other columns
|
2015-11-29 11:57:07 +01:00 |
|
|
|
2cf10cb6f0
|
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')
|
2015-11-23 15:48:27 +01:00 |
|
|
|
5a5516303d
|
deleting useless .pyc files
|
2015-11-23 14:43:34 +01:00 |
|
|
|
d6a99bafea
|
Fixed a major bug with the versioning of columns that was introduced in
f6ec8ba9
|
2015-11-23 13:34:51 +01:00 |
|
|
|
08f2657e18
|
Increased maximum line count of columns to 1^9
|
2015-11-23 13:23:18 +01:00 |
|
|
|
6aa2f92930
|
DNA sequences are now encoded on 4 bits when they are in IUPAC
|
2015-11-20 15:32:09 +01:00 |
|
|
|
87044b41d8
|
modified the encoding function on 2 bits a little
|
2015-11-20 11:32:47 +01:00 |
|
|
|
6ab1c83302
|
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 |
|
|
|
e371248567
|
changed version to 0.0.0
|
2015-11-19 18:11:21 +01:00 |
|
|
|
dbf9463238
|
The endianness of a DMS is now stored in the OBIDMS structure
|
2015-11-18 15:35:09 +01:00 |
|
|
|
eb12af4da4
|
Fixed minor error in the documentation of a function.
|
2015-11-16 15:38:01 +01:00 |
|
|
|
e8417b4f6f
|
The endianness of an OBIDMS is now stored in an informations file that
is read when opening the OBIDMS.
|
2015-11-16 14:37:51 +01:00 |
|
|
|
6579566c6e
|
Minor changes in code to improve readability and fix C compilation
warnings
|
2015-11-10 14:37:58 +01:00 |
|
|
|
410e2e02a0
|
When retrieving the header of a column, the version number of the column
wanted can now be provided.
|
2015-11-10 13:30:10 +01:00 |
|
|
|
8ce4f264aa
|
When enlarging a column, the function doesn't try anymore to keep the
mapped region at the same pointer (never works), and unmap/remap
instead.
|
2015-11-10 13:18:36 +01:00 |
|
|
|
d885eb48ff
|
The header size when creating a column is now calculated according to
the size of the header structure and the page size of the platform.
|
2015-11-10 13:09:30 +01:00 |
|
|
|
661fe3606a
|
In OBI_CHAR columns, characters are now given and retrieved as decoded
(unicode) characters.
|
2015-11-10 11:24:08 +01:00 |
|
|
|
c4b7e579cf
|
Comments in column headers are now working.
|
2015-11-10 10:56:45 +01:00 |
|
|
|
f6ec8ba963
|
The header size is now directly read in the file when a column or an
array is opened.
|
2015-11-09 17:50:32 +01:00 |
|
|
|
0e3d6ed2d7
|
Methods __len__ (number of lines used) and __sizeof__ (total size in
bytes) implemented for columns.
|
2015-11-09 15:56:20 +01:00 |
|
|
|
01bfc14503
|
The data size in bytes is now stored in the header of a column.
|
2015-11-09 15:55:00 +01:00 |
|
|
|
65c1b1e8b2
|
Minor changes to make the creation of files and directories cleaner
|
2015-11-09 15:22:01 +01:00 |
|
|
|
b37bd8f21c
|
File descriptors for dms, column and array directories are now stored in
structures.
|
2015-11-09 15:06:02 +01:00 |
|
|
|
05e3956a0c
|
Minor changes in code to improve readability (freeing some character
strings earlier)
|
2015-11-09 11:22:51 +01:00 |
|
|
|
9b066f4327
|
Major update: obiarrays with columns containing indices referring to
character strings.
|
2015-11-06 17:55:15 +01:00 |
|
|
|
456551ffeb
|
obi arrays that don't work because of cython bug passing wrong pointers
|
2015-11-03 14:22:00 +01:00 |
|
|
|
ecb9d97adb
|
Reorganized the code to have less functions, and the functions to get
and format the creation date of a column are now working.
|
2015-10-15 15:12:45 +02:00 |
|
|
|
0eaa5aa784
|
Major changes : new cython subclasses to handle columns with multiple
elements per line in a more efficient way + now elements_names are
passed as a list + new function to recover only the header of a column
|
2015-10-14 18:05:34 +02:00 |
|
|
|
21923e213d
|
The unit tests now test for None values
|
2015-10-12 18:02:40 +02:00 |
|
|
|
6877fc4892
|
Fixed a critical bug where values were initialized to NA at the wrong
location when there was multiple elements per line
|
2015-10-12 17:54:36 +02:00 |
|
|
|
dbed3d9d1d
|
New module for unit testing with PyUnit
|
2015-10-09 15:42:57 +02:00 |
|
|
|
fc8bf16769
|
Fixed a critical bug in the computation of the new number of lines of a
column when truncating
|
2015-10-09 13:49:48 +02:00 |
|
|
|
e114a3c9cb
|
fixed a critical bug where data size was not calculated correctly and
column directory is now closed when column is closed
|
2015-10-09 10:25:40 +02:00 |
|
|
|
ebc9f6f512
|
fixed a bug where Cython was casting doubles in floats
|
2015-10-08 15:28:30 +02:00 |
|
|
|
2b3f03ec28
|
Removed deprecated script
|
2015-10-08 10:46:46 +02:00 |
|
