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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)
|
2016-03-11 15:34:55 +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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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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b350ea0393
|
Fixed minor error
|
2016-02-29 16:28:34 +01:00 |
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8e9e21a02e
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Increased the maximum depth of AVL trees
|
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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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
|
Fixed more typos and formatting imperfections.
|
2015-12-11 17:37:25 +01:00 |
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a6144eabe2
|
Fixed typos
|
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.
|
2015-12-11 17:24:44 +01:00 |
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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 |
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b45b496b0e
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Major update: new type of columns containing indices referring to lines
in other columns
|
2015-11-29 11:57:07 +01:00 |
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d6a99bafea
|
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
|
Increased maximum line count of columns to 1^9
|
2015-11-23 13:23:18 +01:00 |
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6aa2f92930
|
DNA sequences are now encoded on 4 bits when they are in IUPAC
|
2015-11-20 15:32:09 +01:00 |
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87044b41d8
|
modified the encoding function on 2 bits a little
|
2015-11-20 11:32:47 +01:00 |
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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 |
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dbf9463238
|
The endianness of a DMS is now stored in the OBIDMS structure
|
2015-11-18 15:35:09 +01:00 |
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eb12af4da4
|
Fixed minor error in the documentation of a function.
|
2015-11-16 15:38:01 +01:00 |
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e8417b4f6f
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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 |
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6579566c6e
|
Minor changes in code to improve readability and fix C compilation
warnings
|
2015-11-10 14:37:58 +01:00 |
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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 |
|
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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 |
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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 |
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c4b7e579cf
|
Comments in column headers are now working.
|
2015-11-10 10:56:45 +01:00 |
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|
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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 |
|
|
|
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 |
|
|
|
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 |
|
|
|
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 |
|
|
|
ee4c513fd4
|
Fixed a bug where cloning a column would fail if the data was empty
|
2015-10-08 10:36:02 +02:00 |
|
|
|
c013e6ad33
|
fixed typo in doxygen doc
|
2015-10-08 10:33:19 +02:00 |
|
|
|
6ced3c4896
|
new functions to get the creation date of a column
|
2015-10-02 13:47:53 +02:00 |
|
|
|
4b8bf41a71
|
closes #13, obi_errno is initialized to 0
|
2015-10-02 13:46:34 +02:00 |
|
|
|
c59a244e9d
|
Fixed little typo
|
2015-09-30 12:07:13 +02:00 |
|
|
|
4b7f2d268b
|
Doxygen documentation corrected and completed.
|
2015-09-30 12:03:46 +02:00 |
|
|
|
45af8396b8
|
minor change in variable name for better coherence
|
2015-09-28 13:52:41 +02:00 |
|
|
|
b0570ee486
|
fixed permissions when creating files
|
2015-09-22 15:52:07 +02:00 |
|
|
|
72105b2aed
|
fixed the computation of the data size when cloning a column
|
2015-09-22 10:27:17 +02:00 |
|
|
|
9ab8a42340
|
fixed the mkdir permission mode that forced the user to use sudo to
write in the created directories
|
2015-09-21 15:48:02 +02:00 |
|
|
|
7b606c0477
|
Column files now always have a size that is a multiple of the page size,
and the function that enlarges mapped column files tries mapping on next
byte before unmapping/mapping again
|
2015-09-21 15:42:29 +02:00 |
|
