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c87227b65a
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Uncommented an error message that doesn't need to be commented anymore
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2016-04-22 16:11:56 +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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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
|
2016-04-15 12:55:26 +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
|
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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d8107533d8
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Obiblob_indexer API
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2016-04-12 14:53:33 +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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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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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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a8f03248a8
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Major update : views
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2016-02-18 10:38:51 +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
|
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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6ab1c83302
|
New column type for DNA sequences. Only for those coded on 2 bits (only
'ATGCatgc') for now.
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2015-11-19 18:12:48 +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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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 |
|
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01bfc14503
|
The data size in bytes is now stored in the header of a column.
|
2015-11-09 15:55:00 +01:00 |
|
|
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65c1b1e8b2
|
Minor changes to make the creation of files and directories cleaner
|
2015-11-09 15:22:01 +01:00 |
|
|
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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 |
|
|
|
6ced3c4896
|
new functions to get the creation date of a column
|
2015-10-02 13:47:53 +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 |
|
|
|
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 |
|
|
|
2698022aaf
|
New OBIDMS method to list the columns of an OBIDMS
|
2015-09-15 17:09:31 +02:00 |
|
|
|
5c3bc03bd2
|
Added the handling of errors with the functions to get a value in a
column
|
2015-09-14 17:04:29 +02:00 |
|
|
|
f2231770f1
|
If an error occurs when cloning a column, the new cloned file is now
deleted
|
2015-09-02 13:06:21 +02:00 |
|
|
|
52e3f2ce4a
|
Columns that are cloned are now closed after cloning
|
2015-09-02 10:36:00 +02:00 |
|
|
|
f31d8983bb
|
Columns are now enlarged if needed when setting a value
|
2015-09-01 17:38:08 +02:00 |
|
|
|
3b7536c0df
|
The number of lines used is updated in the header when a value is set,
and the iteration on the values of a column is done on the number of
lines used (instead of on the total line count).
|
2015-08-26 17:25:15 +02:00 |
|
