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8f724f4f8e
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Some code refactoring
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2016-11-09 16:48:00 +01:00 |
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43f3c69a40
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Fixed bug when cloning column with line selection
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2016-09-21 17:50:21 +02:00 |
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a0da984003
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Fixed bug where columns would not get truncated to the right size, and
fixed bug where column directories would be open and not closed in some
instances
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2016-09-21 17:28:52 +02:00 |
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986f90c59e
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Fixed bug where column directories weren't closed correctly, leading to
too many file descriptors open, and added error checking when closing
file descriptors
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2016-09-15 12:18:40 +02:00 |
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2d8ac2b035
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Fixed bug when creating an OBI_IDX column
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2016-08-11 17:30:32 +02:00 |
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38718320f9
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First version for the association of one column to another. Closes #55
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2016-07-15 15:38:49 +02:00 |
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799b942017
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Deleted old debugging print
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2016-06-03 18:57:32 +02:00 |
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e681ca646d
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Fixed a problem with some columns being shorter in views and triggering
errors when trying to get values. Temporary fix that needs discussion
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2016-05-20 18:45:29 +02:00 |
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8ae7644945
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First version of quality handling (not working yet) and now it is
checked that a column is writable before enlarging it
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2016-05-11 16:38:14 +02:00 |
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f3b20b809d
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Fixed bug with indexer names being defined and generating seg fault if
creating a column not using indexers
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2016-04-27 14:01:36 +02:00 |
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66045acf1d
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Creating a column now uses the function to create the indexer name if
one was not provided
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2016-04-22 17:47:00 +02:00 |
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ffa4557928
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changed MAP_PRIVATE flags to MAP_SHARED when opening a column because it
seems a lot more efficient
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2016-04-22 16:26:24 +02:00 |
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003cd11362
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Fixed initialization of NA values for OBI_STR and OBI_SEQ columns
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2016-04-22 16:14:23 +02:00 |
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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
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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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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.
|
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
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2015-11-29 11:57:07 +01:00 |
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d6a99bafea
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Fixed a major bug with the versioning of columns that was introduced in
f6ec8ba9
|
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.
|
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
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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
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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 |
|
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05e3956a0c
|
Minor changes in code to improve readability (freeing some character
strings earlier)
|
2015-11-09 11:22:51 +01:00 |
|
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9b066f4327
|
Major update: obiarrays with columns containing indices referring to
character strings.
|
2015-11-06 17:55:15 +01:00 |
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|
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456551ffeb
|
obi arrays that don't work because of cython bug passing wrong pointers
|
2015-11-03 14:22:00 +01:00 |
|
|
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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 |
|
