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5ed6835e0e
|
Fixed a bug where the new line count when truncating a column would not
be computed correctly when dealing with high numbers (bad automatic type
for intermediate result)
|
2017-09-25 10:52:19 +02:00 |
|
|
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c559ddf487
|
BUG FIX: creation of a new column would fail because of a case not
handled when a high number of elements per line would imply less than
one line per memory page
|
2017-08-20 17:30:23 +02:00 |
|
|
|
c5f3fdc295
|
Increased maximum element names length in columns
|
2017-07-27 19:44:49 +02:00 |
|
|
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59dd0a8a8c
|
Standardized and improved the API to create new columns, updated the doc
|
2017-07-18 17:34:32 +02:00 |
|
|
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f5e992abbf
|
Added a check on the element when setting a value in a column
|
2017-07-05 14:49:20 +02:00 |
|
|
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431c1c8c6a
|
Merge branch 'Eric_new_Python_API' of
git@git.metabarcoding.org:obitools/obitools3.git into
Eric_new_Python_API
Conflicts:
python/obitools3/obidms/_obidms.pxd
python/obitools3/obidms/_obidms.pyx
python/obitools3/obidms/_obidmscolumn_bool.pyx
python/obitools3/obidms/_obidmscolumn_str.pyx
python/obitools3/obidms/_obiseq.pxd
python/obitools3/obidms/_obiseq.pyx
python/obitools3/obidms/_obitaxo.pxd
python/obitools3/obidms/_obitaxo.pyx
python/obitools3/obidms/_obiview.pxd
python/obitools3/obidms/_obiview.pyx
python/obitools3/obidms/_obiview_nuc_seq.pxd
python/obitools3/obidms/_obiview_nuc_seq.pyx
python/obitools3/obidms/_obiview_nuc_seq_qual.pxd
python/obitools3/obidms/_obiview_nuc_seq_qual.pyx
python/obitools3/obidms/capi/obialign.pxd
python/obitools3/obidms/capi/obidmscolumn.pxd
python/obitools3/obidms/capi/obitaxonomy.pxd
python/obitools3/obidms/capi/obiview.pxd
|
2017-02-20 14:55:36 +01:00 |
|
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e50da64ea1
|
The elements names when a column contains several elements per line are
now formatted with '\0' as separator and handled in a more optimized way
|
2017-01-31 16:48:06 +01:00 |
|
|
|
daacd0df76
|
Strong refactoring 1
|
2016-12-26 13:35:31 +01:00 |
|
|
|
936be64c34
|
Goes with 5e0c9f87 (missing ';' and fixed compilation warnings)
|
2016-12-05 11:18:29 +01:00 |
|
|
|
5e0c9f878b
|
Added the doc for the function building the element names, and a missing
free
|
2016-12-05 10:46:21 +01:00 |
|
|
|
852e5488c8
|
The default element names for columns with multiple elements per line
are now "O;1;2;...;n"
|
2016-12-02 17:54:51 +01:00 |
|
|
|
7d022c1a52
|
If the indexer name is NULL when creating a column, it now becomes the
column name
|
2016-11-18 15:56:51 +01:00 |
|
|
|
8f724f4f8e
|
Some code refactoring
|
2016-11-09 16:48:00 +01:00 |
|
|
|
43f3c69a40
|
Fixed bug when cloning column with line selection
|
2016-09-21 17:50:21 +02:00 |
|
|
|
a0da984003
|
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
|
2016-09-21 17:28:52 +02:00 |
|
|
|
986f90c59e
|
Fixed bug where column directories weren't closed correctly, leading to
too many file descriptors open, and added error checking when closing
file descriptors
|
2016-09-15 12:18:40 +02:00 |
|
|
|
2d8ac2b035
|
Fixed bug when creating an OBI_IDX column
|
2016-08-11 17:30:32 +02:00 |
|
|
|
38718320f9
|
First version for the association of one column to another. Closes #55
|
2016-07-15 15:38:49 +02:00 |
|
|
|
799b942017
|
Deleted old debugging print
|
2016-06-03 18:57:32 +02:00 |
|
|
|
e681ca646d
|
Fixed a problem with some columns being shorter in views and triggering
errors when trying to get values. Temporary fix that needs discussion
|
2016-05-20 18:45:29 +02:00 |
|
|
|
8ae7644945
|
First version of quality handling (not working yet) and now it is
checked that a column is writable before enlarging it
|
2016-05-11 16:38:14 +02:00 |
|
|
|
f3b20b809d
|
Fixed bug with indexer names being defined and generating seg fault if
creating a column not using indexers
|
2016-04-27 14:01:36 +02:00 |
|
|
|
66045acf1d
|
Creating a column now uses the function to create the indexer name if
one was not provided
|
2016-04-22 17:47:00 +02:00 |
|
|
|
ffa4557928
|
changed MAP_PRIVATE flags to MAP_SHARED when opening a column because it
seems a lot more efficient
|
2016-04-22 16:26:24 +02:00 |
|
|
|
003cd11362
|
Fixed initialization of NA values for OBI_STR and OBI_SEQ columns
|
2016-04-22 16:14:23 +02:00 |
|
|
|
c87227b65a
|
Uncommented an error message that doesn't need to be commented anymore
|
2016-04-22 16:11:56 +02:00 |
|
|
|
2aafecc3b5
|
Changed sequence 'description' to 'definition' everywhere
|
2016-04-15 16:31:43 +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 |
|
|
|
71492ad229
|
Made the handling of listing and unlisting opened columns and indexers
functions in the obidms files.
|
2016-04-15 10:49:12 +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 |
|
|
|
d8107533d8
|
Obiblob_indexer API
|
2016-04-12 14:53:33 +02:00 |
|
|
|
019dfc01b4
|
Branch to refactor and debug (AVLs bugged)
|
2016-04-08 15:38:57 +02:00 |
|
|
|
4085904362
|
Merge branch 'multiple_avls_bloom'
|
2016-03-22 14:14:10 +01:00 |
|
|
|
b04b4b5902
|
made POSIX compliant
|
2016-03-21 11:33:06 +01:00 |
|
|
|
3681cecb4d
|
Multiple AVLs with bloom filters (very raw test version)
|
2016-03-18 11:06:02 +01:00 |
|
|
|
545ed8111a
|
Code for tests storing data in multiple AVLs.
(note: unretrievable data as implemented)
|
2016-03-11 15:34:55 +01:00 |
|
|
|
a8f03248a8
|
Major update : views
|
2016-02-18 10:38:51 +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 |
|
|
|
d6a99bafea
|
Fixed a major bug with the versioning of columns that was introduced in
f6ec8ba9
|
2015-11-23 13:34:51 +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 |
|
|
|
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 |
|
|
|
c4b7e579cf
|
Comments in column headers are now working.
|
2015-11-10 10:56:45 +01:00 |
|
