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f2ece573ff
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Removed deprecated command
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2017-10-04 16:09:41 +02:00 |
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fb9b219abe
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Fixed a bug with taxonomy URIs not being read correctly
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2017-10-04 16:00:30 +02:00 |
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09a5f89849
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Column API: improvements to be more flexible when referring to elements
in columns with several elements per line.
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2017-10-04 15:59:23 +02:00 |
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535692b020
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Taxonomy: new functions and improvements
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2017-10-04 15:55:13 +02:00 |
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0ab081f79e
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Updated obi test to work with changes in taxonomy API
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2017-10-04 15:50:32 +02:00 |
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1cb05de7e3
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Basic obi less
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2017-10-04 15:46:26 +02:00 |
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532d8e9cd7
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obi import: small efficiency improvement when dealing with NA values
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2017-10-04 15:44:48 +02:00 |
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b4088a7928
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Cython API: Added basic taxonomy option
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2017-10-04 15:42:17 +02:00 |
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ae24a807da
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obi uniq: added the option to merge ids, except it only works on small
sets until lists are implemented properly using obiblobs
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2017-09-25 17:28:03 +02:00 |
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75c15594c4
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obi uniq: added option to use categories additionally to the sequence to
determine uniqueness
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2017-09-25 10:56:43 +02:00 |
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5ed6835e0e
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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)
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2017-09-25 10:52:19 +02:00 |
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41dec03448
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Merge branch 'master' of git@git.metabarcoding.org:obitools/obitools3.git
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2017-09-18 16:08:31 +02:00 |
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7c57bd33e5
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Added check to prevent views from having the name 'taxonomy' (used for
URIs)
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2017-09-15 14:54:55 +02:00 |
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a776e46e6d
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Add the command name in the log
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2017-09-15 14:51:13 +02:00 |
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0e140df0fb
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Cython API: added some imports in __init__ files
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2017-09-14 18:30:04 +02:00 |
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4bb071c048
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Merge branch 'master' of
git@git.metabarcoding.org:obitools/obitools3.git
Conflicts:
python/obitools3/commands/import.pyx
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2017-09-05 08:59:45 +02:00 |
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5045d0c2e9
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xxx
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2017-09-05 08:58:07 +02:00 |
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73bca6288f
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New obi uniq
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2017-08-20 18:04:21 +02:00 |
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6a2759eee6
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obi import with new input/ouput API
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2017-08-20 17:58:36 +02:00 |
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38029b1f77
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Forgot a ;
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2017-08-20 17:56:18 +02:00 |
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663a1a1091
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Cython API: column elements: added possibility to check if an element
exists from its index, and a dict-like get() method
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2017-08-20 17:44:05 +02:00 |
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c6d5436a58
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Cython API: fixed a bug where iteration on a NUC_SEQS view would not be
done correctly (bug appeared with optimization modifications done
lately)
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2017-08-20 17:41:41 +02:00 |
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47cad285d6
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Cython API: fixed 2 little bugs in Seq API
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2017-08-20 17:39:30 +02:00 |
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74f15d1a23
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Cython API: Various fixes in input handlers (parsers, openers etc).
Mostly working but not bug-free
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2017-08-20 17:37:51 +02:00 |
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c559ddf487
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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
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2017-08-20 17:30:23 +02:00 |
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93cff94e7f
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Fixed some compilation warnings
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2017-08-20 17:25:58 +02:00 |
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9744a48a67
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BUG FIX: seemingly identical obiblobs would have different hash values
because of the padding added by the compiler. Fixed by using calloc
instead of malloc for obiblob memory allocation.
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2017-08-20 17:25:15 +02:00 |
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6afdc9fb5f
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AVLs: Added an error check
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2017-08-20 17:21:06 +02:00 |
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6f202363f4
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Fixed a typo in doc
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2017-08-20 17:20:13 +02:00 |
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7f1ff49aa2
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Cython API to import a column and a view from a DMS to another DMS
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2017-08-03 16:34:02 +02:00 |
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4b86aa67a8
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New C functions to import a column and a view from a DMS to another DMS
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2017-08-03 16:33:12 +02:00 |
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a3e81930c2
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Views: finished handling and documenting the conditions for an existing
column to be added to a view
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2017-08-03 16:32:22 +02:00 |
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644b55b49f
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Fixed doc typo
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2017-08-03 16:29:25 +02:00 |
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927c684fc2
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Utils: new function to copy the content of a file into another file
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2017-08-03 16:28:54 +02:00 |
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344566d9e9
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AVLs: made some functions public and changed some rights to be able to
import AVLs from a DMS to another
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2017-08-03 16:27:43 +02:00 |
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407f61a408
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Add the possibility to create temporary objects like a temporary
directory and a temporary DMS
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2017-07-28 16:33:19 +02:00 |
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09ddd74652
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Merge branch 'master' of git@git.metabarcoding.org:obitools/obitools3.git
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2017-07-28 15:57:01 +02:00 |
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7c0d882bc9
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Patch a bug when creating a DMS not in the current directory. Use the
basename function to locate the DMS name instead of the loop...
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2017-07-28 15:56:21 +02:00 |
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35b0c55a8c
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Cython API: various improvements and checks
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2017-07-28 13:15:13 +02:00 |
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b9c65a871f
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Patch decoding of URL
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2017-07-28 12:41:28 +02:00 |
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84bb93096f
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Cython API: fixes and improvements in Column API
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2017-07-28 10:27:04 +02:00 |
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01c69e7e25
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Cython API: fixed a bug when printing a column
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2017-07-28 10:01:56 +02:00 |
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adf5cbef97
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Added DMS method to create a DMS if it doesn't already exists, otherwise
opens it
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2017-07-28 09:55:43 +02:00 |
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da48a9d1af
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Patch group of option : types must be callable not a string
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2017-07-28 09:36:18 +02:00 |
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9482c663c0
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minor comments and changes
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2017-07-27 19:46:34 +02:00 |
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c5f3fdc295
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Increased maximum element names length in columns
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2017-07-27 19:44:49 +02:00 |
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89e2f80fd8
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Goes with previous commit
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2017-07-27 19:43:00 +02:00 |
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7112f44fb7
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Bug fixes for input handlers, openers, parsers etc. Compiling but not
tested
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2017-07-27 19:42:44 +02:00 |
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b2fc1f4611
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obi uniq: first version
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2017-07-27 19:40:19 +02:00 |
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75f691d55a
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Cython API: Seq classes reworked
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2017-07-27 19:39:58 +02:00 |
|
