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974528b2e6
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build_ref_db: fixed bug erasing some of the higher LCAs (i.e. lowest
similarities)
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2020-04-28 15:56:06 +02:00 |
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1b346b54f9
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ecotag: better specificity by now correctly looking for similarities
within refs above best score instead of ecotag threshold
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2020-04-28 15:10:07 +02:00 |
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058f2ad8b3
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ecopcr: fixed a bug where sequences were considered circular (generating
false positives)
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2020-04-27 14:44:35 +02:00 |
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60bfd3ae8d
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obi annotate: now defaults to setting str if expression is not valid
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2020-04-24 11:35:20 +02:00 |
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0f745e0113
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C: Columns: optimizing column file growth
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2020-04-18 13:55:47 +02:00 |
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da8de52ba4
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export: fixed progress bar bug
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2020-04-17 15:09:10 +02:00 |
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4d36538c6e
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C: SSE lcs alignment: band-aid for memory bug I don't understand
(triggered on specific db on ubuntu)
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2020-04-17 15:07:52 +02:00 |
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8d0b17d87d
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Switch to version 3.0.0-beta14
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2020-04-15 17:47:26 +02:00 |
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8dbcd3025a
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C: Columns: reduced column growth factor from 2 to 1.3 to avoid errno28
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2020-04-13 14:47:56 +02:00 |
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4cf635d001
|
Switch to version 3.0.0-beta13
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2020-04-12 17:42:58 +02:00 |
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ddea5a2964
|
obi import: fixed inconsequential error when precomputing number of
entries in some formats
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2020-04-12 17:38:42 +02:00 |
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30852ab7d5
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View bash history: removed useless shebang
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2020-04-12 17:36:04 +02:00 |
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4d0299904e
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all commands (almost): cleaner DMS closing at the end
|
2020-04-12 17:31:58 +02:00 |
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eef5156d95
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obi stats: fixed error when printing bool keys
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2020-04-12 17:12:04 +02:00 |
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cd9cea8c97
|
obi import: fixed critical bug where the last entry of embl and genbank
files was not imported
|
2020-04-09 19:26:27 +02:00 |
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98cfb70d73
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ecopcr: made some errors more informative
|
2020-04-09 09:15:28 +02:00 |
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b9f68c76c8
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ecopcr: added warnings and check of primer length (related to #75)
|
2020-04-05 18:40:56 +02:00 |
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0b98371688
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ngsfilter: added warning about primer length in -h (#75)
|
2020-04-05 18:39:20 +02:00 |
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f0d152fcbd
|
ngsfilter: now checking primer length (fixes #75)
|
2020-04-05 18:29:10 +02:00 |
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8019dee68e
|
ecotag: now closing all DMS properly
|
2020-04-05 13:20:49 +02:00 |
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0b4a234671
|
Swich to version 3.0.0-beta11
|
2020-02-12 14:23:42 +01:00 |
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219c0d6fdc
|
obi cat: Fixed the handling when concatenating views with dictionaries
having different key sets
|
2020-02-12 14:21:39 +01:00 |
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dc9f897917
|
switch to version 3.0.0-beta10
|
2020-02-02 21:15:27 +01:00 |
|
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|
bb72682f7d
|
obi import: new option --preread to do a first readthrough of the
dataset if it contains huge dictionaries for a much faster import.
|
2020-02-02 21:12:34 +01:00 |
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52920c3c71
|
URI decoding: dirty temp fix for bug where default dms makes a mess when
should guess file
|
2020-02-02 21:11:05 +01:00 |
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18c22cecf9
|
switch to version 3.0.0-beta9
|
2020-02-01 15:48:55 +01:00 |
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1bfb96023c
|
obi import: rewriting a column now deletes the old one to save disk
space
|
2020-02-01 15:31:14 +01:00 |
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c67d668989
|
obi import: fixed a bug when the first entry would contain a dictionary
with one key. Switch to beta8
|
2020-01-29 20:23:39 +01:00 |
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db0ac37d41
|
switch to version 3.0.0-beta7
|
2020-01-29 16:18:53 +01:00 |
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53212168a2
|
History: added 'obi' in bash history for practical reasons
|
2020-01-23 16:51:49 +01:00 |
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b4b2e62195
|
Cleaner handling of reverse quality columns
|
2020-01-18 19:28:12 +01:00 |
|
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ced82c4242
|
Switching to version 3.0-beta6
|
2020-01-18 17:29:23 +01:00 |
|
|
|
a524f8829e
|
New command: obi cat to concatenate views (not optimized yet)
|
2020-01-18 17:28:31 +01:00 |
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822000cb70
|
Fixes in documentation
|
2020-01-18 17:26:18 +01:00 |
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b1f3e082f9
|
ngsfilter: fixed a bug when there is only one tag introduced in latest
edit
|
2020-01-06 13:53:38 +01:00 |
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6c018b403c
|
ecopcr: fixed and improved the options to keep nuclotides around the
amplicon
|
2019-12-26 20:45:54 +01:00 |
|
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|
694d1934a8
|
Tagging version beta3
|
2019-12-12 17:03:13 +01:00 |
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fc3ac03630
|
clean_dms: now works with extension
|
2019-12-12 17:02:50 +01:00 |
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d75e54a078
|
uniq: added forced deletion of reverse sequence quality
|
2019-12-12 17:02:36 +01:00 |
|
|
|
6bfd7441f3
|
ngsfilter: fixed sequence cutting when dealing with unaligned sequences.
Could use optimization
|
2019-12-12 17:01:31 +01:00 |
|
|
|
81a179239c
|
ngsfilter: fixed sequence cut bug on aligned sequences. Still exists for
unaligned sequences
|
2019-12-10 18:13:27 +01:00 |
|
|
|
35ce37c0f7
|
ngsfilter: fixed a bug with unaligned chimeras (unpaired primers) and
made error annotations more explicit
|
2019-12-10 13:43:32 +01:00 |
|
|
|
53f18316b0
|
ngsfilter: made more robust and practical to use with empty tags
|
2019-11-29 15:21:08 +01:00 |
|
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|
8bc249b2f4
|
Version 3.0.0-beta1
|
2019-09-27 14:52:05 +02:00 |
|
|
|
e308c2e822
|
versioning 1.0.beta
|
2019-09-26 21:05:05 +02:00 |
|
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be85c55c9e
|
Python: URIs: fixed bug on linux systems
|
2019-09-25 14:41:52 +02:00 |
|
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|
44517db51f
|
Fixed gcc warnings
|
2019-09-25 11:38:00 +02:00 |
|
|
|
28b7fce59a
|
Cython API: simpler column repr display
|
2019-09-22 20:23:31 +02:00 |
|
|
|
fa9555deb9
|
obi stats: fixed bug with None values
|
2019-09-22 20:21:53 +02:00 |
|
|
|
d30f7e7317
|
more cleaning
|
2019-09-22 18:52:05 +02:00 |
|
