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49b8810a76
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C: made indexer opening/closing cleaner
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2020-06-13 21:47:03 +02:00 |
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7a39df54c0
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ls: fixed an issue where big DMS couldn't be read by ls
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2020-06-13 21:45:22 +02:00 |
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09e483b0d6
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switch to temporary version 3.0.0b24a
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2020-06-10 17:47:56 +02:00 |
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14a2579173
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uniq: now outputs an empty view if input view is empty instead of
displaying an error
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2020-06-10 17:47:26 +02:00 |
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36a8aaa92e
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grep: now creating empty views instead of displaying an error when
selecting on an unexisting column/tag
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2020-06-10 16:57:42 +02:00 |
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a17eb445c2
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ngsfilter: made one of the tag error messages more accurate
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2020-06-10 16:27:36 +02:00 |
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e4a32788c2
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Switch to version 3.0.0b24
v3.0.0b24
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2020-06-09 14:36:58 +02:00 |
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2442cc80bf
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Cython: View: fixed bash history display
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2020-06-09 14:36:37 +02:00 |
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aa836b2ace
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uniq: improved progress bar of second browsing
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2020-06-09 14:36:02 +02:00 |
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8776ce22e6
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C: fixed a bug where indexers referring to tuples of certain types were
not properly closed and imported
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2020-06-09 14:34:43 +02:00 |
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4aa772c405
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ecotag: Added list of taxids for all best matches (closes #80)
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2020-06-09 14:33:14 +02:00 |
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b0b96ac37a
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version 3.0.0b23a
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2020-06-05 16:10:24 +02:00 |
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687e42ad22
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C: kmer alignment: fixed a bug where scores of 0 were at
(0+kmer_length-1) (and now setting alignment direction to None if score
is 0
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2020-06-05 16:09:33 +02:00 |
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5fbbb6d304
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alignpairedend: fixed a bug when rebuilding joined (unaligned) sequences
where only the forward sequence was kept
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2020-06-05 16:06:43 +02:00 |
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359a9fe237
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Switch to version 3.0.0b23
v3.0.0b23
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2020-06-04 15:35:03 +02:00 |
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f9b6851f75
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Python: correctly flagged some mandatory options as required
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2020-06-04 15:34:24 +02:00 |
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29a2652bbf
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Fixed installation on Ubuntu without pip
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2020-06-04 15:06:35 +02:00 |
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2a2c233936
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obi import: fixed a bug when skipping an entry
v3.0.0b22
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2020-05-29 21:19:42 +02:00 |
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faf8ea9d86
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Switch to version 3.0.0b21
v3.0.0b21
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2020-05-28 20:42:09 +02:00 |
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ffe2485e94
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Genbank parser: now reading ORIGIN lines with comments without
triggering error
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2020-05-28 20:41:34 +02:00 |
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6094ce2bbc
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obi import: skip on error more robust
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2020-05-28 20:40:36 +02:00 |
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a7dcf16c06
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Minor changes for pip release
v3.0.0b20
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2020-05-20 15:59:04 +02:00 |
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f13f8f6165
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obi import: minor doc/display improvements
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2020-05-20 11:46:29 +02:00 |
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b5a29ac413
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Switch to version 3.0.0b19
v3.0.0b19
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2020-05-20 10:29:36 +02:00 |
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efd2b9d338
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Cleaner installation
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2020-05-20 10:29:12 +02:00 |
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ca6e3e7aad
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obi import: fixed to work with seq genbank extension
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2020-05-20 10:28:14 +02:00 |
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76ed8e18e5
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Switch to version 3.0.0b18 with version formatting that fits setuptools
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2020-05-18 17:08:55 +02:00 |
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1d17f28aec
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setup: now using setuptools instead of distutils to work with pip
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2020-05-18 17:08:09 +02:00 |
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fa834e4b8b
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obi import: small bug fix
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2020-05-18 17:06:58 +02:00 |
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a72fea3cc9
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Python: fasta parser: fixed a bug stopping the program when the last
line contained a single nucleotide
v3.0.0-beta17
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2020-05-12 11:24:12 +02:00 |
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e9a37d8a6e
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Switch to version 3.0.0-beta16
v3.0.0-beta16
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2020-05-07 17:09:26 +02:00 |
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ef074f8455
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typo
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2020-05-07 17:08:59 +02:00 |
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aec5e69f2c
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C, views: no more automatic COUNT column if MERGED_sample column exists
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2020-05-07 17:08:07 +02:00 |
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170ef3f1ba
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Views: added obi prefix to commands in bash history
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2020-05-07 17:07:01 +02:00 |
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f999946582
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obi uniq: fixed the remerging of already merged informations, and
efficiency improvements
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2020-05-07 17:05:54 +02:00 |
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773b36ec37
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obi import: fixed the import of old obitools files with premerged
informations, and other minor improvements
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2020-05-07 17:03:04 +02:00 |
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69cb434a6c
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version 3.0.0-beta15c
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2020-04-29 14:25:33 +02:00 |
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55d4f98d60
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obi annotate: fixed annotation at ranks
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2020-04-29 14:24:40 +02:00 |
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0bec2631e8
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ecotag: fixed a bug where all the full DMS path weren't properly sent to
the C layer
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2020-04-29 10:35:55 +02:00 |
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e6b6c6fa84
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AVLs: Made an error message more informative
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2020-04-29 10:14:04 +02:00 |
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974528b2e6
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build_ref_db: fixed bug erasing some of the higher LCAs (i.e. lowest
similarities)
v3.0.0-beta15
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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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67bdee105a
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C: build_ref_db: added progress display for each step
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2020-04-18 14:24:08 +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
v3.0.0-beta14
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2020-04-15 17:47:26 +02:00 |
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343999a627
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Taxonomy: fixed a critical memory bug when building the list of merged
taxids
|
2020-04-15 17:46:13 +02:00 |
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