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3f69fa41d6
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Patch a bug for multiple amplicon per sequence.
Former-commit-id: b252d2de8e1a85d65c2951aa1958ee038e35741d
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2023-03-31 15:10:25 +02:00 |
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e7b9ba3f30
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Limit allocation during genbank parsing
Former-commit-id: eee3c1fa7ffb79943109ee32dbf21e78bf11b14f
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2023-03-28 22:42:58 +07:00 |
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988ae79989
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Optimize memory allocation of the apat algorithms
Former-commit-id: 5010c5a666b322715b3b81c1078d325e1f647ede
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2023-03-28 19:37:05 +07:00 |
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bc82422bc5
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Reduce redundante call to bytes.ToLower and substitute the last call by an home made version doing the conversion in place
Former-commit-id: d9ea22f649d97be352f8dbb37acc1495df830118
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2023-03-28 11:43:04 +07:00 |
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a33e471b39
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First attempt for obiconsensus... The graph traversing algorithm is too simple
Former-commit-id: 0456e6c7fd55d6d0fcf9856c40386b976b912cba
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2023-03-27 19:51:10 +07:00 |
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d5e84ec676
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rename goutils to obiutils
Former-commit-id: 2147f53db972bba571dfdae30c51b62d3e69cec5
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2023-03-24 10:25:12 +07:00 |
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5fbe52368c
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Patch the empty batch bug
Former-commit-id: fcee04b58f2c4a0bf2c27792f991391c0b6ce78e
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2023-03-07 20:16:06 +07:00 |
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b3922c3896
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Produce less weird crash on non existing files
Former-commit-id: 74bb27bd53c685be530632994bd2ba24c1f362e1
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2023-03-07 17:34:25 +07:00 |
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d88de15cdc
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Refactoring codes for removing buffer size options. An some other changes...
Former-commit-id: 10b57cc1a27446ade3c444217341e9651e89cdce
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2023-03-07 11:12:13 +07:00 |
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072b85e155
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change the model for representing paired reads and extend its usage to other commands
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2023-02-23 23:35:58 +01:00 |
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56722895e4
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Adds to every obitools the ability to save in gzip compressed files
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2023-02-18 12:06:52 +01:00 |
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d04eb915b3
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adds a directory option to obidistribute
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2023-02-17 22:52:53 +01:00 |
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9554a32490
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Add capacity to obidistribute to save gzipped files
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2023-02-17 12:52:19 +01:00 |
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8458c0cd8b
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Patch a bug in the genbank reader for the sequence longer than 10kb.
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2023-02-17 10:54:03 +01:00 |
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2975042982
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Adds the possiblility to append to files to obidistribute
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2023-02-16 16:13:13 +01:00 |
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f56363a100
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Patch an embl/genbank parser error
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2023-02-16 13:30:42 +01:00 |
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8b70b1a5d8
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Last bug on sequence writing
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2023-02-08 13:56:50 +01:00 |
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526bf79c7f
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Patch for some lost of data during sequence writing
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2023-02-08 13:14:26 +01:00 |
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e5835310cc
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Simplify code of the JSON header formater
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2023-01-31 17:16:55 +01:00 |
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57c7187e6d
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Patch the JSON header formater
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2023-01-31 17:15:10 +01:00 |
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2d375df94f
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move the worker class to the obiseq package
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2023-01-22 22:39:13 +01:00 |
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f97f92df72
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rename the iterator class
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2023-01-22 22:04:17 +01:00 |
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20b16c0ba1
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Force sequence reading to produce lowercase sequences.
Adds two columns to the obiclean ratio csv file
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2022-11-22 15:06:09 +01:00 |
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29563aa94e
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Rename the Length methods Len to follow GO standart
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2022-11-17 11:09:58 +01:00 |
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09fc426b67
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Refactoring related to iterators
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2022-11-16 17:13:03 +01:00 |
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6f853da9df
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Remove single sequence ierators. Only batch iterators persist
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2022-11-16 10:58:59 +01:00 |
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7f863fb383
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Prevens errors on FASTA formating an empty sequence
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2022-11-16 09:22:55 +01:00 |
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65210755cc
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Patch reading of annotation from stdin
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2022-09-29 14:48:05 +02:00 |
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fe5d8e3340
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Patch a bug in ngsfilter reading and sample matching
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2022-09-28 14:29:19 +02:00 |
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ebefa28cc0
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Patch memory error related to []byte pool
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2022-09-28 14:28:37 +02:00 |
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49b4d97803
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Remove HTML escaping to json marshaling
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2022-09-20 22:01:52 +02:00 |
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989e678f6b
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refactor code and change algorithm used to read from many files
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2022-08-23 15:07:06 +02:00 |
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5a81525e46
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Adds a genbank parser
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2022-08-23 11:04:57 +02:00 |
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9677f531c4
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Improved performance and ability to read very long sequences.
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2022-08-21 13:38:13 +02:00 |
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5dd835d3e7
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A first functional version of obiclean
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2022-08-20 18:01:07 +02:00 |
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b4cabf31fc
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Correctly print StatsOn values in obiformat style
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2022-06-14 10:00:45 +02:00 |
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f14860a486
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Patch header parting and formatiing
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2022-05-27 11:53:29 +03:00 |
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abcf02e488
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Start to use leveled log
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2022-02-24 12:14:52 +01:00 |
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eaf65fbcce
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Some code refactoring, a new version of obiuniq more efficient in memory and a first make file allowing to build obitools
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2022-02-24 07:08:40 +01:00 |
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2e7c1834b0
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Big change iin the data model, and a first version of obiuniq
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2022-02-21 19:00:23 +01:00 |
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9737f97084
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before big changes
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2022-02-18 22:53:09 +01:00 |
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3586ecc483
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second version of obidistribute and a first buggy version of obiuniq
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2022-02-15 00:47:02 +01:00 |
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b931321ba1
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Adds the hash option to obidistribute
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2022-02-14 09:12:57 +01:00 |
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eb32620bb3
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Adds a first version of a new obidistribute command
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2022-02-14 00:01:01 +01:00 |
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bd630ea512
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Forget the binary writer
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2022-02-09 22:00:38 +01:00 |
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38e4655f38
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Correct for a strange bug...
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2022-02-07 11:51:35 +01:00 |
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98a4363d22
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obimultiplex saves unassigned sequence
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2022-02-01 23:25:19 +01:00 |
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8dbda68746
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Adds the command obimultiplex
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2022-02-01 17:31:28 +01:00 |
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4551df08b1
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Adds a reader for NGS filter files and change some API for the apat library
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2022-01-18 13:09:32 +01:00 |
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576a9f4d2d
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A global version of a Slice pool
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2022-01-16 00:21:42 +01:00 |
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