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e29dacc1ba
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change default of output options and add the actual printing of the column sequence
Former-commit-id: bc3adf7ddecca3683def980ffc8a8bd63410ab3a
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2023-06-07 17:47:06 +02:00 |
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7f08f58336
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several correction in obitag and adds the --save-db option
Former-commit-id: b3a15b1a1b3971388a8749faaba519028f6e976c
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2023-06-07 17:45:11 +02:00 |
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8895381c92
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Correct a bug when sequence length is shorter than kmer size in debruijngraph
Former-commit-id: 56cd670d24065d8774abdcbf685ff4a13e7c4132
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2023-06-07 17:43:32 +02:00 |
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68a290d564
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Update install_obitools.sh
Former-commit-id: c0a6d779f1a4e94548f3c30f2ba4ba8e8878f16f
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2023-06-06 10:13:13 +02:00 |
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3e27c1f432
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Update install_obitools.sh
Former-commit-id: 31f640c6ef2e7fc5faa472b773f8cdd9a9cdb309
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2023-06-06 10:11:37 +02:00 |
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19e43e8916
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Update install_obitools.sh
Former-commit-id: 47a81f78f528c08abf8d4098f1c5b9052c6b3759
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2023-06-06 10:02:24 +02:00 |
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c6b59c0c80
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Update install_obitools.sh to print on stderr
Former-commit-id: 830b4b12b2462bc73ad7a97718741c0f68899034
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2023-06-06 09:21:16 +02:00 |
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f6628a1ba2
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Update install script
Former-commit-id: 0dc6b22490fe6228e0099bd96fb1c53ee2754f03
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2023-05-23 10:09:42 +02:00 |
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670876d3a4
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adds info
Former-commit-id: 89de557379f688ae23bfdb48b1a8ce35f57b6091
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2023-05-05 14:15:05 +02:00 |
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e9574bae07
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Small change to increase efficiency (a little)
Former-commit-id: fa54c9bf82b8ba60653255ab2a5f671619dcfdcb
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2023-05-05 13:33:15 +02:00 |
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3778ae9266
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Correction a a bug and transfert of the new matching rules from obirefidx to obitag
Former-commit-id: a28540f72a504ad4e7e8a8b6f7609116913445b4
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2023-05-05 07:37:19 +02:00 |
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88a9e38952
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Took better advantage of taxonomy structure and LCA upperbound base on common word. Accelleration by a factor two of obirefidx compared to previous version.
Former-commit-id: 35f40498d642058e9dbff20128d11303a314018d
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2023-05-04 09:32:47 +02:00 |
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870cb1aabb
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New refdb indexing algorithm
Former-commit-id: 7ae480cec5d277a08620a2e666b5c9b69bb6cd73
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2023-05-03 15:32:31 +02:00 |
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e8bd130ffc
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Tagging of the 4.0.3 version.
Former-commit-id: 347d9d3340d722846e69569a8eccad40344ae00d
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2023-05-02 11:02:58 +02:00 |
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bffcab1096
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Complete release notes and change obiannotate options accordingly
Former-commit-id: 947db1f4606d57893cf758df57a4c954e3949e6b
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2023-05-02 11:01:26 +02:00 |
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60c187404d
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Restore old obisort and add LCA functionnality to obiannotate.
Former-commit-id: aecaacc9dae49f74bd888a8eb8140822d31a42a6
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2023-05-02 10:43:22 +02:00 |
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e9dcacbf24
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Correction of one base deletion in the consensus
Former-commit-id: 6aabd8bfdb5263a2285718cb2eca27628c0e717c
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2023-04-19 09:12:12 +02:00 |
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450e54f4aa
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Rename forward and reverse mitmatches tags
Former-commit-id: faa0f41bf725da3c416326572cc90701704092da
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2023-04-18 12:08:13 +02:00 |
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9bac7f387a
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Patch a bug in the help messages
Former-commit-id: 61ffea65db66215c072139540ec19c11c52efbbc
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2023-04-17 11:32:10 +02:00 |
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71023423e6
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Add a new command obitagpcr able to tag reads according to their corresponding pcr samples
Former-commit-id: 1f34bf0a27d55afc3556efd64f6ccee6d2329aff
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2023-04-07 17:45:22 +02:00 |
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dbf69b7da5
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Patch a bug in obiseq.GetSlice
Former-commit-id: ab1a49c3d9bf19585e36842ecc15fa17afbcbf57
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2023-04-07 17:44:11 +02:00 |
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74babcec55
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adds the contains function to the language
Former-commit-id: 5fb3629b56aa0180c388333e4bfbbd199edf4cf2
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2023-04-07 16:54:57 +02:00 |
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d70bb45f3f
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Small change in parallelisation tuning
Former-commit-id: 3fe2495b7fd86a0ba47dd87907323a457bae481a
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2023-04-05 14:15:47 +02:00 |
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2e7fc9a589
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Release 4.0.2
Former-commit-id: e516cce018691172afae26147282b4b9702f44c2
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2023-03-31 15:56:37 +02:00 |
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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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84b3e4d097
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Reduce memomry inprint of obipcr
Former-commit-id: bd25be2d454f083c729346a828e27f07ad1a216e
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2023-03-31 10:53:53 +02:00 |
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2c9bca5c8a
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realease-notes
Former-commit-id: 0f8e6959e3c8dea279b76bf6668b743151a9ada7
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2023-03-29 11:16:25 +07:00 |
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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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446ba06c63
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edited .gitignore
Former-commit-id: 7090da08a2acd8d73d3c9e3aced387862bcc9822
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2023-03-28 21:31:31 +07:00 |
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0746c95f4f
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Update the package dependencies
Former-commit-id: e3fecfd65ec03f3a354338f16c52c130ea25c7f9
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2023-03-28 21:30:25 +07:00 |
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4bf041be62
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Add some option to the obiconsensus command
Former-commit-id: cf30a404a4943e4527106c977b01712ef454e028
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2023-03-28 21:23:27 +07:00 |
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e863dc456a
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Add an option --pprof
Former-commit-id: 3ca1280e8daddbf1075e3189f9851211ce8882ae
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2023-03-28 20:07:26 +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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21819cd41e
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Add some geometry data to the GML edges
Former-commit-id: 81022c8b6916819e5351026ebabe9641856cc06d
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2023-03-28 11:43:46 +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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e8a8f746d3
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few bug in the graph algorithm
Former-commit-id: b61bdd9f671e2f5e90d32c1beac1ed84efa5e05c
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2023-03-27 22:43:45 +07:00 |
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245230ae12
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A small correction
Former-commit-id: 2616ea6bc0e288312326bfb2542e24da22876965
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2023-03-27 19:51:38 +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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42aae88520
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complete the correction related to the tag detection
Former-commit-id: 98326fb0f27788de672cdbd686b32b4dc2615038
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2023-03-23 11:52:08 +07:00 |
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57474214e7
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Patch excessive log in obimultiplex and an error in detecting the tag.
Former-commit-id: e6f427ac743cae373247a15bf49b0a27273b2569
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2023-03-23 11:40:24 +07:00 |
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98eac2360c
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adds a rule to update packages and push the corresponding updates module files
Former-commit-id: 1ffa805e74571f9d970dcb185f187dd586c1a190
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2023-03-21 22:02:18 +07:00 |
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7ed567fbad
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Make the --help or -h options working when mandatory options are declared
Former-commit-id: db502ff81dcf20449d126978fcebf890edb814ae
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2023-03-21 22:01:20 +07:00 |
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d09011fac2
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Finalyse the obimultiplex with indels
Former-commit-id: cef0ac39dac0e02d16d4bd321966a0f8a67f2c85
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2023-03-21 22:01:02 +07:00 |
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27d6c60e25
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Add the possibility to look for patterns allowing indels.
Former-commit-id: 0599c2b0ad16df086dbdb08e491503870d8904be
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2023-03-20 15:28:24 +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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1e7756ec91
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Add comment on release notes
Former-commit-id: 79bc0a68e46c92cfac60d1cf25604a1bcba0ba34
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2023-03-07 17:36:35 +07:00 |
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9a48614a9b
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Merge branch 'master' of git.metabarcoding.org:obitools/obitools4/obitools4
Former-commit-id: 45c52be778d3d5c61db438c18c38a85171be86cd
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2023-03-07 17:34:34 +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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42cf8cea73
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Update README.md
Former-commit-id: c2d9f79cceb8f059f65a417bea5041fc2abc362b
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2023-03-07 05:50:19 +01:00 |
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