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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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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)
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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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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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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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343999a627
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Taxonomy: fixed a critical memory bug when building the list of merged
taxids
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2020-04-15 17:46:13 +02:00 |
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e9a40630e9
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C: Columns: rounding column growth to ceil to avoid looping on small
values
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2020-04-13 19:02:10 +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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b6ab792ceb
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C: made error message more detailed when checking that sequences and
qualities match
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2020-04-12 17:40:24 +02:00 |
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e62c991bbc
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goes with previous commit
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2020-04-10 11:22:26 +02:00 |
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1218eed7fd
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ecopcr: now printing a warning instead of interrupting with an error
when a taxid is not found
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2020-04-10 11:22:04 +02:00 |
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98cfb70d73
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ecopcr: made some errors more informative
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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)
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2020-04-05 18:40:56 +02:00 |
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d32cfdcce5
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ecotag: fixed the generated column comments formatting that would
generate errors
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2020-02-12 14:23:17 +01:00 |
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1bfb96023c
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obi import: rewriting a column now deletes the old one to save disk
space
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2020-02-01 15:31:14 +01:00 |
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d0c21ecd39
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Removed an OpenMP clause that was not obligatory and triggered a known
gcc bug involving macros
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2020-01-24 16:00:53 +01:00 |
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b4b2e62195
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Cleaner handling of reverse quality columns
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2020-01-18 19:28:12 +01:00 |
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5c9091e9eb
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C: closing DMS after cleaning it instead of counting on upper layer
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2020-01-18 17:27:35 +01:00 |
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b9cd9bee9a
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C: Changed obibool definitions because of conflict with R
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2020-01-06 15:11:31 +01:00 |
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6c018b403c
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ecopcr: fixed and improved the options to keep nuclotides around the
amplicon
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2019-12-26 20:45:54 +01:00 |
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3b3cf9359d
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CMake: unset gcc for nix
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2019-09-26 21:04:42 +02:00 |
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6282242a04
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C: Views: fixed a bug when trying to add a comment after changing the
file name of a finished view
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2019-09-25 11:39:32 +02:00 |
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44517db51f
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Fixed gcc warnings
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2019-09-25 11:38:00 +02:00 |
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ec0737a600
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Added signal catching and handling in C and Cython
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2019-09-21 16:47:22 +02:00 |
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783a1343c4
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DMS are now locked when used by a command. Added checks and changed
cleaning mechanisms.
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2019-09-20 20:37:19 +02:00 |
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eb913b2742
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ecotag: trying to use a threshold lower than the ref db threshold now
returns an error instead of a warning
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2019-09-15 19:27:47 +02:00 |
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bc55c5ef8c
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obi clean: fixed an openmp bug where the share size would be 0 blocking
the program
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2019-09-10 15:37:33 +02:00 |
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f3b0e10c7f
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fixed a comment
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2019-09-10 14:42:12 +02:00 |
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8f9f2a2d10
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obi ls: various improvements
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2019-09-10 14:41:43 +02:00 |
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ad3a72597f
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Little fixes for linux compilation
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2019-09-05 17:19:29 +02:00 |
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5e3c41b058
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C: Fixed opened DIR leak
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2019-09-04 16:48:13 +02:00 |
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b3a1011d36
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C: fixed a bug when opening or creating a new column directory where the
DMS was not saved in the struct
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2019-09-04 13:16:28 +02:00 |
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a7fabff1c7
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C: made it so column DIR* are not kept open to handle very large DMS
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2019-09-04 12:55:21 +02:00 |
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f296517716
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Various display improvements
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2019-09-03 21:46:39 +02:00 |
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d491480af2
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C: fixed remaining memory bug in array indexer
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2019-09-01 17:24:57 +02:00 |
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073d98db08
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C: ecotag: now prints a warning if the demanded threshold is lower than
the db threshold
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2019-08-31 18:30:06 +02:00 |
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0ee728c4d0
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C: build_ref_db: now adds a comment with the threshold used to build the
DB
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2019-08-31 18:29:40 +02:00 |
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7423bacac0
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C: Json comments: added an obi_read_comment function to read one value
from comments
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2019-08-31 18:28:51 +02:00 |
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e43e49d6f1
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C: optimized dir opening
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2019-08-29 16:35:10 +02:00 |
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99a397b842
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obi uniq: various improvements and fixes #66
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2019-08-27 20:27:36 +02:00 |
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f5c472ffd1
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C: fixed a memory bug in the array indexer
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2019-08-27 20:26:46 +02:00 |
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ae5f42c260
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fixes #61 : now reading merged taxids information when building a
reference database
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2019-08-19 12:30:56 +02:00 |
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af7cecf59f
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Fixed a bug where a directory was not closed properly resulting in errno
24 sometimes
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2019-08-18 19:46:52 +02:00 |
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5f20be44b2
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Minor fixes
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2019-08-18 19:45:53 +02:00 |
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9f38cd8cf6
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updated a comment
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2019-07-23 19:03:24 +02:00 |
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946f9723b8
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ecotag: fixed a bug where the wrong taxid for the best match was
retrieved
|
2019-07-23 19:02:17 +02:00 |
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d99702f56f
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ngsfilter and alignpairedend: paired-end reads are now correctly
reversed and labeled to be aligned correctly by alignpairedend
|
2019-07-23 18:56:51 +02:00 |
|
