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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
|
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
|
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
|
2019-08-31 18:28:51 +02:00 |
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e43e49d6f1
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C: optimized dir opening
|
2019-08-29 16:35:10 +02:00 |
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99a397b842
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obi uniq: various improvements and fixes #66
|
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
|
fixes #61 : now reading merged taxids information when building a
reference database
|
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
|
2019-08-18 19:46:52 +02:00 |
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5f20be44b2
|
Minor fixes
|
2019-08-18 19:45:53 +02:00 |
|
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9f38cd8cf6
|
updated a comment
|
2019-07-23 19:03:24 +02:00 |
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946f9723b8
|
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 |
|
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1759302829
|
C: ecotag: fixed 2 memory bugs
|
2019-07-06 16:31:19 +02:00 |
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86bfa96fbe
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C: kmer similarity: small improvements
|
2019-07-06 16:30:32 +02:00 |
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3d9f0352ff
|
obiclean parallelized
|
2019-06-20 19:44:04 +02:00 |
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9b4c3537f9
|
multithreaded obiclean working but not cleaned
|
2019-06-19 17:29:58 +02:00 |
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fd0b7a9177
|
j loop with critical (untested)
|
2019-06-04 17:14:36 +02:00 |
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debf59b266
|
i loop parallelized: bad
|
2019-05-25 18:37:56 +02:00 |
|
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a04588da31
|
openmp on j loop (i loop probably better)
|
2019-05-24 16:51:04 +02:00 |
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ed5bb70c80
|
CMake: setting compiler higher to avoid conflicts, and linking libopenmp
|
2019-05-22 16:26:30 +02:00 |
|
|
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22a5ae72d1
|
obi clean: not using tsearch library anymore, a simple byte array
instead. A lot more time and memory efficient. Closes #67
|
2019-05-19 17:39:53 +02:00 |
|
|
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3afbbeb7e5
|
CMake: made required version 3.10 for ubuntu
|
2019-03-31 16:54:05 +02:00 |
|
|
|
7f8d1e7196
|
C: obi lcs: cleaner progress print
|
2019-03-31 15:42:58 +02:00 |
|
|
|
26fb149efb
|
C: made build_ref_db cleaner
|
2019-03-31 15:40:13 +02:00 |
|
|
|
f0ff585455
|
Removing trace
|
2019-03-30 20:52:54 +01:00 |
|
|
|
7c518300a0
|
C: Views: fixed a bug when creating automatic columns with unformatted
comments
|
2019-03-30 20:33:14 +01:00 |
|
|
|
173483448a
|
Merge commit '3d842ff7'
|
2019-03-30 15:29:52 +01:00 |
|
|
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52b3a9fc39
|
C: taxonomy: fixed a segfault on linux when trying to fclose an unopened
file
|
2019-03-30 15:19:12 +01:00 |
|
|
|
0847d618d6
|
fixed typo
|
2019-03-30 15:14:30 +01:00 |
|
|
|
9fcebd7643
|
C: build_reference_db: made some errors more explicit
|
2019-03-30 15:11:49 +01:00 |
|
|
|
0c466046f4
|
Merge branch 'pip-standard-orig-python' into 'master'
The new install version based on classical setup.py
See merge request obitools/obitools3!1
|
2019-03-29 16:25:01 +01:00 |
|
|
|
bf62960ee8
|
Add some .ignore files
|
2019-03-29 15:52:54 +01:00 |
|
|
|
52b8008bdc
|
Add the location of install
|
2019-03-29 15:21:30 +01:00 |
|
|
|
ee9947217c
|
alignpairedend: fixed the worst memory leak and the handling of the case
where 0 common kmers are found
|
2019-03-29 11:16:25 +01:00 |
|
|
|
10ab557259
|
First version of the simplified setup.py script
|
2019-03-26 15:40:31 +01:00 |
|
|
|
50e7cd61a6
|
added math.h import where needed
|
2019-03-13 11:17:25 +01:00 |
|
