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e1b4f99f4f
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breakpoints fixes
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2023-07-12 15:20:04 +01:00 |
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0c46f61260
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MO group fixes
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2023-07-12 15:04:48 +01:00 |
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7cd9ca274c
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add strep groups to ABCG
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2023-07-12 11:41:25 +01:00 |
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5e1221bceb
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unit test
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2023-07-10 19:04:12 +02:00 |
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70c601ca11
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breakpoints UTI interpretation fix
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2023-07-10 13:41:52 +02:00 |
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acb534102b
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new species groups, updated clinical breakpoints
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2023-07-08 17:30:05 +02:00 |
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2d97cca6d9
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fix reference_df endless loop
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2023-06-26 13:52:02 +02:00 |
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Dr. Matthijs Berends
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f065945d7b
|
Update clinical breakpoints and fix some as.mo() bugs (#117)
* Updates clinical breakpoints EUCAST/CLSI 2023, fixes #102, fixes #112, fixes #113, fixes #114, fixes #115
* docs
* implement ecoffs
* unit tests
|
2023-06-22 15:10:59 +02:00 |
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9591688811
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documentation update
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2023-05-27 10:39:22 +02:00 |
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8179092c57
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add XPT files for SAS software
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2023-05-12 10:07:55 +02:00 |
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91fa73dedf
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add oxygen tolerance
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2023-05-11 21:56:27 +02:00 |
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bf08d136a0
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fix coercing NA to custom codes, fixes #107
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2023-05-08 13:04:18 +02:00 |
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9148a2dcf4
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fix mo_rank() for 'unknown' MOs
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2023-04-20 15:20:41 +02:00 |
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02322ac2ee
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Fix PK/PD breakpoints
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2023-04-19 00:31:31 +02:00 |
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cabffb22fd
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anaerobic codes
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2023-04-17 11:26:19 +02:00 |
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1a02d302d4
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Fix translatable strings
|
2023-04-15 09:32:13 +02:00 |
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ed70f95380
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Fix clinical breakpoints
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2023-04-14 23:14:34 +02:00 |
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147f9112e9
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Fix some WHONET codes
|
2023-04-14 11:12:26 +02:00 |
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c28cfa3a77
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fix documentation
|
2023-03-16 08:55:37 +01:00 |
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262598b8d7
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support for old rsi arguments
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2023-03-11 14:24:34 +01:00 |
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4416394e10
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website update
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2023-02-26 21:26:58 +01:00 |
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2c5a9bb622
|
new relative episode determination in get_episode(), fix for plotting disk/MIC values
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2023-02-24 17:06:30 +01:00 |
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049baf0a71
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fix for antibiograms on R < 3.5
|
2023-02-24 09:43:10 +01:00 |
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e70f2cd32c
|
knitr format
|
2023-02-23 16:27:40 +01:00 |
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dad25302f2
|
make rsi work in more cases, documentation update
|
2023-02-22 14:38:57 +01:00 |
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45a9697c84
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unit tests
|
2023-02-12 17:10:48 +01:00 |
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c51fb24363
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pm_bind_rows
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2023-02-11 22:28:48 +01:00 |
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b146de6d7f
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fix for bind_rows2, added 4 langs
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2023-02-11 21:57:12 +01:00 |
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bc434db835
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bring back antibiogram(), without deps
|
2023-02-10 16:18:00 +01:00 |
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aa48c6bf53
|
pm fixes
|
2023-02-08 16:51:41 +01:00 |
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822e9de82c
|
pm update, unit test fix?
|
2023-02-08 13:48:06 +01:00 |
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9e99e66f01
|
use dplyr where available, new antibiogram() for WISCA, fixed Salmonella Typhi/Paratyphi
|
2023-02-06 11:57:22 +01:00 |
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19fd0ef121
|
sort sir history
|
2023-01-23 15:01:21 +01:00 |
|
Dr. Matthijs Berends
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98e62c9af2
|
Replace RSI with SIR
|
2023-01-21 23:47:20 +01:00 |
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4801a6067e
|
unit tests
|
2023-01-06 11:22:02 +01:00 |
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a98d0d75ea
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styler dep
|
2023-01-05 14:46:44 +01:00 |
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f619fb683b
|
support new mo codes
|
2022-12-27 15:16:15 +01:00 |
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6f4bb603ec
|
unit tests
|
2022-12-20 22:18:50 +01:00 |
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f0a2cdbf5e
|
update mo algorithm
|
2022-12-20 16:14:04 +01:00 |
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b1b7534c78
|
incorporate Bartlett et al (2022)
|
2022-12-19 15:32:41 +01:00 |
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23fe427cbc
|
Fixes for Salmonella
|
2022-12-17 14:31:33 +01:00 |
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5f3a7694aa
|
microorganisms update, added Salmonella groups
|
2022-12-16 16:10:43 +01:00 |
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8da2467209
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updated taxonomy
|
2022-12-12 00:14:56 +01:00 |
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eed1c14b96
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website update
|
2022-12-11 11:44:29 +01:00 |
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56dad34e68
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update prevalence with new phyla
|
2022-12-09 13:37:08 +01:00 |
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f6862a139d
|
expert rules 12.0
|
2022-11-14 15:20:39 +01:00 |
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7ca44fb756
|
cleanup and new intro logo
|
2022-11-13 13:44:25 +01:00 |
|
Dr. Matthijs Berends
|
496c08d851
|
Implement extensive support for antiviral agents support (#77)
|
2022-11-13 08:46:10 +01:00 |
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9444ed6d1d
|
fix antibiotics error
|
2022-10-30 21:05:46 +01:00 |
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d40e0ef20b
|
completely updated antibiotics
|
2022-10-30 14:31:45 +01:00 |
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3d9faf89cf
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ATC and DDD update
|
2022-10-29 19:01:23 +02:00 |
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fa620f8ebd
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fix export of lists in antibiotics and antivirals
|
2022-10-29 16:17:48 +02:00 |
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afdc48db1e
|
fix txt export of microorganisms
|
2022-10-29 16:08:18 +02:00 |
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6ad7857d39
|
fix missing R breakpoints
|
2022-10-29 14:15:23 +02:00 |
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c2801ba7a1
|
new rsi_translation
|
2022-10-22 22:00:15 +02:00 |
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76bcd3528c
|
move object assignment to AMR_env
|
2022-10-14 13:02:50 +02:00 |
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b753b84128
|
fix for mo type translation
|
2022-10-06 12:11:51 +02:00 |
|
Dr. Matthijs Berends
|
cd2acc4a29
|
New mo algorithm, prepare for 2.0
|
2022-10-05 09:12:22 +02:00 |
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e7af5fc716
|
fix AMR vignette
|
2022-08-28 22:38:08 +02:00 |
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71db246d5c
|
unit test fix
|
2022-08-28 19:17:12 +02:00 |
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f781998904
|
amoxicillin interpretation fix
|
2022-08-28 11:17:53 +02:00 |
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4d050aef7c
|
styled, unit test fix
|
2022-08-28 10:31:50 +02:00 |
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4cb1db4554
|
data export
|
2022-08-27 20:51:26 +02:00 |
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303d61b473
|
new tibble export
|
2022-08-27 20:49:37 +02:00 |
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|
3cef2ea286
|
restore LFS
|
2022-08-26 23:21:31 +02:00 |
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3864ab2fb8
|
Feather and Parquet files
|
2022-08-26 22:25:15 +02:00 |
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4da32e3d40
|
set up Git LFS for large files
|
2022-08-26 14:02:08 +02:00 |
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7226b70c3d
|
update languages
|
2022-08-20 20:17:14 +02:00 |
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3f2f60ab77
|
language updates
|
2022-08-19 12:33:14 +02:00 |
|
Anton Mymrikov
|
4b19c3dc5e
|
Add Ukrainian translation (#67)
|
2022-08-18 11:29:18 +02:00 |
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|
ab97268f4c
|
(v1.8.1.9014) add Toxoplasma
|
2022-08-12 23:27:15 +02:00 |
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|
7f981e7778
|
(v1.8.1.9013) add Toxoplasma
|
2022-06-10 13:15:23 +02:00 |
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|
b84d647cac
|
(v1.8.1.9012) update prevalence of some genera
|
2022-06-03 13:28:55 +02:00 |
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1b84564d36
|
(v1.8.1.9011) update prevalence of some genera
|
2022-06-03 12:43:25 +02:00 |
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|
70a07bad39
|
(v1.8.1.9010) random when pkg not loaded
|
2022-05-16 12:52:50 +02:00 |
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2c5bc73ed6
|
(v1.8.1.9009) random when pkg not loaded
|
2022-05-16 09:29:46 +02:00 |
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|
58ed15e7ac
|
(v1.8.1.9008) website update
|
2022-05-11 10:26:58 +02:00 |
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6de5375256
|
(v1.8.1.9007) website update
|
2022-05-11 10:10:31 +02:00 |
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|
|
859224e9d0
|
(v1.8.1.9006) added EUCAST 2022 and CLSI 2022
|
2022-05-10 21:34:30 +02:00 |
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|
680e8e7a41
|
(v1.8.1.9005) as.rsi() fix for EUCAST
|
2022-05-10 17:01:37 +02:00 |
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|
d4e22069bc
|
(v1.8.1.9004) fix for table() on MICs
|
2022-05-09 21:33:27 +02:00 |
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1c891cc90c
|
(v1.8.1.9003) set_mo_source() fix
|
2022-05-09 20:36:44 +02:00 |
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152db9d1b5
|
(v1.8.1.9002) fix for table() on MICs
|
2022-05-09 17:08:40 +02:00 |
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|
4754848e96
|
(v1.8.1.9001) update unit tests, fixes #53
|
2022-04-08 11:02:45 +02:00 |
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|
7b0f1596bd
|
(v1.8.0.9010) as.mo improvement
|
2022-03-15 17:35:02 +01:00 |
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1b0983e382
|
(v1.8.1) prerelease 1.8.1
|
2022-03-14 16:36:10 +01:00 |
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08d387b5ce
|
(v1.8.0.9005) as.rsi() fix
|
2022-03-10 19:33:25 +01:00 |
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|
ad82bb4ce0
|
(v1.8.0.9004) MIC printing in tibbles
|
2022-03-03 21:11:02 +01:00 |
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dedbe92322
|
(v1.8.0.9003) deps update
|
2022-03-02 23:16:37 +01:00 |
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|
3b2b2be5f8
|
(v1.8.0.9002) as.rsi() cleanup, more informative warnings
|
2022-03-02 15:38:55 +01:00 |
|
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|
18e8525d10
|
(v1.8.0.9001) as.mo improvement, fixes #52
|
2022-02-26 21:58:23 +01:00 |
|
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|
be792cc9eb
|
(v1.8.0.9000) unit tests for R 3.3
|
2022-02-01 17:08:10 +01:00 |
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f5dcf0ad58
|
v1.8.0 as accepted by CRAN
|
2022-01-07 16:27:13 +01:00 |
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25cef46c59
|
(v1.8.0) prerelease 1.8.0
|
2021-12-23 18:56:28 +01:00 |
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75dac113b6
|
(v1.7.1.9077) skimr support only for newer R versions
|
2021-12-23 13:38:25 +01:00 |
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|
d9274bcd0a
|
(v1.7.1.9075) assignment operator
|
2021-12-14 22:59:27 +01:00 |
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|
76dee66852
|
(v1.7.1.9074) as.mo() improvement, ASCII replacements for unit tests
|
2021-12-14 22:39:23 +01:00 |
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|
bd4bb1d72f
|
(v1.7.1.9073) as.rsi() fix for UTIs
|
2021-12-14 21:47:14 +01:00 |
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|
5eef01165e
|
(v1.7.1.9072) as.rsi() fix for UTIs
|
2021-12-14 12:33:29 +01:00 |
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|
0cbf8f48b6
|
(v1.7.1.9071) rsi disk fix
|
2021-12-13 11:57:34 +01:00 |
|
