Dr. Matthijs Berends
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f065945d7b
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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
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2023-06-22 15:10:59 +02:00 |
 dr. M.S. (Matthijs) Berends
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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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dr. M.S. (Matthijs) Berends
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e1966503ee
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unit testing R4.3
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2023-05-26 20:37:00 +02:00 |
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dr. M.S. (Matthijs) Berends
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766db4e21f
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as.mo fix
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2023-05-26 19:20:21 +02:00 |
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dr. M.S. (Matthijs) Berends
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c6135d2082
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updated microorganism codes
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2023-05-26 16:10:01 +02:00 |
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dr. M.S. (Matthijs) Berends
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0bcf55d3b6
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improve `as.mo()`
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2023-05-24 15:55:53 +02:00 |
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dr. M.S. (Matthijs) Berends
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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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dr. M.S. (Matthijs) Berends
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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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dr. M.S. (Matthijs) Berends
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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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dr. M.S. (Matthijs) Berends
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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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dr. M.S. (Matthijs) Berends
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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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dr. M.S. (Matthijs) Berends
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147f9112e9
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Fix some WHONET codes
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2023-04-14 11:12:26 +02:00 |
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dr. M.S. (Matthijs) Berends
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549790c2a6
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website
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2023-03-20 21:59:50 +01:00 |
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dr. M.S. (Matthijs) Berends
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c28cfa3a77
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fix documentation
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2023-03-16 08:55:37 +01:00 |
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dr. M.S. (Matthijs) Berends
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dd7cc86485
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help page %like%
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2023-03-14 19:49:50 +01:00 |
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dr. M.S. (Matthijs) Berends
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80cfc503c2
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check for 2.0
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2023-03-12 13:02:37 +01:00 |
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dr. M.S. (Matthijs) Berends
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7ad8635994
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documentation for 'data.table' AB selectors
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2023-03-11 16:54:02 +01:00 |
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dr. M.S. (Matthijs) Berends
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45e840c02f
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update NEWS
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2023-03-11 14:43:31 +01:00 |
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dr. M.S. (Matthijs) Berends
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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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dr. M.S. (Matthijs) Berends
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1d3d7d40bc
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get episode unit tests
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2023-02-24 19:54:56 +01:00 |
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dr. M.S. (Matthijs) Berends
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2c5a9bb622
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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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dr. M.S. (Matthijs) Berends
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92029c9e95
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remove note
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2023-02-24 10:31:36 +01:00 |
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dr. M.S. (Matthijs) Berends
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049baf0a71
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fix for antibiograms on R < 3.5
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2023-02-24 09:43:10 +01:00 |
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dr. M.S. (Matthijs) Berends
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e70f2cd32c
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knitr format
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2023-02-23 16:27:40 +01:00 |
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dr. M.S. (Matthijs) Berends
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a84101db08
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N for only 1 AB in
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2023-02-22 16:26:13 +01:00 |
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dr. M.S. (Matthijs) Berends
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c2cfc5ef84
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fix for `antibiogram()`, transform `WHONET` data set to `sir`
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2023-02-22 15:40:05 +01:00 |
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dr. M.S. (Matthijs) Berends
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dad25302f2
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make `rsi` work in more cases, documentation update
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2023-02-22 14:38:57 +01:00 |
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dr. M.S. (Matthijs) Berends
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e890360986
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website syntax update
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2023-02-17 11:39:00 +01:00 |
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dr. M.S. (Matthijs) Berends
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714a048fa9
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italicise antibiogram
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2023-02-17 09:42:51 +01:00 |
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dr. M.S. (Matthijs) Berends
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ef716f6ee3
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doc fix
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2023-02-15 17:16:40 +01:00 |
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dr. M.S. (Matthijs) Berends
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3396236eef
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unit test fixes
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2023-02-13 16:56:25 +01:00 |
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dr. M.S. (Matthijs) Berends
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b6d2b1398d
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Fix for `antibiogram()` in R <=3.4
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2023-02-13 10:21:43 +01:00 |
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dr. M.S. (Matthijs) Berends
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45a9697c84
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unit tests
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2023-02-12 17:10:48 +01:00 |
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dr. M.S. (Matthijs) Berends
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68abb00c59
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add include_screening to `as.sir()`
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2023-02-12 15:09:54 +01:00 |
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dr. M.S. (Matthijs) Berends
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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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dr. M.S. (Matthijs) Berends
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03294c7901
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fix for Salmonella group A, unit tests
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2023-02-10 16:47:25 +01:00 |
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dr. M.S. (Matthijs) Berends
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bc434db835
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bring back `antibiogram()`, without deps
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2023-02-10 16:18:00 +01:00 |
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dr. M.S. (Matthijs) Berends
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70a7ba0206
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fix first isolate
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2023-02-10 13:13:17 +01:00 |
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dr. M.S. (Matthijs) Berends
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1a0dc4bf46
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revert back to pre-antibiogram
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2023-02-09 13:07:39 +01:00 |
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dr. M.S. (Matthijs) Berends
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aa48c6bf53
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pm fixes
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2023-02-08 16:51:41 +01:00 |
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dr. M.S. (Matthijs) Berends
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f7dd890b79
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fixes
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2023-02-06 12:38:52 +01:00 |
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dr. M.S. (Matthijs) Berends
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9e99e66f01
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use dplyr where available, new `antibiogram()` for WISCA, fixed Salmonella Typhi/Paratyphi
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2023-02-06 11:57:22 +01:00 |
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dr. M.S. (Matthijs) Berends
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4b133d4c96
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unit tests
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2023-01-30 17:24:03 +01:00 |
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dr. M.S. (Matthijs) Berends
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830c67f1bf
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documentation, unit tests
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2023-01-24 10:20:27 +01:00 |
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dr. M.S. (Matthijs) Berends
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eef00069fd
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add all options to documentation
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2023-01-23 20:07:57 +01:00 |
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dr. M.S. (Matthijs) Berends
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19fd0ef121
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sort sir history
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2023-01-23 15:01:21 +01:00 |
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Dr. Matthijs Berends
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98e62c9af2
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Replace RSI with SIR
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2023-01-21 23:47:20 +01:00 |
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dr. M.S. (Matthijs) Berends
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593d740b84
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documentation, file permissions
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2023-01-19 12:54:53 +01:00 |
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dr. M.S. (Matthijs) Berends
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b94bc6c67b
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adding mo fixes
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2023-01-14 19:50:25 +01:00 |
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dr. M.S. (Matthijs) Berends
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ca79068604
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Fix for adding MO's
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2023-01-14 17:10:10 +01:00 |