(v1.5.0.9020) translation fix

DESCRIPTION

@@ -1,6 +1,6 @@
 Package: AMR
-Version: 1.5.0.9019
+Version: 1.5.0.9020
-Date: 2021-02-17
+Date: 2021-02-18
 Title: Antimicrobial Resistance Data Analysis
 Authors@R: c(
     person(role = c("aut", "cre"), 

NEWS.md

@@ -1,5 +1,5 @@
-# AMR 1.5.0.9019
+# AMR 1.5.0.9020
-## <small>Last updated: 17 February 2021</small>
+## <small>Last updated: 18 February 2021</small>
 
 ### New
 * Support for EUCAST Clinical Breakpoints v11.0 (2021), effective in the `eucast_rules()` function and in `as.rsi()` to interpret MIC and disk diffusion values. This is now the default guideline in this package.
@@ -57,6 +57,7 @@
 * Updated colours of values R, S and I in tibble printing
 * Functions `print()` and `summary()` on a Principal Components Analysis object (`pca()`) now print additional group info if the original data was grouped using `dplyr::group_by()`
 * Improved speed and reliability of `guess_ab_col()`. As this also internally improves the reliability of `first_isolate()` and `mdro()`, this might have a slight impact on the results of those functions.
+* Fix for `mo_name()` when used in other languages than English
 
 ### Other
 * Big documentation updates

R/mo_property.R

@@ -172,7 +172,10 @@ mo_name <- function(x, language = get_locale(), ...) {
   meet_criteria(x, allow_NA = TRUE)
   meet_criteria(language, has_length = 1, is_in = c(LANGUAGES_SUPPORTED, ""), allow_NULL = TRUE, allow_NA = TRUE)
   
-  translate_AMR(mo_validate(x = x, property = "fullname", language = language, ...), language = language, only_unknown = FALSE)
+  translate_AMR(mo_validate(x = x, property = "fullname", language = language, ...),
+                language = language,
+                only_unknown = FALSE,
+                affect_mo_name = TRUE)
 }
 
 #' @rdname mo_property
@@ -214,7 +217,7 @@ mo_shortname <- function(x, language = get_locale(), ...) {
   
   shortnames[is.na(x.mo)] <- NA_character_
   load_mo_failures_uncertainties_renamed(metadata)
-  translate_AMR(shortnames, language = language, only_unknown = FALSE)
+  translate_AMR(shortnames, language = language, only_unknown = FALSE, affect_mo_name = TRUE)
 }
 
 #' @rdname mo_property

R/translate.R

@@ -123,7 +123,7 @@ coerce_language_setting <- function(lang) {
 }
 
 # translate strings based on inst/translations.tsv
-translate_AMR <- function(from, language = get_locale(), only_unknown = FALSE) {
+translate_AMR <- function(from, language = get_locale(), only_unknown = FALSE, affect_mo_name = FALSE) {
   
   if (is.null(language)) {
     return(from)
@@ -146,10 +146,13 @@ translate_AMR <- function(from, language = get_locale(), only_unknown = FALSE) {
   if (only_unknown == TRUE) {
     df_trans <- subset(df_trans, pattern %like% "unknown")
   }
+  if (affect_mo_name == TRUE) {
+    df_trans <- subset(df_trans, affect_mo_name == TRUE)
+  }
   
-  # default case sensitive if value if 'ignore.case' is missing:
+  # default: case sensitive if value if 'ignore.case' is missing:
   df_trans$ignore.case[is.na(df_trans$ignore.case)] <- FALSE
-  # default not using regular expressions (fixed = TRUE) if 'fixed' is missing:
+  # default: not using regular expressions (fixed = TRUE) if 'fixed' is missing:
   df_trans$fixed[is.na(df_trans$fixed)] <- TRUE
   
   # check if text to look for is in one of the patterns
@@ -167,7 +170,8 @@ translate_AMR <- function(from, language = get_locale(), only_unknown = FALSE) {
                                                      replacement = df_trans$replacement[i],
                                                      x = from_unique_translated,
                                                      ignore.case = df_trans$ignore.case[i], 
-                                                     fixed = df_trans$fixed[i]))
+                                                     fixed = df_trans$fixed[i],
+                                                     perl = !df_trans$fixed[i]))
   
   # force UTF-8 for diacritics
   from_unique_translated <- enc2utf8(from_unique_translated)

README.md

@@ -10,7 +10,7 @@
 
 <img src="https://msberends.github.io/AMR/works_great_on.png" align="center" height="150px" />
 
-The latest built **source package** (`AMR_x.x.x.tar.gz`) can be found in folder [/data-raw/](data-raw).
+The latest built **source package** (`AMR_latest.tar.gz`) can be found in folder [/data-raw/](data-raw).
 
 `AMR` is a free, open-source and independent R package to simplify the analysis and prediction of Antimicrobial Resistance (AMR) and to work with microbial and antimicrobial data and properties, by using evidence-based methods. Our aim is to provide a standard for clean and reproducible antimicrobial resistance data analysis, that can therefore empower epidemiological analyses to continuously enable surveillance and treatment evaluation in any setting.
  

data-raw/reproduction_of_microorganisms.R

@@ -31,8 +31,9 @@
 # Data retrieved from the Global Biodiversity Information Facility (GBIF): 
 # https://doi.org/10.15468/rffz4x
 #
-# And from the Leibniz Institute: German Collection of Microorganisms and Cell Cultures (DSMZ)
+# And from the List of Prokaryotic names with Standing in Nomenclature (LPSN)
-# (register first at https://bacdive.dsmz.de/api/pnu/registration/register/ and use API as done below)
+# (register first) https://lpsn.dsmz.de/downloads
+# download the latest CSV file.
 
 library(dplyr)
 library(AMR)

data-raw/translations.tsv

@@ -1,407 +1,412 @@
-lang	pattern	replacement	fixed	ignore.case
+lang	pattern	replacement	fixed	ignore.case	affect_mo_name
-de	Coagulase-negative Staphylococcus	Koagulase-negative Staphylococcus	FALSE	FALSE
+de	Coagulase-negative Staphylococcus	Koagulase-negative Staphylococcus	FALSE	FALSE	TRUE
-de	Coagulase-positive Staphylococcus	Koagulase-positive Staphylococcus	FALSE	FALSE
+de	Coagulase-positive Staphylococcus	Koagulase-positive Staphylococcus	FALSE	FALSE	TRUE
-de	Beta-haemolytic Streptococcus	Beta-hämolytischer Streptococcus	FALSE	FALSE
+de	Beta-haemolytic Streptococcus	Beta-hämolytischer Streptococcus	FALSE	FALSE	TRUE
-de	unknown Gram-negatives	unbekannte Gramnegativen	FALSE	FALSE
+de	unknown Gram-negatives	unbekannte Gramnegativen	FALSE	FALSE	TRUE
-de	unknown Gram-positives	unbekannte Grampositiven	FALSE	FALSE
+de	unknown Gram-positives	unbekannte Grampositiven	FALSE	FALSE	TRUE
-de	unknown name	unbekannte Name	FALSE	FALSE
+de	unknown fungus	unbekannter Pilze	FALSE	FALSE	TRUE
-de	unknown kingdom	unbekanntes Reich	FALSE	FALSE
+de	unknown yeast	unbekannte Hefe	FALSE	FALSE	TRUE
-de	unknown phylum	unbekannter Stamm	FALSE	FALSE
+de	unknown name	unbekannte Name	FALSE	FALSE	TRUE
-de	unknown class	unbekannte Klasse	FALSE	FALSE
+de	unknown kingdom	unbekanntes Reich	FALSE	FALSE	TRUE
-de	unknown order	unbekannte Ordnung	FALSE	FALSE
+de	unknown phylum	unbekannter Stamm	FALSE	FALSE	TRUE
-de	unknown family	unbekannte Familie	FALSE	FALSE
+de	unknown class	unbekannte Klasse	FALSE	FALSE	TRUE
-de	unknown genus	unbekannte Gattung	FALSE	FALSE
+de	unknown order	unbekannte Ordnung	FALSE	FALSE	TRUE
-de	unknown species	unbekannte Art	FALSE	FALSE
+de	unknown family	unbekannte Familie	FALSE	FALSE	TRUE
-de	unknown subspecies	unbekannte Unterart	FALSE	FALSE
+de	unknown genus	unbekannte Gattung	FALSE	FALSE	TRUE
-de	unknown rank	unbekannter Rang	FALSE	FALSE
+de	unknown species	unbekannte Art	FALSE	FALSE	TRUE
-de	CoNS	KNS	TRUE	FALSE
+de	unknown subspecies	unbekannte Unterart	FALSE	FALSE	TRUE
-de	CoPS	KPS	TRUE	FALSE
+de	unknown rank	unbekannter Rang	FALSE	FALSE	TRUE
-de	Gram-negative	Gramnegativ	FALSE	FALSE
+de	CoNS	KNS	TRUE	FALSE	TRUE
-de	Gram-positive	Grampositiv	FALSE	FALSE
+de	CoPS	KPS	TRUE	FALSE	TRUE
-de	Bacteria	Bakterien	FALSE	FALSE
+de	Gram-negative	Gramnegativ	FALSE	FALSE	FALSE
-de	Fungi	Pilze	FALSE	FALSE
+de	Gram-positive	Grampositiv	FALSE	FALSE	FALSE
-de	Yeasts	Hefen	FALSE	FALSE
+de	^Bacteria$	Bakterien	FALSE	FALSE	FALSE
-de	Protozoa	Protozoen	FALSE	FALSE
+de	^Fungi$	Pilze	FALSE	FALSE	FALSE
-de	biogroup	Biogruppe	FALSE	FALSE
+de	^Yeasts$	Hefen	FALSE	FALSE	FALSE
-de	biotype	Biotyp	FALSE	FALSE
+de	^Protozoa$	Protozoen	FALSE	FALSE	FALSE
-de	vegetative	vegetativ	FALSE	FALSE
+de	biogroup	Biogruppe	FALSE	FALSE	FALSE
-de	([([ ]*?)group	\\1Gruppe	FALSE	FALSE
+de	biotype	Biotyp	FALSE	FALSE	FALSE
-de	([([ ]*?)Group	\\1Gruppe	FALSE	FALSE
+de	vegetative	vegetativ	FALSE	FALSE	FALSE
-de	no .*growth	keine? .*wachstum	FALSE	TRUE
+de	([([ ]*?)group	\\1Gruppe	FALSE	FALSE	FALSE
-de	no|not	keine?	FALSE	TRUE
+de	([([ ]*?)Group	\\1Gruppe	FALSE	FALSE	FALSE
-
+de	no .*growth	keine? .*wachstum	FALSE	TRUE	FALSE
-nl	Coagulase-negative Staphylococcus	Coagulase-negatieve Staphylococcus	FALSE	FALSE
+de	(^| )no|not	keine?	FALSE	TRUE	FALSE
-nl	Coagulase-positive Staphylococcus	Coagulase-positieve Staphylococcus	FALSE	FALSE
+nl	Coagulase-negative Staphylococcus	Coagulase-negatieve Staphylococcus	FALSE	FALSE	TRUE
-nl	Beta-haemolytic Streptococcus	Beta-hemolytische Streptococcus	FALSE	FALSE
+nl	Coagulase-positive Staphylococcus	Coagulase-positieve Staphylococcus	FALSE	FALSE	TRUE
-nl	unknown Gram-negatives	onbekende Gram-negatieven	FALSE	FALSE
+nl	Beta-haemolytic Streptococcus	Beta-hemolytische Streptococcus	FALSE	FALSE	TRUE
-nl	unknown Gram-positives	onbekende Gram-positieven	FALSE	FALSE
+nl	unknown Gram-negatives	onbekende Gram-negatieven	FALSE	FALSE	TRUE
-nl	unknown name	onbekende naam	FALSE	FALSE
+nl	unknown Gram-positives	onbekende Gram-positieven	FALSE	FALSE	TRUE
-nl	unknown kingdom	onbekend koninkrijk	FALSE	FALSE
+nl	unknown fungus	onbekende schimmel	FALSE	FALSE	TRUE
-nl	unknown phylum	onbekend fylum	FALSE	FALSE
+nl	unknown yeast	onbekende gist	FALSE	FALSE	TRUE
-nl	unknown class	onbekende klasse	FALSE	FALSE
+nl	unknown name	onbekende naam	FALSE	FALSE	TRUE
-nl	unknown order	onbekende orde	FALSE	FALSE
+nl	unknown kingdom	onbekend koninkrijk	FALSE	FALSE	TRUE
-nl	unknown family	onbekende familie	FALSE	FALSE
+nl	unknown phylum	onbekend fylum	FALSE	FALSE	TRUE
-nl	unknown genus	onbekend geslacht	FALSE	FALSE
+nl	unknown class	onbekende klasse	FALSE	FALSE	TRUE
-nl	unknown species	onbekende soort	FALSE	FALSE
+nl	unknown order	onbekende orde	FALSE	FALSE	TRUE
-nl	unknown subspecies	onbekende ondersoort	FALSE	FALSE
+nl	unknown family	onbekende familie	FALSE	FALSE	TRUE
-nl	unknown rank	onbekende rang	FALSE	FALSE
+nl	unknown genus	onbekend geslacht	FALSE	FALSE	TRUE
-nl	CoNS	CNS	TRUE	FALSE
+nl	unknown species	onbekende soort	FALSE	FALSE	TRUE
-nl	CoPS	CPS	TRUE	FALSE
+nl	unknown subspecies	onbekende ondersoort	FALSE	FALSE	TRUE
-nl	Gram-negative	Gram-negatief	FALSE	FALSE
+nl	unknown rank	onbekende rang	FALSE	FALSE	TRUE
-nl	Gram-positive	Gram-positief	FALSE	FALSE
+nl	CoNS	CNS	TRUE	FALSE	TRUE
-nl	Bacteria	Bacteriën	FALSE	FALSE
+nl	CoPS	CPS	TRUE	FALSE	TRUE
-nl	Fungi	Schimmels	FALSE	FALSE
+nl	Gram-negative	Gram-negatief	FALSE	FALSE	FALSE
-nl	Yeasts	Gisten	FALSE	FALSE
+nl	Gram-positive	Gram-positief	FALSE	FALSE	FALSE
-nl	Protozoa	Protozoën	FALSE	FALSE
+nl	^Bacteria$	Bacteriën	FALSE	FALSE	FALSE
-nl	biogroup	biogroep	FALSE	FALSE
+nl	^Fungi$	Schimmels	FALSE	FALSE	FALSE
-nl	vegetative	vegetatief	FALSE	FALSE
+nl	^Yeasts$	Gisten	FALSE	FALSE	FALSE
-nl	([([ ]*?)group	\\1groep	FALSE	FALSE
+nl	^Protozoa$	Protozoën	FALSE	FALSE	FALSE
-nl	([([ ]*?)Group	\\1Groep	FALSE	FALSE
+nl	biogroup	biogroep	FALSE	FALSE	FALSE
-nl	antibiotic	antibioticum	FALSE	FALSE
+nl	vegetative	vegetatief	FALSE	FALSE	FALSE
-nl	Antibiotic	Antibioticum	FALSE	FALSE
+nl	([([ ]*?)group	\\1groep	FALSE	FALSE	FALSE
-nl	Drug	Middel	FALSE	FALSE
+nl	([([ ]*?)Group	\\1Groep	FALSE	FALSE	FALSE
-nl	drug	middel	FALSE	FALSE
+nl	antibiotic	antibioticum	FALSE	FALSE	FALSE
-nl	no .*growth	geen .*groei	FALSE	TRUE
+nl	Antibiotic	Antibioticum	FALSE	FALSE	FALSE
-nl	no|not	geen|niet	FALSE	TRUE
+nl	Drug	Middel	FALSE	FALSE	FALSE
-
+nl	drug	middel	FALSE	FALSE	FALSE
-es	Coagulase-negative Staphylococcus	Staphylococcus coagulasa negativo	FALSE	FALSE
+nl	no .*growth	geen .*groei	FALSE	TRUE	FALSE
-es	Coagulase-positive Staphylococcus	Staphylococcus coagulasa positivo	FALSE	FALSE
+nl	no|not	geen|niet	FALSE	TRUE	FALSE
-es	Beta-haemolytic Streptococcus	Streptococcus Beta-hemolítico	FALSE	FALSE
+es	Coagulase-negative Staphylococcus	Staphylococcus coagulasa negativo	FALSE	FALSE	TRUE
-es	unknown Gram-negatives	Gram negativos desconocidos	FALSE	FALSE
+es	Coagulase-positive Staphylococcus	Staphylococcus coagulasa positivo	FALSE	FALSE	TRUE
-es	unknown Gram-positives	Gram positivos desconocidos	FALSE	FALSE
+es	Beta-haemolytic Streptococcus	Streptococcus Beta-hemolítico	FALSE	FALSE	TRUE
-es	unknown name	nombre desconocido	FALSE	FALSE
+es	unknown Gram-negatives	Gram negativos desconocidos	FALSE	FALSE	TRUE
-es	unknown kingdom	reino desconocido	FALSE	FALSE
+es	unknown Gram-positives	Gram positivos desconocidos	FALSE	FALSE	TRUE
-es	unknown phylum	filo desconocido	FALSE	FALSE
+es	unknown fungus	hongo desconocido	FALSE	FALSE	TRUE
-es	unknown class	clase desconocida	FALSE	FALSE
+es	unknown yeast	levadura desconocida	FALSE	FALSE	TRUE
-es	unknown order	orden desconocido	FALSE	FALSE
+es	unknown name	nombre desconocido	FALSE	FALSE	TRUE
-es	unknown family	familia desconocida	FALSE	FALSE
+es	unknown kingdom	reino desconocido	FALSE	FALSE	TRUE
-es	unknown genus	género desconocido	FALSE	FALSE
+es	unknown phylum	filo desconocido	FALSE	FALSE	TRUE
-es	unknown species	especie desconocida	FALSE	FALSE
+es	unknown class	clase desconocida	FALSE	FALSE	TRUE
-es	unknown subspecies	subespecie desconocida	FALSE	FALSE
+es	unknown order	orden desconocido	FALSE	FALSE	TRUE
-es	unknown rank	rango desconocido	FALSE	FALSE
+es	unknown family	familia desconocida	FALSE	FALSE	TRUE
-es	CoNS	SCN	TRUE	FALSE
+es	unknown genus	género desconocido	FALSE	FALSE	TRUE
-es	CoPS	SCP	TRUE	FALSE
+es	unknown species	especie desconocida	FALSE	FALSE	TRUE
-es	Gram-negative	Gram negativo	FALSE	FALSE
+es	unknown subspecies	subespecie desconocida	FALSE	FALSE	TRUE
-es	Gram-positive	Gram positivo	FALSE	FALSE
+es	unknown rank	rango desconocido	FALSE	FALSE	TRUE
-es	Bacteria	Bacterias	FALSE	FALSE
+es	CoNS	SCN	TRUE	FALSE	TRUE
-es	Fungi	Hongos	FALSE	FALSE
+es	CoPS	SCP	TRUE	FALSE	TRUE
-es	Yeasts	Levaduras	FALSE	FALSE
+es	Gram-negative	Gram negativo	FALSE	FALSE	FALSE
-es	Protozoa	Protozoarios	FALSE	FALSE
+es	Gram-positive	Gram positivo	FALSE	FALSE	FALSE
-es	biogroup	biogrupo	FALSE	FALSE
+es	^Bacteria$	Bacterias	FALSE	FALSE	FALSE
-es	biotype	biotipo	FALSE	FALSE
+es	^Fungi$	Hongos	FALSE	FALSE	FALSE
-es	vegetative	vegetativo	FALSE	FALSE
+es	^Yeasts$	Levaduras	FALSE	FALSE	FALSE
-es	([([ ]*?)group	\\1grupo	FALSE	FALSE
+es	^Protozoa$	Protozoarios	FALSE	FALSE	FALSE
-es	([([ ]*?)Group	\\1Grupo	FALSE	FALSE
+es	biogroup	biogrupo	FALSE	FALSE	FALSE
-es	no .*growth	no .*crecimientonon	FALSE	TRUE
+es	biotype	biotipo	FALSE	FALSE	FALSE
-es	no|not	no|sin	FALSE	TRUE
+es	vegetative	vegetativo	FALSE	FALSE	FALSE
-
+es	([([ ]*?)group	\\1grupo	FALSE	FALSE	FALSE
-it	Coagulase-negative Staphylococcus	Staphylococcus negativo coagulasi	FALSE	FALSE
+es	([([ ]*?)Group	\\1Grupo	FALSE	FALSE	FALSE
-it	Coagulase-positive Staphylococcus	Staphylococcus positivo coagulasi	FALSE	FALSE
+es	no .*growth	no .*crecimientonon	FALSE	TRUE	FALSE
-it	Beta-haemolytic Streptococcus	Streptococcus Beta-emolitico	FALSE	FALSE
+es	no|not	no|sin	FALSE	TRUE	FALSE
-it	unknown Gram-negatives	Gram negativi sconosciuti	FALSE	FALSE
+it	Coagulase-negative Staphylococcus	Staphylococcus negativo coagulasi	FALSE	FALSE	TRUE
-it	unknown Gram-positives	Gram positivi sconosciuti	FALSE	FALSE
+it	Coagulase-positive Staphylococcus	Staphylococcus positivo coagulasi	FALSE	FALSE	TRUE
-it	unknown name	nome sconosciuto	FALSE	FALSE
+it	Beta-haemolytic Streptococcus	Streptococcus Beta-emolitico	FALSE	FALSE	TRUE
-it	unknown kingdom	regno sconosciuto	FALSE	FALSE
+it	unknown Gram-negatives	Gram negativi sconosciuti	FALSE	FALSE	TRUE
-it	unknown phylum	phylum sconosciuto	FALSE	FALSE
+it	unknown Gram-positives	Gram positivi sconosciuti	FALSE	FALSE	TRUE
-it	unknown class	classe sconosciuta	FALSE	FALSE
+it	unknown fungus	fungo sconosciuto	FALSE	FALSE	TRUE
-it	unknown order	ordine sconosciuto	FALSE	FALSE
+it	unknown yeast	lievito sconosciuto	FALSE	FALSE	TRUE
-it	unknown family	famiglia sconosciuta	FALSE	FALSE
+it	unknown name	nome sconosciuto	FALSE	FALSE	TRUE
-it	unknown genus	genere sconosciuto	FALSE	FALSE
+it	unknown kingdom	regno sconosciuto	FALSE	FALSE	TRUE
-it	unknown species	specie sconosciute	FALSE	FALSE
+it	unknown phylum	phylum sconosciuto	FALSE	FALSE	TRUE
-it	unknown subspecies	sottospecie sconosciute	FALSE	FALSE
+it	unknown class	classe sconosciuta	FALSE	FALSE	TRUE
-it	unknown rank	grado sconosciuto	FALSE	FALSE
+it	unknown order	ordine sconosciuto	FALSE	FALSE	TRUE
-it	Gram-negative	Gram negativo	FALSE	FALSE
+it	unknown family	famiglia sconosciuta	FALSE	FALSE	TRUE
-it	Gram-positive	Gram positivo	FALSE	FALSE
+it	unknown genus	genere sconosciuto	FALSE	FALSE	TRUE
-it	Bacteria	Batteri	FALSE	FALSE
+it	unknown species	specie sconosciute	FALSE	FALSE	TRUE
-it	Fungi	Funghi	FALSE	FALSE
+it	unknown subspecies	sottospecie sconosciute	FALSE	FALSE	TRUE
-it	Yeasts	Lieviti	FALSE	FALSE
+it	unknown rank	grado sconosciuto	FALSE	FALSE	TRUE
-it	Protozoa	Protozoi	FALSE	FALSE
+it	Gram-negative	Gram negativo	FALSE	FALSE	FALSE
-it	biogroup	biogruppo	FALSE	FALSE
+it	Gram-positive	Gram positivo	FALSE	FALSE	FALSE
-it	biotype	biotipo	FALSE	FALSE
+it	^Bacteria$	Batteri	FALSE	FALSE	FALSE
-it	vegetative	vegetativo	FALSE	FALSE
+it	^Fungi$	Funghi	FALSE	FALSE	FALSE
-it	([([ ]*?)group	\\1gruppo	FALSE	FALSE
+it	^Yeasts$	Lieviti	FALSE	FALSE	FALSE
-it	([([ ]*?)Group	\\1Gruppo	FALSE	FALSE
+it	^Protozoa$	Protozoi	FALSE	FALSE	FALSE
-it	no .*growth	sem .*crescimento	FALSE	TRUE
+it	biogroup	biogruppo	FALSE	FALSE	FALSE
-it	no|not	sem	FALSE	TRUE
+it	biotype	biotipo	FALSE	FALSE	FALSE
-
+it	vegetative	vegetativo	FALSE	FALSE	FALSE
-fr	Coagulase-negative Staphylococcus	Staphylococcus à coagulase négative	FALSE	FALSE
+it	([([ ]*?)group	\\1gruppo	FALSE	FALSE	FALSE
-fr	Coagulase-positive Staphylococcus	Staphylococcus à coagulase positif	FALSE	FALSE
+it	([([ ]*?)Group	\\1Gruppo	FALSE	FALSE	FALSE
-fr	Beta-haemolytic Streptococcus	Streptococcus Bêta-hémolytique	FALSE	FALSE
+it	no .*growth	sem .*crescimento	FALSE	TRUE	FALSE
-fr	unknown Gram-negatives	Gram négatifs inconnus	FALSE	FALSE
+it	no|not	sem	FALSE	TRUE	FALSE
-fr	unknown Gram-positives	Gram positifs inconnus	FALSE	FALSE
+fr	Coagulase-negative Staphylococcus	Staphylococcus à coagulase négative	FALSE	FALSE	TRUE
-fr	unknown name	nom inconnu	FALSE	FALSE
+fr	Coagulase-positive Staphylococcus	Staphylococcus à coagulase positif	FALSE	FALSE	TRUE
-fr	unknown kingdom	règme inconnu	FALSE	FALSE
+fr	Beta-haemolytic Streptococcus	Streptococcus Bêta-hémolytique	FALSE	FALSE	TRUE
-fr	unknown phylum	embranchement inconnu	FALSE	FALSE
+fr	unknown Gram-negatives	Gram négatifs inconnus	FALSE	FALSE	TRUE
-fr	unknown class	classe inconnue	FALSE	FALSE
+fr	unknown Gram-positives	Gram positifs inconnus	FALSE	FALSE	TRUE
-fr	unknown order	ordre inconnu	FALSE	FALSE
+fr	unknown fungus	champignon inconnu	FALSE	FALSE	TRUE
-fr	unknown family	famille inconnue	FALSE	FALSE
+fr	unknown yeast	levure inconnue	FALSE	FALSE	TRUE
-fr	unknown genus	genre inconnu	FALSE	FALSE
+fr	unknown name	nom inconnu	FALSE	FALSE	TRUE
-fr	unknown species	espèce inconnue	FALSE	FALSE
+fr	unknown kingdom	règme inconnu	FALSE	FALSE	TRUE
-fr	unknown subspecies	sous-espèce inconnue	FALSE	FALSE
+fr	unknown phylum	embranchement inconnu	FALSE	FALSE	TRUE
-fr	unknown rank	rang inconnu	FALSE	FALSE
+fr	unknown class	classe inconnue	FALSE	FALSE	TRUE
-fr	Gram-negative	Gram négatif	FALSE	FALSE
+fr	unknown order	ordre inconnu	FALSE	FALSE	TRUE
-fr	Gram-positive	Gram positif	FALSE	FALSE
+fr	unknown family	famille inconnue	FALSE	FALSE	TRUE
-fr	Bacteria	Bactéries	FALSE	FALSE
+fr	unknown genus	genre inconnu	FALSE	FALSE	TRUE
-fr	Fungi	Champignons	FALSE	FALSE
+fr	unknown species	espèce inconnue	FALSE	FALSE	TRUE
-fr	Yeasts	Levures	FALSE	FALSE
+fr	unknown subspecies	sous-espèce inconnue	FALSE	FALSE	TRUE
-fr	Protozoa	Protozoaires	FALSE	FALSE
+fr	unknown rank	rang inconnu	FALSE	FALSE	TRUE
-fr	biogroup	biogroupe	FALSE	FALSE
+fr	Gram-negative	Gram négatif	FALSE	FALSE	FALSE
-fr	vegetative	végétatif	FALSE	FALSE
+fr	Gram-positive	Gram positif	FALSE	FALSE	FALSE
-fr	([([ ]*?)group	\\1groupe	FALSE	FALSE
+fr	^Bacteria$	Bactéries	FALSE	FALSE	FALSE
-fr	([([ ]*?)Group	\\1Groupe	FALSE	FALSE
+fr	^Fungi$	Champignons	FALSE	FALSE	FALSE
-fr	no .*growth	pas .*croissance	FALSE	TRUE
+fr	^Yeasts$	Levures	FALSE	FALSE	FALSE
-fr	no|not	non	FALSE	TRUE
+fr	^Protozoa$	Protozoaires	FALSE	FALSE	FALSE
-
+fr	biogroup	biogroupe	FALSE	FALSE	FALSE
-pt	Coagulase-negative Staphylococcus	Staphylococcus coagulase negativo	FALSE	FALSE
+fr	vegetative	végétatif	FALSE	FALSE	FALSE
-pt	Coagulase-positive Staphylococcus	Staphylococcus coagulase positivo	FALSE	FALSE
+fr	([([ ]*?)group	\\1groupe	FALSE	FALSE	FALSE
-pt	Beta-haemolytic Streptococcus	Streptococcus Beta-hemolítico	FALSE	FALSE
+fr	([([ ]*?)Group	\\1Groupe	FALSE	FALSE	FALSE
-pt	unknown Gram-negatives	Gram negativos desconhecidos	FALSE	FALSE
+fr	no .*growth	pas .*croissance	FALSE	TRUE	FALSE
-pt	unknown Gram-positives	Gram positivos desconhecidos	FALSE	FALSE
+fr	no|not	non	FALSE	TRUE	FALSE
-pt	unknown name	nome desconhecido	FALSE	FALSE
+pt	Coagulase-negative Staphylococcus	Staphylococcus coagulase negativo	FALSE	FALSE	TRUE
-pt	unknown kingdom	reino desconhecido	FALSE	FALSE
+pt	Coagulase-positive Staphylococcus	Staphylococcus coagulase positivo	FALSE	FALSE	TRUE
-pt	unknown phylum	filo desconhecido	FALSE	FALSE
+pt	Beta-haemolytic Streptococcus	Streptococcus Beta-hemolítico	FALSE	FALSE	TRUE
-pt	unknown class	classe desconhecida	FALSE	FALSE
+pt	unknown Gram-negatives	Gram negativos desconhecidos	FALSE	FALSE	TRUE
-pt	unknown order	ordem desconhecido	FALSE	FALSE
+pt	unknown Gram-positives	Gram positivos desconhecidos	FALSE	FALSE	TRUE
-pt	unknown family	família desconhecida	FALSE	FALSE
+pt	unknown fungus	fungo desconhecido	FALSE	FALSE	TRUE
-pt	unknown genus	gênero desconhecido	FALSE	FALSE
+pt	unknown yeast	levedura desconhecida	FALSE	FALSE	TRUE
-pt	unknown species	espécies desconhecida	FALSE	FALSE
+pt	unknown name	nome desconhecido	FALSE	FALSE	TRUE
-pt	unknown subspecies	subespécies desconhecida	FALSE	FALSE
+pt	unknown kingdom	reino desconhecido	FALSE	FALSE	TRUE
-pt	unknown rank	classificação desconhecido	FALSE	FALSE
+pt	unknown phylum	filo desconhecido	FALSE	FALSE	TRUE
-pt	Gram-negative	Gram negativo	FALSE	FALSE
+pt	unknown class	classe desconhecida	FALSE	FALSE	TRUE
-pt	Gram-positive	Gram positivo	FALSE	FALSE
+pt	unknown order	ordem desconhecido	FALSE	FALSE	TRUE
-pt	Bacteria	Bactérias	FALSE	FALSE
+pt	unknown family	família desconhecida	FALSE	FALSE	TRUE
-pt	Fungi	Fungos	FALSE	FALSE
+pt	unknown genus	gênero desconhecido	FALSE	FALSE	TRUE
-pt	Yeasts	Leveduras	FALSE	FALSE
+pt	unknown species	espécies desconhecida	FALSE	FALSE	TRUE
-pt	Protozoa	Protozoários	FALSE	FALSE
+pt	unknown subspecies	subespécies desconhecida	FALSE	FALSE	TRUE
-pt	biogroup	biogrupo	FALSE	FALSE
+pt	unknown rank	classificação desconhecido	FALSE	FALSE	TRUE
-pt	biotype	biótipo	FALSE	FALSE
+pt	Gram-negative	Gram negativo	FALSE	FALSE	FALSE
-pt	vegetative	vegetativo	FALSE	FALSE
+pt	Gram-positive	Gram positivo	FALSE	FALSE	FALSE
-pt	([([ ]*?)group	\\1grupo	FALSE	FALSE
+pt	^Bacteria$	Bactérias	FALSE	FALSE	FALSE
-pt	([([ ]*?)Group	\\1Grupo	FALSE	FALSE
+pt	^Fungi$	Fungos	FALSE	FALSE	FALSE
-pt	no .*growth	sem .*crescimento	FALSE	TRUE
+pt	^Yeasts$	Leveduras	FALSE	FALSE	FALSE
-pt	no|not	sem	FALSE	TRUE
+pt	^Protozoa$	Protozoários	FALSE	FALSE	FALSE
-
+pt	biogroup	biogrupo	FALSE	FALSE	FALSE
-de	clavulanic acid	Clavulansäure	FALSE	TRUE
+pt	biotype	biótipo	FALSE	FALSE	FALSE
-
+pt	vegetative	vegetativo	FALSE	FALSE	FALSE
-nl	4-aminosalicylic acid	4-aminosalicylzuur
+pt	([([ ]*?)group	\\1grupo	FALSE	FALSE	FALSE
-nl	Adefovir dipivoxil	Adefovir
+pt	([([ ]*?)Group	\\1Grupo	FALSE	FALSE	FALSE
-nl	Aldesulfone sodium	Aldesulfon
+pt	no .*growth	sem .*crescimento	FALSE	TRUE	FALSE
-nl	Amikacin	Amikacine
+pt	no|not	sem	FALSE	TRUE	FALSE
-nl	Amoxicillin	Amoxicilline
+de	clavulanic acid	Clavulansäure	FALSE	TRUE	FALSE
-nl	Amoxicillin/beta-lactamase inhibitor	Amoxicilline/enzymremmer
+nl	4-aminosalicylic acid	4-aminosalicylzuur	TRUE	FALSE	FALSE
-nl	Amphotericin B	Amfotericine B
+nl	Adefovir dipivoxil	Adefovir	TRUE	FALSE	FALSE
-nl	Ampicillin	Ampicilline
+nl	Aldesulfone sodium	Aldesulfon	TRUE	FALSE	FALSE
-nl	Ampicillin/beta-lactamase inhibitor	Ampicilline/enzymremmer
+nl	Amikacin	Amikacine	TRUE	FALSE	FALSE
-nl	Anidulafungin	Anidulafungine
+nl	Amoxicillin	Amoxicilline	TRUE	FALSE	FALSE
-nl	Azidocillin	Azidocilline
+nl	Amoxicillin/beta-lactamase inhibitor	Amoxicilline/enzymremmer	TRUE	FALSE	FALSE
-nl	Azithromycin	Azitromycine
+nl	Amphotericin B	Amfotericine B	TRUE	FALSE	FALSE
-nl	Azlocillin	Azlocilline
+nl	Ampicillin	Ampicilline	TRUE	FALSE	FALSE
-nl	Bacampicillin	Bacampicilline
+nl	Ampicillin/beta-lactamase inhibitor	Ampicilline/enzymremmer	TRUE	FALSE	FALSE
-nl	Bacitracin	Bacitracine
+nl	Anidulafungin	Anidulafungine	TRUE	FALSE	FALSE
-nl	Benzathine benzylpenicillin	Benzylpenicillinebenzathine
+nl	Azidocillin	Azidocilline	TRUE	FALSE	FALSE
-nl	Benzathine phenoxymethylpenicillin	Fenoxymethylpenicillinebenzathine
+nl	Azithromycin	Azitromycine	TRUE	FALSE	FALSE
-nl	Benzylpenicillin	Benzylpenicilline
+nl	Azlocillin	Azlocilline	TRUE	FALSE	FALSE
-nl	Calcium aminosalicylate	Aminosalicylzuur
+nl	Bacampicillin	Bacampicilline	TRUE	FALSE	FALSE
-nl	Capreomycin	Capreomycine
+nl	Bacitracin	Bacitracine	TRUE	FALSE	FALSE
-nl	Carbenicillin	Carbenicilline
+nl	Benzathine benzylpenicillin	Benzylpenicillinebenzathine	TRUE	FALSE	FALSE
-nl	Carindacillin	Carindacilline
+nl	Benzathine phenoxymethylpenicillin	Fenoxymethylpenicillinebenzathine	TRUE	FALSE	FALSE
-nl	Caspofungin	Caspofungine
+nl	Benzylpenicillin	Benzylpenicilline	TRUE	FALSE	FALSE
-nl	Ce(f|ph)acetrile	Cefacetril	FALSE
+nl	Calcium aminosalicylate	Aminosalicylzuur	TRUE	FALSE	FALSE
-nl	Ce(f|ph)alexin	Cefalexine	FALSE	FALSE
+nl	Capreomycin	Capreomycine	TRUE	FALSE	FALSE
-nl	Ce(f|ph)alotin	Cefalotine	FALSE
+nl	Carbenicillin	Carbenicilline	TRUE	FALSE	FALSE
-nl	Ce(f|ph)amandole	Cefamandol	FALSE
+nl	Carindacillin	Carindacilline	TRUE	FALSE	FALSE
-nl	Ce(f|ph)apirin	Cefapirine	FALSE
+nl	Caspofungin	Caspofungine	TRUE	FALSE	FALSE
-nl	Ce(f|ph)azedone	Cefazedon	FALSE
+nl	Ce(f|ph)acetrile	Cefacetril	FALSE	FALSE	FALSE
-nl	Ce(f|ph)azolin	Cefazoline	FALSE
+nl	Ce(f|ph)alexin	Cefalexine	FALSE	FALSE	FALSE
-nl	Ce(f|ph)alothin	Cefalotine	FALSE
+nl	Ce(f|ph)alotin	Cefalotine	FALSE	FALSE	FALSE
-nl	Ce(f|ph)alexin	Cefalexine	FALSE
+nl	Ce(f|ph)amandole	Cefamandol	FALSE	FALSE	FALSE
-nl	Ce(f|ph)epime	Cefepim	FALSE
+nl	Ce(f|ph)apirin	Cefapirine	FALSE	FALSE	FALSE
-nl	Ce(f|ph)ixime	Cefixim	FALSE
+nl	Ce(f|ph)azedone	Cefazedon	FALSE	FALSE	FALSE
-nl	Ce(f|ph)menoxime	Cefmenoxim	FALSE
+nl	Ce(f|ph)azolin	Cefazoline	FALSE	FALSE	FALSE
-nl	Ce(f|ph)metazole	Cefmetazol	FALSE
+nl	Ce(f|ph)alothin	Cefalotine	FALSE	FALSE	FALSE
-nl	Ce(f|ph)odizime	Cefodizim	FALSE
+nl	Ce(f|ph)alexin	Cefalexine	FALSE	FALSE	FALSE
-nl	Ce(f|ph)onicid	Cefonicide	FALSE
+nl	Ce(f|ph)epime	Cefepim	FALSE	FALSE	FALSE
-nl	Ce(f|ph)operazone	Cefoperazon	FALSE
+nl	Ce(f|ph)ixime	Cefixim	FALSE	FALSE	FALSE
-nl	Ce(f|ph)operazone/beta-lactamase inhibitor	Cefoperazon/enzymremmer	FALSE
+nl	Ce(f|ph)menoxime	Cefmenoxim	FALSE	FALSE	FALSE
-nl	Ce(f|ph)otaxime	Cefotaxim	FALSE
+nl	Ce(f|ph)metazole	Cefmetazol	FALSE	FALSE	FALSE
-nl	Ce(f|ph)oxitin	Cefoxitine	FALSE
+nl	Ce(f|ph)odizime	Cefodizim	FALSE	FALSE	FALSE
-nl	Ce(f|ph)pirome	Cefpirom	FALSE
+nl	Ce(f|ph)onicid	Cefonicide	FALSE	FALSE	FALSE
-nl	Ce(f|ph)podoxime	Cefpodoxim	FALSE
+nl	Ce(f|ph)operazone	Cefoperazon	FALSE	FALSE	FALSE
-nl	Ce(f|ph)radine	Cefradine	FALSE
+nl	Ce(f|ph)operazone/beta-lactamase inhibitor	Cefoperazon/enzymremmer	FALSE	FALSE	FALSE
-nl	Ce(f|ph)sulodin	Cefsulodine	FALSE
+nl	Ce(f|ph)otaxime	Cefotaxim	FALSE	FALSE	FALSE
-nl	Ce(f|ph)tazidime	Ceftazidim	FALSE
+nl	Ce(f|ph)oxitin	Cefoxitine	FALSE	FALSE	FALSE
-nl	Ce(f|ph)tezole	Ceftezol	FALSE
+nl	Ce(f|ph)pirome	Cefpirom	FALSE	FALSE	FALSE
-nl	Ce(f|ph)tizoxime	Ceftizoxim	FALSE
+nl	Ce(f|ph)podoxime	Cefpodoxim	FALSE	FALSE	FALSE
-nl	Ce(f|ph)triaxone	Ceftriaxon	FALSE
+nl	Ce(f|ph)radine	Cefradine	FALSE	FALSE	FALSE
-nl	Ce(f|ph)uroxime	Cefuroxim	FALSE
+nl	Ce(f|ph)sulodin	Cefsulodine	FALSE	FALSE	FALSE
-nl	Ce(f|ph)uroxime/metronidazole	Cefuroxim/andere antibacteriele middelen	FALSE
+nl	Ce(f|ph)tazidime	Ceftazidim	FALSE	FALSE	FALSE
-nl	Chloramphenicol	Chlooramfenicol
+nl	Ce(f|ph)tezole	Ceftezol	FALSE	FALSE	FALSE
-nl	Chlortetracycline	Chloortetracycline
+nl	Ce(f|ph)tizoxime	Ceftizoxim	FALSE	FALSE	FALSE
-nl	Cinoxacin	Cinoxacine
+nl	Ce(f|ph)triaxone	Ceftriaxon	FALSE	FALSE	FALSE
-nl	Ciprofloxacin	Ciprofloxacine
+nl	Ce(f|ph)uroxime	Cefuroxim	FALSE	FALSE	FALSE
-nl	Clarithromycin	Claritromycine
+nl	Ce(f|ph)uroxime/metronidazole	Cefuroxim/andere antibacteriele middelen	FALSE	FALSE	FALSE
-nl	Clavulanic acid	Clavulaanzuur
+nl	Chloramphenicol	Chlooramfenicol	TRUE	FALSE	FALSE
-nl	clavulanic acid	clavulaanzuur
+nl	Chlortetracycline	Chloortetracycline	TRUE	FALSE	FALSE
-nl	Clindamycin	Clindamycine
+nl	Cinoxacin	Cinoxacine	TRUE	FALSE	FALSE
-nl	Clometocillin	Clometocilline
+nl	Ciprofloxacin	Ciprofloxacine	TRUE	FALSE	FALSE
-nl	Clotrimazole	Clotrimazol
+nl	Clarithromycin	Claritromycine	TRUE	FALSE	FALSE
-nl	Cloxacillin	Cloxacilline
+nl	Clavulanic acid	Clavulaanzuur	TRUE	FALSE	FALSE
-nl	Colistin	Colistine
+nl	clavulanic acid	clavulaanzuur	TRUE	FALSE	FALSE
-nl	Dapsone	Dapson
+nl	Clindamycin	Clindamycine	TRUE	FALSE	FALSE
-nl	Daptomycin	Daptomycine
+nl	Clometocillin	Clometocilline	TRUE	FALSE	FALSE
-nl	Dibekacin	Dibekacine
+nl	Clotrimazole	Clotrimazol	TRUE	FALSE	FALSE
-nl	Dicloxacillin	Dicloxacilline
+nl	Cloxacillin	Cloxacilline	TRUE	FALSE	FALSE
-nl	Dirithromycin	Diritromycine
+nl	Colistin	Colistine	TRUE	FALSE	FALSE
-nl	Econazole	Econazol
+nl	Dapsone	Dapson	TRUE	FALSE	FALSE
-nl	Enoxacin	Enoxacine
+nl	Daptomycin	Daptomycine	TRUE	FALSE	FALSE
-nl	Epicillin	Epicilline
+nl	Dibekacin	Dibekacine	TRUE	FALSE	FALSE
-nl	Erythromycin	Erytromycine
+nl	Dicloxacillin	Dicloxacilline	TRUE	FALSE	FALSE
-nl	Ethambutol/isoniazid	Ethambutol/isoniazide
+nl	Dirithromycin	Diritromycine	TRUE	FALSE	FALSE
-nl	Fleroxacin	Fleroxacine
+nl	Econazole	Econazol	TRUE	FALSE	FALSE
-nl	Flucloxacillin	Flucloxacilline
+nl	Enoxacin	Enoxacine	TRUE	FALSE	FALSE
-nl	Fluconazole	Fluconazol
+nl	Epicillin	Epicilline	TRUE	FALSE	FALSE
-nl	Flucytosine	Fluorocytosine
+nl	Erythromycin	Erytromycine	TRUE	FALSE	FALSE
-nl	Flurithromycin	Fluritromycine
+nl	Ethambutol/isoniazid	Ethambutol/isoniazide	TRUE	FALSE	FALSE
-nl	Fosfomycin	Fosfomycine
+nl	Fleroxacin	Fleroxacine	TRUE	FALSE	FALSE
-nl	Fusidic acid	Fusidinezuur
+nl	Flucloxacillin	Flucloxacilline	TRUE	FALSE	FALSE
-nl	Gatifloxacin	Gatifloxacine
+nl	Fluconazole	Fluconazol	TRUE	FALSE	FALSE
-nl	Gemifloxacin	Gemifloxacine
+nl	Flucytosine	Fluorocytosine	TRUE	FALSE	FALSE
-nl	Gentamicin	Gentamicine
+nl	Flurithromycin	Fluritromycine	TRUE	FALSE	FALSE
-nl	Grepafloxacin	Grepafloxacine
+nl	Fosfomycin	Fosfomycine	TRUE	FALSE	FALSE
-nl	Hachimycin	Hachimycine
+nl	Fusidic acid	Fusidinezuur	TRUE	FALSE	FALSE
-nl	Hetacillin	Hetacilline
+nl	Gatifloxacin	Gatifloxacine	TRUE	FALSE	FALSE
-nl	Imipenem/cilastatin	Imipenem/enzymremmer
+nl	Gemifloxacin	Gemifloxacine	TRUE	FALSE	FALSE
-nl	Inosine pranobex	Inosiplex
+nl	Gentamicin	Gentamicine	TRUE	FALSE	FALSE
-nl	Isepamicin	Isepamicine
+nl	Grepafloxacin	Grepafloxacine	TRUE	FALSE	FALSE
-nl	Isoconazole	Isoconazol
+nl	Hachimycin	Hachimycine	TRUE	FALSE	FALSE
-nl	Isoniazid	Isoniazide
+nl	Hetacillin	Hetacilline	TRUE	FALSE	FALSE
-nl	Itraconazole	Itraconazol
+nl	Imipenem/cilastatin	Imipenem/enzymremmer	TRUE	FALSE	FALSE
-nl	Josamycin	Josamycine
+nl	Inosine pranobex	Inosiplex	TRUE	FALSE	FALSE
-nl	Kanamycin	Kanamycine
+nl	Isepamicin	Isepamicine	TRUE	FALSE	FALSE
-nl	Ketoconazole	Ketoconazol
+nl	Isoconazole	Isoconazol	TRUE	FALSE	FALSE
-nl	Levofloxacin	Levofloxacine
+nl	Isoniazid	Isoniazide	TRUE	FALSE	FALSE
-nl	Lincomycin	Lincomycine
+nl	Itraconazole	Itraconazol	TRUE	FALSE	FALSE
-nl	Lomefloxacin	Lomefloxacine
+nl	Josamycin	Josamycine	TRUE	FALSE	FALSE
-nl	Lysozyme	Lysozym
+nl	Kanamycin	Kanamycine	TRUE	FALSE	FALSE
-nl	Mandelic acid	Amandelzuur
+nl	Ketoconazole	Ketoconazol	TRUE	FALSE	FALSE
-nl	Metampicillin	Metampicilline
+nl	Levofloxacin	Levofloxacine	TRUE	FALSE	FALSE
-nl	Meticillin	Meticilline
+nl	Lincomycin	Lincomycine	TRUE	FALSE	FALSE
-nl	Metisazone	Metisazon
+nl	Lomefloxacin	Lomefloxacine	TRUE	FALSE	FALSE
-nl	Metronidazole	Metronidazol
+nl	Lysozyme	Lysozym	TRUE	FALSE	FALSE
-nl	Mezlocillin	Mezlocilline
+nl	Mandelic acid	Amandelzuur	TRUE	FALSE	FALSE
-nl	Micafungin	Micafungine
+nl	Metampicillin	Metampicilline	TRUE	FALSE	FALSE
-nl	Miconazole	Miconazol
+nl	Meticillin	Meticilline	TRUE	FALSE	FALSE
-nl	Midecamycin	Midecamycine
+nl	Metisazone	Metisazon	TRUE	FALSE	FALSE
-nl	Miocamycin	Miocamycine
+nl	Metronidazole	Metronidazol	TRUE	FALSE	FALSE
-nl	Moxifloxacin	Moxifloxacine
+nl	Mezlocillin	Mezlocilline	TRUE	FALSE	FALSE
-nl	Mupirocin	Mupirocine
+nl	Micafungin	Micafungine	TRUE	FALSE	FALSE
-nl	Nalidixic acid	Nalidixinezuur
+nl	Miconazole	Miconazol	TRUE	FALSE	FALSE
-nl	Neomycin	Neomycine
+nl	Midecamycin	Midecamycine	TRUE	FALSE	FALSE
-nl	Netilmicin	Netilmicine
+nl	Miocamycin	Miocamycine	TRUE	FALSE	FALSE
-nl	Nitrofurantoin	Nitrofurantoine
+nl	Moxifloxacin	Moxifloxacine	TRUE	FALSE	FALSE
-nl	Norfloxacin	Norfloxacine
+nl	Mupirocin	Mupirocine	TRUE	FALSE	FALSE
-nl	Novobiocin	Novobiocine
+nl	Nalidixic acid	Nalidixinezuur	TRUE	FALSE	FALSE
-nl	Nystatin	Nystatine
+nl	Neomycin	Neomycine	TRUE	FALSE	FALSE
-nl	Ofloxacin	Ofloxacine
+nl	Netilmicin	Netilmicine	TRUE	FALSE	FALSE
-nl	Oleandomycin	Oleandomycine
+nl	Nitrofurantoin	Nitrofurantoine	TRUE	FALSE	FALSE
-nl	Ornidazole	Ornidazol
+nl	Norfloxacin	Norfloxacine	TRUE	FALSE	FALSE
-nl	Oxacillin	Oxacilline
+nl	Novobiocin	Novobiocine	TRUE	FALSE	FALSE
-nl	Oxolinic acid	Oxolinezuur
+nl	Nystatin	Nystatine	TRUE	FALSE	FALSE
-nl	Oxytetracycline	Oxytetracycline
+nl	Ofloxacin	Ofloxacine	TRUE	FALSE	FALSE
-nl	Pazufloxacin	Pazufloxacine
+nl	Oleandomycin	Oleandomycine	TRUE	FALSE	FALSE
-nl	Pefloxacin	Pefloxacine
+nl	Ornidazole	Ornidazol	TRUE	FALSE	FALSE
-nl	Penamecillin	Penamecilline
+nl	Oxacillin	Oxacilline	TRUE	FALSE	FALSE
-nl	Penicillin	Penicilline
+nl	Oxolinic acid	Oxolinezuur	TRUE	FALSE	FALSE
-nl	Pheneticillin	Feneticilline
+nl	Oxytetracycline	Oxytetracycline	TRUE	FALSE	FALSE
-nl	Phenoxymethylpenicillin	Fenoxymethylpenicilline
+nl	Pazufloxacin	Pazufloxacine	TRUE	FALSE	FALSE
-nl	Pipemidic acid	Pipemidinezuur
+nl	Pefloxacin	Pefloxacine	TRUE	FALSE	FALSE
-nl	Piperacillin	Piperacilline
+nl	Penamecillin	Penamecilline	TRUE	FALSE	FALSE
-nl	Piperacillin/beta-lactamase inhibitor	Piperacilline/enzymremmer
+nl	Penicillin	Penicilline	TRUE	FALSE	FALSE
-nl	Piromidic acid	Piromidinezuur
+nl	Pheneticillin	Feneticilline	TRUE	FALSE	FALSE
-nl	Pivampicillin	Pivampicilline
+nl	Phenoxymethylpenicillin	Fenoxymethylpenicilline	TRUE	FALSE	FALSE
-nl	Polymyxin B	Polymyxine B
+nl	Pipemidic acid	Pipemidinezuur	TRUE	FALSE	FALSE
-nl	Posaconazole	Posaconazol
+nl	Piperacillin	Piperacilline	TRUE	FALSE	FALSE
-nl	Pristinamycin	Pristinamycine
+nl	Piperacillin/beta-lactamase inhibitor	Piperacilline/enzymremmer	TRUE	FALSE	FALSE
-nl	Procaine benzylpenicillin	Benzylpenicillineprocaine
+nl	Piromidic acid	Piromidinezuur	TRUE	FALSE	FALSE
-nl	Propicillin	Propicilline
+nl	Pivampicillin	Pivampicilline	TRUE	FALSE	FALSE
-nl	Prulifloxacin	Prulifloxacine
+nl	Polymyxin B	Polymyxine B	TRUE	FALSE	FALSE
-nl	Quinupristin/dalfopristin	Quinupristine/dalfopristine
+nl	Posaconazole	Posaconazol	TRUE	FALSE	FALSE
-nl	Ribostamycin	Ribostamycine
+nl	Pristinamycin	Pristinamycine	TRUE	FALSE	FALSE
-nl	Rifabutin	Rifabutine
+nl	Procaine benzylpenicillin	Benzylpenicillineprocaine	TRUE	FALSE	FALSE
-nl	Rifampicin	Rifampicine
+nl	Propicillin	Propicilline	TRUE	FALSE	FALSE
-nl	Rifampicin/pyrazinamide/ethambutol/isoniazid	Rifampicine/pyrazinamide/ethambutol/isoniazide
+nl	Prulifloxacin	Prulifloxacine	TRUE	FALSE	FALSE
-nl	Rifampicin/pyrazinamide/isoniazid	Rifampicine/pyrazinamide/isoniazide
+nl	Quinupristin/dalfopristin	Quinupristine/dalfopristine	TRUE	FALSE	FALSE
-nl	Rifampicin/isoniazid	Rifampicine/isoniazide
+nl	Ribostamycin	Ribostamycine	TRUE	FALSE	FALSE
-nl	Rifamycin	Rifamycine
+nl	Rifabutin	Rifabutine	TRUE	FALSE	FALSE
-nl	Rifaximin	Rifaximine
+nl	Rifampicin	Rifampicine	TRUE	FALSE	FALSE
-nl	Rokitamycin	Rokitamycine
+nl	Rifampicin/pyrazinamide/ethambutol/isoniazid	Rifampicine/pyrazinamide/ethambutol/isoniazide	TRUE	FALSE	FALSE
-nl	Rosoxacin	Rosoxacine
+nl	Rifampicin/pyrazinamide/isoniazid	Rifampicine/pyrazinamide/isoniazide	TRUE	FALSE	FALSE
-nl	Roxithromycin	Roxitromycine
+nl	Rifampicin/isoniazid	Rifampicine/isoniazide	TRUE	FALSE	FALSE
-nl	Rufloxacin	Rufloxacine
+nl	Rifamycin	Rifamycine	TRUE	FALSE	FALSE
-nl	Sisomicin	Sisomicine
+nl	Rifaximin	Rifaximine	TRUE	FALSE	FALSE
-nl	Sodium aminosalicylate	Aminosalicylzuur
+nl	Rokitamycin	Rokitamycine	TRUE	FALSE	FALSE
-nl	Sparfloxacin	Sparfloxacine
+nl	Rosoxacin	Rosoxacine	TRUE	FALSE	FALSE
-nl	Spectinomycin	Spectinomycine
+nl	Roxithromycin	Roxitromycine	TRUE	FALSE	FALSE
-nl	Spiramycin	Spiramycine
+nl	Rufloxacin	Rufloxacine	TRUE	FALSE	FALSE
-nl	Spiramycin/metronidazole	Spiramycine/metronidazol
+nl	Sisomicin	Sisomicine	TRUE	FALSE	FALSE
-nl	Staphylococcus immunoglobulin	Stafylokokkenimmunoglobuline
+nl	Sodium aminosalicylate	Aminosalicylzuur	TRUE	FALSE	FALSE
-nl	Streptoduocin	Streptoduocine
+nl	Sparfloxacin	Sparfloxacine	TRUE	FALSE	FALSE
-nl	Streptomycin	Streptomycine
+nl	Spectinomycin	Spectinomycine	TRUE	FALSE	FALSE
-nl	Streptomycin/isoniazid	Streptomycine/isoniazide
+nl	Spiramycin	Spiramycine	TRUE	FALSE	FALSE
-nl	Sulbenicillin	Sulbenicilline
+nl	Spiramycin/metronidazole	Spiramycine/metronidazol	TRUE	FALSE	FALSE
-nl	Sulfadiazine/tetroxoprim	Sulfadiazine/tetroxoprim
+nl	Staphylococcus immunoglobulin	Stafylokokkenimmunoglobuline	TRUE	FALSE	FALSE
-nl	Sulfadiazine/trimethoprim	Sulfadiazine/trimethoprim
+nl	Streptoduocin	Streptoduocine	TRUE	FALSE	FALSE
-nl	Sulfadimidine/trimethoprim	Sulfadimidine/trimethoprim
+nl	Streptomycin	Streptomycine	TRUE	FALSE	FALSE
-nl	Sulfafurazole	Sulfafurazol
+nl	Streptomycin/isoniazid	Streptomycine/isoniazide	TRUE	FALSE	FALSE
-nl	Sulfaisodimidine	Sulfisomidine
+nl	Sulbenicillin	Sulbenicilline	TRUE	FALSE	FALSE
-nl	Sulfalene	Sulfaleen
+nl	Sulfadiazine/tetroxoprim	Sulfadiazine/tetroxoprim	TRUE	FALSE	FALSE
-nl	Sulfamazone	Sulfamazon
+nl	Sulfadiazine/trimethoprim	Sulfadiazine/trimethoprim	TRUE	FALSE	FALSE
-nl	Sulfamerazine/trimethoprim	Sulfamerazine/trimethoprim
+nl	Sulfadimidine/trimethoprim	Sulfadimidine/trimethoprim	TRUE	FALSE	FALSE
-nl	Sulfamethizole	Sulfamethizol
+nl	Sulfafurazole	Sulfafurazol	TRUE	FALSE	FALSE
-nl	Sulfamethoxazole	Sulfamethoxazol
+nl	Sulfaisodimidine	Sulfisomidine	TRUE	FALSE	FALSE
-nl	Sulfamethoxazole/trimethoprim	Sulfamethoxazol/trimethoprim
+nl	Sulfalene	Sulfaleen	TRUE	FALSE	FALSE
-nl	Sulfametoxydiazine	Sulfamethoxydiazine
+nl	Sulfamazone	Sulfamazon	TRUE	FALSE	FALSE
-nl	Sulfametrole/trimethoprim	Sulfametrol/trimethoprim
+nl	Sulfamerazine/trimethoprim	Sulfamerazine/trimethoprim	TRUE	FALSE	FALSE
-nl	Sulfamoxole	Sulfamoxol
+nl	Sulfamethizole	Sulfamethizol	TRUE	FALSE	FALSE
-nl	Sulfamoxole/trimethoprim	Sulfamoxol/trimethoprim
+nl	Sulfamethoxazole	Sulfamethoxazol	TRUE	FALSE	FALSE
-nl	Sulfaperin	Sulfaperine
+nl	Sulfamethoxazole/trimethoprim	Sulfamethoxazol/trimethoprim	TRUE	FALSE	FALSE
-nl	Sulfaphenazole	Sulfafenazol
+nl	Sulfametoxydiazine	Sulfamethoxydiazine	TRUE	FALSE	FALSE
-nl	Sulfathiazole	Sulfathiazol
+nl	Sulfametrole/trimethoprim	Sulfametrol/trimethoprim	TRUE	FALSE	FALSE
-nl	Sulfathiourea	Sulfathioureum
+nl	Sulfamoxole	Sulfamoxol	TRUE	FALSE	FALSE
-nl	Sultamicillin	Sultamicilline
+nl	Sulfamoxole/trimethoprim	Sulfamoxol/trimethoprim	TRUE	FALSE	FALSE
-nl	Talampicillin	Talampicilline
+nl	Sulfaperin	Sulfaperine	TRUE	FALSE	FALSE
-nl	Teicoplanin	Teicoplanine
+nl	Sulfaphenazole	Sulfafenazol	TRUE	FALSE	FALSE
-nl	Telithromycin	Telitromycine
+nl	Sulfathiazole	Sulfathiazol	TRUE	FALSE	FALSE
-nl	Temafloxacin	Temafloxacine
+nl	Sulfathiourea	Sulfathioureum	TRUE	FALSE	FALSE
-nl	Temocillin	Temocilline
+nl	Sultamicillin	Sultamicilline	TRUE	FALSE	FALSE
-nl	Tenofovir disoproxil	Tenofovir
+nl	Talampicillin	Talampicilline	TRUE	FALSE	FALSE
-nl	Terizidone	Terizidon
+nl	Teicoplanin	Teicoplanine	TRUE	FALSE	FALSE
-nl	Thiamphenicol	Thiamfenicol
+nl	Telithromycin	Telitromycine	TRUE	FALSE	FALSE
-nl	Thioacetazone/isoniazid	Thioacetazon/isoniazide
+nl	Temafloxacin	Temafloxacine	TRUE	FALSE	FALSE
-nl	Ticarcillin	Ticarcilline
+nl	Temocillin	Temocilline	TRUE	FALSE	FALSE
-nl	Ticarcillin/beta-lactamase inhibitor	Ticarcilline/enzymremmer
+nl	Tenofovir disoproxil	Tenofovir	TRUE	FALSE	FALSE
-nl	Ticarcillin/clavulanic acid	Ticarcilline/clavulaanzuur
+nl	Terizidone	Terizidon	TRUE	FALSE	FALSE
-nl	Tinidazole	Tinidazol
+nl	Thiamphenicol	Thiamfenicol	TRUE	FALSE	FALSE
-nl	Tobramycin	Tobramycine
+nl	Thioacetazone/isoniazid	Thioacetazon/isoniazide	TRUE	FALSE	FALSE
-nl	Trimethoprim/sulfamethoxazole	Cotrimoxazol
+nl	Ticarcillin	Ticarcilline	TRUE	FALSE	FALSE
-nl	Troleandomycin	Troleandomycine
+nl	Ticarcillin/beta-lactamase inhibitor	Ticarcilline/enzymremmer	TRUE	FALSE	FALSE
-nl	Trovafloxacin	Trovafloxacine
+nl	Ticarcillin/clavulanic acid	Ticarcilline/clavulaanzuur	TRUE	FALSE	FALSE
-nl	Vancomycin	Vancomycine
+nl	Tinidazole	Tinidazol	TRUE	FALSE	FALSE
-nl	Voriconazole	Voriconazol
+nl	Tobramycin	Tobramycine	TRUE	FALSE	FALSE
-nl	Aminoglycosides	Aminoglycosiden	TRUE	FALSE
+nl	Trimethoprim/sulfamethoxazole	Cotrimoxazol	TRUE	FALSE	FALSE
-nl	Amphenicols	Amfenicolen	TRUE	FALSE
+nl	Troleandomycin	Troleandomycine	TRUE	FALSE	FALSE
-nl	Antifungals/antimycotics	Antifungica/antimycotica	TRUE	FALSE
+nl	Trovafloxacin	Trovafloxacine	TRUE	FALSE	FALSE
-nl	Antimycobacterials	Antimycobacteriele middelen	TRUE	FALSE
+nl	Vancomycin	Vancomycine	TRUE	FALSE	FALSE
-nl	Beta-lactams/penicillins	Beta-lactams/penicillines	TRUE	FALSE
+nl	Voriconazole	Voriconazol	TRUE	FALSE	FALSE
-nl	Cephalosporins (1st gen.)	Cefalosporines (1e gen.)	TRUE	FALSE
+nl	Aminoglycosides	Aminoglycosiden	TRUE	FALSE	FALSE
-nl	Cephalosporins (2nd gen.)	Cefalosporines (2e gen.)	TRUE	FALSE
+nl	Amphenicols	Amfenicolen	TRUE	FALSE	FALSE
-nl	Cephalosporins (3rd gen.)	Cefalosporines (3e gen.)	TRUE	FALSE
+nl	Antifungals/antimycotics	Antifungica/antimycotica	TRUE	FALSE	FALSE
-nl	Cephalosporins (4th gen.)	Cefalosporines (4e gen.)	TRUE	FALSE
+nl	Antimycobacterials	Antimycobacteriele middelen	TRUE	FALSE	FALSE
-nl	Cephalosporins (5th gen.)	Cefalosporines (5e gen.)	TRUE	FALSE
+nl	Beta-lactams/penicillins	Beta-lactams/penicillines	TRUE	FALSE	FALSE
-nl	Cephalosporins (unclassified gen.)	Cefalosporines (ongeclassificeerd)	TRUE	FALSE
+nl	Cephalosporins (1st gen.)	Cefalosporines (1e gen.)	TRUE	FALSE	FALSE
-nl	Cephalosporins	Cefalosporines	TRUE	FALSE
+nl	Cephalosporins (2nd gen.)	Cefalosporines (2e gen.)	TRUE	FALSE	FALSE
-nl	Glycopeptides	Glycopeptiden	TRUE	FALSE
+nl	Cephalosporins (3rd gen.)	Cefalosporines (3e gen.)	TRUE	FALSE	FALSE
-nl	Macrolides/lincosamides	Macroliden/lincosamiden	TRUE	FALSE
+nl	Cephalosporins (4th gen.)	Cefalosporines (4e gen.)	TRUE	FALSE	FALSE
-nl	Other antibacterials	Overige antibiotica	TRUE	FALSE
+nl	Cephalosporins (5th gen.)	Cefalosporines (5e gen.)	TRUE	FALSE	FALSE
-nl	Polymyxins	Polymyxines	TRUE	FALSE
+nl	Cephalosporins (unclassified gen.)	Cefalosporines (ongeclassificeerd)	TRUE	FALSE	FALSE
-nl	Quinolones	Quinolonen	TRUE	FALSE
+nl	Cephalosporins	Cefalosporines	TRUE	FALSE	FALSE
+nl	Glycopeptides	Glycopeptiden	TRUE	FALSE	FALSE
+nl	Macrolides/lincosamides	Macroliden/lincosamiden	TRUE	FALSE	FALSE
+nl	Other antibacterials	Overige antibiotica	TRUE	FALSE	FALSE
+nl	Polymyxins	Polymyxines	TRUE	FALSE	FALSE
+nl	Quinolones	Quinolonen	TRUE	FALSE	FALSE

docs/404.html

@@ -81,7 +81,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="https://msberends.github.io/AMR//index.html">AMR (for R)</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.5.0.9019</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.5.0.9020</span>
       </span>
     </div>
 

docs/LICENSE-text.html

@@ -81,7 +81,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="index.html">AMR (for R)</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.5.0.9019</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.5.0.9020</span>
       </span>
     </div>
 

docs/articles/index.html

@@ -81,7 +81,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">AMR (for R)</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.5.0.9019</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.5.0.9020</span>
       </span>
     </div>
 

docs/authors.html

@@ -81,7 +81,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="index.html">AMR (for R)</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.5.0.9019</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.5.0.9020</span>
       </span>
     </div>
 

docs/index.html

@@ -43,7 +43,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="index.html">AMR (for R)</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.5.0.9019</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.5.0.9020</span>
       </span>
     </div>
 
@@ -395,8 +395,9 @@ Since you are one of our users, we would like to know how you use the package an
 <p><img src="https://github.com/msberends/AMR/workflows/R-code-check/badge.svg?branch=master" alt="R-code-check"><a href="https://www.codefactor.io/repository/github/msberends/amr"><img src="https://www.codefactor.io/repository/github/msberends/amr/badge" alt="CodeFactor"></a> <a href="https://codecov.io/gh/msberends/AMR?branch=master"><img src="https://codecov.io/gh/msberends/AMR/branch/master/graph/badge.svg" alt="Codecov"></a></p>
 <p>The latest and unpublished development version can be installed from GitHub using:</p>
 <div class="sourceCode" id="cb4"><pre class="downlit sourceCode r">
-<code class="sourceCode R"><span class="fu"><a href="https://rdrr.io/r/utils/install.packages.html">install.packages</a></span><span class="op">(</span><span class="st">"remotes"</span><span class="op">)</span> 
+<code class="sourceCode R"><span class="fu"><a href="https://rdrr.io/r/utils/install.packages.html">install.packages</a></span><span class="op">(</span><span class="st">"remotes"</span><span class="op">)</span> <span class="co"># if you haven't already</span>
 <span class="fu">remotes</span><span class="fu">::</span><span class="fu"><a href="https://remotes.r-lib.org/reference/install_github.html">install_github</a></span><span class="op">(</span><span class="st">"msberends/AMR"</span><span class="op">)</span></code></pre></div>
+<p>You can also download the latest build from our repository: <a href="https://github.com/msberends/AMR/raw/master/data-raw/AMR_latest.tar.gz" class="uri">https://github.com/msberends/AMR/raw/master/data-raw/AMR_latest.tar.gz</a></p>
 </div>
 </div>
 <div id="get-started" class="section level3">

docs/news/index.html

@@ -81,7 +81,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">AMR (for R)</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.5.0.9019</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.5.0.9020</span>
       </span>
     </div>
 
@@ -236,13 +236,13 @@
       <small>Source: <a href='https://github.com/msberends/AMR/blob/master/NEWS.md'><code>NEWS.md</code></a></small>
     </div>
 
-    <div id="amr-1509019" class="section level1">
+    <div id="amr-1509020" class="section level1">
-<h1 class="page-header" data-toc-text="1.5.0.9019">
+<h1 class="page-header" data-toc-text="1.5.0.9020">
-<a href="#amr-1509019" class="anchor"></a>AMR 1.5.0.9019<small> Unreleased </small>
+<a href="#amr-1509020" class="anchor"></a>AMR 1.5.0.9020<small> Unreleased </small>
 </h1>
-<div id="last-updated-17-february-2021" class="section level2">
+<div id="last-updated-18-february-2021" class="section level2">
 <h2 class="hasAnchor">
-<a href="#last-updated-17-february-2021" class="anchor"></a><small>Last updated: 17 February 2021</small>
+<a href="#last-updated-18-february-2021" class="anchor"></a><small>Last updated: 18 February 2021</small>
 </h2>
 <div id="new" class="section level3">
 <h3 class="hasAnchor">
@@ -325,6 +325,7 @@
 <li>Functions <code><a href="https://rdrr.io/r/base/print.html">print()</a></code> and <code><a href="https://rdrr.io/r/base/summary.html">summary()</a></code> on a Principal Components Analysis object (<code><a href="../reference/pca.html">pca()</a></code>) now print additional group info if the original data was grouped using <code><a href="https://dplyr.tidyverse.org/reference/group_by.html">dplyr::group_by()</a></code>
 </li>
 <li>Improved speed and reliability of <code><a href="../reference/guess_ab_col.html">guess_ab_col()</a></code>. As this also internally improves the reliability of <code><a href="../reference/first_isolate.html">first_isolate()</a></code> and <code><a href="../reference/mdro.html">mdro()</a></code>, this might have a slight impact on the results of those functions.</li>
+<li>Fix for <code><a href="../reference/mo_property.html">mo_name()</a></code> when used in other languages than English</li>
 </ul>
 </div>
 <div id="other" class="section level3">

docs/pkgdown.yml

@@ -12,7 +12,7 @@ articles:
   datasets: datasets.html
   resistance_predict: resistance_predict.html
   welcome_to_AMR: welcome_to_AMR.html
-last_built: 2021-02-17T09:58Z
+last_built: 2021-02-18T22:21Z
 urls:
   reference: https://msberends.github.io/AMR//reference
   article: https://msberends.github.io/AMR//articles

docs/reference/index.html

@@ -81,7 +81,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">AMR (for R)</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.5.0.9019</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.5.0.9020</span>
       </span>
     </div>
 

docs/survey.html

@@ -81,7 +81,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="index.html">AMR (for R)</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.5.0.9019</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.5.0.9020</span>
       </span>
     </div>
 

git_premaster.sh

@@ -123,10 +123,8 @@ echo
 echo "••••••••••••••••••••"
 echo "• Building package •"
 echo "••••••••••••••••••••"
-echo "• Removing old build from 'data-raw/'..."
+echo "• Building 'data-raw/AMR_latest.tar.gz'..."
-rm data-raw/AMR_*.tar.gz
+Rscript -e "x <- devtools::build(path = 'data-raw/AMR_latest.tar.gz', vignettes = FALSE, manual = FALSE, binary = FALSE, quiet = TRUE)"
-echo "• Building 'data-raw/AMR_${new_version}.tar.gz'..."
-Rscript -e "x <- devtools::build(path = 'data-raw', vignettes = FALSE, manual = FALSE, binary = FALSE, quiet = TRUE)"
 echo "• Installing..."
 Rscript -e "devtools::install(quiet = TRUE, dependencies = FALSE)"
 echo

index.md

@@ -125,10 +125,12 @@ It will be downloaded and installed automatically. For RStudio, click on the men
 The latest and unpublished development version can be installed from GitHub using:
 
 ```r
-install.packages("remotes") 
+install.packages("remotes") # if you haven't already
 remotes::install_github("msberends/AMR")
 ```
 
+You can also download the latest build from our repository: <https://github.com/msberends/AMR/raw/master/data-raw/AMR_latest.tar.gz>
+
 ### Get started
 
 To find out how to conduct AMR data analysis, please [continue reading here to get started](./articles/AMR.html) or click the links in the 'How to' menu.

tests/testthat/test-mo_property.R

@@ -84,6 +84,9 @@ test_that("mo_property works", {
   expect_output(print(mo_gramstain("Escherichia coli", language = "fr")))
 
   expect_error(mo_gramstain("Escherichia coli", language = "UNKNOWN"))
+  
+  dutch <- mo_name(microorganisms$fullname, language = "nl") # should be transformable to English again
+  expect_identical(mo_name(dutch, language = NULL), microorganisms$fullname) # gigantic test - will run ALL names
 
   # manual property function
   expect_error(mo_property("Escherichia coli", property = c("tsn", "fullname")))