Fix importing in NAMESPACE, ctb in DESCRIPTION

DESCRIPTION

@@ -1,11 +1,11 @@
 Package: MetFamily
 Type: Package
 Title: MetFamily: Discovering Regulated Metabolite Families in Untargeted Metabolomics Studies
-Version: 0.99.4
-Date: 2024-08-22
-Author: c( person("Hendrik", "Treutler, role = c("aut"), email = "[email protected]"),
-           person("Khabat", "Vahabi", role = c("aut"), email = "[email protected]"),
-           person("Norman", "Storz", role = c("aut"), email = "[email protected]"),
+Version: 0.99.5
+Date: 2024-11-07
+Author: c( person(given = "Hendrik", family = "Treutler", role = c("aut"), email = "[email protected]"),
+           person(given = "Khabat", family = "Vahabi", role = c("ctb"), email = "[email protected]"),
+           person(given = "Norman", family = "Storz", role = c("ctb"), email = "[email protected]"),
            person(given = "Steffen", family = "Neumann", email = "[email protected]",
            role = c("aut", "cre"), comment = c(ORCID = "0000-0002-7899-7192")) )
 Depends:

NAMESPACE

@@ -36,6 +36,6 @@ importFrom("stats", "as.dendrogram", "cor", "dendrapply", "dist",
 importFrom("utils", "flush.console", "read.table")
 
 
-importFrom(SummarizedExperiment,colData)
-importFrom(SummarizedExperiment,rowData)
-importFrom(SummarizedExperiment,assay)
+importFrom("SummarizedExperiment","colData")
+importFrom("SummarizedExperiment","rowData", "rowData<-")
+importFrom("SummarizedExperiment","assay")

R/parsePeakAbundanceMatrixQF.R

@@ -191,6 +191,8 @@ parsePeakAbundanceMatrixQF <- function(qfeatures,
 #' @param siriusID 
 #'
 #' @return
+#' @importFrom SummarizedExperiment rowData
+#' @importFrom SummarizedExperiment rowData<- 
 #' @export
 #'
 #' @examples

inst/MetFamily/server.R

@@ -1,35 +1,35 @@
 
-options(shiny.sanitize.errors = FALSE)
-
 #########################################################################################
 #########################################################################################
 ## libraries and functions
 
 sourceFolder <- getwd()
 isDevelopment <- FALSE
-errorHunting <- FALSE
+errorHunting <- TRUE
 hcaHeatMapNew <- TRUE
 
+##
+## Load dependency libraries. Formerly in sourceTheCode()
+##
+library(MetFamily)
+load_metfamily_dependencies()
+
 #####################################################################################################
 ## handling of errors and warnings
 if(errorHunting){
   options(warn = 2, shiny.error = recover)
-  options(shiny.trace=TRUE)
+  #options(shiny.trace=TRUE)
+  options(shiny.trace=FALSE)
   options(shiny.fullstacktrace=TRUE)
   options(shiny.testmode=TRUE)
+  options(shiny.sanitize.errors = FALSE)
 } else {
   options(warn = 1, shiny.error = NULL)
   options(shiny.trace=FALSE)
   options(shiny.fullstacktrace=FALSE)
   options(shiny.testmode=FALSE)
 }
 
-##
-## Load dependency libraries. Formerly in sourceTheCode()
-##
-library(MetFamily)
-load_metfamily_dependencies()
-
 #########################################################################################
 #########################################################################################
 ## server-side logic of the Shiny app

inst/MetFamily/version.R

@@ -2,7 +2,7 @@
 
 toolName       <- "MetFamily"
 toolVersion    <- "1.0"    
-metFamilyAppVersion <- "1.3.4"
+metFamilyAppVersion <- "1.3.5"
 
 packageVersion <- package.version("MetFamily")