R/XPSImportAsciiGUI.r
In GSperanza/RxpsG_2.3-1: Processing Tool for X-ray Photoelectron Spectroscopy Data
Defines functions
XPSImport.Ascii
Documented in
XPSImport.Ascii
#XPSImport.Ascii GUI to make reading/loading ascii file easy
#' @title XPSImport.Ascii function
#' @description Function allowing import of textual (ascii) file data
#' Options are available to account for header and data separator
#' Options are also provided to store data in an object of class 'XPSSample'
#' @return XPSImport.Ascii returns and object of class 'XPSSample' with
#' data loaded into a XPSCoreLine slot
#' @examples
#' \dontrun{
#' XPSImport.Ascii()
#' }
#' @export
#'
XPSImport.Ascii <- function() {
options(guiToolkit = "tcltk")
#--- warnings if required selections are lacking
check_selection <- function(){
if (nchar(svalue(ColX)) * nchar(svalue(ColY))==0) { #X and Y columns must be indicated
gmessage(msg="Please give ColX and ColY to be imported", title="WARNING: column lacking", icon="warning")
return(FALSE)
}
if ( ! (svalue(reverseX) || svalue(NOreverseX))) { #one of reverseX or NOreverseX should be SELECTED
gmessage(msg="Reverse X axis? Plsease check!", title="WARNING X axis!", icon="warning")
return(FALSE)
}
if ( nchar(svalue(CLname))==0) { #Column name must be indicated
gmessage(msg="Core Line Name please!", title="WARNING Core Line Name", icon="warning")
return(FALSE)
}
return(TRUE)
}
#--- read data from file
Read_Data <- function(...) {
opt <- svalue(OptLayout)
Nrws <- as.numeric(svalue(NRowHeader))
scf <- svalue(scanFile)
if (scf==FALSE){
Data <- read.table(file=FNameIN,sep=seps[opt$Separator],dec=decs[opt$Decimal],
skip=Nrws, colClasses="numeric", fill=TRUE )
} else {
fp <- file(FNameIN, open="r")
Ncol <- as.numeric(svalue(dataCol))
tmp <- "###" #just to make length(tmp) > 0
Data <- NULL #ora leggo i dati
while (length(tmp)>0) {
tmp <- scan(fp, what="character", n=Ncol, quiet=TRUE)
tmp <- sub(", ", " ", tmp) #changes separation "," with " ": for data 1, 2,143, 5,723 generates 1 2,143 5,723
tmp <- sub(",", ".", tmp) #changes decimal "," with ".": for data 1 2,143 5,723 generates 1 2.143 5.723
if (is.na(as.numeric(tmp))) break #stop reading if there are characters which cannot translated in numbers
Data <- rbind(Data,as.numeric(tmp))
}
}
DataIN[] <- Data
invisible(Data)
}
#--- Add a new XY data in a New CoreLine in an existing XPSSample
addCoreLine <- function(){
Xidx <- as.numeric(svalue(ColX))
Yidx <- as.numeric(svalue(ColY))
DF <- as.list(Read_Data()) #transform data.frame in a list
DF[[Xidx]] <- na.omit(DF[[Xidx]]) #if present remove NA from read data
DF[[Yidx]] <- na.omit(DF[[Yidx]])
LL <- length(DF[[Xidx]])
if (svalue(reverseX) && DF[[Xidx]][1] < DF[[Xidx]][LL]) { #reverse X axis selected but X is ascending ordered
answ <- gconfirm(msg="X is in ascending order. Do you want to reverse X axis? ", title="CONFIRM REVERSE AXIS", AICON="WARNING")
if (answ == TRUE ){
DF[[Xidx]] <- rev(DF[[Xidx]]) #reverse X in descending order
DF[[Yidx]] <- rev(DF[[Yidx]]) #reverse Y in descending order
} else {
svalue(reverseX) <- FALSE
svalue(NOreverseX) <- TRUE
}
}
LL <- length(XPSSample)+1
NewCL <- new("XPSCoreLine",
.Data = list(x = DF[[Xidx]], y = DF[[Yidx]], t=NULL, err=NULL), #err is dedicated to standard errors on Y data
units = c(svalue(unitX), svalue(unitY)),
Flags = c(svalue(reverseX), TRUE, FALSE, FALSE),
Symbol= svalue(CLname)
)
CLnames <- names(XPSSample)
XPSSample[[LL]] <<- NewCL
names(XPSSample) <<- c(CLnames, as.character(svalue(CLname)))
assign("activeFName", activeFName, envir=.GlobalEnv) #Set the activeSpectName to the last name of imported data
plot(XPSSample)
}
#--- Add a new XY data in a New CoreLine in an existing XPSSample
addErrors <- function(){
if (length(svalue(ErrY)) == 0) {
gmessage(msg="PLEASE SELECT THE ERR-Y COLUMN", title="Err-Y column Lacking", icon="warning")
return()
}
Xidx <- as.numeric(svalue(ColX))
Yidx <- as.numeric(svalue(ColY))
Erridx <- as.numeric(svalue(ErrY))
DF <- Read_Data()
LL <- length(DF[[Xidx]])
if (svalue(reverseX) && DF[[Xidx]][1] < DF[[Xidx]][LL]) { #reverse X axis selected but X is ascending ordered
answ <- gconfirm(msg="X is in ascending order. Do you want to reverse X axis? ", title="CONFIRM REVERSE AXIS", AICON="WARNING")
if (answ == TRUE ){
DF[[Xidx]] <- rev(DF[[Xidx]]) #reverse X in descending order
DF[[Yidx]] <- rev(DF[[Yidx]]) #reverse X in descending order
} else {
svalue(reverseX) <- FALSE
svalue(NOreverseX) <- TRUE
}
}
LL <- length(XPSSample)
XPSSample[[LL]]@.Data[[4]] <<- DF[[Erridx]]
gmessage("Y-ERRORS LOADED. USE CUSTOMPLOT TO DRAW DATA+ERRORS", title="Plot data", icon="warning")
# svalue(ErrY) <- ""
plot(XPSSample, col="blue")
}
#--- Variables ---
FNameIN <- NULL
FName <- NULL
XPSSample <- NULL
activeFName <- NULL
#--- Widget definition ---
ImportWin <- gwindow("Import Ascii Data", parent(50, 10), visible=FALSE)
size(ImportWin) <- c(300, 400)
MainGroup <- ggroup(horizontal=FALSE, spacing = 1, container = ImportWin)
ImportGroup <- ggroup(horizontal=TRUE, container = MainGroup)
OptGroup <- ggroup(horizontal=FALSE, spacing = 1, container = ImportGroup)
WoutGroup <- ggroup(horizontal=FALSE, spacing = 1, container = ImportGroup)
#--- Import options ---
read.opt <- gframe(text=" Import Options ", horizontal = FALSE, spacing=5, container = OptGroup)
LoadButt <- gbutton("Open Data File", handler=function(h,...){
FNameIN <<- gfile(text = "Select a file ...", type = "open",
filter = list("Ascii files" = list(patterns = c(".asc",".txt", ".prn", ".dat"))),
multi = FALSE)
activeFName <<- basename(FNameIN)
pathFile <- dirname(FNameIN)
XPSSample <<- new("XPSSample",
Project = " ",
Comments = " ",
User=Sys.getenv('USER'),
Filename=activeFName )
setwd(pathFile)
svalue(raw_input) <- paste(readLines(FNameIN), collapse="\n")
enabled(import_btn) <- TRUE
# enabled(addErr_btn) <- FALSE
enabled(save_btn) <- FALSE
enabled(AddToXPSSamp) <- FALSE
enabled(exit_btn) <- FALSE
}, container=read.opt)
#--- read options
HeaderLayout <- gformlayout(container = read.opt)
heading <- gradio(c("Yes", "No"), horizontal=TRUE, label="Header", selected = 2, handler=function(h, ...){
answ <- svalue(heading)
if (answ == "Yes") {
svalue(NRowHeader) <- "1"
enabled(NRowHeader) <- TRUE
} else if (answ == "No") {
svalue(NRowHeader) <- "0"
enabled(NRowHeader) <- FALSE
}
}, container = HeaderLayout)
NRowHeader <- gedit(text="0", label="Header Rows", container=HeaderLayout)
enabled(NRowHeader) <- FALSE
gseparator(container = read.opt) # separator
OptLayout <- gformlayout(container = read.opt)
seps <- c("Tab"="\t", "Whitespace"=" ", "Comma" = ",", Semicolon=";", "Unspecified"="")
gcombobox(names(seps), selected=1, label="Separator", container = OptLayout)
decs <- c("Period"=".", "Comma"=",")
gcombobox(names(decs), label="Decimal", container = OptLayout)
quotes <- c("No quote" = "", "Double quote (\")" = '"', "Single quote (')" = "'")
gcombobox(names(quotes), label="Quote", container = OptLayout)
gseparator(container = read.opt) # separator
FmtGroup <- gpanedgroup(expand=TRUE, horizontal=TRUE,container = read.opt)
scanFile <- gcheckbox(text="Scan DataFile", checked = FALSE, handler=function(h, ...){
scf <- svalue(scanFile)
if (scf==TRUE) {
enabled(dataCol) <- TRUE
} else {
enabled(dataCol) <- FALSE
}
}, container = FmtGroup)
dataCol <- gedit(initial.msg="Data Ncol", container=FmtGroup)
enabled(dataCol) <- FALSE
#--- Try to read data with selected options and unpdate OUTPUT data gtable to see if reading options are correct
gbutton("Try to Read Data", spacing=5, handler=function(h, ...) Read_Data(), container = read.opt)
#--- Asci data Information to store Ascii_Data in a XPSSample DataFrame
Elementframe <- gframe(text=" XPS Core Line ", spacing=5, horizontal = FALSE, container = OptGroup)
CLparam <- gformlayout(container = Elementframe)
CLname <- gedit("", initial.msg=" Core Line Name", container = CLparam, label="Core Line Name")
unitX <- gedit("Binding Energy [eV]", container = CLparam, label="X Scale")
unitY <- gedit("Intensity [counts]", container = CLparam, label="Y Scale")
CLyesno <- ggroup( horizontal=TRUE, container = Elementframe)
glabel(text="Reverse X Axis?", container = CLyesno)
reverseX <- gcheckbox("Yes", selected=FALSE, handler=function(h, ...){
svalue(NOreverseX) <- FALSE
enabled(import_btn) <- TRUE
}, container = CLyesno)
NOreverseX <- gcheckbox("No", selected=FALSE, handler=function(h, ...){
svalue(reverseX) <- FALSE
enabled(import_btn) <- TRUE
}, container = CLyesno)
#--- define INPUT Window
InputGroup <- ggroup(horizontal=FALSE, container = WoutGroup)
WinIn <- gvbox(expand=TRUE, fill=TRUE, spacing=5, container = InputGroup)
labtxt <- glabel(gettext("Input data: "), container = WinIn, anchor=c(-1,0))
font(labtxt) <- list(weight="bold") #list(family = "helvetica", size="12", weight="bold", style="italic")
raw_input <- gtext("", wrap=FALSE,
font.attr=list(family="monospace"),
container=WinIn, expand=TRUE, fill=TRUE)
size(raw_input) <- c(230,150)
#--- define LOAD Window
WinOUT <- ggroup(horizontal=FALSE, spacing=5, container =InputGroup )
labtxt <- glabel("Loaded data: ", container = WinOUT)
font(labtxt) <- list(weight="bold")
DataIN <- gtable("", container = WinOUT)
size(DataIN) <- c(230,150)
#--- Which column to read?
Colframe <- gformlayout(container = WoutGroup)
ColX <- gedit(initial.msg="1", label=" X-Col to read", spacing=2, container = Colframe)
ColY <- gedit(initial.msg="2", label=" Y-Col to read", spacing=2, container = Colframe)
ErrY <- gedit(initial.msg="?", label="Err-Col to read", spacing=2, container = Colframe)
#--- Import info
ImportInfo <- glabel("Import X, Y and Errors before SAVE data", spacing=2, container = WoutGroup)
font(ImportInfo) <- list(weight="normal", family="sans", size=11)
##--- BUTTONS
ButtLT <- glayout(spacing = 10, container = MainGroup)
import_btn <- ButtLT[1,1] <- gbutton(" IMPORT ", handler=function(h,...) {
if (! check_selection()){return()} #controls all the needed information are given
addCoreLine() #add a new coreline
LL <- length(XPSSample)
cat("\n ----- Data Info -----")
cat("\n ===> Data File: ", activeFName, ", Core Line: ", XPSSample[[LL]]@Symbol)
cat("\n ===> Xmin= ", min(XPSSample[[LL]]@.Data[[1]]), "Xmax: ", max(XPSSample[[1]]@.Data[[1]]))
cat("\n ===> Ymin= ", min(XPSSample[[LL]]@.Data[[2]]), "Ymax: ", max(XPSSample[[1]]@.Data[[2]]))
cat("\n")
ErrCol <- svalue(ErrY)
if (ErrCol != ""){
addErrors() #add a new coreline
LL <- length(XPSSample)
cat("\n ----- Data Info -----")
cat("\n ===> Data File: ", activeFName, ", Core Line: ", XPSSample[[LL]]@Symbol)
cat("\n ===> Standard Deviation Error Added to Last Saved Data" )
cat("\n")
}
enabled(save_btn) <- TRUE
enabled(AddToXPSSamp) <- TRUE
enabled(exit_btn) <- TRUE
}, container = ButtLT)
# addErr_btn <- ButtLT[1,2] <- gbutton(" ADD Y-ERRORS ", handler=function(h, ...){
# if (! check_selection()){return()} #controls all the needed information are given
# gmessage(msg="Add errors to the last imported data", title="WARNING", icon="warning")
# enabled(ErrY) <- TRUE
# addErrors() #add a new coreline
# LL <- length(XPSSample)
# cat("\n ----- Data Info -----")
# cat("\n ===> Data File: ", activeFName, ", Core Line: ", XPSSample[[LL]]@Symbol)
# cat("\n ===> Standard Deviation Error Added to Last Saved Data" )
# cat("\n")
# }, container = ButtLT) #save without exiting ImportAscii(): possibility to import other data from ascii file
save_btn <- ButtLT[1,3] <- gbutton(" SAVE ", handler=function(h, ...){
LL <- length(XPSSample) #number of Corelines of the source XPSSample
assign(activeFName, XPSSample, envir=.GlobalEnv) #save the XPSSample in the .GlobalEnv
assign("activeFName", activeFName, envir=.GlobalEnv) #Set the activeSpectName to the last name of imported data
assign("activeSpectName", XPSSample[[LL]]@Symbol, envir=.GlobalEnv)
assign("activeSpectIndx", LL, envir=.GlobalEnv) #set the activeSpectIndx to the last imported data
XPSSaveRetrieveBkp("save")
# enabled(addErr_btn) <- FALSE
enabled(save_btn) <- FALSE
enabled(AddToXPSSamp) <- FALSE
}, container = ButtLT) #save without exiting ImportAscii(): possibility to import other data from ascii file
AddToXPSSamp <- ButtLT[1,4] <- gbutton(" Save in an existing XPS Sample ", label = " ", checked = FALSE, handler = function(h, ...) {
XPSSamplesList <- XPSFNameList()
if (length(XPSSamplesList) > 0 ) {
SelectWin <- gwindow(" SELECT SAMPLE ", visible=FALSE)
size(SelectWin) <- c(150,250)
gwinsave <- ggroup(container = SelectWin)
samplesfr <- gframe(" XPS Samples ", spacing=5, horizontal=FALSE, container= gwinsave)
SampleName <- gtable(items=XPSSamplesList, container=samplesfr)
size(SampleName) <- c(120,200)
gbutton("Select", handler = function(...) {
if (length(svalue(SampleName)) > 0 ) {
activeFName <<- svalue(SampleName)
dispose(SelectWin)
FName <<- get(activeFName, envir=.GlobalEnv)
LL <- length(FName) #Number of corelines in the destination XPSSample
CLnames <- names(FName)
LLL <- length(XPSSample) #Number of CoreLines in the source XPSSample
FName[[LL+1]] <<- XPSSample[[LLL]] #save last imported Corelines in the destinaton XPSSample
FName@names <<- c(CLnames, svalue(CLname)) #add names of new CoreLines
XPSSample<<-FName #set the source XPSSample == destination file with all spectra
assign(activeFName, FName, envir=.GlobalEnv) #Save the destination XPSSample in GlobalEnv
assign("activeFName", activeFName, envir=.GlobalEnv)
assign("activeSpectName", FName[[LL+1]]@Symbol, envir=.GlobalEnv)
assign("activeSpectIndx", 1, envir=.GlobalEnv)
plot(FName)
cat("\n Data saved in ", activeFName)
XPSSaveRetrieveBkp("save")
# enabled(addErr_btn) <- FALSE
enabled(save_btn) <- FALSE
enabled(AddToXPSSamp) <- FALSE
}
}, container = samplesfr)
visible(SelectWin) <- TRUE
}
}, container = ButtLT)
exit_btn <- ButtLT[1,5] <- gbutton(" SAVE and EXIT ", handler=function(h, ...){
dispose(ImportWin)
LL <- length(XPSSample)
assign(activeFName, XPSSample, envir=.GlobalEnv) #save XPSSample in GlobalEnv
assign("activeFName", activeFName, envir=.GlobalEnv) #Set the activeSpectName to the last name of imported data
assign("activeSpectName", XPSSample[[LL]]@Symbol, envir=.GlobalEnv)
assign("activeSpectIndx", LL, envir=.GlobalEnv) #set the activeSpectIndx to the last imported data
XPSSaveRetrieveBkp("save")
return(XPSSample)
}, container = ButtLT)
enabled(import_btn) <- FALSE
# enabled(addErr_btn) <- FALSE
enabled(save_btn) <- FALSE
enabled(AddToXPSSamp) <- FALSE
enabled(exit_btn) <- FALSE
visible(ImportWin) <- TRUE
ImportWin$set_modal(TRUE)
return(XPSSample)
}
GSperanza/RxpsG_2.3-1 documentation built on Feb. 11, 2024, 5:09 p.m.
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Defines functions XPSImport.Ascii
Documented in XPSImport.Ascii
#XPSImport.Ascii GUI to make reading/loading ascii file easy
#' @title XPSImport.Ascii function
#' @description Function allowing import of textual (ascii) file data
#' Options are available to account for header and data separator
#' Options are also provided to store data in an object of class 'XPSSample'
#' @return XPSImport.Ascii returns and object of class 'XPSSample' with
#' data loaded into a XPSCoreLine slot
#' @examples
#' \dontrun{
#' XPSImport.Ascii()
#' }
#' @export
#'
XPSImport.Ascii <- function() {
options(guiToolkit = "tcltk")
#--- warnings if required selections are lacking
check_selection <- function(){
if (nchar(svalue(ColX)) * nchar(svalue(ColY))==0) { #X and Y columns must be indicated
gmessage(msg="Please give ColX and ColY to be imported", title="WARNING: column lacking", icon="warning")
return(FALSE)
}
if ( ! (svalue(reverseX) || svalue(NOreverseX))) { #one of reverseX or NOreverseX should be SELECTED
gmessage(msg="Reverse X axis? Plsease check!", title="WARNING X axis!", icon="warning")
return(FALSE)
}
if ( nchar(svalue(CLname))==0) { #Column name must be indicated
gmessage(msg="Core Line Name please!", title="WARNING Core Line Name", icon="warning")
return(FALSE)
}
return(TRUE)
}
#--- read data from file
Read_Data <- function(...) {
opt <- svalue(OptLayout)
Nrws <- as.numeric(svalue(NRowHeader))
scf <- svalue(scanFile)
if (scf==FALSE){
Data <- read.table(file=FNameIN,sep=seps[opt$Separator],dec=decs[opt$Decimal],
skip=Nrws, colClasses="numeric", fill=TRUE )
} else {
fp <- file(FNameIN, open="r")
Ncol <- as.numeric(svalue(dataCol))
tmp <- "###" #just to make length(tmp) > 0
Data <- NULL #ora leggo i dati
while (length(tmp)>0) {
tmp <- scan(fp, what="character", n=Ncol, quiet=TRUE)
tmp <- sub(", ", " ", tmp) #changes separation "," with " ": for data 1, 2,143, 5,723 generates 1 2,143 5,723
tmp <- sub(",", ".", tmp) #changes decimal "," with ".": for data 1 2,143 5,723 generates 1 2.143 5.723
if (is.na(as.numeric(tmp))) break #stop reading if there are characters which cannot translated in numbers
Data <- rbind(Data,as.numeric(tmp))
}
}
DataIN[] <- Data
invisible(Data)
}
#--- Add a new XY data in a New CoreLine in an existing XPSSample
addCoreLine <- function(){
Xidx <- as.numeric(svalue(ColX))
Yidx <- as.numeric(svalue(ColY))
DF <- as.list(Read_Data()) #transform data.frame in a list
DF[[Xidx]] <- na.omit(DF[[Xidx]]) #if present remove NA from read data
DF[[Yidx]] <- na.omit(DF[[Yidx]])
LL <- length(DF[[Xidx]])
if (svalue(reverseX) && DF[[Xidx]][1] < DF[[Xidx]][LL]) { #reverse X axis selected but X is ascending ordered
answ <- gconfirm(msg="X is in ascending order. Do you want to reverse X axis? ", title="CONFIRM REVERSE AXIS", AICON="WARNING")
if (answ == TRUE ){
DF[[Xidx]] <- rev(DF[[Xidx]]) #reverse X in descending order
DF[[Yidx]] <- rev(DF[[Yidx]]) #reverse Y in descending order
} else {
svalue(reverseX) <- FALSE
svalue(NOreverseX) <- TRUE
}
}
LL <- length(XPSSample)+1
NewCL <- new("XPSCoreLine",
.Data = list(x = DF[[Xidx]], y = DF[[Yidx]], t=NULL, err=NULL), #err is dedicated to standard errors on Y data
units = c(svalue(unitX), svalue(unitY)),
Flags = c(svalue(reverseX), TRUE, FALSE, FALSE),
Symbol= svalue(CLname)
)
CLnames <- names(XPSSample)
XPSSample[[LL]] <<- NewCL
names(XPSSample) <<- c(CLnames, as.character(svalue(CLname)))
assign("activeFName", activeFName, envir=.GlobalEnv) #Set the activeSpectName to the last name of imported data
plot(XPSSample)
}
#--- Add a new XY data in a New CoreLine in an existing XPSSample
addErrors <- function(){
if (length(svalue(ErrY)) == 0) {
gmessage(msg="PLEASE SELECT THE ERR-Y COLUMN", title="Err-Y column Lacking", icon="warning")
return()
}
Xidx <- as.numeric(svalue(ColX))
Yidx <- as.numeric(svalue(ColY))
Erridx <- as.numeric(svalue(ErrY))
DF <- Read_Data()
LL <- length(DF[[Xidx]])
if (svalue(reverseX) && DF[[Xidx]][1] < DF[[Xidx]][LL]) { #reverse X axis selected but X is ascending ordered
answ <- gconfirm(msg="X is in ascending order. Do you want to reverse X axis? ", title="CONFIRM REVERSE AXIS", AICON="WARNING")
if (answ == TRUE ){
DF[[Xidx]] <- rev(DF[[Xidx]]) #reverse X in descending order
DF[[Yidx]] <- rev(DF[[Yidx]]) #reverse X in descending order
} else {
svalue(reverseX) <- FALSE
svalue(NOreverseX) <- TRUE
}
}
LL <- length(XPSSample)
XPSSample[[LL]]@.Data[[4]] <<- DF[[Erridx]]
gmessage("Y-ERRORS LOADED. USE CUSTOMPLOT TO DRAW DATA+ERRORS", title="Plot data", icon="warning")
# svalue(ErrY) <- ""
plot(XPSSample, col="blue")
}
#--- Variables ---
FNameIN <- NULL
FName <- NULL
XPSSample <- NULL
activeFName <- NULL
#--- Widget definition ---
ImportWin <- gwindow("Import Ascii Data", parent(50, 10), visible=FALSE)
size(ImportWin) <- c(300, 400)
MainGroup <- ggroup(horizontal=FALSE, spacing = 1, container = ImportWin)
ImportGroup <- ggroup(horizontal=TRUE, container = MainGroup)
OptGroup <- ggroup(horizontal=FALSE, spacing = 1, container = ImportGroup)
WoutGroup <- ggroup(horizontal=FALSE, spacing = 1, container = ImportGroup)
#--- Import options ---
read.opt <- gframe(text=" Import Options ", horizontal = FALSE, spacing=5, container = OptGroup)
LoadButt <- gbutton("Open Data File", handler=function(h,...){
FNameIN <<- gfile(text = "Select a file ...", type = "open",
filter = list("Ascii files" = list(patterns = c(".asc",".txt", ".prn", ".dat"))),
multi = FALSE)
activeFName <<- basename(FNameIN)
pathFile <- dirname(FNameIN)
XPSSample <<- new("XPSSample",
Project = " ",
Comments = " ",
User=Sys.getenv('USER'),
Filename=activeFName )
setwd(pathFile)
svalue(raw_input) <- paste(readLines(FNameIN), collapse="\n")
enabled(import_btn) <- TRUE
# enabled(addErr_btn) <- FALSE
enabled(save_btn) <- FALSE
enabled(AddToXPSSamp) <- FALSE
enabled(exit_btn) <- FALSE
}, container=read.opt)
#--- read options
HeaderLayout <- gformlayout(container = read.opt)
heading <- gradio(c("Yes", "No"), horizontal=TRUE, label="Header", selected = 2, handler=function(h, ...){
answ <- svalue(heading)
if (answ == "Yes") {
svalue(NRowHeader) <- "1"
enabled(NRowHeader) <- TRUE
} else if (answ == "No") {
svalue(NRowHeader) <- "0"
enabled(NRowHeader) <- FALSE
}
}, container = HeaderLayout)
NRowHeader <- gedit(text="0", label="Header Rows", container=HeaderLayout)
enabled(NRowHeader) <- FALSE
gseparator(container = read.opt) # separator
OptLayout <- gformlayout(container = read.opt)
seps <- c("Tab"="\t", "Whitespace"=" ", "Comma" = ",", Semicolon=";", "Unspecified"="")
gcombobox(names(seps), selected=1, label="Separator", container = OptLayout)
decs <- c("Period"=".", "Comma"=",")
gcombobox(names(decs), label="Decimal", container = OptLayout)
quotes <- c("No quote" = "", "Double quote (\")" = '"', "Single quote (')" = "'")
gcombobox(names(quotes), label="Quote", container = OptLayout)
gseparator(container = read.opt) # separator
FmtGroup <- gpanedgroup(expand=TRUE, horizontal=TRUE,container = read.opt)
scanFile <- gcheckbox(text="Scan DataFile", checked = FALSE, handler=function(h, ...){
scf <- svalue(scanFile)
if (scf==TRUE) {
enabled(dataCol) <- TRUE
} else {
enabled(dataCol) <- FALSE
}
}, container = FmtGroup)
dataCol <- gedit(initial.msg="Data Ncol", container=FmtGroup)
enabled(dataCol) <- FALSE
#--- Try to read data with selected options and unpdate OUTPUT data gtable to see if reading options are correct
gbutton("Try to Read Data", spacing=5, handler=function(h, ...) Read_Data(), container = read.opt)
#--- Asci data Information to store Ascii_Data in a XPSSample DataFrame
Elementframe <- gframe(text=" XPS Core Line ", spacing=5, horizontal = FALSE, container = OptGroup)
CLparam <- gformlayout(container = Elementframe)
CLname <- gedit("", initial.msg=" Core Line Name", container = CLparam, label="Core Line Name")
unitX <- gedit("Binding Energy [eV]", container = CLparam, label="X Scale")
unitY <- gedit("Intensity [counts]", container = CLparam, label="Y Scale")
CLyesno <- ggroup( horizontal=TRUE, container = Elementframe)
glabel(text="Reverse X Axis?", container = CLyesno)
reverseX <- gcheckbox("Yes", selected=FALSE, handler=function(h, ...){
svalue(NOreverseX) <- FALSE
enabled(import_btn) <- TRUE
}, container = CLyesno)
NOreverseX <- gcheckbox("No", selected=FALSE, handler=function(h, ...){
svalue(reverseX) <- FALSE
enabled(import_btn) <- TRUE
}, container = CLyesno)
#--- define INPUT Window
InputGroup <- ggroup(horizontal=FALSE, container = WoutGroup)
WinIn <- gvbox(expand=TRUE, fill=TRUE, spacing=5, container = InputGroup)
labtxt <- glabel(gettext("Input data: "), container = WinIn, anchor=c(-1,0))
font(labtxt) <- list(weight="bold") #list(family = "helvetica", size="12", weight="bold", style="italic")
raw_input <- gtext("", wrap=FALSE,
font.attr=list(family="monospace"),
container=WinIn, expand=TRUE, fill=TRUE)
size(raw_input) <- c(230,150)
#--- define LOAD Window
WinOUT <- ggroup(horizontal=FALSE, spacing=5, container =InputGroup )
labtxt <- glabel("Loaded data: ", container = WinOUT)
font(labtxt) <- list(weight="bold")
DataIN <- gtable("", container = WinOUT)
size(DataIN) <- c(230,150)
#--- Which column to read?
Colframe <- gformlayout(container = WoutGroup)
ColX <- gedit(initial.msg="1", label=" X-Col to read", spacing=2, container = Colframe)
ColY <- gedit(initial.msg="2", label=" Y-Col to read", spacing=2, container = Colframe)
ErrY <- gedit(initial.msg="?", label="Err-Col to read", spacing=2, container = Colframe)
#--- Import info
ImportInfo <- glabel("Import X, Y and Errors before SAVE data", spacing=2, container = WoutGroup)
font(ImportInfo) <- list(weight="normal", family="sans", size=11)
##--- BUTTONS
ButtLT <- glayout(spacing = 10, container = MainGroup)
import_btn <- ButtLT[1,1] <- gbutton(" IMPORT ", handler=function(h,...) {
if (! check_selection()){return()} #controls all the needed information are given
addCoreLine() #add a new coreline
LL <- length(XPSSample)
cat("\n ----- Data Info -----")
cat("\n ===> Data File: ", activeFName, ", Core Line: ", XPSSample[[LL]]@Symbol)
cat("\n ===> Xmin= ", min(XPSSample[[LL]]@.Data[[1]]), "Xmax: ", max(XPSSample[[1]]@.Data[[1]]))
cat("\n ===> Ymin= ", min(XPSSample[[LL]]@.Data[[2]]), "Ymax: ", max(XPSSample[[1]]@.Data[[2]]))
cat("\n")
ErrCol <- svalue(ErrY)
if (ErrCol != ""){
addErrors() #add a new coreline
LL <- length(XPSSample)
cat("\n ----- Data Info -----")
cat("\n ===> Data File: ", activeFName, ", Core Line: ", XPSSample[[LL]]@Symbol)
cat("\n ===> Standard Deviation Error Added to Last Saved Data" )
cat("\n")
}
enabled(save_btn) <- TRUE
enabled(AddToXPSSamp) <- TRUE
enabled(exit_btn) <- TRUE
}, container = ButtLT)
# addErr_btn <- ButtLT[1,2] <- gbutton(" ADD Y-ERRORS ", handler=function(h, ...){
# if (! check_selection()){return()} #controls all the needed information are given
# gmessage(msg="Add errors to the last imported data", title="WARNING", icon="warning")
# enabled(ErrY) <- TRUE
# addErrors() #add a new coreline
# LL <- length(XPSSample)
# cat("\n ----- Data Info -----")
# cat("\n ===> Data File: ", activeFName, ", Core Line: ", XPSSample[[LL]]@Symbol)
# cat("\n ===> Standard Deviation Error Added to Last Saved Data" )
# cat("\n")
# }, container = ButtLT) #save without exiting ImportAscii(): possibility to import other data from ascii file
save_btn <- ButtLT[1,3] <- gbutton(" SAVE ", handler=function(h, ...){
LL <- length(XPSSample) #number of Corelines of the source XPSSample
assign(activeFName, XPSSample, envir=.GlobalEnv) #save the XPSSample in the .GlobalEnv
assign("activeFName", activeFName, envir=.GlobalEnv) #Set the activeSpectName to the last name of imported data
assign("activeSpectName", XPSSample[[LL]]@Symbol, envir=.GlobalEnv)
assign("activeSpectIndx", LL, envir=.GlobalEnv) #set the activeSpectIndx to the last imported data
XPSSaveRetrieveBkp("save")
# enabled(addErr_btn) <- FALSE
enabled(save_btn) <- FALSE
enabled(AddToXPSSamp) <- FALSE
}, container = ButtLT) #save without exiting ImportAscii(): possibility to import other data from ascii file
AddToXPSSamp <- ButtLT[1,4] <- gbutton(" Save in an existing XPS Sample ", label = " ", checked = FALSE, handler = function(h, ...) {
XPSSamplesList <- XPSFNameList()
if (length(XPSSamplesList) > 0 ) {
SelectWin <- gwindow(" SELECT SAMPLE ", visible=FALSE)
size(SelectWin) <- c(150,250)
gwinsave <- ggroup(container = SelectWin)
samplesfr <- gframe(" XPS Samples ", spacing=5, horizontal=FALSE, container= gwinsave)
SampleName <- gtable(items=XPSSamplesList, container=samplesfr)
size(SampleName) <- c(120,200)
gbutton("Select", handler = function(...) {
if (length(svalue(SampleName)) > 0 ) {
activeFName <<- svalue(SampleName)
dispose(SelectWin)
FName <<- get(activeFName, envir=.GlobalEnv)
LL <- length(FName) #Number of corelines in the destination XPSSample
CLnames <- names(FName)
LLL <- length(XPSSample) #Number of CoreLines in the source XPSSample
FName[[LL+1]] <<- XPSSample[[LLL]] #save last imported Corelines in the destinaton XPSSample
FName@names <<- c(CLnames, svalue(CLname)) #add names of new CoreLines
XPSSample<<-FName #set the source XPSSample == destination file with all spectra
assign(activeFName, FName, envir=.GlobalEnv) #Save the destination XPSSample in GlobalEnv
assign("activeFName", activeFName, envir=.GlobalEnv)
assign("activeSpectName", FName[[LL+1]]@Symbol, envir=.GlobalEnv)
assign("activeSpectIndx", 1, envir=.GlobalEnv)
plot(FName)
cat("\n Data saved in ", activeFName)
XPSSaveRetrieveBkp("save")
# enabled(addErr_btn) <- FALSE
enabled(save_btn) <- FALSE
enabled(AddToXPSSamp) <- FALSE
}
}, container = samplesfr)
visible(SelectWin) <- TRUE
}
}, container = ButtLT)
exit_btn <- ButtLT[1,5] <- gbutton(" SAVE and EXIT ", handler=function(h, ...){
dispose(ImportWin)
LL <- length(XPSSample)
assign(activeFName, XPSSample, envir=.GlobalEnv) #save XPSSample in GlobalEnv
assign("activeFName", activeFName, envir=.GlobalEnv) #Set the activeSpectName to the last name of imported data
assign("activeSpectName", XPSSample[[LL]]@Symbol, envir=.GlobalEnv)
assign("activeSpectIndx", LL, envir=.GlobalEnv) #set the activeSpectIndx to the last imported data
XPSSaveRetrieveBkp("save")
return(XPSSample)
}, container = ButtLT)
enabled(import_btn) <- FALSE
# enabled(addErr_btn) <- FALSE
enabled(save_btn) <- FALSE
enabled(AddToXPSSamp) <- FALSE
enabled(exit_btn) <- FALSE
visible(ImportWin) <- TRUE
ImportWin$set_modal(TRUE)
return(XPSSample)
}
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