stage others

.Rhistory

@@ -3,3 +3,4 @@ install.packages("RBBGCMuso_0.1.8.tar.gz")
 install.packages("RBBGCMuso_0.1.8.tar.gz")
 install.packages("RBBGCMuso_0.1.8.tar.gz")
 install.packages("RBBGCMuso_0.1.8.tar.gz")
+install.packages("RBBGCMuso_0.2.0.0-1.tar.gz")

RBBGCMuso/DESCRIPTION

@@ -9,3 +9,4 @@ NeedsCompilation: no
 Packaged: 2016-11-15 13:58:04 UTC; hollorol
 Author: First Last [aut, cre]
 Maintainer: First Last <first.last@example.com>
+RoxygenNote: 6.0.1

RBBGCMuso/R/rungetMuso.R

@@ -1,13 +1,22 @@
-#' This runs the BBGC-MuSo model
+#' This function runs the BBGC-MuSo model and reads in its outputfile in a very structured way.
+#' 
 #' @author Roland Hollós
-#' @param filename Name of the initialisation files
+#' @param settings You have to run the setupMuso function before rungetMuso. It is its output which contains all of the necessary system variables. It sets the whole environment
+#' @param timee The required timesteps in the modell output. It can be "d", if it is daily, "m", if it's monthly, "y", it it is yearly
+#' @param debugging If it is TRUE, it copies the log file to a Log directory to store it, if it is stamplog it contatenate a number before the logfile, which is one more than the maximum of the represented ones in the LOG directory. If it is true or stamplog it collects the "wrong" logfiles
+#' @param keepEpc If TRUE, it keeps the epc file and stamp it, after these copies it to the EPCS directory. If debugging True or false, it copies the wrong epc files to the wrong epc directory.
+#' @param export if it is yes or you give a filename here, it converts the output to the specific extension. For example, if you set export to "example.csv", it converts the output to "csv", if you set it to "example.xls" it converts to example.xls with the xlsx package. If it is not installed it gives back a warning message and converts it to csv.
+#' @param silent If you set it TRUE all off the modells output to the screen will be suppressed. It can be usefull, because it increases the model-speed.
+#' @param aggressive It deletes every possible modell-outputs from the previous modell runs.
+#' @param leapyear future feature.
 #' @return No return, outputs are written to file 
 #' @usage The function works only, if ...
+#' @export
+
 
-Linuxp <-(Sys.info()[1]=="Linux")
 
 rungetMuso <- function(settings, timee="d", debugging=FALSE, logfilename=NULL, keepEpc=FALSE, export=FALSE, silent=FALSE, aggressive=FALSE, leapYear=FALSE){
-
+Linuxp <-(Sys.info()[1]=="Linux")
 #############################################################
 ############################spinup run############################
 ########################################################## 
@@ -235,3 +244,6 @@ rungetMuso <- function(settings, timee="d", debugging=FALSE, logfilename=NULL, k
         setwd(whereAmI)
         return(Reva)}
 }
+
+
+

RBBGCMuso/RBBGCMuso.Rproj

@@ -13,4 +13,6 @@ RnwWeave: Sweave
 LaTeX: pdfLaTeX
 
 BuildType: Package
+PackageUseDevtools: Yes
 PackageInstallArgs: --no-multiarch --with-keep.source
+PackageRoxygenize: rd,collate,namespace

RBBGCMuso/man/#setup.Rd#

@@ -1,23 +0,0 @@
-% Generated by roxygen2 (4.1.1): do not edit by hand
-% Please edit documentation in R/setup.r
-\name{setup}
-\alias{setup}
-\title{This runs the Muso model}
-\usage{
-setup(executable = NULL, parallel = F, calibrationpar = c(1),
-  outputloc = NULL, inputloc = NULL, metinput = NULL, ininput = NULL,
-  epcinput = NULL)
-}
-\arguments{
-\item{calibrationpar}{vector with line numbers}
-}
-\value{
-No return, outputs are written to file
-}
-\description{
-This runs the Muso model
-}
-\author{
-Roland
-}
-

RBBGCMuso/man/changspecline.Rd

@@ -1,22 +0,0 @@
-% Generated by roxygen2 (4.1.1): do not edit by hand
-% Please edit documentation in R/changcontent.R
-\name{changspecline}
-\alias{changspecline}
-\title{This function calls the UNIX(-like) sed program to change specific line to other, using the row numbers.}
-\usage{
-changspecline(filename, line_number, content)
-}
-\arguments{
-\item{The}{name of the file which is needed to be changed in some lines, the numbers of this lines(vector), and
-the contents(vector).}
-}
-\value{
-void
-}
-\description{
-This function calls the UNIX(-like) sed program to change specific line to other, using the row numbers.
-}
-\author{
-Roland
-}
-

RBBGCMuso/man/getyearlycum.Rd

@@ -1,5 +1,5 @@
-% Generated by roxygen2 (4.1.1): do not edit by hand
-% Please edit documentation in R/other_usefull_functions.R
+% Generated by roxygen2: do not edit by hand
+% Please edit documentation in R/otherUsefullFunctions.R
 \name{getyearlycum}
 \alias{getyearlycum}
 \title{'Funtion for getting cumulative yearly data from observations}
@@ -18,4 +18,3 @@ A vector of yearly data
 \author{
 Roland Hollós
 }
-

RBBGCMuso/man/getyearlymax.Rd

@@ -1,5 +1,5 @@
-% Generated by roxygen2 (4.1.1): do not edit by hand
-% Please edit documentation in R/other_usefull_functions.R
+% Generated by roxygen2: do not edit by hand
+% Please edit documentation in R/otherUsefullFunctions.R
 \name{getyearlymax}
 \alias{getyearlymax}
 \title{'Function for getting the maximum values of the years, from daily data}
@@ -18,4 +18,3 @@ A vector of yearly data
 \author{
 Roland Hollós
 }
-

RBBGCMuso/man/runMuso.Rd

@@ -1,21 +0,0 @@
-% Generated by roxygen2 (4.1.1): do not edit by hand
-% Please edit documentation in R/muso.R
-\name{runMuso}
-\alias{runMuso}
-\title{This runs the Muso model}
-\usage{
-The function works only, if ...
-}
-\arguments{
-\item{filename}{Name of the initialisation files}
-}
-\value{
-No return, outputs are written to file
-}
-\description{
-This runs the Muso model
-}
-\author{
-Roland
-}
-

RBBGCMuso/man/setup.Rd

@@ -1,23 +0,0 @@
-% Generated by roxygen2 (4.1.1): do not edit by hand
-% Please edit documentation in R/setup.r
-\name{setup}
-\alias{setup}
-\title{This runs the Muso model}
-\usage{
-setup(executable = NULL, parallel = F, calibrationpar = c(1),
-  outputloc = NULL, inputloc = NULL, metinput = NULL, ininput = NULL,
-  epcinput = NULL)
-}
-\arguments{
-\item{calibrationpar}{vector with line numbers}
-}
-\value{
-No return, outputs are written to file
-}
-\description{
-This runs the Muso model
-}
-\author{
-Roland
-}
-