preparing CRAN release

DESCRIPTION

@@ -1,8 +1,8 @@
 Package: berryFunctions
 Type: Package
 Title: Function Collection Related to Plotting and Hydrology
-Version: 1.14.35
-Date: 2017-04-07
+Version: 1.15.0
+Date: 2017-04-10
 Imports: grDevices, graphics, stats, utils, abind
 Suggests: RColorBrewer, pbapply, knitr, rmarkdown, gstat, RCurl
 Author: Berry Boessenkool

NEWS

@@ -28,7 +28,6 @@ ToDo-list
 - tryStack: mapply, do.call etc put function name in next element
 - tryStack: return output invisibly?
 - checkFile: eror in ->-> checkFile: n/n file(s) do not exist at getwd: \n truncMessage(files[nonexi])
-- anhang() # open not in dropbox viewer
 
 
 
@@ -42,11 +41,16 @@ actual NEWS
 -----------------------------
 
 
-Version 1.. (2017-0-)
-- after smallPlot calls, mtext, axis etc can be used normally again
-New functions: almost.equal
+Version 1.15.0 (2017-04-10)
+- traceCall: vignette and knitr stuff removed from trace, speed gain through sys.calls
+- after smallPlot calls, mtext, axis etc can be used normally again. Messages are improved.
+- colPoints: lines bug fixed, new legend density bandwidth default
+- seasonality: plotting defaults improved, plotting order changed, moving window now gaussian
+- some functions gain quiet arguments and improved messages and argument defaults, see github url below
+New functions: almost.equal, newFilename, createPres, pdfpng, popleaf, legendmt
+Removed functions: dataDWD, readDWD (kept as help file with reference to rdwd until late 2017)
 For all changes, see:
-https://github.com/brry/berryFunctions/compare/master@{2017-01-16}...master@{2017-01-31}#files_bucket
+https://github.com/brry/berryFunctions/compare/master@{2017-01-16}...master@{2017-04-07}#files_bucket
 
 
 -----------------------------

R/anhang.R

@@ -1,8 +1,7 @@
 #' open the Appendix of Rclick
 #'
 #' Open the Appendix of my R handbook found online at
-#' \url{RclickHandbuch.wordpress.com} or directly at
-#' \url{https://dl.dropbox.com/u/4836866/Rclick/Anhang.pdf}.
+#' \url{RclickHandbuch.wordpress.com} 
 #'
 #' @return None, opens pdf in default viewer using \code{\link{system2}}
 #' @author Berry Boessenkool, \email{berry-b@@gmx.de}, Jul 2016

R/seasonality.R

@@ -14,7 +14,7 @@
 #'         and other elements depending on plot type, \code{like data3, data4, probs4, width4}.
 #' @author Berry Boessenkool, \email{berry-b@@gmx.de}, Jul-Oct 2016
 #' @seealso \code{\link{spiralDate}}, \code{\link{colPoints}},
-#'          \url{http://nwis.waterdata.usgs.gov/nwis/peak?search_site_no=01400500} 
+#'          \url{https://waterdata.usgs.gov/nwis} 
 #' @keywords aplot
 #' @export
 #' @examples
@@ -325,7 +325,7 @@ if(4 %in% plot) # Qpercentile~doy, col=n ----
 {
   # deciding weights:
   if(FALSE){ # kept here for reference only
-  width=1; x <- unique(round((-3*width):(3*width)))
+  width=1; x <- unique(ceiling((-3*width):(3*width)))
   d <- dnorm(x,sd=width) ; plot(x, round(d*10/max(d)) )
   # number of entries used (support) as multiple of width
   xx <- seq(0.6,20,len=1000); plot(xx, sapply(xx, function(width){

README.md

@@ -2,16 +2,16 @@
 
 Miscellaneous R functions. Notable: colPoints, horizHist, logAxis, pointZoom, smallPlot, lsc.
 
-**See the [Vignette](https://cran.r-project.org/web/packages/berryFunctions/vignettes/berryFunctions.html) for an overview of the package.**
+**See the [Vignette](https://cran.r-project.org/package=berryFunctions/vignettes/berryFunctions.html) for an overview of the package.**
 
 [Recent changes](http://starlogs.net/#brry/berryFunctions) (Thanks, [Jenny](http://happygitwithr.com/comic-relief.html))
 
 
 ### installation
 Install release version from CRAN:
-[![CRAN_Status_Badge](http://www.r-pkg.org/badges/version-last-release/berryFunctions)](http://cran.r-project.org/package=berryFunctions) 
-[![downloads](http://cranlogs.r-pkg.org/badges/berryFunctions)](http://www.r-pkg.org/services)
-[![Rdoc](http://www.rdocumentation.org/badges/version/berryFunctions)](http://www.rdocumentation.org/packages/berryFunctions)
+[![CRAN_Status_Badge](https://www.r-pkg.org/badges/version-last-release/berryFunctions)](https://cran.r-project.org/package=berryFunctions) 
+[![downloads](https://cranlogs.r-pkg.org/badges/berryFunctions)](https://www.r-pkg.org/services)
+[![Rdoc](https://www.rdocumentation.org/badges/version/berryFunctions)](https://www.rdocumentation.org/packages/berryFunctions)
 
 
 ```R
@@ -23,7 +23,7 @@ vignette("berryFunctions")
 
 Update to the [current development version](https://github.com/brry/berryFunctions/blob/master/DESCRIPTION#L4-L5) from github:
 ```R
-source("http://raw.githubusercontent.com/brry/berryFunctions/master/R/instGit.R")
+source("https://raw.githubusercontent.com/brry/berryFunctions/master/R/instGit.R")
 instGit("brry/berryFunctions")
 
 # or use devtools:
@@ -33,7 +33,7 @@ devtools::install_github("brry/berryFunctions")
 
 ### trouble
 
-If direct installation from CRAN doesn't work, your R version might be too old. In that case, an update is really recommendable: [r-project.org](http://www.r-project.org/). If you can't update R, try installing from source (github) via `instGit` or devtools as mentioned above. If that's not possible either, here's a manual workaround:
+If direct installation from CRAN doesn't work, your R version might be too old. In that case, an update is really recommendable: [r-project.org](https://www.r-project.org/). If you can't update R, try installing from source (github) via `instGit` or devtools as mentioned above. If that's not possible either, here's a manual workaround:
 click on **Clone or Download - Download ZIP** (top right, [link](https://github.com/brry/berryFunctions/archive/master.zip)), unzip the file to some place, then
 ```R
 setwd("that/path")

revdep/README.md

@@ -4,40 +4,63 @@
 
 |setting  |value                        |
 |:--------|:----------------------------|
-|version  |R version 3.3.1 (2016-06-21) |
+|version  |R version 3.3.2 (2016-10-31) |
 |system   |x86_64, mingw32              |
-|ui       |RStudio (1.0.44)             |
+|ui       |RStudio (1.0.136)            |
 |language |(EN)                         |
 |collate  |German_Germany.1252          |
 |tz       |Europe/Berlin                |
-|date     |2017-01-17                   |
+|date     |2017-04-07                   |
 
 ## Packages
 
-|package        |*  |version |date       |source                         |
-|:--------------|:--|:-------|:----------|:------------------------------|
-|berryFunctions |*  |1.14.0  |2017-01-17 |local (brry/berryFunctions@NA) |
-|gstat          |   |1.1-4   |2017-01-11 |CRAN (R 3.3.2)                 |
+|package        |*  |version  |date       |source                         |
+|:--------------|:--|:--------|:----------|:------------------------------|
+|abind          |   |1.4-5    |2016-07-21 |CRAN (R 3.3.2)                 |
+|berryFunctions |*  |1.14.35  |2017-04-07 |local (brry/berryFunctions@NA) |
+|knitr          |   |1.15.1   |2016-11-22 |CRAN (R 3.3.3)                 |
+|RColorBrewer   |   |1.1-2    |2014-12-07 |CRAN (R 3.3.2)                 |
+|RCurl          |   |1.95-4.8 |2016-03-01 |CRAN (R 3.3.3)                 |
+|rmarkdown      |   |1.4      |2017-03-24 |CRAN (R 3.3.3)                 |
 
 # Check results
-2 packages
+3 packages
 
-## extremeStat (0.6.0)
+## extremeStat (1.3.0)
 Maintainer: Berry Boessenkool <berry-b@gmx.de>
 
-0 errors | 0 warnings | 0 notes
+1 error  | 0 warnings | 0 notes
+
+```
+checking examples ... ERROR
+Running examples in 'extremeStat-Ex.R' failed
+The error most likely occurred in:
 
-## OSMscale (0.3.5)
+> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
+> ### Name: distLexBoot
+> ### Title: Bootstrapping uncertainty intervals for return periods
+> ### Aliases: distLexBoot
+> ### Keywords: bootstrap distribution dplot hplot montecarlo ts
+> 
+> ### ** Examples
+> 
+> 
+> data(annMax)
+> dlf <- distLextreme(annMax, selection=c("wak","gum","gev","nor"))
+distLfit execution took 0.03 seconds.
+> dlfB <- distLexBoot(dlf, nbest=4, conf.lev=0.5, n=10) # n low for quick example tests
+Error in loadNamespace(name) : there is no package called 'pbapply'
+Calls: distLexBoot ... tryCatch -> tryCatchList -> tryCatchOne -> <Anonymous>
+Execution halted
+```
+
+## OSMscale (0.4.1)
 Maintainer: Berry Boessenkool <berry-b@gmx.de>
 
-0 errors | 1 warning  | 0 notes
+0 errors | 0 warnings | 0 notes
 
-```
-checking whether package 'OSMscale' can be installed ... WARNING
-Found the following significant warnings:
-  Warning: namespace 'Matrix' is not available and has been replaced
-  Warning: namespace 'MatrixModels' is not available and has been replaced
-  Warning: namespace 'lme4' is not available and has been replaced
-See 'C:/Users/boessenkool/Dropbox/Public/berryFunctions/revdep/checks/OSMscale.Rcheck/00install.out' for details.
-```
+## rdwd (0.7.0)
+Maintainer: Berry Boessenkool <berry-b@gmx.de>
+
+0 errors | 0 warnings | 0 notes
 

revdep/problems.md

@@ -4,35 +4,53 @@
 
 |setting  |value                        |
 |:--------|:----------------------------|
-|version  |R version 3.3.1 (2016-06-21) |
+|version  |R version 3.3.2 (2016-10-31) |
 |system   |x86_64, mingw32              |
-|ui       |RStudio (1.0.44)             |
+|ui       |RStudio (1.0.136)            |
 |language |(EN)                         |
 |collate  |German_Germany.1252          |
 |tz       |Europe/Berlin                |
-|date     |2017-01-17                   |
+|date     |2017-04-07                   |
 
 ## Packages
 
-|package        |*  |version |date       |source                         |
-|:--------------|:--|:-------|:----------|:------------------------------|
-|berryFunctions |*  |1.14.0  |2017-01-17 |local (brry/berryFunctions@NA) |
-|gstat          |   |1.1-4   |2017-01-11 |CRAN (R 3.3.2)                 |
+|package        |*  |version  |date       |source                         |
+|:--------------|:--|:--------|:----------|:------------------------------|
+|abind          |   |1.4-5    |2016-07-21 |CRAN (R 3.3.2)                 |
+|berryFunctions |*  |1.14.35  |2017-04-07 |local (brry/berryFunctions@NA) |
+|knitr          |   |1.15.1   |2016-11-22 |CRAN (R 3.3.3)                 |
+|RColorBrewer   |   |1.1-2    |2014-12-07 |CRAN (R 3.3.2)                 |
+|RCurl          |   |1.95-4.8 |2016-03-01 |CRAN (R 3.3.3)                 |
+|rmarkdown      |   |1.4      |2017-03-24 |CRAN (R 3.3.3)                 |
 
 # Check results
 1 packages with problems
 
-## OSMscale (0.3.5)
+## extremeStat (1.3.0)
 Maintainer: Berry Boessenkool <berry-b@gmx.de>
 
-0 errors | 1 warning  | 0 notes
+1 error  | 0 warnings | 0 notes
 
 ```
-checking whether package 'OSMscale' can be installed ... WARNING
-Found the following significant warnings:
-  Warning: namespace 'Matrix' is not available and has been replaced
-  Warning: namespace 'MatrixModels' is not available and has been replaced
-  Warning: namespace 'lme4' is not available and has been replaced
-See 'C:/Users/boessenkool/Dropbox/Public/berryFunctions/revdep/checks/OSMscale.Rcheck/00install.out' for details.
+checking examples ... ERROR
+Running examples in 'extremeStat-Ex.R' failed
+The error most likely occurred in:
+
+> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
+> ### Name: distLexBoot
+> ### Title: Bootstrapping uncertainty intervals for return periods
+> ### Aliases: distLexBoot
+> ### Keywords: bootstrap distribution dplot hplot montecarlo ts
+> 
+> ### ** Examples
+> 
+> 
+> data(annMax)
+> dlf <- distLextreme(annMax, selection=c("wak","gum","gev","nor"))
+distLfit execution took 0.03 seconds.
+> dlfB <- distLexBoot(dlf, nbest=4, conf.lev=0.5, n=10) # n low for quick example tests
+Error in loadNamespace(name) : there is no package called 'pbapply'
+Calls: distLexBoot ... tryCatch -> tryCatchList -> tryCatchOne -> <Anonymous>
+Execution halted
 ```