[R] Getting the list of lines evaluated in a function call
Hello useRs
I am looking for a function that can give the list of lines that were evaluated
or used to generatethe last output from any function, whether an error message
was generated or not. For example, let's say I have a function like this:
foo - function( x ){ if( x10 ){
ans - x+100
}else{ ans - x-100 } ans
}
and I type:
foo(4)[1] -96
I would like a function that returns something like this
list.lines(foo)[1] 1 3 4 5 6
or:
foo(hello)Error in x + 100 : non-numeric argument to binary operator
list.lines(foo)[1] 1 2
Is there already a function in R doing something similar or anybody has any
hints for functions that I could use to create such a function?
Sincerely,Francois Rousseu
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[R] tcltk window freezes when using locator( )
Hello useRs
Using the following code:
library(tcltk)
win-tktoplevel()
ff-function(){
plot(1:10,1:10)
pol-locator(1)
print(pol)
}
button-tkbutton(win,text=test,command=ff)
tkpack(button)
makes the win panel stop responding when the plot is closed before choosing a
location. Usually, the windows task manager
has to be used to close the window (which causes R to be stopped as well) or a
message saying that R is not responding is
displayed. I was having the same problem with R 2.13.0 so I upgraded to 2.14.0
but the problem persists. I am using windows 7.
sessionInfo()
R version 2.14.0 (2011-10-31)
Platform: x86_64-pc-mingw32/x64 (64-bit)
locale:
[1] LC_COLLATE=French_Canada.1252 LC_CTYPE=French_Canada.1252
[3] LC_MONETARY=French_Canada.1252 LC_NUMERIC=C
[5] LC_TIME=French_Canada.1252
attached base packages:
[1] tcltk stats graphics grDevices utils datasets methods base
Am I doing something wrong or more likely is this a bug?
Thanks,
Francois Rousseu
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Re: [R] tcltk window freezes when using locator( )
In fact, the same thing happens (window freezes) when a long computation
generated by the tcltk window is stopped through the R console.
library(tcltk)
library(svMisc)
win-tktoplevel()
n-1
ff-function(){
for(i in 1:n){progress(i,n)}
}
button-tkbutton(win,text=test,command=ff)
tkpack(button)
Francois Rousseu
From: francoisrous...@hotmail.com
To: r-help@r-project.org
Date: Sun, 6 Nov 2011 21:55:58 -0500
Subject: [R] tcltk window freezes when using locator( )
Hello useRs
Using the following code:
library(tcltk)
win-tktoplevel()
ff-function(){
plot(1:10,1:10)
pol-locator(1)
print(pol)
}
button-tkbutton(win,text=test,command=ff)
tkpack(button)
makes the win panel stop responding when the plot is closed before choosing a
location. Usually, the windows task manager
has to be used to close the window (which causes R to be stopped as well) or
a message saying that R is not responding is
displayed. I was having the same problem with R 2.13.0 so I upgraded to
2.14.0 but the problem persists. I am using windows 7.
sessionInfo()
R version 2.14.0 (2011-10-31)
Platform: x86_64-pc-mingw32/x64 (64-bit)
locale:
[1] LC_COLLATE=French_Canada.1252 LC_CTYPE=French_Canada.1252
[3] LC_MONETARY=French_Canada.1252 LC_NUMERIC=C
[5] LC_TIME=French_Canada.1252
attached base packages:
[1] tcltk stats graphics grDevices utils datasets methods base
Am I doing something wrong or more likely is this a bug?
Thanks,
Francois Rousseu
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and provide commented, minimal, self-contained, reproducible code.
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Re: [R] Error installing packages
Hi Picohan I had a really similar error messages recently when trying to install packages from sources and it was related to my version of windows not being in english. See this for a discussion: http://r.789695.n4.nabble.com/Building-package-DESCRIPTION-file-not-existing-td3935084.html Cheers, Francois Rousseu Date: Fri, 28 Oct 2011 02:11:24 -0700 From: han...@picoquant.com To: r-help@r-project.org Subject: Re: [R] Error installing packages Thanks for the tip, but I am not on win 7, I am on win xp. -- View this message in context: http://r.789695.n4.nabble.com/Re-Error-installing-packages-tp3947187p3947308.html Sent from the R help mailing list archive at Nabble.com. __ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. [[alternative HTML version deleted]] __ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] Building package/DESCRIPTION file not existing?
Thanks to both of you. Indeed, it was a language issue. I eventually detected a check warning stating that the DESCRIPTION file had non-ASCII characters and unknown encoding, but no special characters were in the file. From reading various messages on mailing lists, I added Encoding: latin1 and it worked. Then, when installing the package tarball with install.packages, the é in the Propriétaire for the library directory was changed to ii . So I used it's DOS equivalent Program~1 and it also worked. I haven't notice any warning about using non-english Windows in the Writng R Extensions manual, but I may have missed it. Anyway, I realize now that using non-english Windows is probably a really bad idea in general. Cheers, Francois Rousseu From: maech...@stat.math.ethz.ch Date: Wed, 26 Oct 2011 10:37:30 +0200 To: francoisrous...@hotmail.com CC: r-help@r-project.org Subject: Re: [R] Building package/DESCRIPTION file not existing? Francois Rousseu francoisrous...@hotmail.com on Mon, 24 Oct 2011 20:10:27 -0400 writes: Hello useRs I am trying to build a package for personal use and for making easier working with other people but I keep getting the same error message about the DESCRIPTION file not existing. when trying to install from a source tar.gz file: Error in .read_description(dfile) : file 'C:/Users/Propri�taire/AppData/Local/Temp/RtmpHFMONb/R.INSTALL647a3535/mypkg/DESCRIPTION' does not exist when trying to build a binary version: Error in .read_description(dfile) : file 'C:/Users/Propri�taire/Documents/RETROBIRD/mypkg/DESCRIPTION' does not exist In this last case, the DESCRIPTION file is certainly there! Also, help and DESCRIPTION files are edited and my path variable seems to be set correctly as I can access R and tex (form miktex 2.9) from the console. I feel it might be related to language issues (windows on my system is in french, see sessionInfo() at bottom of message) or something about temporary directories, but I really can't find the problem. I've looked into the cygwin warning, but it didn't seemed to be the problem, though I may be wrong. Yes, I'm almost sure it's the language issues. I've recently taught a course on R Package building and on Windows, the user had problems because of an 'ä' (a-Umlaut) in one of the directories in her 'path'. So if you work from another place than 'C:/Users/Propri�taire/' this may solve the main problem. Bonnes salutations, Martin Maechler, ETH Zurich Any hints? Below is the complete sequence with errors. Thanks, Francois Rousseu [.] [[alternative HTML version deleted]] __ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
[R] Building package/DESCRIPTION file not existing?
Hello useRs I am trying to build a package for personal use and for making easier working with other people but I keep getting the same error message about the DESCRIPTION file not existing. when trying to install from a source tar.gz file: Error in .read_description(dfile) : file 'C:/Users/Propriétaire/AppData/Local/Temp/RtmpHFMONb/R.INSTALL647a3535/mypkg/DESCRIPTION' does not exist when trying to build a binary version: Error in .read_description(dfile) : file 'C:/Users/Propriétaire/Documents/RETROBIRD/mypkg/DESCRIPTION' does not exist In this last case, the DESCRIPTION file is certainly there! Also, help and DESCRIPTION files are edited and my path variable seems to be set correctly as I can access R and tex (form miktex 2.9) from the console. I feel it might be related to language issues (windows on my system is in french, see sessionInfo() at bottom of message) or something about temporary directories, but I really can't find the problem. I've looked into the cygwin warning, but it didn't seemed to be the problem, though I may be wrong. Any hints? Below is the complete sequence with errors. Thanks, Francois Rousseu setwd(C:/Users/Propriétaire/Documents/RETROBIRD/) library(devtools) f - function(x,y) x+y d - data.frame(a=1, b=2) package.skeleton(list=c(f,d), name=mypkg) ## editing of help and description files Creating directories ... Creating DESCRIPTION ... Creating Read-and-delete-me ... Saving functions and data ... Making help files ... Done. Further steps are described in './mypkg/Read-and-delete-me'. build(C:/Users/Propriétaire/Documents/RETROBIRD/mypkg) * checking for file 'C:\Users\Propriétaire\Documents\RETROBIRD\mypkg/DESCRIPTION' ... OK * preparing 'mypkg': * checking DESCRIPTION meta-information ... OK * checking for LF line-endings in source and make files * checking for empty or unneeded directories * looking to see if a 'data/datalist' file should be added * building 'mypkg_1.0.tar.gz' cygwin warning: MS-DOS style path detected: C:/Users/Propri\xC3\xA9taire/Documents/RETROBIRD/mypkg_1.0.tar.gz Preferred POSIX equivalent is: /cygdrive/c/Users/Propri\xC3\xA9taire/Documents/RETROBIRD/mypkg_1.0.tar.gz CYGWIN environment variable option nodosfilewarning turns off this warning. Consult the user's guide for more details about POSIX paths: http://cygwin.com/cygwin-ug-net/using.html#using-pathnames [1] C:/Users/Propriétaire/Documents/RETROBIRD/mypkg_1.0.tar.gz install.packages(pkgs=mypkg_1.0.tar.gz,lib=C:/Users/Propriétaire/Documents/R/win-library/2.13,repos=NULL,type=source) * installing *source* package 'mypkg' ... Error in .read_description(dfile) : file 'C:/Users/Propriétaire/AppData/Local/Temp/RtmpHFMONb/R.INSTALL647a3535/mypkg/DESCRIPTION' does not exist ERROR: installing package DESCRIPTION failed for package 'mypkg' * removing 'C:/Users/Propriétaire/Documents/R/win-library/2.13/mypkg' Warning messages: 1: running command 'C:/PROGRA~1/R/R-213~1.0/bin/x64/R CMD INSTALL -l C:/Users/Propriétaire/Documents/R/win-library/2.13 mypkg_1.0.tar.gz' had status 1 2: In install.packages(pkgs = mypkg_1.0.tar.gz, lib = C:/Users/Propriétaire/Documents/R/win-library/2.13, : installation of package 'mypkg_1.0.tar.gz' had non-zero exit status build(C:/Users/Propriétaire/Documents/RETROBIRD/mypkg,binary=T) * installing to library 'C:/Users/Propriétaire/Documents/R/win-library/2.13' * installing *source* package 'mypkg' ... Error in .read_description(dfile) : file 'C:/Users/Propriétaire/Documents/RETROBIRD/mypkg/DESCRIPTION' does not exist ERROR: installing package DESCRIPTION failed for package 'mypkg' * removing 'C:/Users/Propriétaire/Documents/R/win-library/2.13/mypkg' Error: Command failed (1) In addition: Warning message: running command 'C:/PROGRA~1/R/R-213~1.0/bin/x64/R CMD INSTALL C:\Users\Propriétaire\Documents\RETROBIRD\mypkg --build' had status 1 sessionInfo() R version 2.13.0 (2011-04-13) Platform: x86_64-pc-mingw32/x64 (64-bit) locale: [1] LC_COLLATE=French_Canada.1252 LC_CTYPE=French_Canada.1252 [3] LC_MONETARY=French_Canada.1252 LC_NUMERIC=C [5] LC_TIME=French_Canada.1252 attached base packages: [1] stats graphics grDevices utils datasets methods base other attached packages: [1] roxygen2_2.1 digest_0.5.1 devtools_0.4 loaded via a namespace (and not attached): [1] brew_1.0-6 plyr_1.6 RCurl_1.6-10.1 stringr_0.5tools_2.13.0 [[alternative HTML version deleted]] __ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] calculating distance inland from coastline
Hi Simon A combination of functions gDistance, gBuffer and gIntersects from package rgeos should do the job. Also, have a look at www.naturalearthdata.com. They have various shapefiles with coastlines and land polygons, though I don't know how the resolution compares with the worldHires database. Cheers, Francois Rousseu Date: Thu, 14 Jul 2011 05:43:23 -0700 From: s.j.good...@leeds.ac.uk To: r-help@r-project.org Subject: [R] calculating distance inland from coastline Hi All, Does anybody know of any existing functions that will calculate distance inland from a coastline? It's possible to test if a lon,lat location is land or sea using map.where(), but I need to add a buffer to this of say 2km, to allow for points that are just on the coast, and below the resolution of the worldHires database. I'm working with a marine mammal satellite telemetry dataset and wish to filter out spurious locations on land. On another issue, does anybody know of any free vector map datasets that are more up to date and have a higher resolution than the worldHires database from the 'maps' package. Thanks, Simon -- View this message in context: http://r.789695.n4.nabble.com/calculating-distance-inland-from-coastline-tp3667464p3667464.html Sent from the R help mailing list archive at Nabble.com. __ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. [[alternative HTML version deleted]] __ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
[R] Retrieving call sequence leading to a plot / Zooming in maps
Hello R users
When I want to zoom in on a map or any plot in R, I usually use the locator
function to reset the
limit of the plot and do something like:
library(maptools)
library(mapdata)
map('worldHires',ylim=c(40,55),xlim=c(-90,-60))
points(-71,47,col=red,pch=16)
text(-73,49,Hello)
l-locator(2)
map('worldHires',ylim=range(l$y),xlim=range(l$x))
points(-71,47,col=red,pch=16)
text(-73,49,Hello)
I find this a bit annoying to type when there are a lot of things in a complex
map. Now, what
I would like to do is create a function that would zoom in on any type of plot
or map without having
to retype the steps that lead to the new rescaled plot. For this, I guess the
function would have to
find which calls/expressions led to the actual plot. Then, the function would
only need to change
the ylim and xlim in the expression leading to the plot creation and reevaluate
all expressions.
So my question is this: is there a function that can retrieve the call sequence
that led to the actual plot?
Perhaps a function similar to this already exists? I've looked into the zoom
and zoomInPlot functions,
but none of them do exactly what I want. The zoomInPlot function comes close,
but it seems to be
limited to simple plots.
Thanks
Francois Rousseu
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[R] Coordinates of the text region
Hello R people Is there a way to get the coordinates of the text region (coordinates of the four corners for example) when using the text function? I'm looking for a way that does not make use of interactive function like locator. My goal is to determine the position of other structures in a graphic so that they don't overlap with the text. Thanks Francois Rousseu [[alternative HTML version deleted]] __ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] Coordinates of the text region
Let's say I do the following: plot(0,0,type=n,xlim=c(0,10),ylim=c(0,10)) rect(4,5,5,6,border=black,col=white) text(4.5,5.5,species,cex=2) I would like to be able to determine a rectangle size that will be able to contain the text species. I'm working on a function using multiple lines and boxes where text of varying length has to be written. Francois On Mar 26, 2011, at 8:39 PM, Francois Rousseu wrote: Hello R people Is there a way to get the coordinates of the text region (coordinates of the four corners for example) What text region are you talking about? when using the text function? I'm looking for a way that does not make use of interactive function like locator. My goal is to determine the position of other structures in a graphic so that they don't overlap with the text. The plotrix package and the rms package have functions for avoiding plotted points but you seem to be looking for something else. -- David Winsemius, MD West Hartford, CT [[alternative HTML version deleted]] __ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
[R] naming vectors
Hello R users I was trying to find a less annoying way of naming vectors than: x-1:10 names(x)[1:length(x)]-A So I tried: x-1:10 names(x)-A #but this gave only the first element named (as described in the help files) and x-1:10 names(x)[]-A #but this gave all elements named NA The curious thing with this last option is that if the same line is ran a second time, now the vector gets the name A for all elements, which is what is desired names(x)[]-A I'm guessing the first time the names attribute is created and the second time values are given to this attribute. But shouldn't we expect the elements to be all named on the first try with the given value? Cheers Francois [[alternative HTML version deleted]] __ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] naming vectors
I guess I will just get over my laziness and use the rep function instead! But my goal was more to point out the weird names attribution behaviour. I'm using named vectors of dates that can be associated to 2 stages (incubation and rearing in nesting birds) to overlay a vector of observed data and a vector of theoritical data to see if the stages match on same dates. A data frame could also be used for this task, but I thought that vectors are a bit simpler and faster to create. Francois Rousseu Date: Mon, 21 Feb 2011 15:58:36 +0100 From: ivan.calan...@uni-hamburg.de To: r-help@r-project.org Subject: Re: [R] naming vectors It is indeed an interesting behavior and I have no idea what you could do except what you did, though I would use: names(x) - rep(A, length(x)) But I don't really understand why you want to give the same name to all elements? There might be another way around depending on your goal Ivan Le 2/21/2011 15:44, Francois Rousseu a écrit : Hello R users I was trying to find a less annoying way of naming vectors than: x-1:10 names(x)[1:length(x)]-A So I tried: x-1:10 names(x)-A #but this gave only the first element named (as described in the help files) and x-1:10 names(x)[]-A #but this gave all elements named NA The curious thing with this last option is that if the same line is ran a second time, now the vector gets the name A for all elements, which is what is desired names(x)[]-A I'm guessing the first time the names attribute is created and the second time values are given to this attribute. But shouldn't we expect the elements to be all named on the first try with the given value? Cheers Francois [[alternative HTML version deleted]] __ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. -- Ivan CALANDRA PhD Student University of Hamburg Biozentrum Grindel und Zoologisches Museum Abt. Säugetiere Martin-Luther-King-Platz 3 D-20146 Hamburg, GERMANY +49(0)40 42838 6231 ivan.calan...@uni-hamburg.de ** http://www.for771.uni-bonn.de http://webapp5.rrz.uni-hamburg.de/mammals/eng/1525_8_1.php __ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. [[alternative HTML version deleted]] __ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
[R] Testing for empty result of which
Hello R users When using the function which to get matches, I usually do w-which(x==y) length(w)==0 to determine if there are matches or not. Is there a base function that can do the thing more directly by returning a logical value if the result of which is empty or not? Thanks Francois Rousseu [[alternative HTML version deleted]] __ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] Cumulative percentage by unit of time
Hi Sebastien!
How about this:
d-data.frame(nest,LD,FD)
l-apply(d,1,function(i){seq(i[LD],i[FD],by=1)})
jul-60:273
active-sapply(jul,function(i){sum(sapply(l,function(k){i %in% k}))})
ans-data.frame(jul,perc_act=100*active/length(nest))
ans
When you say cumulative percentage active, do you mean nests active on a given
date or do you also want to include nests that have been active?
Cheers,
Francois Rousseu
Date: Wed, 15 Dec 2010 14:34:04 -0500
From: sebastien.ri...@gmail.com
To: r-help@r-project.org
Subject: [R] Cumulative percentage by unit of time
Hi All,
I've been struggling on that one for a couple of days. I've tried several
things, but nothing is worth publishing.
I'm working with a bird nests data frame for which I have a laying date (LD)
and a fledgling date (FD) (in calendar Julian date) by nest id. For the
period spanning between LD and SD, the nest is termed active. Each nest id
occur once in the data frame.
How could I get the cumulative percentage of active nests by date within a
specified time frame ? Let's say from Julian date 60 to 273 ?
I would like the results to look like this :
Julian_date prct_ active
60 0
61 5
62 10
63 25
...
Here is an example of the data frame
nest_id LD FD
1193219
2131159
3196221
4152179
5136164
Cheers,
Sebastien
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