Re: [R] error in building R-2.15.3: configure: error: linking to Fortran libraries from C fails

2014-02-05 Thread Prof Brian Ripley
On 05/02/2014 05:44, Dinesh wrote: Hi, I am trying to build R-2.15.3 and get the following error in /configure --with-readline --enable-R-shlib snip checking for dummy main to link with Fortran 77 libraries... unknown configure: error: in `/home/dinesh/R-build/R-2.15.3': configure: error:

Re: [R] creating an equivalent of r-help on r.stackexchange.com ? (was: Re: Should there be an R-beginners list?)

2014-02-05 Thread Barry Rowlingson
On Wed, Feb 5, 2014 at 6:32 AM, Liviu Andronic landronim...@gmail.com wrote: So in the end my proposal is not necessarily for r-help to go to SE, but more for R to have its own QA forum/wiki for helping R users. This could perfectly take the form of setting up its own open-source

Re: [R] Obtain the hex code for a given character --- thanks.

2014-02-05 Thread Rolf Turner
And the winner is ... (drum roll) ... DAVID WINSEMIUS!!! Thank you hugely David. You have completely solved my problem. The last bit with format.hexmode() so as to get 00A3 rather than just a3 was actually unnecessary; I could've lived with a3. But it was a nice bit of polish. How

Re: [R] Handling special characters in reading and writing to CSV

2014-02-05 Thread Venkata Kirankumar
Hi David, In CSV RFC 4180 format if any ' or character is there then character will go with escape character so CSV will distinguish properly. I will try with read.fwf once because with redline I am facing same issue. Thanks Regards, D V Kiran Kumar. On Wed, Feb 5, 2014 at 3:14 AM, David

Re: [R] Obtain the hex code for a given character.

2014-02-05 Thread Duncan Murdoch
On 14-02-04 11:56 PM, David Winsemius wrote: On Feb 4, 2014, at 4:57 PM, Rolf Turner wrote: If I have a character such as £ stored in a object called xxx, how can I obtain the hex code representation of this character? In this case I know that the hex code is \u00A3, but if I didn't, how

Re: [R] Problem connecting to database via RPostgreSQL/RS-DBI: could not connect error

2014-02-05 Thread andrewH
On Feb 03, 2014; 7:24am, hadley wickham wrote: Or you're not running a postgres db on your local machine with that accepts a connection with username Administrator and no password? I doubt that's the error you would see if RPostgreSQL hadn't found libpq. I have learned enough since this

[R] expected value with R

2014-02-05 Thread Henrik Alanko
Dear recipient I am using the r-program to do calculations with my data. I would like to ask you how to calculate the expected value with R using this data? I only get an error message in response. Attached is my data. Thank you for your kind answer! Henrik Alanko Faculty of statistics

Re: [R] mgcv: distribution of dev with Poisson data

2014-02-05 Thread Simon Wood
Greg, The deviance being chi^2 distributed on the residual degrees of freedom works in some cases (mostly where the response itself can be reasonably approximated as Gaussian), but rather poorly in others (noteably low count data). This is what you are seeing in your simulations - in the

Re: [R] Handling special characters in reading and writing to CSV

2014-02-05 Thread Ista Zahn
Hi Kiran, Please post a reproducible example, either by pasting a sample of comma separated values into you message, posting a .csv file somewhere where we can download it. Without an example all we can do is guess what your problem might be. Best, Ista On Wed, Feb 5, 2014 at 5:10 AM, Venkata

Re: [R] expected value with R

2014-02-05 Thread Berend Hasselman
On 05-02-2014, at 10:46, Henrik Alanko henrik.ala...@helsinki.fi wrote: Dear recipient I am using the r-program to do calculations with my data. I would like to ask you how to calculate the expected value with R using this data? I only get an error message in response. Attached is my

Re: [R] Adjusting the x axis range in effects plots

2014-02-05 Thread S Ellison
I am having some difficulties with effects plots from the effects package. Your problem is probably not xlim, which the effects plots should accept; it's more likely that you're trying to use base graphics to add symbols to a lattice plot - effects uses lattice, not base graphics. The

Re: [R] Not able to find files in working directory

2014-02-05 Thread PIKAL Petr
Hi try getwd() Is your file in this directory? Then you can change directory by menu item file/change directory or you can try file.choose() for interactive selection of files. you can also check loaded objects by ls() Regards Petr -Original Message- From:

Re: [R] creating an equivalent of r-help on r.stackexchange.com ? (was: Re: Should there be an R-beginners list?)

2014-02-05 Thread Duncan Murdoch
On 05/02/2014 1:32 AM, Liviu Andronic wrote: Dear all, On Sun, Feb 2, 2014 at 10:49 PM, Liviu Andronic landronim...@gmail.com wrote: It seems that StackOverflow is officially proposing user-generated content for download/mirroring:

Re: [R] (no subject)

2014-02-05 Thread Keniajin Wambui
Thanks Peter On Wed, Jan 15, 2014 at 7:23 PM, peter dalgaard pda...@gmail.com wrote: The data have no resemblance to what prop.trend.test expects (counts and totals, optionally group scores). The prop.trend.test() function tests for trend in proportions. Were you attempting a rank

Re: [R] mgcv: distribution of dev with Poisson data

2014-02-05 Thread Simon Wood
Hi Greg, Yes, this sounds right - with quasipoisson gam uses `extended quasi-likelihood' (see McCullagh and Nelder's GLM book) to allow estimation of the scale parameter along with the smoothing parameters via (RE)ML, and it could well be that this gives a biased scale estimate with low

Re: [R] mgcv: distribution of dev with Poisson data

2014-02-05 Thread Greg Dropkin
thanks Simon also, it appears at least with ML that the default scale estimate with quasipoisson (i.e. using dev) is the scale which minimises the ML value of the fitted model. So it is the best model but doesn't actually give the correct mean-variance relation. Is that right? thanks again Greg

Re: [R] Handling large SAS file in R

2014-02-05 Thread Matthew Shotwell
Completing the reverse engineering effort is the principle barrier to fully incorporating the sas7bdat file format. Of course, SAS may change the format specification at any time, and without our knowledge. The sas7bdat package is a repository for the results of our (myself, Clint Cummins, and

Re: [R] mgcv: distribution of dev with Poisson data

2014-02-05 Thread Prof Brian Ripley
On 05/02/2014 12:56, Greg Dropkin wrote: thanks Simon also, it appears at least with ML that the default scale estimate with quasipoisson (i.e. using dev) is the scale which minimises the ML value of the fitted model. So it is the best model but doesn't actually give the correct mean-variance

[R] Sensitivity analysis - minimum effect size detectable by a binomial test

2014-02-05 Thread Simone
Hi all, I have performed a binomial test to verify if the number of males in a study is significantly different from a null hypothesis (say, H0:p of being a male= 0.5). For instancee: binom.test(10, 30, p=0.5, alternative=two.sided, conf.level=0.95) Exact binomial test data: 10 and 30

Re: [R] Count observation based on hour

2014-02-05 Thread arun
Hi, Try: data.frame(table(dat$Date)) A.K. Hi guys, I have some 20,000 observations like this:           Date       2014-01-01 00:00:00 2014-01-02 11:00:00 2014-01-02 22:00:00 2014-01-03 03:00:00 I want to perform an hourly count (e.g. the frequency occur at each hour for a specific

Re: [R] avoiding multiple actual arguments in default function behavior

2014-02-05 Thread William Dunlap
Suppose I'm creating a function that sets default ylab and xlab behaviors: plotx = function(x, y, ...){ plot(x,y, ylab=, xlab=,...) } The problem is, on occasion, I actually want to override the defaults in my function. Make xlab and ylab arguments to your function. plotx2 -

[R] avoiding multiple actual arguments in default function behavior

2014-02-05 Thread Dustin Fife
Suppose I'm creating a function that sets default ylab and xlab behaviors: plotx = function(x, y, ...){ plot(x,y, ylab=, xlab=,...) } The problem is, on occasion, I actually want to override the defaults in my function. I would like to do the following: plotx(1:100, 1:100, xlab=I Don't

Re: [R] avoiding multiple actual arguments in default function behavior

2014-02-05 Thread Dustin Fife
That's a good idea, but I'm hoping there's another way. The actual function that I'm using sets LOTS of default behaviors and I try to minimize the number of arguments I have. On Wed, Feb 5, 2014 at 10:19 AM, William Dunlap wdun...@tibco.com wrote: Suppose I'm creating a function that sets

Re: [R] Sensitivity analysis - minimum effect size detectable by a binomial test

2014-02-05 Thread Marc Schwartz
On Feb 5, 2014, at 10:05 AM, Simone misen...@hotmail.com wrote: Hi all, I have performed a binomial test to verify if the number of males in a study is significantly different from a null hypothesis (say, H0:p of being a male= 0.5). For instancee: binom.test(10, 30, p=0.5,

Re: [R] avoiding multiple actual arguments in default function behavior

2014-02-05 Thread arun
Hi, Try:  plotx - function(x,y, ...){  labels - list(xlab=x,ylab=y)  args - modifyList(labels,list(x=x,...))  do.call(plot,args)  }  plotx(1:100,1:100,xlab=I Don't Work!) A.K. On Wednesday, February 5, 2014 11:14 AM, Dustin Fife fife.dus...@gmail.com wrote: Suppose I'm creating a function

Re: [R] avoiding multiple actual arguments in default function behavior

2014-02-05 Thread Dustin Fife
Perfect. Thanks! On Wed, Feb 5, 2014 at 10:35 AM, arun smartpink...@yahoo.com wrote: Hi, Try: plotx - function(x,y, ...){ labels - list(xlab=x,ylab=y) args - modifyList(labels,list(x=x,...)) do.call(plot,args) } plotx(1:100,1:100,xlab=I Don't Work!) A.K. On Wednesday,

Re: [R] Plotting multiple time series with variables having different units

2014-02-05 Thread Paul Gilbert
I'm not sure if I understand exactly what you mean, but if you want separate panels, one above the other, with a common time span but each with their own Y scale, then the function tfplot() in package tfplot does this. There are examples in the User Guide at

Re: [R] Obtain the hex code for a given character --- thanks.

2014-02-05 Thread David Winsemius
On Feb 5, 2014, at 12:53 AM, Rolf Turner wrote: And the winner is ... (drum roll) ... DAVID WINSEMIUS!!! Thank you hugely David. You have completely solved my problem. The last bit with format.hexmode() so as to get 00A3 rather than just a3 was actually unnecessary; I could've

[R] RMySQL with Windows 7

2014-02-05 Thread Peretz, Eliran
Hi , I read your post and followed your instructions but still couldn't install RMySQL by getting the message: installation of package ‘RMySQL’ had non-zero exit status Can you please walk me through the process from the installation part (version, etc) to all the paths that need to be

Re: [R] mgcv: distribution of dev with Poisson data

2014-02-05 Thread Greg Dropkin
hi Simon yes, I also got the right shape of the mean-variance relation but the wrong estimate of the parameter. thanks very much Greg Hi Greg, Yes, this sounds right - with quasipoisson gam uses `extended quasi-likelihood' (see McCullagh and Nelder's GLM book) to allow estimation of the

Re: [R] Categorizing and displaying excel data in tabular format

2014-02-05 Thread ashrafali
Thank you David. I tried the Table function with two columns table(R_format$Client.Mnemonic,R_format$Tasks) and got something like the one I have attached in this word file Task_Summary_for_Clients.docx http://r.789695.n4.nabble.com/file/n4684797/Task_Summary_for_Clients.docx I need to

Re: [R] mgcv: distribution of dev with Poisson data

2014-02-05 Thread Greg Dropkin
Dear Prof Ripley yes, but if the estimate is biased it's good to know what the bias is. The problem illustrated in the simulations has nothing to do with ML, though, as the default fitting method in mgcv when scale is unknown is GCV and that is what was used, by default, here. The point about

Re: [R] Adjusting the x axis range in effects plots

2014-02-05 Thread David Winsemius
On Feb 5, 2014, at 4:17 AM, S Ellison wrote: I am having some difficulties with effects plots from the effects package. Your problem is probably not xlim, which the effects plots should accept; it's more likely that you're trying to use base graphics to add symbols to a lattice plot -

Re: [R] Handling special characters in reading and writing to CSV

2014-02-05 Thread David Winsemius
On Feb 5, 2014, at 2:10 AM, Venkata Kirankumar wrote: Hi David, In CSV RFC 4180 format if any ‘ or “ character is there then character will go with escape character so CSV will distinguish properly. I will try with read.fwf once because with redline I am facing same issue. Thanks

Re: [R] Nested foreach loops in R repeating items

2014-02-05 Thread arun
Hi, Try ?duplicated()  apply(x,2,function(x) {x[duplicated(x)]-;x}) A.K. Hi all, I have a dataset of around a thousand column and a few thousands of rows. I'm trying to get all the possible combinations (without repetition) of the data columns and process them in parallel. Here's a

Re: [R] Nested foreach loops in R repeating items

2014-02-05 Thread Bert Gunter
I don't think you answered the OP's query, although I confess that I am not so sure I understand it either (see below). In any case, I believe the R level loop (i.e. apply()) is unnecessary. There is a unique (and a duplicated()) method for data frames, so simply unique(x) returns a data frame

Re: [R] Removing cell borders from svg or eps in levelplot

2014-02-05 Thread Pascal Oettli
Hello, Please try including panel=panel.levelplot.raster as an option of levelplot: svg(SVG.svg) levelplot(prt, main=SVG, xlab=NULL, ylab=NULL, col.regions=rgb.palette(800), cuts=100, at=seq(0,1.0,0.01), panel=panel.levelplot.raster) dev.off() It may help you. Regards, Pascal On 6

[R] replacing zeros with above/below numbers ?

2014-02-05 Thread ce
Dear all, My data is : a - c(0.9721,0.9722,0.9730,0.9723,0.0,0.0,0.0,0.9706,0.9698,0.0,0.9710,0.9699) I want to replace zeros with average of before and after values of them. But sometimes there is one zero sometimes more than one. What is the most elegant way to do this ? Thanks a lot

Re: [R] replacing zeros with above/below numbers ?

2014-02-05 Thread Pascal Oettli
Hello, If you mean replacing 0 by the average of non-zero values, I guess one way is: a[a==0] - mean(a[a!=0]) Maybe some senior user might correct it. Regards, Pascal On 6 February 2014 12:05, ce zadi...@excite.com wrote: Dear all, My data is : a -

Re: [R] replacing zeros with above/below numbers ?

2014-02-05 Thread Jeff Newmiller
You seem to be treating zeroes as unknown values. Perhaps you should consider setting them to NA and using the na.approx function from the zoo package. --- Jeff NewmillerThe . . Go

Re: [R] replacing zeros with above/below numbers ?

2014-02-05 Thread ce
In fact I don't want to replace with average of whole series, just before and after values something like this : for (i in seq(from=2,to=nrow(a)-1,by=1)) { if ( a[i] == 0 ) a[i] = ( a[i+1] + a[i-1] ) / 2 } but I can't handle gracefully repeated zeros or first and last values. Jeff

Re: [R] replacing zeros with above/below numbers ?

2014-02-05 Thread ce
Yes , indeed this is what I am looking for : a[ a == 0.0 ] = NA na.approx(a,na.rm=FALSE) Thanks a lot. -Original Message- From: Jeff Newmiller [jdnew...@dcn.davis.ca.us] Date: 02/05/2014 10:35 PM To: ce zadi...@excite.com, r-help@r-project.org Subject: Re: [R] replacing zeros with

Re: [R] replacing zeros with above/below numbers ?

2014-02-05 Thread arun
HI, May be this helps: a1 -a indx - which(c(0,diff(a!=0)) 0) indx1 - which(c(0,diff(a!=0)) 0) a[a==0] - rep( rowMeans(cbind(a[indx-1],a[indx1])),indx1-indx)  a # [1] 0.97210 0.97220 0.97300 0.97230 0.97145 0.97145 0.97145 0.97060 0.96980 #[10] 0.97040 0.97100 0.96990 #Another option is

Re: [R] Coxph convergence

2014-02-05 Thread Hin-Tak Leung
Dear Prof Therneau, I have explored a bit more on this issue - I found that for this specific problem, one can get the older convergent behavior with just setting toler.chol to 4 e-12. This is only a little larger than 2x the current default = .Machine$double.eps^.75 = 1.8e-12. Since you

[R] R help

2014-02-05 Thread Malyadri Putchakayala
Hi, Emails mal...@gmail.com mah...@gmail.com ravi_...@yahoo.com lavk@rediff.com I need split firstname,lastname,domail(only gmail,not gmail.com),also 123 in last name,so please give me help Output is Emails f.name l.namedomain

[R] proportional weights

2014-02-05 Thread Marco Inacio
Hello all, can help clarify something? According to R's lm() doc: Non-NULL weights can be used to indicate that different observations have different variances (with the values in weights being inversely *proportional* to the variances); or equivalently, when the elements of weights are

Re: [R] R help

2014-02-05 Thread arun
Hi, May be this helps: dat - read.table(text=Emails mal...@gmail.com mah...@gmail.com ravi_...@yahoo.com lavk@rediff.com,sep=,header=TRUE,stringsAsFactors=FALSE)  

Re: [R] R help

2014-02-05 Thread arun
Hi, If you have .edu, .gov etc. dat - structure(list(Emails = c(mal...@gmail.com, mah...@gmail.com, ravi_...@yahoo.com, lavk@ufl.edu)), .Names = Emails, class = data.frame, row.names = c(NA, -4L)) res -