similar to: Capturing warning messages within R

Displaying 20 results from an estimated 1100 matches similar to: "Capturing warning messages within R"

2007 Feb 05
ran out of iteration in coxph
hi, I applied coxph to my matrix of 300 samples and 215 variables and got the following error Error in fitter(X, Y, strats, offset, init, control, weights = weights, : NA/NaN/Inf in foreign function call (arg 6) In addition: Warning message: Ran out of iterations and did not converge in: fitter(X, Y, strats, offset, init, control, weights = weights, 26% of time data is censored
2007 Dec 17
Capture warning messages from coxph()
Hi, I want to fit multiple cox models using the coxph() function. To do this, I use a for-loop and save the relevant results in a separate matrix. In the example below, only two models are fitted (my actual matrix has many more columns), one gives a warning message, while the other does not. Right now, I see all the warning message(s) after the for-loop is completed but have no idea which model
2009 Dec 02
Error when running Conditional Logit Model
Dear R-helpers, I am very new to R and trying to run the conditional logit model using "clogit " command. I have more than 4000 observations in my dataset and try to predict the dependent variable from 14 independent variables. My command is as follows clmtest1 <- clogit(Pin~Income+Bus+Pop+Urbpro+Health+Student+Grad+NE+NW+NCC+SCC+CH+SE+MRD+strata(IDD),data=clmdata) However, it
2007 Dec 14
problem with coxph
Hi everyone, I encountered a problem using the coxph function for the conditional logistic regression. I am trying to do some simulations and I really don’t understand a mistake which happened maybe only 1 time among more than 1,000 simulations. What appeared on the screen is the following: Error in fitter(X,Y,strats,offset,init,control,weights=weights,: NA/NaN/Inf in a foreign
2004 May 16
Error in using coxph()
Hi, I am getting errors of the following kind. I can't seem to point the source of the error. I would greatly appreciate any advice. Many thanks and good day, -Melinda Error message : ---------------- "Ran out of iterations and did not converge in: fitter(X, Y, strats, offset, init, control, weights = weights,..." Details : --------- E is a vector of survival times (or censored
2013 Apr 16
Dear Sir/Ma, I Adelabu.A.A, one of the R-users from Nigeria. When am running a coxph command the below error was generated, and have try some idea but not going through. kindly please assist: > cox1 <- coxph(Surv(tmonth,status) ~ sex + age + marital + sumassure, X) Warning message: In fitter(X, Y, strats, offset, init, control, weights = weights, : Ran out of iterations and did
2006 May 15
[PATCH 10/12 bugfix: openssh-4.3p2: memory leak
The variable local_user was allocated by xstrdup and is not freed or pointed to in this branch. This patch adds the xfree. This entire set of patches passed the regression tests on my system. Bug found by Coverity. Signed-off-by: Kylene Hall <kjhall at> --- sshconnect.c | 1 + 1 files changed, 1 insertion(+) diff -uprN openssh-4.3p2/sshconnect.c
2009 Apr 23
Cox regression
Hi I am doing a survival analysis and have run into a couple of things that I was hoping I could get some advice on. The first thing is that when I run an ordinary Cox regression in R I get the same results that I do using Stata (provided that I specify the Efron method for handling ties) but I also get the following warning message: "Warning message: In coxph(Surv1 ~ Out + site + haem) :
2013 Feb 12
NA/NaN/Inf in foreign function call (arg 6) error from coxph
Dear R-helpers: I am trying to fit a multivariate Cox proportional hazards model, modelling survival outcome as a function of treatment and receptor status. The data look like below: # structure of the data str( List of 4 $ survobj : Surv [1:129, 1:2] 0.8925+ 1.8836+ 2.1191+ 5.3744+ 1.6099+ 5.2567 0.2081+ 0.2108+ 0.2683+ 0.4873+ ... ..- attr(*, "dimnames")=List of 2
2006 May 15
[PATCH 2/12] bug fix: openssh-4.3p2 NULL dereference
The variable IV does can be NULL when passed into the function. However, IV is dereferenced in CMP, therefore, IV should be checked before sending it to this macro. This patch adds what is common in other parts of the code but is missing on this particular check. This entire set of patches passed the regression tests on my system. Null dereference bug found by Coverity. Signed-off-by: Kylene
2011 Mar 31
fit.mult.impute() in Hmisc
I tried multiple imputation with aregImpute() and fit.mult.impute() in Hmisc 3.8-3 (June 2010) and R-2.12.1. The warning message below suggests that summary(f) of fit.mult.impute() would only use the last imputed data set. Thus, the whole imputation process is ignored. "Not using a Design fitting function; summary(fit) will use standard errors, t, P from last imputation only. Use
2009 Jul 24
Making rq and bootcov play nice
I have a quick question, and I apologize in advance if, in asking, I expose my woeful ignorance of R and its packages. I am trying to use the bootcov function to estimate the standard errors for some regression quantiles using a cluster bootstrap. However, it seems that bootcov passes arguments that doesn't like, preventing the command from executing. Here is an example:
2003 Jul 27
multiple imputation with fit.mult.impute in Hmisc
I have always avoided missing data by keeping my distance from the real world. But I have a student who is doing a study of real patients. We're trying to test regression models using multiple imputation. We did the following (roughly): f <- aregImpute(~ [list of 32 variables, separated by + signs], n.impute=20, defaultLinear=T, data=t1) # I read that 20 is better than the default of
2007 Sep 13
Multivariate, multilevel regression?
Dear WizaRds, This is mostly a statistics question, but I'm figuring that R is the right solution (even before I start!) I have some bio data of heart rate versus time (rats taken from resting to maximal heart rate). I want to regress heart rate on time. The data have been normalized such that resting heart rate is zero at time=0, so that all curves intersect at the origin (and at the origin
2005 Jun 23
Error in stepAIC function using a survival model
I keep getting the same error in my survival analysis. I have access to a very large database but am just using small subsets to get some results. In this particular subset there is 50 explanatory variables(both factors of many levels and covariates) and 117 data pieces with some of the data being censored. I am using the stepAIC command to find my model. My initial model is built from all
2012 Jul 07
Feature request
Hi, I am implementig Dovecot as a part of my new e-mail server, which is aimed to be replacement for proprietary software I've been using sofar. Appreciating all Dovecot rich features, I lack just one. And this is the ability to customize the "quota exceeded, message rejected" message. I know I can set it's default content using quota_exceeded_message parameter, but i would
2003 Jul 17
I am trying to fit the generalised linear model for the negative binomial, but the results which come out are attached below. When we fit this model using few covariates, the model converge. Does it mean that this family is fitted differently from other glm? or the number of zeros in my response variable has a limiting factor? Thanks Bruno fit <- glm.nb(pfde~SEX+...., data=data1) Warning
2009 Jan 09
Calling R functions from Python
All- Thanks in advance for your help. I'm trying to call R function using Python in a windows environment and have downloaded the Rpy library however it doesn't appear to work with R 2.7.2. Does anyone know if a new version of Rpy exists for windows that will work with R and where it can be downloaded from? Here's an example of the error I'm getting:
2001 Feb 26
undefined symbol: wine_ldt_copy
When I run wine I get the following error messege: wine: error while loading shared libraries: /usr/local/lib/ undefined symbol: wine_ldt_copy I'm using RedHat 7 and the wine from: i386.rpm I ran ldconfig and I still get the same error message. Any
2012 Sep 03
Coxph not converging with continuous variable
The coxph function in R is not working for me when I use a continuous predictor in the model. Specifically, it fails to converge, even when bumping up the number of max iterations or setting reasonable initial values. The estimated Hazard ratio from the model is incorrect (verified by an AFT model). I've isolated it to the "x1" variable in the example below, which is log-normally