similar to: Installation error with R-devel

It's hard to diagnose this without your package sources / a reproducible example. Shot in the dark: one thing worth checking is that you don't have an entry in your `.Rbuildignore` that's removing files you don't expect it to (maybe that's causing R to strip out the 'doc/index.html' file) Kevin On Fri, May 15, 2015 at 12:54 PM, Therneau, Terry M., Ph.D. <therneau

I am getting failure of build and check, for an Rd file that has a long argument list. Guess diagnosis: a quoted string beyond a certain point in the argument list is fatal. Example: Use the function below, create an Rd file for it with prompt(). Move the .Rd file to the man directory (no need to edit it) and try building dart.control <- function(server=c("production",

Martin, I am aware of --vanilla; I use it myself for some testing. In this case R_LIBS_USER was set externally (part of my login) and does not involve any of the R scripts. That means it is inherited by any subprocess. For example: tmt1495% R --vanilla --no-environ R version 3.3.1 (2016-06-21) -- "Bug in Your Hair" Copyright (C) 2016 The R Foundation for Statistical Computing

I have a local library which depends on the expm library. The expm library is loaded into my personal space and I have the environment variable R_LIBS_USER set appropriately. The command "library(expm)" works just fine from the command line, and in fact the package works if I do the source() and dyn.load() commands by hand. The following sequence works: tmt% R CMD build

Dear R Community, I am attempting to transpose a dataset from rows to columns but am stuck. I have tried using reshape() with little luck, possibly due to the categorical nature of the data. For example: id<-c(1,2,2,3,3,3) author<-c("j","k","k","l","l","l")

I have a nested ANOVA, with a fixed factor "tmt" nested within "site" (random). There are missing values in the data set. aeucs, tmt and site have been defined as objects I have tried: model1=lme(aeucs~tmt,random=~1|tmt/site) I get the following error message Error in na.fail.default(list(aeucs = c(0.833333333, 1, 1, 1, 1, 1, 0.666666667, : missing values in object I

Hi All, I'm working with some SAS code to analyze an experiment set up as follows: 66 subjects (colonies) treated with a random treatment (1-8) and measured at three time points. The data structure looks like: input colony tmt y1 y2 y3; y=y1; date=*1*; output; y=y2; date=*2*; output; y=y3; date=*3*; output; datalines; 1

I have an ASAN enabled version of R-devel on my test machine, and can get it to relably crash.? Here is the first part of the session: tmt-local2434% R --vanilla R Under development (unstable) (2019-06-28 r76752) -- "Unsuffered Consequences" Platform: x86_64-pc-linux-gnu (64-bit) R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under

I have a local library 'dart' that imports "httr". It has routines that access central patient data such as birth date, so it is heavily used locally but of no interest to anyone else. The httr library (and 300 others) are in a shared directory, referenced by everyone in the biostatistics group via adding this location to the .libPaths in their default .Rprofile.

On Thu, 2017-02-09 at 09:52 -0600, Therneau, Terry M., Ph.D. wrote: > Martin, > ? I am aware of --vanilla; I use it myself for some testing.??In this case R_LIBS_USER was? > set externally (part of my login) and does not involve any of the R scripts.??That means? > it is inherited by any subprocess.??For example: > > tmt1495% R --vanilla --no-environ > > R version 3.3.1

I have a matrix 700x2000 which is sampled in each cycle from another matrix 788x2000 with the numbers 0,1 and 9 There is one specific collumn of this matrix, dart[,1977], that usually, after the samplimg procedure has only 1 and 9 (because the zero frequency in this collumn is low). However, when this happens, I want to include an IF conditional in my code. so basically what i wanted to do was to

I found this by accident yesterday. The program that crashes is the first two lines of the example from the help page for nlmer. That example hasn't changed in a long time, so I assumed that it is an R-devel issue. It could also be a long latent nlmer bug. The second run with valgrind is puzzling. Terry T. > library(lmer) > sessionInfo() R Under development (unstable)

Thanks, posted to https://github.com/lme4/lme4/issues/412 for further discussion ... On Wed, Feb 22, 2017 at 10:03 AM, Therneau, Terry M., Ph.D. <therneau at mayo.edu> wrote: > I found this by accident yesterday. The program that crashes is the first > two lines of the example from the help page for nlmer. That example hasn't > changed in a long time, so I assumed that it is

Martyn, No, that didn't work. One other thing in the mix (which I don't think is the issue) is that I call one of the C-entry points of expm. So the DESCRIPTION file imports expm, the NAMESPACE file imports expm, and the init.c file is #include "R.h" #include "R_ext/Rdynload.h" /* Interface to expm package. */ typedef enum {Ward_2, Ward_1, Ward_buggy_octave}

Hi All, I'm working on a project converting Dart to llvm. Dart uses a relocating GC but additionally uses pointer tagging. The first bit of a pointer is a tag. For integers a '0' bit is used and for pointers to objects a '1' bit is used. V8 apparently uses a similar technique. Generated code may need to check which bit is used when this information isn't statically known.

A user asked me about this and I can't figure it out. tmt% R R Under development (unstable) (2018-04-09 r74565) -- "Unsuffered Consequences" Copyright (C) 2018 The R Foundation for Statistical Computing Platform: x86_64-pc-linux-gnu (64-bit) > library(survival) > data(cgd0) Warning message: In data(cgd0) : data set ?cgd0? not found ---- The data set is present and can be

I am attempting to deploy OpenSSH. The trouble is I keep getting the rsa_public_encrypt() exponent too small or not odd with the SSH 1 or 1.5 protocols. I can't get OpenSSH to communicate with itself with any protocal other than SSH 2. Platform notes: HP-UX 11.00 Dart 51 64bit OpenSSL 0.9.6 Zlib 1.1.3 Cflags: -Ae I have tried with and without optimizations. I noticed that this problem

This is likely yet another instance of round off error, but it caught me by surprise. tmt% R --vanilla (headers skipped, version 3.0.2 on Linux) > load('qtest.rda') > length(temp) [1] 3622 > max(temp) >= quantile(temp, .98) 98% FALSE I can send the file to anyone who would like to understand this more deeply. The top 3% of the vector is a single repeated value. Terry

Good afternoon Using R 2.9.2 on a machine running Windows XP I have a longitudinal data set, with data on schools and their test scores over a four year period. I have centered year, and run the following m1.mod1 <- lme(fixed = math_1 ~ I(year-2007.5)*TFC_, data = long, random = ~I(year-2007.5)|schoolnum, na.action = "na.omit") where

I have library in development with a function that works when called from the top level, but fails under R CMD check. The paricular line of failure is rsum <- rowSums(kmat>0) where kmat is a dsCMatrix object. I'm currently stumped and looking for some ideas. I've created a stripped down library "ktest" that has only 3 functions: pedigree.R to create a pedigree or