search for: darstr

Hello, I'm trying to track down the cause of some extreme memory usage and I've been using Dirk Eddelbuettel's lsos() function he posted on stack overflow. There is a large difference between R's RAM usage : PID USER PR NI VIRT RES SHR S %CPU %MEM TIME+ COMMAND 6637 darstr 20 0 30.0g 29g 4712 S 0 63.2 10:34.43 R and what objects I have loaded in memory : > lsos() Type Size PrettySize Rows Columns A list 552387720 526.8 Mb 2 NA B GRangesList 552376408 526.8 Mb 4 NA C SimpleRleList 353421896...

...brary/lattice/libs/lattice.so': libR.so: cannot open shared object file: No such file or directory Error : package 'lattice' could not be loaded Error: loading failed Execution halted I'm not sure why it is referring to a file in /usr/local since I did ./configure --prefix=/home/darstr/tmp/R-devel before make. Also, the file mentioned in the error exists and is readable. $ ls -l /usr/local/lib64/R/library/lattice/libs/lattice.so -rwxr-xr-x 1 root root 31813 2011-06-07 13:17 /usr/local/lib64/R/library/lattice/libs/lattice.so What should I try next ? ----------------------------...

Hello, I'm looking for a way to extract objects from what gets created when I Sweave with driver = weaver(). I found where the .Rdata objects are, but when I load one into R, I don't see anything that looks like the objects that were created in that code chunk. > load("/home/darstr/r_env_cache/2.11.0/AbsMeth_5/ac047940aaa9cf1a1ec09f1628b13381.RData") > ls() [1] "cacheEnv" "DEPS" "SESSION" What can I try next ? -------------------------------------- Dario Strbenac Research Assistant Cancer Epigenetics Garvan Institute of Medical Rese...

Hello, There seems to be a minor conflict of interesting in R CMD check. It creates a log directory, then gives a WARNING about it being there: * using log directory /home/darstr/Repitools_github/pkg/Repitools.Rcheck * using R version 2.13.0 RC (2011-04-05 r55310) * using platform: x86_64-unknown-linux-gnu (64-bit) * using session charset: UTF-8 ... ... * checking package subdirectories ... WARNING Found the following directory(s) with names of...

...r : object normalizePath is not exported by 'namespace:utils' Firstly, it's strange to see NOTE and Error being used interchangeably here. The package is being developed by a couple of us, so I checked that there were no calls to normalizePath in any of our code, and there aren't: darstr at clark-lab:~/Repitools_github/pkg$ grep -r normalizePath . ./Repitools.Rcheck/00check.log:Error : object normalizePath is not exported by 'namespace:utils' ./Repitools.Rcheck/00check.log:Error : object normalizePath is not exported by 'namespace:utils' ./Repitools.Rcheck/tests/tes...

Hello, In my description file, I have an example data package in Suggests: that I've deleted from my library to test what the user who doesn't have it will experience. However, R CMD check won't even pass my package : * checking package dependencies ... ERROR Package required but not available: RepitoolsExamples Why would it have to be installed, if it's only a data package,