similar to: Cluster: Various GCC, how important is consistency?

There are many issues with different gcc versions, but they can at least be minimized by using static linking, i.e. you should at the very least use -static-libstdc++ -static-libgcc to make sure you don't mix runtime versions. We run into the same problem since C++11 compilers are rare on production machines, but as long as you can isolate the packages away from the dynamically loaded code it

Dear R-devel: The Cluster administrators at KU got enthusiastic about testing R-3.2.2 with Intel MKL when I asked for some BLAS integration. Below I forward a performance report, which is encouraging, and thought you would like to know the numbers. Appears to my untrained eye there are some extraordinary speedups on Cholesky decomposition, determinants, and matrix inversion. They had

Yesterday I uploaded new rockchalk_1.8.97. Then I received email saying that I needed to confirm the submission. Here's the message. Dear Paul E. Johnson Someone has submitted the package rockchalk to CRAN. You are receiving this email to confirm the submission as the maintainer of this package. To confirm the submission to CRAN, follow or copy & paste the following link into your

I'm writing to ask if R Core would make file.exists more Windows tolerant when the argument has a trailing slash. This has been discussed by users a few times here, I know it is not a new topic. But it is not a solved problem, yet. I acknowledge that CRAN packages exist which fix this by replacing file.exists(), but it seems more elegant to me to fix the problem in R itself. R Core goes to

I'm aware R-devel no longer includes zlib. This works find on up-to-date Linux systems. On the older Centos 6 cluster at KU, they have zlib tool old for R-devel. The R-devel configure fails thus: checking if zlib version >= 1.2.5... no checking whether zlib support suffices... configure: error: zlib library and headers are required In other software, I've seen this kind of thing, so

Lately, I see a dependency problem with R-3.2 systems. install.packages allows dependencies, but they are not installed so the install fails. I see this a lot with students who are able to install packages like ggplot2 but then can't load it because a dependency "stringi" is missing. Those students are generally using Windows, but today I reproduced the same on RedHat Linux with

Last week one of our clients reported trouble with a csv file I generated with write.table. He said that columns with quotes for character variables were rejected by their data importer, which was revised to match the way Microsoft Excel uses quotation marks in character variables. I explained to them that quoted character variables are virtuous and wise, of course, but they say Microsoft Excel

I learned last week that I generated a lot of PDFs and forgot to go back and embed the fonts in them. It would be very pleasant for me if pdf.options included an argument to turn on font embedding and have fonts always embedded. Always. Thanks for your time, as always. -- Paul E. Johnson http://pj.freefaculty.org Director, Center for Research Methods and Data Analysis http://crmda.ku.edu I

On 19/09/2017 4:10 PM, Ista Zahn wrote: > On Tue, Sep 19, 2017 at 1:04 PM, Paul Johnson <pauljohn32 at gmail.com> wrote: >> Last week one of our clients reported trouble with a csv file I >> generated with write.table. He said that columns with quotes for >> character variables were rejected by their data importer, which was >> revised to match the way Microsoft

To extwnd on Martin 's explanation : In factor(), levels are the unique input values and labels the unique output values. So the function levels() actually displays the labels. Cheers Joris On 15 Jun 2017 17:15, "Martin Maechler" <maechler at stat.math.ethz.ch> wrote: >>>>> Paul Johnson <pauljohn32 at gmail.com> >>>>> on Wed, 14 Jun

Greetings. I see a warning message while compiling OpenMPI and would appreciate it if you tell me what it means. This warning happens with any OpenMPI > 1.6.5. Even before starting a cluster, just "sessionInfo" triggers this warning. I'm pasting in the message from R-3.3.2 (this is MRO). Do the R parallel package cluster functions violate the warnings described here? >

In the rockchalk package, I want to provide functions for regression objects that are "well behaved." If an object responds to the methods that lm or glm objects can handle, like coef(), nobs(), and summary(), I want to be able to handle the same thing. It is more difficult than expected to ask a given fitted model object "do you respond to these functions: coef(), nobs(),

I'm writing to ask for a policy exception, or advice on how to make this package CRAN allowable. http://rweb.quant.ku.edu/kran/src/contrib/portableParallelSeeds_0.9.tar.gz Yesterday I tried to submit a package on CRAN and Dr Ripley pointed out that I had not understood the instructions about packages. Here's the part where the R check gives a Note * checking R code for possible

On Tue, Oct 18, 2016 at 1:44 AM, Paul Johnson <pauljohn32 at gmail.com> wrote: > > Administrator suggested I try to build with the GCC that is provided > with the nodes, which is gcc-4.4.7. Redhat provides an alternative compiler (gcc 5.3 based) in one of it's opt-in repositories called "redhat developer toolkit" (RDT). In CentOS you install it as follows: yum

Dear R Devel Some of our R users are still insisting we run R-2.15.3 because of difficulties with a package called OpenMX. It can't cooperate with new R, oh well. Other users need to run R-3.0.1. I'm looking for the most direct route to install both, and allow users to choose at runtime. In the cluster, things run faster if I install RPMs to each node, rather than putting R itself on

We have a project that calls for the creation of a list of many distribution objects. Distributions can be of various types, with various parameters, but we ran into some problems. I started testing on a simple list of rnorm-based objects. I was a little surprised at the RAM storage requirements, here's an example: N <- 10000 closureList <- vector("list", N) nsize = sample(x

Hi Paul, We've been through this process ourselves for the Revolution R Open project. There are a number of pitfalls to avoid, but you can take a look at how we achieved it in the build scripts at: https://github.com/RevolutionAnalytics/RRO There are also some very useful notes in the R Installation guide: https://cran.r-project.org/doc/manuals/r-release/R-admin.html#BLAS Most packages do

gcc (GCC) 4.4.7 20120313 (Red Hat 4.4.7-11) is a bit old. There have been major changes since then. I'd like a newer version. If I have to, I expect that I can install from source. I'd rather not. Is there a CentOS 6-compatible repository from which I can get a newer version? Does a standard CentOS 7 repository have a newer version? Does a CentOS 7-compatible repository have a newer

Chris, For what it is worth, I made two more tests: - on my system 'M-x R' as well as the suggested-in-the-ESS-documentation 'M-x ess-version' both work whether or not I have my ~/.emacs -- so somehow system path must work - I have the .el files in the default directory: /usr/share/emacs/site-lisp/elpa-src/ess-18.10 - They are also symlinked each into

Dear All: I am trying to install the package "diagram". It is in the list. But when I selected the package to install it, it says: Question: "would you like to use a personal library instead?" I selected No. Then it says > utils:::menuInstallPkgs() Warning in install.packages(NULL, .libPaths()[1L], dependencies = NA, type = type) : 'lib = "C:/Program