similar to: A demonstrated shortcoming of the R package management system

I did some googling and then ran: > bspm::shadowed_packages() ???? Package???????????????? LibPath Version?????? Shadow.LibPath Shadow.Version Shadow.Newer bspm????bspm /usr/lib/R/site-library?? 0.5.7 /home/ravi/rvi/Rlib??????????0.5.7????????FALSE I have a copy of bspm in the /usr/lib/R/site-library location as well, although that is not the 1st in my list of libPaths. This got included

I have now followed your advice and switched to the R-sig-debian help list. Ravi On Thursday, 15 May 2025 at 12:59:05 CEST, ravi <rv15i at yahoo.se> wrote: I did some googling and then ran: > bspm::shadowed_packages() ???? Package???????????????? LibPath Version?????? Shadow.LibPath Shadow.Version Shadow.Newer bspm????bspm /usr/lib/R/site-library?? 0.5.7

Hello R-devel, Since Pavel has mentioned ABI-level dependencies between packages [1], it may be relevant to revisit the related problem mentioned ~1.5 years ago by Dirk [2]. While the current version of SeuratObject doesn't exhibit this problem, a combination of package versions described by Dirk still breaks each other on R-devel: 1. Install Matrix_1.5-1 2. Install SeuratObject_4.1.3 from

See my proposal in this mailing list from July 2023 where I documented the same problem: [Rd] proposal for WRE: clarify that use of S4 classes implies use of superclasses https://stat.ethz.ch/pipermail/r-devel/2023-July/082739.html Indeed, many of the caching problems would be avoided if importClassesFrom(P, C) implied importClassesFrom(P, C, <superclasses of C

The r2u repository [1] has been providing CRAN packages as Ubuntu binaries (with *full* and *complete* dependency resolution) since last May. It is being served from a well-connect Internet2 mirror thanks to the University of Illinois making it *fast*. By relying on the bspm package [2], it can access the 20k binaries (all of CRAN, essentially, and around 240 BioConductor packages for the two

? Thu, 8 May 2025 19:39:40 +0000 (UTC) ravi via R-help <r-help at r-project.org> ?????: > In windows, I add the following line: > .libPaths(c(?C:/Rownlib?,?C:/R/R-4.5.0/library?)) > ? ????in the file C:/R/R-4.5.0/etc/Rprofile.site > > I have my own list of packages in the Rownlib folder and the packages > that come with the R installation for the latest version in the

>>>>> Ben Bolker >>>>> on Wed, 20 Mar 2024 13:25:33 -0400 writes: > Hmm, looks platform-specific. Under Linux both RStudio > and external R console return > a0b52513622c41c11e3ef57c7a485767 > for digest::digest(install.packages) Well, platform-specific maybe, notably probably the *RStudio*-version matters (for once). One one

Hi folks, I love the Phia package andwant to use it with glmmTMB, but when i try to use the interactionMeans command, i get the below error modelrepeatedmain2 <- glmmTMB(counts ~ cluster*nominated*nominator*junior_senior+Ltime+ (1|school)+(1|id), data=d_shortf, family=nbinom1)

Hi List, I'm having some trouble finding documentation for the package glmmTMB. I would like to fit a zero-truncated poisson, what do I need to specify in "family = " for this distribution? Thanks! Alice [[alternative HTML version deleted]]

Dunno ... But you might do better posting this on the r-sig-mixed-models list where it both should fit better and where you are more likely to find the relevant expertise. Cheers, Bert Bert Gunter "The trouble with having an open mind is that people keep coming along and sticking things into it." -- Opus (aka Berkeley Breathed in his "Bloom County" comic strip ) On Thu,

Distribution package manger, always. *Stephen Dawson, DSL* /Executive Strategy Consultant/ Business & Technology +1 (865) 804-3454 http://www.shdawson.com On 9/28/24 18:05, Christopher W. Ryan wrote: > I'm running R (currently 4.4.1) on Linux Mint > >> sessionInfo() > R version 4.4.1 (2024-06-14) > Platform: x86_64-pc-linux-gnu > Running under: Linux Mint 20.3 >

Duncan Murdoch <murdoch.duncan <at> gmail.com> writes: > > On 04/10/2015 10:10 AM, Jonathan Greenberg wrote: > > Folks: > > [snip snip snip] > > > > Is there a way to do a conditional importFrom based on the OS? Or can I > > safely ignore this (I'm trying to submit to CRAN). > > > > Yes, you can put conditionals into the

Folks: I am getting a build failure when I: #' @importFrom utils shortPathName which roxygenizes it to the NAMESPACE. I suspect this is because this particular function is Windows-only, but I'm a bit confused how I should "properly" importFrom a function like this so it doesn't cause a build failure, but I don't get a note in my R CMD CHECK if I DON'T have it:

Hi Dirk, One side observation: r-cran debian now seems to be in Ubuntu 20.10 Universe so I don't need to add the repo any more. Here is a reproducible example that fails with the latest r-cran-rcppparallel but works when I manually install the source package: require(rstan) stancode <- 'data {real y_mean;} parameters {real y;} model {y ~ normal(y_mean,1);}' mod <-

Dear all, I have had some rather serious difficulties getting graphics and analysis packages to load in R on my new Ubuntu Install. The trouble seems to begin when attempting to install TMB. I have done a full purge of r-base r-base-dev and r-base-core and reinstalled the newest version of RStudio (not that this should matter). I'm not sure what to try next. many thanks! Brandon Z >

We are trying to install a 32-bit SLES9-SP4 paravirtual machine on a 64-bit SLES10-SP1 Dom0 host from scratch. We have two problems: 1. The YaST2 VM creation tool fails to create a vm if a network card is selected. 2. The initial vm boots from the SLES9-SP4 iso file, but then complains it can''t find the installation source. Here is the /etc/xen/vm/file (after manually editing for a

Frank, Your html mail still upsets my reader so still no quote. I do not know what you refer to as "r-cran". Maybe you mean that Debian and Ubuntu have packages in the distro? If so that is true since say 2003 when I started adding via r-cran-rodbc which were actually followed by your design package before it was rms and on cran... To take the rstan example, it is in Debian

That is very strange. I am using Ubuntu 16.04 and managed to install it in less than 5 minutes. OA On Wed, Jan 10, 2018 at 12:00 PM, Luca Danieli <mr.lucedan at hotmail.it> wrote: > Hi all, > > I am new. I am installing the library sjPlot on Ubunto 16.10 and I guess > it is installing some dependencies. But it is taking more than 1.5 hours, > is it possible? > > It

Hi Dirk, Apologies for the html. I think I'm missing something simple.?? Ubuntu 20.10 uses /etc/apt/sources.list.d to hold repo information and I have this file there: marutter-ubuntu-rrutter4_0-focal.list with contents: deb http://ppa.launchpad.net/marutter/rrutter4.0/ubuntu/ focal main # deb-src http://ppa.launchpad.net/marutter/rrutter4.0/ubuntu/ groovy main I ran sudo apt

Hi all, I am new. I am installing the library sjPlot on Ubunto 16.10 and I guess it is installing some dependencies. But it is taking more than 1.5 hours, is it possible? It has right now halted (hope momentarily) in installing the package 'rstan', particularly the file lang__grammars__statement_grammar_inst.o Other packages installed include: dygraphs, colourpicker, raster. Is it good