--> install_logs_.md. Remove the offending line with your text editor e.g. These packages require the remotes package to install. Assuming that it is reasonably compliant with CRAN standards, you can still download it using install.packages; you just have to specify the repository URL. As well as RNA-seq, it be applied to differential signal analysis of other types of genomic data that produce read counts, including ChIP-seq, ATAC-seq, Bisulfite-seq, SAGE and CAGE. Why doesn't R think that the package is available? 11. I am trying to install the R package ComplexHeatmap but I keep getting the error message that the the dependency Cairo is not available. Asking for help, clarification, or responding to other answers. In a case like this, the alternative to upgrading the R installation is the solution already mentioned. privacy statement. @joycekang on which operating system are you installing pkgdown, and what version are you installing (CRAN or GitHub)? Why is there a voltage on my HDMI and coaxial cables? "After the incident", I started to be more careful not to trip over things. Otherwise, you can use pak::pkg_system_requirements() to get an up-to-date list of system deps. Thats whats the obvious and what got through my mind at first but taking under consideration that I just got into the field I thought that this is no way whats going on and that it has to do with some deeper R knowledge. You are using an older version of R that does not get updated package binaries for Windows. In that case, you have at least two options: 1) upgrade your R version to the next one the target package already supports, 2) install the most recent version from the older ones available that would work with your R version. As mentioned here (in French), this can happen when you have two versions of R installed on your computer. privacy statement. providing code, data, or documentation. How to import local packages without gopath. what is wrong and how should I handle it ? It seems that the latest locfit version requires R 4.1.0. Can I tell police to wait and call a lawyer when served with a search warrant? Learn more about Stack Overflow the company, and our products. Differential expression analysis of RNA-seq expression profiles with biological replication. This doesn't seem to be working for kableExtra. Hello everybody! Package bigmemory not installing on R 64 3.0.2 AC Op-amp integrator with DC Gain Control in LTspice, Linear Algebra - Linear transformation question. You signed in with another tab or window. pinky1 March 21, 2021, 1:20am #3 - the incident has nothing to do with me; can I use this this way? Connect and share knowledge within a single location that is structured and easy to search. Thanks a lot Mensur Dlakic ! Did not work for me in installing the package. package ImpulseDE2 is not available for Bioconductor version '3.14', A version of this package for your version of R might be available elsewhere, Recovering from a blunder I made while emailing a professor. BEGIN Hi, I would like to install the package DESeq2, however it doesnt look to work with the last version of R. > install.packages("DESeq2") Warning in install.packages : Identify those arcade games from a 1983 Brazilian music video, Trying to understand how to get this basic Fourier Series. I am trying to install DESeq2 and I keep getting errors. Does this help you https://stackoverflow.com/questions/1474081/how-do-i-install-an-r-package-from-source? Install the package devtools if you don't have it (it includes package remotes) and then install the specific version that will work in your current R. You can look up that information on the CRAN page for the specific package archives. EconomiCurtis closed This topic has been closed. What is the purpose of non-series Shimano components? Already on GitHub? Your package is in a non-standard repository (e.g. Find centralized, trusted content and collaborate around the technologies you use most. The best answers are voted up and rise to the top, Not the answer you're looking for? By clicking Accept all cookies, you agree Stack Exchange can store cookies on your device and disclose information in accordance with our Cookie Policy. From searching I managed to install RCurl but I still get the bellow error. Share Improve this answer Follow answered Nov 28, 2022 at 20:27 Mark Thompson 143 9 Add a comment hello, thanks for helping! To subscribe to this RSS feed, copy and paste this URL into your RSS reader. It would appear that either versions 1.5-9.2 or 1.5-9.4 will be compatible with your R version, so maybe installing one of those ahead of DESeq2 will do the trick. It may have been archived (if it is no longer maintained and no longer passes R CMD check tests). AC Op-amp integrator with DC Gain Control in LTspice, Radial axis transformation in polar kernel density estimate, Trying to understand how to get this basic Fourier Series, Difficulties with estimation of epsilon-delta limit proof. To subscribe to this RSS feed, copy and paste this URL into your RSS reader. How would "dark matter", subject only to gravity, behave? Disconnect between goals and daily tasksIs it me, or the industry? install.packages("rlang") For context, this afternoon I had version 5.2.1, received similar errors and decided to upgrade. Package bigmemory not installing on R 64 3.0.2, package "makeR" is not available (for version 3.0.2), package RTN is not available (for R version 3.0.1), package twitterR is not available (for R version 3.1.0), How to install 'Rcpp, package? (As with installr, you may need to install.packages("remotes") first. Dependency Rglpk is not available for package fPortfolio not via RStudio). Try no and compare results. rev2023.3.3.43278. In RStudio, go to the "Packages" tab and remove all the packages (click on the x) raising the "red-flags" in the required updates. and what would happen then? . Warning message: package (s) not installed when version (s) same as current; use `force = TRUE` to re-install: 'limma' Please help and let me know to find solution. Did this satellite streak past the Hubble Space Telescope so close that it was out of focus? I have ran into this issue with other packages. Find centralized, trusted content and collaborate around the technologies you use most. Did any DOS compatibility layers exist for any UNIX-like systems before DOS started to become outmoded? 0 upgraded, 0 newly installed, 0 to remove and 1 not upgraded. ==================================================, to the PKG_CONFIG_PATH environment variable, --------------------------- [ANTICONF] --------------------------------. RETURN ( Please what could be a reason for this error? Perhaps you don't really want a package. Cloning the repository woudnt do it either. As well as RNA-seq, it be applied to differential signal analysis of other types of genomic data that . Can I tell police to wait and call a lawyer when served with a search warrant? The problem was not the version of R, it was the repos parameter. Another possible warnings message you may get when interacting with CRAN mirrors is: Warning: unable to access index for repository Which may indicate the selected CRAN repository is currently be unavailable. Learn more about Teams I had the same issue. Will Gnome 43 be included in the upgrades of 22.04 Jammy? Done libcairo2-dev is already the newest version (1.16.0-4ubuntu1). For example, I needed to install 7 packages(Sejong, hash, rJava, tau, RSQLite, devtools, stringr) to install KoNLP package. package 'Rbbg' is not available (for R version 2.15.2) An alternative is to install from the GitHub CRAN mirror. For the Nozomi from Shinagawa to Osaka, say on a Saturday afternoon, would tickets/seats typically be available - or would you need to book? ERROR: dependency 'rlang' is not available for package 'dbplyr'. The Cairo package also requires X11/Intrinsic.h from libxt-dev package. Will Gnome 43 be included in the upgrades of 22.04 Jammy? I'm having the same error when building my library's documentation with Github Actions (check here). @bli you're right, I stand corrected. That shouldn't be necessary, but the error message could narrow down the possibilities. To learn more, see our tips on writing great answers. How to handle a hobby that makes income in US. Not the answer you're looking for? I did install.packages('path/to/source/code/of/foobarbaz', type='source', repos=NULL) which worked for me in this occasion. That was meant to control the source of packages for layman users, but as a developer, you can in most cases change that by: If you know what you are doing and may need more than one package that might not be available in your system's CRAN, you can set this up in your project .Rprofile. Linux installing from either CRAN or GitHub. pinky1: ERROR: dependency 'locfit' is not available for package 'TSA' The locfit package (which is a package dependency) requires R >= 3.5 and since you are using an even older R version, you would have to update R to be able to install it. If it's just one package, maybe just use install.packages("package name", repos = "a newer CRAN than your company's archaic CRAN snapshot"). If you are behind a proxy server check the configuration using Sys.getenv("http_proxy") within R. package doMC NOT available for R version 3.0.0 warning in install.packages Q&A for work. Is it possible to rotate a window 90 degrees if it has the same length and width? At first I had about 10 errors regarding packages I couldnt install. (Of course, you may need to install.packages("installr") first.). There is no source version of the package, Although the binary version of your package is available, the source version is not. You can do the same for https. Use of this site constitutes acceptance of our User Agreement and Privacy How to handle a hobby that makes income in US. package 'Rbbg' is not available (for R version 2.15.2), package is not available (for R version 2.15.2), package doMC NOT available for R version 3.0.0 warning in install.packages, Dependency Rglpk is not available for package fPortfolio. Sign up for a free GitHub account to open an issue and contact its maintainers and the community. Extending Mensur's answer, here are previous releases of locfit: https://cran.r-project.org/src/contrib/Archive/locfit/. If you want to install it: install.packages ("TSA") If you already have .tar.gz files. Warning: cannot remove prior installation of package 'scales' The downloaded binary packages are in C:\Users\admin\AppData\Local\Temp\RtmpQXIjyl\downloaded_packages I got "package is not available" install('DESeq2', lib = '/home/kostas/R/x86_64-pc-linux-gnu-library/3.6') Well occasionally send you account related emails. If you want to install it: If you already have .tar.gz files. Maybe my work network somehow blocks these types of requests - I have to do something similar with Python and PIP. The solution was suggested by a friend, however, I haven't been able to find it in any of the forums, hence submitting this answer for others. (Yes/no/cancel) to which you have answered yes. Trouble Installing geoR package may need compilation of C/C++/Fortran: rlang "After the incident", I started to be more careful not to trip over things. I know that may sound ridiculous given that your R version is only a couple of years old, but I don't make the rules. limit n offset m mm One thing that happened for me is that the version of R provided by my linux distribution (R version 3.0.2 provided by Ubuntu 14.04) was too old for the latest version of the package available on CRAN (in my case, plyr version 1.8.3 as of today). @laresbernardo this will resolve itself in 24-48 hours when the macOS binary of textshaping is available.