error: package or namespace load failed for 'deseq2 error: package or namespace load failed for 'deseq2

Installation path not writeable, unable to update packages: boot, class, KernSmooth, lattice, MASS, Matrix, mgcv, nlme, Error: package or namespace load failed for DESeq2 in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]): Please remember to confirm an answer once you've received one. What is the output of. call: dots_list() 0 packages out-of-date; 2 packages too new, BiocManager::install(c( Is there a proper earth ground point in this switch box? I tried following the instructions for 2019.7 as well and I am getting the same error. This is the beauty of installing QIIME 2 via conda, you can have many different versions of QIIME 2 on your system at the same time and activate the version you want to use. You signed in with another tab or window. Sounds like there might be an issue with conda setup? LAPACK: /Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libRlapack.dylib, locale: Traffic: 307 users visited in the last hour, I am new to all this! Does anyone know why I'm getting the following message when I load tidyverse in a new session. Site design / logo 2023 Stack Exchange Inc; user contributions licensed under CC BY-SA. To add to this, I have also been using DESeq2 recently and ran into the same problem. Error: package or namespace load failed for DESeq2: objects rowSums, colSums, rowMeans, colMeans are not exported by 'namespace:S4Vectors'. You have 3 different warnings (digest, yaml, and rlang) that each indicate that a package DLL file is corrupted. By clicking Accept all cookies, you agree Stack Exchange can store cookies on your device and disclose information in accordance with our Cookie Policy. - the incident has nothing to do with me; can I use this this way? [41] magrittr1.5 RCurl1.98-1.2 tibble3.0.3 Formula1.2-3 cluster2.1.0 By clicking Post Your Answer, you agree to our terms of service, privacy policy and cookie policy. Whats the grammar of "For those whose stories they are"? but when I go to load the libraries I get this error: Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : Did any DOS compatibility layers exist for any UNIX-like systems before DOS started to become outmoded? [1] en_AU.UTF-8/en_AU.UTF-8/en_AU.UTF-8/C/en_AU.UTF-8/en_AU.UTF-8, attached base packages: to one of the following locations: https://code.bioconductor.org/browse/DESeq2/, https://bioconductor.org/packages/DESeq2/, git clone https://git.bioconductor.org/packages/DESeq2, git clone git@git.bioconductor.org:packages/DESeq2. Learn more about Stack Overflow the company, and our products. I even tried BiocManager::install("XML") but all failed as shown below. Did any DOS compatibility layers exist for any UNIX-like systems before DOS started to become outmoded? The error states that the current version is 0.4.5 but 0.4.10 is required. @artembus Sounds like it was a ton of work! To learn more, see our tips on writing great answers. Error: package or namespace load failed for ' tidyverse' in dyn.load (file, DLLpath = DLLpath, . How to notate a grace note at the start of a bar with lilypond? or install using BiocManager that will also install CRAN packages BiocManager::install('locfit'), I couldn't intall locfit but somehow, i did so many different things and it worked. Surly Straggler vs. other types of steel frames. Sign up for a free GitHub account to open an issue and contact its maintainers and the community. Policy. Bioconductor version 3.10 (BiocManager 1.30.10), R 3.6.1 (2019-07-05) March 1, 2023, 7:31pm Error: package or namespace load failed for 'GenomeInfoDb' in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]): there is no package called 'GenomeInfoDbData' Error: package 'GenomeInfoDb' could not be loaded MathJax reference. if (!require("BiocManager", quietly = TRUE)) [Note I have now updated to 3.5.1 and 1.1.453 and am still experiencing the issues below with the exception of the "built under R version 3.5.1" warning messages], I have installed the rlang package using install.packages("rlang") without encountering any issues but when I attempt to load the package I get the following error, Error: package or namespace load failed for rlang: Why is this sentence from The Great Gatsby grammatical? If you try loading the DEseq2 library now, that might work. By clicking Post Your Answer, you agree to our terms of service, privacy policy and cookie policy. I do know that it works well in qiime2-2020.6. there is no package called GenomeInfoDbData running multiple versions of the same package, keeping separate libraries for some projects). Stack Exchange network consists of 181 Q&A communities including Stack Overflow, the largest, most trusted online community for developers to learn, share their knowledge, and build their careers. Use of this site constitutes acceptance of our User Agreement and Privacy Sounds like you might have an issue with which R Rstudio is running. 1 RR. R https://www.jianshu.com/p/d9ca5a66cb72?v=1676346790161 2 ``` library (tidyverse) Error: package or namespace load failed for 'tidyverse' in loadNamespace (j <- i [ [1L]], c (lib.loc, .libPaths ()), versionCheck = vI [ [j]]): 'cli' 3.3.0>= 3.4.1 In addition: Warning message: Already on GitHub? When you load the package, you can observe this error. This is default text for notification bar, Removing Unwanted Variation Using Pseudoreplicates and Pseudosamples, Identifying Differentially Abundant Phosphoproteome Sites With ProteomeRiver, Extension of scPipe Bioconductor Package for scATAC-seq Data, Matilda for Single-cell Multi-omics Data Integration, cellXY for Exploring Gender-specific Genes in Single Cell RNA-seq Data, Stereopy as an Advanced Tool for Interpreting Spatial Transcriptomics Data, Spectre Toolkit for Rapid Analysis of Cytometry Data, A Bioconductor Framework for High-dimensional in situ Cytometry Analysis, Error when installing Aldex2 Community Plugin Support, How the Gut Microbiota Affects COVID-19 Vaccine Immunogenicity , Clinical Application of 24 G Cannula Needle and 3-0 Polypropylene Suture in Vas Deferens Exploration. If I try running biocLite("DESeq2") from Rstudio I get the following error: Error in dyn.load(file, DLLpath = DLLpath, ) : [6] htmltools0.5.0 base64enc0.1-3 survival3.2-3 rlang0.4.7 pillar1.4.6 rev2023.3.3.43278. library(DESeq2) Site design / logo 2023 Stack Exchange Inc; user contributions licensed under CC BY-SA. Error: package or namespace load failed for GenomeInfoDb in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]): Why are physically impossible and logically impossible concepts considered separate in terms of probability? What am I doing wrong here in the PlotLegends specification? New replies are no longer allowed. rev2023.3.3.43278. Error: package GenomeInfoDb could not be loaded. biocLite(), install.packages() (and the devtools equivalent?) March 1, 2023, 4:56pm When you install and load some libraries in a notebook cell, like: While a notebook is attached to a cluster, the R namespace cannot be refreshed. :), BiocManager::install("locift") To subscribe to this RSS feed, copy and paste this URL into your RSS reader. If I run install.packages(GenomeInfoDb) from R console, it is telling me that the package is not available for R version 3.5.1. If you preorder a special airline meal (e.g. in your system, start R and enter: Follow Documentation I think the latest version of QIIME 2 that can run this plugin is qiime2-2021.2. [1] parallel stats4 stats graphics grDevices utils datasets methods base, other attached packages: trying URL 'https://wbc.upm.edu.my/cran/bin/windows/contrib/3.6/htmlTable_2.0.1.zip' I'm running into some bad problems installing and using the DESeq2 package for R. I freshly installed R 3.3.1 and Rstudio 0.99.903 on Win7. Please read the posting @Tung I've updated my R and RStudio versions (unfortunately I had to first convince my workplace to approve them) and installed the packages through R 3.5.1 however, I'm still getting the same rlang error. Asking for help, clarification, or responding to other answers. Does ZnSO4 + H2 at high pressure reverses to Zn + H2SO4? Open Source Biology & Genetics Interest Group. - the incident has nothing to do with me; can I use this this way? * removing /Users/nikitavlasenko/miniconda3/envs/renv/lib/R/library/DESeq2. R version 3.6.3 (2020-02-29) Is it suspicious or odd to stand by the gate of a GA airport watching the planes? When I try installing GenomeInfoDbData and GenomeInfoDb using conda, it says that the packages were already installed. To view documentation for the version of this package installed Use of this site constitutes acceptance of our User Agreement and Privacy Citation (from within R, enter citation ("DESeq2") ): Installation To install this package, start R (version "4.2") and enter: if (!require ("BiocManager", quietly = TRUE)) install.packages ("BiocManager") BiocManager::install ("DESeq2") For older versions of R, please refer to the appropriate Bioconductor release . What do I need to do to reproduce your problem? But I guess you have many problems with your installation, and I'd suggest. I am using the latest stable LAMMPS version (updated 17th Feb 2023) Also I am having troubles with the CMAKE unit testing, in particular for the force styles. [28] digest_0.6.12 stringi_1.1.2 grid_3.3.2 However, I am increasingly thinking it's something to do with how my IT has set permissions that are causing things to quietly fail. there is no package called data.table Is a PhD visitor considered as a visiting scholar? Why is there a voltage on my HDMI and coaxial cables? Warning message: If you didn't install Rstudio through conda, Rstudio may be using its own version of R that is bundled with Rstudio, instead of the one you've installed via conda. BLAS: /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/libBLAS.dylib Copyright 2021 IRZU Intitut za raziskovanje zvonih umetnosti. Running. Policy. Please try the following steps: Quit all R/Rstudio sessions. Use MathJax to format equations. library ("DESeq2") Error: package or namespace load failed for 'DESeq2' in loadNamespace (j <- i [ [1L]], c (lib.loc, .libPaths ()), versionCheck = vI [ [j]]): there is no package called 'Hmisc' Installing Hmisc as suggested above did not solve the issue. Platform: x86_64-apple-darwin15.6.0 (64-bit) I would argue that the conclusion to, Yeah, just need to select one way of doing it and never use the other. Hello, Any other suggestion? Now loading the DESeq2 library (Errors): Because I already installed >10 packages by hand I assume the solution is not to keep installing the missing packages because those packages will have more missing packages and more and more and I won't get out of this loop. [a/s/n]: Styling contours by colour and by line thickness in QGIS. Solving environment: Found conflicts! What can a lawyer do if the client wants him to be acquitted of everything despite serious evidence? I would recommend installing an older version of QIIME 2 for this plugin to work. Connect and share knowledge within a single location that is structured and easy to search. Just realize that I need to write the script "library("DESeq2")" before I proceed. CRAN: https://mirrors.sjtug.sjtu.edu.cn/cran/, Bioconductor version 3.12 (BiocManager 1.30.17), R 4.0.3 (2020-10-10), Old packages: 'cli', 'dplyr', 'igraph', 'MASS', 'ps', 'RSQLite', 'testthat', 'tibble', package locift is not available for Bioconductor version '3.12', A version of this package for your version of R might be available elsewhere,see the ideas at https://cran.r-project.org/doc/manuals/r-patched/R-admin.html#Installing-packages. downloaded 4.1 MB, package XML successfully unpacked and MD5 sums checked, The downloaded binary packages are in How do I align things in the following tabular environment? A place where magic is studied and practiced? [16] lifecycle0.2.0 stringr1.4.0 zlibbioc1.32.0 munsell0.5.0 gtable0.3.0 /var/folders/0t/8jm6lgqs0qj63rprpf9q_nfw0000gn/T//RtmpMNoZz3/downloaded_packages Error: package or namespace load failed for 'DESeq2' in loadNamespace (j <- i [ [1L]], c (lib.loc, .libPaths ()), versionCheck = vI [ [j]]): 'KEGGREST' 2301_76497647 17 1 109+ 20+ 30 10 1 0 2 0 installation of package GenomeInfoDbData had non-zero exit status. Is there anyone the same as mine error while loading library(DESeq2)? I'm trying to reproduce your problem, so being as precise as possible is important. sessionInfo() If you dont post the error in question (why you cant install Hmisc) no one can help answer your question. The best answers are voted up and rise to the top, Not the answer you're looking for? When an R package depends on a newer package version, the required package is downloaded but not loaded. Platform: x86_64-apple-darwin17.0 (64-bit) Join us at CRISPR workshops in Koper, Slovenia in 2023. I then launched the R application (from the finder, not RStudio) and installed BiocManager. [16] htmlwidgets_0.8 latticeExtra_0.6-28 knitr_1.15.1 [11] foreign0.8-71 glue1.4.2 RColorBrewer1.1-2 jpeg0.1-8.1 GenomeInfoDbData1.2.2 [33] forcats0.5.0 foreign0.8-76 vegan2.5-6 tools3.6.3 In the Bioconductor realm, I would then check that package versions are consistent with the version of Bioconductor in use, and would ask more Bioconductor-related questions on the Bioconductor support site. Expected in: /usr/lib/libSystem.B.dylib, dyld: Symbol not found: _utimensat [9] Biobase_2.34.0 BiocGenerics_0.20.0, loaded via a namespace (and not attached): Installing package(s) 'GenomeInfoDbData' Warning: cannot remove prior installation of package xfun Error: package or namespace load failed for ggplot2 and for data.table, Error: package or namespace load failed for car, Error: package or namespace load failed for rJava, Error in load Namespace, object 'vI' not found with package AnnotationDbi. Thanks for contributing an answer to Bioinformatics Stack Exchange! [1] jsonlite1.6.1 splines3.6.3 foreach1.4.8 assertthat0.2.1 binary source needs_compilation 9543 Abort trap: 6 | R_DEFAULT_PACKAGES= LC_COLLATE=C "${R_HOME}/bin/R" $myArgs --no-echo --args ${args}, The downloaded source packages are in Language(R, Python, SQL) Is the God of a monotheism necessarily omnipotent? I would like to install DESeq2 for DE analysis. now when I tried installing the missing packages manually (with install.packages("missingPackage")) they did install correctly. Connect and share knowledge within a single location that is structured and easy to search. [5] IRanges_2.8.1 S4Vectors_0.12.1 Maybe it is not a kind of quick fix and it could have been solved easier, but I was not able to. I noticed that you are trying to install qiime2-2019.4, this may not work as ALDEx2 was made for qiime2-2019.7 as outlined here, up to and including the versions I mentioned earlier. I've uninstalled and reinstalled rlang (closing restarting RStudio in between each command) and am still encountering this error. Is there anything I can do to speed it up? 2. [31] tools_3.3.2 bitops_1.0-6 magrittr_1.5 error: object 'rlang_dots_list' not found trying URL 'https://wbc.upm.edu.my/cran/bin/windows/contrib/3.6/XML_3.99-0.3.zip' Warning message: What I did was - uninstalled everything (R, Rstudio, RTools and deleted the R directory) to eliminate any chance that something was corrupt. Sorry if I missed this, the question was quite long so I kind of skimmed, but I noticed that early on some of the packages were reported as requiring manual compilation from source. Asking for help, clarification, or responding to other answers. I tried to download the "locfit" package but I can't find it anywhere. RcppArmadillo 0.9.880.1.0 0.9.900.1.0 TRUE [1] SummarizedExperiment1.16.1 DelayedArray0.12.3 BiocParallel1.20.1 matrixStats0.56.0 To resolve this error, install the required package as a cluster-installed library. Hey, I tried your suggestion and it didn't work as it is but I did figure it out probably with the help of your suggestion. Press CTRL-C to abort. [5] BiocManager1.30.10 GenomeInfoDbData1.2.2 cellranger1.1.0 pillar1.4.3 I was able to get over this by using g++ for the VORO++ library but I am unsure how this affects the result. Surly Straggler vs. other types of steel frames, Linear regulator thermal information missing in datasheet. [1] locfit_1.5-9.1 splines_3.3.2 lattice_0.20-34 there is no package called GenomeInfoDbData [9] S4Vectors0.24.4 BiocGenerics0.32.0, loaded via a namespace (and not attached): I again tried installing with biocLite but was met with errors so I changed the CRAN mirror. Do I need a thermal expansion tank if I already have a pressure tank? I tried installing DESeq2 using: but it run into a lot of errors (some missing packages for some dependency packages etc) Then I tried installing all the missing packages manually by downloading from CREN and installing the missing packages from .zip files. Why are Suriname, Belize, and Guinea-Bissau classified as "Small Island Developing States"? Did you do that? The text was updated successfully, but these errors were encountered: Can you clarify how you updated your R to 4.0.1? install.packages("BiocManager"), I get this error: To learn more, see our tips on writing great answers. Error: package or namespace load failed for 'GenomeInfoDb' in loadNamespace (i, c (lib.loc, .libPaths ()), versionCheck = vI [ [i]]): there is no package called 'GenomeInfoDbData' Error: package 'GenomeInfoDb' could not be loaded When I try installing GenomeInfoDbData and GenomeInfoDb using conda, it says that the packages were already installed. Content type 'application/zip' length 233860 bytes (228 KB) Sometimes packages get loaded automatically at startup from .RProfile and you can check this by calling sessionInfo() after starting up. We've tried this - and can replicate this issue on a completely new install with no existing package installs. From the console install.packages ("rlang") should fix this. Referenced from: /Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libR.dylib (which was built for Mac OS X 10.13) Ultimately my colleague helped me to solve the issue by following the steps: Then launching rstudio from within the environment. @KonradRudolph It's pacman (not packman) and you are correct in that it's basically just a wrapper for, Thanks for your suggestion, I tried doing this step by step as you said but the biocLite command still did throw errors for missing packages. I again tried the installation with biocLite but was met with errors of missing packages (or the installation was ok and the when I tried loading the DESeq2 library I was met with missing packages errors) so I changed the CRAN mirror in RStudio. [1] enUS.UTF-8/enUS.UTF-8/enUS.UTF-8/C/enUS.UTF-8/en_US.UTF-8, attached base packages: [37] data.table1.12.8 hms0.5.3 lifecycle0.2.0 stringr1.4.0 Should I update the Bioconductor to latest version instead? Given this is a Bioinformatics package, are you by any chance using Ubuntu or another linux distribution @RedRabbit? ERROR: dependency Hmisc is not available for package DESeq2 + "htmlTable", "xfun" Glad everything is finally working now. And finally, install the problem packages, perhaps also DESeq2. Fortunately I was able to solve it by doing things from several suggested solutions. [25] farver2.0.3 withr2.1.2 survival3.1-11 magrittr1.5 now when I tried installing the missing packages they did install. In addition: Warning message: No error messages are returned. While a notebook is attached to a cluster, the R namespace cannot be refreshed. ): RRlib ( R ) libiconv.so LD_LIBRARY_PATH R Sys.getenv("LD_LIBRARY_PATH") R RR Also make sure that you have RTools.exe installed and working. install.packages('', repo='http://nbcgib.uesc.br/mirrors/cran/'). I'm having a similar error, but different package: library("DESeq2") Error: package or namespace load failed for DESeq2 in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]): there is no package called locfit, Traffic: 307 users visited in the last hour, https://cran.r-project.org/doc/manuals/r-patched/R-admin.html#Installing-packages, User Agreement and Privacy Error in loadNamespace (j <- i [ [1L]], c (lib.loc, .libPaths ()), versionCheck = vI [ [j]]) : there is no package called 'data.table' Error: package or namespace load failed for 'DESeq2' Tried installing the missing package: Making statements based on opinion; back them up with references or personal experience. Retrying with flexible solve.Solving environment: Found conflicts! [36] digest0.6.25 stringi1.4.6 grid3.6.1 tools3.6.1 bitops1.0-6 Estimate variance-mean dependence in count data from high-throughput sequencing assays and test for differential expression based on a model using the negative binomial distribution. im using ubuntu, R ver 4.0.4, bioconductor ver 1.12. ), update = TRUE, ask = FALSE), more details: BiocManager::valid()$toonew, BiocManager::valid()$outof_date, Warning message: The other option is to download and older version of locfit from the package archive and install manually. After 3-4 manual installs everything worked. "After the incident", I started to be more careful not to trip over things. How to use Slater Type Orbitals as a basis functions in matrix method correctly? data . Surly Straggler vs. other types of steel frames. Installation path not writeable, unable to update packages: boot, class, KernSmooth, lattice, MASS, Matrix, mgcv, nlme, so I would try to use BiocManager::install("XML"). Error: package or namespace load failed, object not found, How Intuit democratizes AI development across teams through reusability. Choose Yes. Making statements based on opinion; back them up with references or personal experience. Likely what happened is that you managed to install a dependency, but then corrupted your installation by removing one of it's dependencies (manually via remove.packages(), or changing .libPaths(), or? Your best bet would be to download the package source code and change the R version and install manually if you wanted the most recent version of locfit to install on your computer. Id also remove and re-install the version of QIIME 2 you tried to force install an older version of python, as you can tell, many things just broke. downloaded 377 KB, trying URL 'https://wbc.upm.edu.my/cran/bin/windows/contrib/3.6/xfun_0.16.zip' One solution is to find all available packages. Installing Hmisc as suggested above did not solve the issue. This is the same answer I wrote in a comment to Hack-R I just wanted to post a separate answer: What I did was - uninstalled everything (RTools then RStudio thenR and also I deleted the R directory because it still had all the previous libraries) I did this in order to eliminate any chance that something was corrupt. .onLoad failed in loadNamespace() for 'rlang', details: Powered by Discourse, best viewed with JavaScript enabled, DESeq2: Error: package or namespace load failed for DESeq2: objects rowSums, colSums, rowMeans, colMeans are not exported by 'namespace:S4Vectors'. This article explains how to resolve the package or namespace loading error. [26] xtable1.8-4 scales1.1.1 backports1.1.9 checkmate2.0.0 BiocManager1.30.10 I tried to install Python 3.6 and got 1000s of lines of conflicts, and python version still returns 3.8. when I switch back to my Qiime environment to install Aldex2, I get an error. Does a summoned creature play immediately after being summoned by a ready action? Erasmus+ funds available! Following successful installation of backports BiocManager::install ("DESeq2") will succeed under When you load the package, you can observe this error. I tried running conda install -c bioconda bioconductor-deseq2 in a conda environment, but when I run R console and try to import DESeq2 I am getting the error message: Error: package or namespace load failed for GenomeInfoDb in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]): Sorry, I'm newbie. install.packages ("backport") You will be offered a choice to install v 1.1,10 from source. It could also be caused by a bad antivirus program that locks the dll which prevents it from being updated. It fails with the VORO++ library, It seems it is related to the -Xcompiler flag. [1] parallel stats4 stats graphics grDevices utils datasets methods base, other attached packages: Retrying with flexible solve.Solving environment: failed with repodata from current_repodata.json, will retry with next repodata source.Collecting package metadata (repodata.json): doneSolving environment: failed with initial frozen solve. How can we prove that the supernatural or paranormal doesn't exist? Is there a single-word adjective for "having exceptionally strong moral principles"? Working with my work IT department we have now tied this to custom permissions on my workstation that mean that R packages can only be run to pre-specified libraries (in my case "C:\R\R-3.4.3\library"). Error: package or namespace load failed for DESeq2 in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]): So if you still get this error try changing your CRAN mirror. It could also be caused by a bad antivirus program that locks the dll which prevents it from being updated. /private/var/folders/0t/8jm6lgqs0qj63rprpf9q_nfw0000gn/T/RtmpMNoZz3/downloaded_packages [31] Hmisc4.4-1 XVector0.26.0 gridExtra2.3 ggplot23.3.2 png0.1-7 Policy. nnet, spatial, survival. I want to import DESeq2 in Rstudio though and it is giving me a different error when I try importing DESeq2: Error in library("DESeq2") : there is no package called DESeq2. Not the answer you're looking for? By clicking Post Your Answer, you agree to our terms of service, privacy policy and cookie policy. Making statements based on opinion; back them up with references or personal experience. As far as I can tell, I have successfully installed the R package, but when I switch back to my Qiime environment to install Aldex2, I get an error. [29] crayon1.3.4 readxl1.3.1 nlme3.1-145 MASS7.3-51.5 Not the answer you're looking for? [4] LCNUMERIC=C LCTIME=English_Malaysia.1252, attached base packages: How should I deal with "package 'xxx' is not available (for R version x.y.z)" warning? ERROR: lazy loading failed for package Hmisc to your account. [7] GenomicRanges1.38.0 GenomeInfoDb1.22.0 IRanges2.20.2 Can you provide a screen shot of the errors when you try to setup a new conda environment for QIIME 2? Also note, however, that the error you got has been associated in the past with mirror outages. May be the version has problem How can I do ? [37] Formula_1.2-1 cluster_2.0.5 Matrix_1.2-8 The issue here was likely that you used two different package managers (conda and R), each setting and managing their own paths. Browse other questions tagged, Start here for a quick overview of the site, Detailed answers to any questions you might have, Discuss the workings and policies of this site. Citation (from within R, Upgrade to Microsoft Edge to take advantage of the latest features, security updates, and technical support. [21] htmlwidgets1.5.1 latticeExtra0.6-29 knitr1.29 htmlTable2.1.0 Rcpp1.0.5 nnet, spatial, survival 1. Staging Ground Beta 1 Recap, and Reviewers needed for Beta 2, Error in R: (Package which is only available in source form, and may need compilation of C/C++/Fortran), Loading BioConductor library "GO.db" fails, Installing R packages from a local repo (all .tar.gz files have been downloaded there), Cannot remove prior installation of package, but package not found, I can't seem to install the 'ecospat' package on R studio for windows, I am unable to install ggplot, there occurs some error. sessionInfo() package xfun successfully unpacked and MD5 sums checked Thanks for your suggestion. But I guess you have many problems with your installation, and I'd suggest BiocManager::valid () Follow Up: struct sockaddr storage initialization by network format-string, Styling contours by colour and by line thickness in QGIS. Policy. Thanks for contributing an answer to Stack Overflow! Checked that the channels are set in the correct order: Asking for help, clarification, or responding to other answers.