Bad: conda install -c bioconda bioconductor-deseq2. [3] GenomicRanges_1.26.3 GenomeInfoDb_1.10.3 Is it suspicious or odd to stand by the gate of a GA airport watching the planes? Error: package or namespace load failed for DESeq2 in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]): install.packages('', repo='http://nbcgib.uesc.br/mirrors/cran/'). 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. there is no package called GenomeInfoDbData I also tried something I found on google: but the installation had errors too, I can write them here if needed. in your system, start R and enter: Follow to allow custom library locations. Just to add on -- do you require an old version of Bioconductor for your current project? In file.copy(savedcopy, lib, recursive = TRUE) : @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. C:\Users\ASUS\AppData\Local\Temp\RtmpCiM0wL\downloaded_packages Not the answer you're looking for? No error messages are returned. March 1, 2023, 7:31pm Choose Yes. Expected in: /usr/lib/libSystem.B.dylib, /Library/Frameworks/R.framework/Resources/bin/INSTALL: line 34: 9542 Done echo 'tools:::.install_packages()' May I know is there any other approach I can try? Running install.packages("Hmisc") gives the first part of the error with missing cluster.so library. Copyright 2021 IRZU Intitut za raziskovanje zvonih umetnosti. Thanks for your suggestion. Citation (from within R, downloaded 377 KB, trying URL 'https://wbc.upm.edu.my/cran/bin/windows/contrib/3.6/xfun_0.16.zip' If not, I recommend using the latest version of R and Bioconductor for bug fixes and improvements. [1] BiocInstaller_1.24.0 SummarizedExperiment_1.4.0 I'd take a look at need, to see if there are any insights to be had, so that you can correct the root problem rather than having to do this procedure with other packages. package rlang was built under R version 3.5.1. Retrying with flexible solve.Solving environment: Found conflicts! - the incident has nothing to do with me; can I use this this way? Do I need a thermal expansion tank if I already have a pressure tank? Traffic: 307 users visited in the last hour, https://cran.rstudio.com/src/contrib/htmlTable_2.1.0.tar.gz', https://wbc.upm.edu.my/cran/src/contrib/PACKAGES'. Does a summoned creature play immediately after being summoned by a ready action? So if you still get this error try changing your CRAN mirror. [25] farver2.0.3 withr2.1.2 survival3.1-11 magrittr1.5 [22] scales_0.4.1 backports_1.0.5 checkmate_1.8.2 package xfun successfully unpacked and MD5 sums checked package in your R session. Loading required package: GenomeInfoDb Sign in problem copying C:\Users\ASUS\Documents\R\win-library\3.6\00LOCK\xfun\libs\x64\xfun.dll to C:\Users\ASUS\Documents\R\win-library\3.6\xfun\libs\x64\xfun.dll: Permission denied, BiocManager::install("XML") [13] colorspace1.4-1 Matrix1.2-18 plyr1.8.6 pkgconfig2.0.3 I do know that it works well in qiime2-2020.6. sessionInfo() To add to this, I have also been using DESeq2 recently and ran into the same problem. To learn more, see our tips on writing great answers. To subscribe to this RSS feed, copy and paste this URL into your RSS reader. 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. My code is GPL licensed, can I issue a license to have my code be distributed in a specific MIT licensed project? If you have a query related to it or one of the replies, start a new topic and refer back with a link. call: dots_list() This sort of problems almost always comes from a bug in R on Windows: If you reinstall a package that includes compiled code, and if that package is already loaded in R, the DLL will not get updated. Does ZnSO4 + H2 at high pressure reverses to Zn + H2SO4? * removing /Users/nikitavlasenko/miniconda3/envs/renv/lib/R/library/Hmisc March 1, 2023, 4:56pm What am I doing wrong here in the PlotLegends specification? I downloaded the R-4.0.1.pkg link from https://cran.r-project.org/bin/macosx/ and installed it as an administrator. downloaded 4.1 MB, package XML successfully unpacked and MD5 sums checked, The downloaded binary packages are in Why do academics stay as adjuncts for years rather than move around? 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"). The nature of simulating nature: A Q&A with IBM Quantum researcher Dr. Jamie We've added a "Necessary cookies only" option to the cookie consent popup. Are you sure the R you're running from the command line is installed through Anaconda as well? Why is this sentence from The Great Gatsby grammatical? Any other suggestion? Language(R, Python, SQL) Content type 'application/zip' length 4255589 bytes (4.1 MB) Policy. 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. Content type 'application/zip' length 386703 bytes (377 KB) Error: package GenomeInfoDb could not be loaded. In install.packages() : * removing /Users/nikitavlasenko/miniconda3/envs/renv/lib/R/library/DESeq2. Staging Ground Beta 1 Recap, and Reviewers needed for Beta 2. Any suggestions would be greatly appreciated. Site design / logo 2023 Stack Exchange Inc; user contributions licensed under CC BY-SA. 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. [7] GenomicRanges1.38.0 GenomeInfoDb1.22.0 IRanges2.20.2 [9] lattice0.20-40 glue1.3.2 digest0.6.25 XVector0.26.0 [9] Biobase_2.34.0 BiocGenerics_0.20.0, loaded via a namespace (and not attached): Installing Hmisc as suggested above did not solve the issue. [1] enUS.UTF-8/enUS.UTF-8/enUS.UTF-8/C/enUS.UTF-8/en_US.UTF-8, attached base packages: Have you tried install.packages("locfit") ? guide. [51] rstudioapi0.11 R62.4.1 rpart4.1-15 nnet7.3-14 compiler_3.6.1, BiocManager::install(c( If you dont post the error in question (why you cant install Hmisc) no one can help answer your question. Try installing zip, and then loading olsrr. 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. What I did was - uninstalled everything (R, Rstudio, RTools and deleted the R directory) to eliminate any chance that something was corrupt. Site design / logo 2023 Stack Exchange Inc; user contributions licensed under CC BY-SA. 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 rev2023.3.3.43278. I am also encountering a set of similar (although possible totally unrelated) issue with other packages, RStudio provides the following warning every startup, library(devtools) gives the following errors, Someone on twitter asked for the results of packageDescription("rlang"). :), BiocManager::install("locift") [21] openxlsx4.1.4 rio0.5.16 tibble2.1.3 mgcv1.8-31 When an R package depends on a newer package version, the required package is downloaded but not loaded. Surly Straggler vs. other types of steel frames, Linear regulator thermal information missing in datasheet. 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. I guess that means we can finally close this issue. [25] XVector_0.14.0 gridExtra_2.2.1 ggplot2_2.2.1 I have tried your suggestion and also updating the packages that command indicates. New replies are no longer allowed. vegan) just to try it, does this inconvenience the caterers and staff? [13] zlibbioc_1.20.0 munsell_0.4.3 gtable_0.2.0 I tried to get a whole new environment and install an old version of Qiime but I still got a ton of conflicts and it didnt install. If you try loading the DEseq2 library now, that might work. How should I deal with "package 'xxx' is not available (for R version x.y.z)" warning? Sorry, I'm newbie. Idk, but the issue came up from using installations from within R/Rstudio, and maybe it will never happen if we use just, @NikitaVlasenko you should be able to point Rstudio to the, We've added a "Necessary cookies only" option to the cookie consent popup, DESeqDataSetFromTximport invalid rownames length, deseq2 model design : Different gene output, deseq2 single factor design output interpretation. How to use Slater Type Orbitals as a basis functions in matrix method correctly? Not the answer you're looking for? 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. Policy. [1] stats4 parallel stats graphics grDevices utils Thanks for contributing an answer to Bioinformatics Stack Exchange! Warning: cannot remove prior installation of package xfun Referenced from: /Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libR.dylib (which was built for Mac OS X 10.13) The issue here was likely that you used two different package managers (conda and R), each setting and managing their own paths. Please try reinstalling rlang on a fresh session. But I guess you have many problems with your installation, and I'd suggest. C:\Users\ASUS\AppData\Local\Temp\RtmpCiM0wL\downloaded_packages I tried following the instructions for 2019.7 as well and I am getting the same error. Surly Straggler vs. other types of steel frames. Policy. install.packages ("backport") You will be offered a choice to install v 1.1,10 from source. March 1, 2023, 3:25pm [1] SummarizedExperiment1.16.1 DelayedArray0.12.3 BiocParallel1.20.1 matrixStats0.56.0 By clicking Accept all cookies, you agree Stack Exchange can store cookies on your device and disclose information in accordance with our Cookie Policy. Should I update the Bioconductor to latest version instead? How do you ensure that a red herring doesn't violate Chekhov's gun? Also note, however, that the error you got has been associated in the past with mirror outages. R version 3.6.1 (2019-07-05) When an R package depends on a newer package version, the required package is downloaded but not loaded. Open source scripts, reports, and preprints for in vitro biology, genetics, bioinformatics, crispr, and other biotech applications. 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. [13] ggplot23.3.0 car3.0-7 carData3.0-3 The other option is to download and older version of locfit from the package archive and install manually. 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. /private/var/folders/0t/8jm6lgqs0qj63rprpf9q_nfw0000gn/T/RtmpMNoZz3/downloaded_packages [33] forcats0.5.0 foreign0.8-76 vegan2.5-6 tools3.6.3 It is working now. install.packages("BiocManager"), I get this error: Platform: x86_64-apple-darwin17.0 (64-bit) Installing DESeq2 Error: no package called GenomeInfoDbData, https://bioconductor.org/packages/3.11/data/annotation/src/contrib/GenomeInfoDbData_1.2.3.tar.gz, https://cran.rstudio.com/bin/macosx/contrib/4.0/RcppArmadillo_0.9.880.1.0.tgz, https://cran.rstudio.com/bin/macosx/contrib/4.0/survival_3.1-12.tgz. Error: package or namespace load failed for 'olsrr' in loadNamespace (j <- i [ [1L]], c (lib.loc, .libPaths ()), versionCheck = vI [ [j]]): there is no package called 'zip' mara May 25, 2021, 12:49pm #2 It looks like you need a package that it depends on. Find centralized, trusted content and collaborate around the technologies you use most. Content type 'application/zip' length 233860 bytes (228 KB) nnet, spatial, survival Join us at CRISPR workshops in Koper, Slovenia in 2023. so I would try to use BiocManager::install("XML"). So, I recommend following the install instructions for the respective versions of QIIME 2, and then install the plugin. [5] BiocManager1.30.10 GenomeInfoDbData1.2.2 cellranger1.1.0 pillar1.4.3 Hmm, but it says package XML successfully unpacked and MD5 sums checked it looks mostly like these have been successful? there is no package called Hmisc. March 1, 2023, 8:52pm Maybe it is not a kind of quick fix and it could have been solved easier, but I was not able to. now when I tried installing the missing packages they did install. Installation path not writeable, unable to update packages: boot, class, KernSmooth, lattice, MASS, Matrix, mgcv, nlme, I would recommend installing an older version of QIIME 2 for this plugin to work. rev2023.3.3.43278. [1] locfit_1.5-9.1 splines_3.3.2 lattice_0.20-34 [28] digest_0.6.12 stringi_1.1.2 grid_3.3.2 When you load the package, you can observe this error. Replacing broken pins/legs on a DIP IC package. The package has place the R version constraint. I've uninstalled and reinstalled rlang (closing restarting RStudio in between each command) and am still encountering this error. 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' 0 cbravo11 0 @e0025e70 Last seen 10 months ago United States I installed DESeq2 using this code: Why are physically impossible and logically impossible concepts considered separate in terms of probability? Then I reinstalled R then Rstudio then RTools. @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. It fails with the VORO++ library, It seems it is related to the -Xcompiler flag. 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: Erasmus+ funds available! The nature of simulating nature: A Q&A with IBM Quantum researcher Dr. Jamie We've added a "Necessary cookies only" option to the cookie consent popup. Documentation [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: Running under: Windows 10 x64 (build 18362), locale: [45] Biostrings2.54.0 ade41.7-15 compiler3.6.3 rlang0.4.5 ERROR: dependency Hmisc is not available for package DESeq2 To view documentation for the version of this package installed Please read the posting Can you provide a screen shot of the errors when you try to setup a new conda environment for QIIME 2? Use of this site constitutes acceptance of our User Agreement and Privacy [49] rhdf52.30.1 grid3.6.3 iterators1.0.12 biomformat1.14.0 Already on GitHub? 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. 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. As others have mentioned, this is likely an issue with having multiple versions of R or RStudio installed. Error: package or namespace load failed for ' tidyverse' in dyn.load (file, DLLpath = DLLpath, . But I guess you have many problems with your installation, and I'd suggest BiocManager::valid () binary source needs_compilation + "htmlTable", "xfun" Hello, [1] parallel stats4 stats graphics grDevices utils datasets methods base, other attached packages: Raise a support ticket every time you need to install a package into a custom location and hope that IT eventually gives in. When you load the package, you can observe this error. 0 packages out-of-date; 2 packages too new, BiocManager::install(c( (I have the most recent version of tidyverse, RStudio, and R.) Error: package or namespace load failed for 'tidyverse': .onAttach failed in attachNamespace() for 'tidyverse', details: call: glue(str, .envir = .envir, .transformer = transformer . 1. It could also be caused by a bad antivirus program that locks the dll which prevents it from being updated. 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. I would like to install DESeq2 for DE analysis. sessionInfo() One solution is to find all available packages. 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. May be the version has problem How can I do ? Error: package or namespace load failed for DESeq2, R version 3.3.2 (2016-10-31) Is there anything I can do to speed it up? If it fails, required operating system facilities are missing. Fortunately I was able to solve it by doing things from several suggested solutions. 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. I then launched the R application (from the finder, not RStudio) and installed BiocManager. [53] rstudioapi0.11 igraph1.2.5 bitops1.0-6 labeling0.3 [10] S4Vectors0.24.3 BiocGenerics0.32.0 reshape21.4.3 By clicking Sign up for GitHub, you agree to our terms of service and What is a word for the arcane equivalent of a monastery? Well occasionally send you account related emails. there is no package called locfit. [65] ape5.3 stringi1.4.6 Rcpp1.0.4 vctrs0.2.4 nnet, spatial, survival. (Factorization). Whats the grammar of "For those whose stories they are"? Error: package or namespace load failed for DESeq2 in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]): I highly recommend that any R/RStudio version not installed inside conda be removed. Connect and share knowledge within a single location that is structured and easy to search. Error: package or namespace load failed for GenomeInfoDb in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]): trying URL 'https://wbc.upm.edu.my/cran/bin/windows/contrib/3.6/htmlTable_2.0.1.zip' Why is there a voltage on my HDMI and coaxial cables? [26] xtable1.8-4 scales1.1.1 backports1.1.9 checkmate2.0.0 BiocManager1.30.10 [16] htmlwidgets_0.8 latticeExtra_0.6-28 knitr_1.15.1 This can take several minutes. 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]]) : Start R to confirm they are gone. RcppArmadillo 0.9.880.1.0 0.9.900.1.0 TRUE Remember to always click on the red Show me the content on this page notice when navigating these older versions. I thought that working in a new environment would help, but it didnt. Follow Up: struct sockaddr storage initialization by network format-string. Just updated my previous R to 4.01 and now I cant load DESeq2. rev2023.3.3.43278. The error states that the current version is 0.4.5 but 0.4.10 is required. You'll have an easier time if you install R/RStudio via conda and then install R packages the traditional way, inside R/RStudio. there is no package called data.table 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 Just realize that I need to write the script "library("DESeq2")" before I proceed. Use of this site constitutes acceptance of our User Agreement and Privacy Following successful installation of backports BiocManager::install ("DESeq2") will succeed under The most common cause of this problem is trying to update a package while it is loaded in R (possibly in another process!). R version 3.6.3 (2020-02-29) 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 the console install.packages ("rlang") should fix this. im using ubuntu, R ver 4.0.4, bioconductor ver 1.12. I've copied the output below in case it helps with troubleshooting. Please try the following steps: Quit all R/Rstudio sessions. Why do many companies reject expired SSL certificates as bugs in bug bounties? A place where magic is studied and practiced? [16] phyloseq1.30.0, loaded via a namespace (and not attached): 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. If I try running biocLite("DESeq2") from Rstudio I get the following error: Error in dyn.load(file, DLLpath = DLLpath, ) : I can download DESeq2 using, User Agreement and Privacy Thnaks anyway, Can't Load R DESeq2 Library, Installed All Missing Packages and Still Have Problems, How Intuit democratizes AI development across teams through reusability. and then updating the packages that command indicates. [36] digest0.6.25 stringi1.4.6 grid3.6.1 tools3.6.1 bitops1.0-6 That plugin is has not been updated to work with later releases of QIIME 2. Finally After 3-4 manual installations of missing packages everything worked. [37] data.table1.12.8 hms0.5.3 lifecycle0.2.0 stringr1.4.0 If you preorder a special airline meal (e.g. check that immediate dependencies are installed, but not that the dependencies of those, etc are installed. R version 4.0.1 (2020-06-06) Solving environment: Found conflicts! To resolve this error, install the required package as a cluster-installed library. a, There are binary versions available but the source versions are later: How to notate a grace note at the start of a bar with lilypond? library(DESeq2) It only takes a minute to sign up. 2. Bioconductor version 3.10 (BiocManager 1.30.10), R 3.6.1 (2019-07-05) install.packages ("zip") 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. To subscribe to this RSS feed, copy and paste this URL into your RSS reader. Assuming that your conda environment name is renv, try running this in the terminal: This should open up the Rstudio interface, like normal, but using everything defined in your renv environment. 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 'XML' so I would try to use BiocManager::install ("XML"). Error: package or namespace load failed for 'DESeq2' packagepackagepackage , RRStudio macOS Mojave 10.14.3 R. Installation instructions to use this Policy. In addition: Warning message: Bioconductor version 3.11 (BiocManager 1.30.10), R 4.0.1 (2020-06-06) Is the God of a monotheism necessarily omnipotent? there is no package called GenomeInfoDbData requires R 4 and running more than a couple of releases behind in R risks multiplying problems. Traffic: 307 users visited in the last hour, I am new to all this! Disconnect between goals and daily tasksIs it me, or the industry? [61] curl4.3 R62.4.1 dplyr0.8.5 permute0.9-5 Platform: x86_64-apple-darwin13.4.0 (64-bit) [4] BiocParallel1.20.1 matrixStats0.56.0 Biobase2.46.0 BLAS: /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/libBLAS.dylib How can we prove that the supernatural or paranormal doesn't exist? I hope you can see something I can't see and help me solving this issue. 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. [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: Error: package or namespace load failed for 'DESeq2': objects 'rowSums', 'colSums', 'rowMeans', 'colMeans' are not exported by 'namespace:S4Vectors' I am using R 3.6.1 and Rstudio 1.2. technocrat August 27, 2020, 10:15pm #2 RedRabbit: DESeq2 requires R 4 and running more than a couple of releases behind in R risks multiplying problems. Also make sure that you have RTools.exe installed and working. [a/s/n]: Have a question about this project? Feedback unable to load shared object '/Users/nikitavlasenko/miniconda3/envs/renv/lib/R/library/cluster/libs/cluster.so': Sounds like there might be an issue with conda setup? To subscribe to this RSS feed, copy and paste this URL into your RSS reader. Installing packages directly into that location fixes the issue but is not desirable for all the reasons that people might want to use custom locations (e.g. Thank you @hharder. 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. [57] gtable0.3.0 codetools0.2-16 multtest2.42.0 abind1.4-5 The most common cause of this problem is trying to update a package while it is loaded in R (possibly in another process!). 9. 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. C:\R\R-3.4.3\library). By clicking Post Your Answer, you agree to our terms of service, privacy policy and cookie policy. Expected in: /usr/lib/libSystem.B.dylib, dyld: Symbol not found: _utimensat To learn more, see our tips on writing great answers. 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. [41] magrittr1.5 RCurl1.98-1.2 tibble3.0.3 Formula1.2-3 cluster2.1.0 Did you do that? Please remember to confirm an answer once you've received one. [1] RCurl1.98-1.1 SummarizedExperiment1.16.1 DelayedArray0.12.2 there is no package called Hmisc. Connect and share knowledge within a single location that is structured and easy to search. "4.2") and enter: For older versions of R, please refer to the appropriate Making statements based on opinion; back them up with references or personal experience. Installing package(s) 'GenomeInfoDbData' Policy. Thanks! Whats the grammar of "For those whose stories they are"? /var/folders/0t/8jm6lgqs0qj63rprpf9q_nfw0000gn/T//RtmpMNoZz3/downloaded_packages
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