installation of package 'hmisc' had non zero exit status

Warning in install.packages : Making statements based on opinion; back them up with references or personal experience. E.g., when install.packages("Hmisc") returned: I'd try to install rpart. I couldn't get the solutions above to work, but the problem resolved when I updated to R 4.1.1. Is there any known 80-bit collision attack? Hi there, I have some problems installing the package Hmisc. Hi! dependencies survival, latticeExtra are not available, There is a binary version available but the source version is later: But its instantiation with the library command fails. @couthcommander -- you are correct! Asking for help, clarification, or responding to other answers. y/n: y R Version: 3.2.0 (2015-04-16) x86_64-w64-mingw32 (64bit) error install packages("party") - R studio IDE, Where developers & technologists share private knowledge with coworkers, Reach developers & technologists worldwide, It looks like you haven't installed gfortran. But the following error keeps occuring. Site design / logo 2023 Stack Exchange Inc; user contributions licensed under CC BY-SA. (as lib is unspecified) How do the interferometers on the drag-free satellite LISA receive power without altering their geodesic trajectory? ./inst/include/Eigen/src/Core/CoreEvaluators.h:989:54: warning: ignoring attributes on template argument Eigen::internal::packet_traits::type {aka __m128d} [-Wignored-attributes] Asking for help, clarification, or responding to other answers. Thanks @couthcommander, I did as you recommended. This problem is not occuring on linux or windows to my knowledge. I learned that I need to install some package by using: There are some warning message i am not sure whether it means successful or not: Error in library(Hmisc): there is no package called 'Hmisc'. C:\Users\user\AppData\Local\Temp\RtmpWGOFzV\downloaded_packages, library("Hmisc") Unable to Install latest build of Hmisc package for R 3.2.0, http://cran.rstudio.com/bin/windows/contrib/3.2/rms_4.3-0.zip, http://cran.rstudio.com/bin/windows/contrib/3.2/Hmisc_3.15-0.zip, http://cran.rstudio.com/bin/windows/contrib/3.2, http://cran.rstudio.com/bin/windows/contrib/3.2/Hmisc_3.16-0.zip, This was a fresh install of RStudio Version 0.99.903 on a 34-bit GNU/Linux OS. Passing negative parameters to a wolframscript. RDescToolsgld. Install the development files for liblapack, libblas, and libjpeg. Whatever bug seems to have been resolved in the RStudio update. Never had this problem before. Content type 'application/x-gzip' length 744545 bytes (727 KB) Content type 'application/zip' length 1792302 bytes (1.7 MB) If the details of the particular maze I followed and the place I embarked from help: You signed in with another tab or window. @StatsQuo Were you able to manually install backports? When I looked at http://cran.rstudio.com/bin/windows/contrib/3.2 I found that Hmisc_3.16-0.zip exists but was not being referenced. Site design / logo 2023 Stack Exchange Inc; user contributions licensed under CC BY-SA. Error: package or namespace load failed for Hmisc: Just updated my version of RStudio to the latest and that seems to have fixed it. Thanks! I believe @adeslatt and @stuzog (Mac users) are encountering a different installation problem than @StatsQuo. Can my creature spell be countered if I cast a split second spell after it? I just installed R using anaconda, and I am following this tutorial: https://www.analyticsvidhya.com/blog/2016/03/tutorial-powerful-packages-imputing-missing-values/. I checked /Library/Frameworks/R.framework/Resources/etc/Makeconf the FLIBS flag was as you stated. Warning in install.packages : You signed in with another tab or window. Content Discovery initiative April 13 update: Related questions using a Review our technical responses for the 2023 Developer Survey, Can't access User Library in R - "Non-Zero Exit Status" warning, Unable to install 'gdtools' package (I am using Red Hat 5.11), Error in library(qdap) : there is no package called qdap. 565), Improving the copy in the close modal and post notices - 2023 edition, New blog post from our CEO Prashanth: Community is the future of AI. OS: Windows 8.1, install.packages("Hmisc",dependencies = TRUE) Frank E Harrell Jr Professor and Chairman School of Medicine, Department of Biostatistics Vanderbilt University. Find centralized, trusted content and collaborate around the technologies you use most. If we had a video livestream of a clock being sent to Mars, what would we see? -adding dependencies=true in the script. Were I to have known all the packages to install and the order to do so, the R command would've been. trying URL 'http://cran.rstudio.com/bin/windows/contrib/3.2/Hmisc_3.15-0.zip' By clicking Accept all cookies, you agree Stack Exchange can store cookies on your device and disclose information in accordance with our Cookie Policy. gcc -I"/usr/share/R/include" -DNDEBUG -I'/home/yash/R/x86_64-pc-linux-gnu-library/4.2/Rcpp/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-wSz8CH/r-base-4.2.1=. /private/var/folders/nn/nd8w75lj4595k_rbr05yqms80000gn/T/RtmpphpBfv/downloaded_packages, library(Hmisc) Which ability is most related to insanity: Wisdom, Charisma, Constitution, or Intelligence? What does 'They're at four. This was a fresh install of RStudio Version .99.903 on a 34-bit GNU/Linux OS. https://cran.rstudio.com/src/contrib/Hmisc_4.4-0.tar.gz, removing /Library/Frameworks/R.framework/Versions/3.3/Resources/library/Hmisc. Posit Community. message "/rms_4.3-1.zip' is not available (for R version 3.2.0)" seems to indicate that there's something needed when building the packages to specify that they work with R 3.2.0. The warning and error are as follows: PS. Powered by Discourse, best viewed with JavaScript enabled. Loading required package: Formula I'm learning and will appreciate any help, Image of minimal degree representation of quasisimple group unique up to conjugacy, Passing negative parameters to a wolframscript, Simple deform modifier is deforming my object. @ysh-rawat-11 Your underlying problem are the packages "RcppEigen" and "jpeg". I just wanted to install the package "questionr". I'll look for a Mac user to give us the general solution. I Error in value[[3L]](cond) : Package 'Hmisc' version 4.0.3 cannot be unloaded: Error in unloadNamespace(package) : namespace 'Hmisc' is imported by 'biovizBase' so cannot be unloaded, I did as one might guess also installing the dependency rms, trying URL 'http://cran.rstudio.com/bin/windows/contrib/3.2/rms_4.3-0.zip' (Yes/no/cancel) y installing the source package . Use install.packages () to update rlang and vctrs manually. are there separate dependency definitions for Windows 7 vs windows 8? biocLite("biovizBase") Some packages like tseries or colorspace can be installed, but others can't. Find centralized, trusted content and collaborate around the technologies you use most. the package dependencies seem a bit off since the install command was looking for a version that didn't exist in the 3.2 directory. New comments cannot be posted to this locked post. The text was updated successfully, but these errors were encountered: I'm not sure of a fix yet but I can see that Hmisc imports htmlTable, which imports checkmate, which imports backports. Site design / logo 2023 Stack Exchange Inc; user contributions licensed under CC BY-SA. privacy statement. Unfortunately, I am having problems installing Hmisc: @couthcommander: I tried to manually install backports, but received the following error: [UPDATE] A bit more searching led me to a solution: Manually install an older version of backports. Looking on the net I'm not seeing many people having problems with it. call: loadNamespace(name) This manually install helped me out. And yes, the file /Library/Frameworks/R.framework/Resources/etc/Makeconf does exist on the system, including the flag FLIBS: FLIBS = -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm. Can someone help me ? I'd appreciate your help! Since updating RStudio to 1.1.414 Hmisc 4.1-1 now installs from CRAN. Warning in install.packages : Does anyone know what might has happened? Installation is not successful because you are missing this dependency, the problem is that latticeExtra is not available for your R version which is very old. Also, see https://cran.r-project.org/bin/macosx/RMacOSX-FAQ.html#Installation-of-source-packages, which references the file /Library/Frameworks/R.framework/Resources/etc/Makeconf. I'm also a Mac user, and I've trying to solve it as some of you guys have suggested in other similar questions, See, Error installing Hmisc package in R Studio, How a top-ranked engineering school reimagined CS curriculum (Ep. Already on GitHub? Loading required package: lattice Please be sure to answer the question.Provide details and share your research! This topic was automatically closed 7 days after the last reply. binaryR install.packages ("xx",type="binary") had non-zero exit status . Why did US v. Assange skip the court of appeal? cannot open URL 'http://cran.rstudio.com/bin/windows/contrib/3.2/Hmisc_3.15-0.zip' As an aside, in the world of biological sequence data and the need to analyze, bioconductor is a means by which to get that job done and to scale efficiently. Not the answer you're looking for? What are the advantages of running a power tool on 240 V vs 120 V? this is a website that can give you an introduction if you are interested. I am able to install Hmisc 4.1-1 source on macos sierra (10.12.6). Hmisc 4.1-1 4.4-0 TRUE, Do you want to install from sources the package which needs compilation? Interpreting non-statistically significant results: Do we have "no evidence" or "insufficient evidence" to reject the null? install.packages ("gld") had non-zero exit status . Option 1: The clean way - re-install all the packages from scratch. Sign in Try just. Biological data is diverse and not always consistent, bioconductor is an organized structure of creating systematic tools and enabling the researcher to efficiently get all annotations associated with known or orthologous genomes.! By clicking Sign up for GitHub, you agree to our terms of service and #26 (comment). Already on GitHub? RStudio Version 0.98.1091 Making statements based on opinion; back them up with references or personal experience. rev2023.5.1.43405. My best guess is that the Mac users should try re-installing gfortran. We have tried this on multiple Windows 7 and Mac computers with no problems. RStudio Version: 0.98.1091 (I think 64bit) Can I use the spell Immovable Object to create a castle which floats above the clouds? xcolor: How to get the complementary color. Installing package into /home/username/R/x86_64-unknown-linux-gnu-library/3.1, ERROR: dependencies tibble, dplyr are not available for package tidyr, * removing /home/username/R/x86_64-unknown-linux-gnu-library/3.1/tidyr, I can't install packages in R(studio). Does anyone have suggestions for how the other packages can be permanently fixed to avoid these problems? The only experience I have with those issues are that I had to make sure I was using the latest version of R and the latest version of RStudio so that install.packages would install the very latest Hmisc. I can't install packages in R(studio). If installing rpart failed because it had out-of-date dependencies, I'd load them, then try again to install rpart, then try again to install Hmisc. also installing the dependencies 'survival', 'ggplot2'. R Version 3.2.0 Start a fresh R session with no packages loaded. I'll look for a Mac user to give us the general solution. Interesting. rev2023.5.1.43405. Drop into the terminal for Fedora 35 and install openssl. I haven't seen anything that would suggest Hmisc is at fault. Why don't we use the 7805 for car phone chargers? Is "I didn't think it was serious" usually a good defence against "duty to rescue"? installing the source package Hmisc, trying URL 'https://cran.rstudio.com/src/contrib/Hmisc_4.4-0.tar.gz' Connect and share knowledge within a single location that is structured and easy to search. Use install.packages() to update rlang and vctrs manually. collect2: error: ld returned 1 exit status So it should also work in the cloud. Please be sure to answer the question.Provide details and share your research! Error in library(Hmisc) : there is no package called Hmisc. library(biovizBase). ERROR: compilation failed for package RcppEigen, The downloaded source packages are in I think when I updated my R version, I had to manually create a folder called 4.0 in ~/Library/R. Well occasionally send you account related emails. @neilfws, I edited the question. But avoid . I manually installed backports as shown above and still had the failure. How do the interferometers on the drag-free satellite LISA receive power without altering their geodesic trajectory? If you start a new R session without bioconductor loaded, I assume you can load Hmisc successfully? R : error: installation of package "rgl had non-zero exit statusTo Access My Live Chat Page, On Google, Search for "hows tech. To subscribe to this RSS feed, copy and paste this URL into your RSS reader. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c init.c -o init.o

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