Dear Dirk, I am writing to ask for your help with installing tydiverse on Linux Mint (Distro: Linux Mint 21.2 Victoria base: Ubuntu 22.04 jammy)...
I tried your instructions from http://dirk.eddelbuettel.com/blog/code/r4/ but could not get it to work: download.file("https://github.com/eddelbuettel/r2u/raw/master/inst/scri pts/add_cranapt_focal.sh", "add_cranapt_focal.sh") Sys.chmod("add_cranapt_focal.sh", "0755") system("./add_cranapt_focal.sh") install.packages("tidyverse") library(tidyverse) install.packages("brms") library(brms) The problems seem to start after the the command: system("./add_cranapt_focal.sh") as follows: download.file("https://github.com/eddelbuettel/r2u/raw/master/inst/scri pts/add_cranapt_focal.sh", "add_cranapt_focal.sh") trying URL 'https://github.com/eddelbuettel/r2u/raw/master/inst/scripts/add_cranap t_focal.sh' Content type 'text/plain; charset=utf-8' length 1799 bytes ================================================== downloaded 1799 bytes > Sys.chmod("add_cranapt_focal.sh", "0755") > system("./add_cranapt_focal.sh") [sudo] password: E: The repository 'https://cloud.r-project.org/bin/linux/ubuntu victoria-cran40/ Release' does not have a Release file. Warning: apt-key is deprecated. Manage keyring files in trusted.gpg.d instead (see apt-key(8)). Executing: /tmp/apt-key-gpghome.BcNNAWMs7G/gpg.1.sh --keyserver keyserver.ubuntu.com --recv-keys A1489FE2AB99A21A gpg: key A1489FE2AB99A21A: public key "Dirk Eddelbuettel <e...@debian.org>" imported gpg: Total number processed: 1 gpg: imported: 1 gpg: key A6616109451BBBF2: "Linux Mint Repository Signing Key <r...@linuxmint.com>" not changed gpg: key A6616109451BBBF2: 12 signatures not checked due to missing keys gpg: error writing keyring '/etc/apt/trusted.gpg.d/linuxmint- keyring.gpg': Permission denied gpg: error reading '[stdin]': Permission denied gpg: import from '[stdin]' failed: Permission denied gpg: Total number processed: 2 gpg: skipped new keys: 1 gpg: unchanged: 1 ./add_cranapt_focal.sh: line 16: /etc/apt/sources.list.d/cranapt.list: Permission denied ./add_cranapt_focal.sh: line 19: /etc/apt/sources.list.d/cran-r.list: Permission denied Warning: apt-key is deprecated. Manage keyring files in trusted.gpg.d instead (see apt-key(8)). Executing: /tmp/apt-key-gpghome.lW5hTPHArp/gpg.1.sh --keyserver keyserver.ubuntu.com --recv-keys 67C2D66C4B1D4339 51716619E084DAB9 gpg: key 51716619E084DAB9: "Michael Rutter <marut...@gmail.com>" 1 new signature gpg: key 67C2D66C4B1D4339: public key "Launchpad PPA for Dirk Eddelbuettel" imported gpg: Total number processed: 2 gpg: imported: 1 gpg: new signatures: 1 cp: cannot create regular file '/etc/apt/trusted.gpg.d/cran_ubuntu_key.asc~': Permission denied E: The repository 'https://cloud.r-project.org/bin/linux/ubuntu victoria-cran40/ Release' does not have a Release file. Reading package lists... Done Building dependency tree... Done Reading state information... Done r-base-core is already the newest version (4.3.2-1.2204.0). r-base-core set to manually installed. 0 upgraded, 0 newly installed, 0 to remove and 2 not upgraded. ./add_cranapt_focal.sh: line 25: /etc/apt/preferences.d/99cranapt: Permission denied ./add_cranapt_focal.sh: line 26: /etc/apt/preferences.d/99cranapt: Permission denied ./add_cranapt_focal.sh: line 27: /etc/apt/preferences.d/99cranapt: Permission denied ./add_cranapt_focal.sh: line 28: /etc/apt/preferences.d/99cranapt: Permission denied Reading package lists... Done Building dependency tree... Done Reading state information... Done make is already the newest version (4.3-4.1build1). python3-dbus is already the newest version (1.2.18-3build1). python3-apt is already the newest version (2.4.0ubuntu2). python3-gi is already the newest version (3.42.1-0ubuntu1). 0 upgraded, 0 newly installed, 0 to remove and 2 not upgraded. Installing package into ‘/home/luben/R/x86_64-pc-linux-gnu-library/4.3’ (as ‘lib’ is unspecified) trying URL 'https://cloud.r-project.org/src/contrib/bspm_0.5.5.tar.gz' Content type 'application/x-gzip' length 26800 bytes (26 KB) ================================================== downloaded 26 KB * installing *source* package ‘bspm’ ... ** package ‘bspm’ successfully unpacked and MD5 sums checked ** using staged installation * NOT installing D-Bus service ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (bspm) The downloaded source packages are in ‘/tmp/RtmphMoSrw/downloaded_packages’ ./add_cranapt_focal.sh: line 36: /usr/lib/R/etc/Rprofile.site: Permission denied ./add_cranapt_focal.sh: line 37: /usr/lib/R/etc/Rprofile.site: Permission denied > install.packages("tidyverse") Installing package into ‘/home/luben/R/x86_64-pc-linux-gnu-library/4.3’ (as ‘lib’ is unspecified) also installing the dependencies ‘systemfonts’, ‘textshaping’, ‘ragg’ trying URL 'https://cloud.r- project.org/src/contrib/systemfonts_1.0.5.tar.gz' Content type 'application/x-gzip' length 80638 bytes (78 KB) ================================================== downloaded 78 KB trying URL 'https://cloud.r- project.org/src/contrib/textshaping_0.3.7.tar.gz' Content type 'application/x-gzip' length 35100 bytes (34 KB) ================================================== downloaded 34 KB trying URL 'https://cloud.r-project.org/src/contrib/ragg_1.2.7.tar.gz' Content type 'application/x-gzip' length 425500 bytes (415 KB) ================================================== downloaded 415 KB trying URL 'https://cloud.r- project.org/src/contrib/tidyverse_2.0.0.tar.gz' Content type 'application/x-gzip' length 704618 bytes (688 KB) ================================================== downloaded 688 KB * installing *source* package ‘systemfonts’ ... ** package ‘systemfonts’ successfully unpacked and MD5 sums checked ** using staged installation Package fontconfig was not found in the pkg-config search path. Perhaps you should add the directory containing `fontconfig.pc' to the PKG_CONFIG_PATH environment variable No package 'fontconfig' found Package freetype2 was not found in the pkg-config search path. Perhaps you should add the directory containing `freetype2.pc' to the PKG_CONFIG_PATH environment variable No package 'freetype2' found Using PKG_CFLAGS= Using PKG_LIBS=-lfontconfig -lfreetype --------------------------- [ANTICONF] -------------------------------- Configuration failed to find the fontconfig freetype2 library. Try installing: * deb: libfontconfig1-dev (Debian, Ubuntu, etc) * rpm: fontconfig-devel (Fedora, EPEL) * csw: fontconfig_dev (Solaris) * brew: freetype (OSX) If fontconfig freetype2 is already installed, check that 'pkg-config' is in your PATH and PKG_CONFIG_PATH contains a fontconfig freetype2.pc file. If pkg-config is unavailable you can set INCLUDE_DIR and LIB_DIR manually via: R CMD INSTALL --configure-vars='INCLUDE_DIR=... LIB_DIR=...' -------------------------- [ERROR MESSAGE] --------------------------- <stdin>:1:10: fatal error: fontconfig/fontconfig.h: No such file or directory compilation terminated. -------------------------------------------------------------------- ERROR: configuration failed for package ‘systemfonts’ * removing ‘/home/luben/R/x86_64-pc-linux-gnu-library/4.3/systemfonts’ ERROR: dependency ‘systemfonts’ is not available for package ‘textshaping’ * removing ‘/home/luben/R/x86_64-pc-linux-gnu-library/4.3/textshaping’ ERROR: dependencies ‘systemfonts’, ‘textshaping’ are not available for package ‘ragg’ * removing ‘/home/luben/R/x86_64-pc-linux-gnu-library/4.3/ragg’ ERROR: dependency ‘ragg’ is not available for package ‘tidyverse’ * removing ‘/home/luben/R/x86_64-pc-linux-gnu-library/4.3/tidyverse’ The downloaded source packages are in ‘/tmp/RtmpCt4Y9p/downloaded_packages’ Warning messages: 1: In install.packages("tidyverse") : installation of package ‘systemfonts’ had non-zero exit status 2: In install.packages("tidyverse") : installation of package ‘textshaping’ had non-zero exit status 3: In install.packages("tidyverse") : installation of package ‘ragg’ had non-zero exit status 4: In install.packages("tidyverse") : installation of package ‘tidyverse’ had non-zero exit status Btw, I did first try getting tidyverse through install.packages("tidyverse") but couldn't (which is why I tried your method): > install.packages("tidyverse") Installing package into ‘/home/luben/R/x86_64-pc-linux-gnu-library/4.3’ (as ‘lib’ is unspecified) also installing the dependencies ‘systemfonts’, ‘textshaping’, ‘ragg’ trying URL 'https://cloud.r- project.org/src/contrib/systemfonts_1.0.5.tar.gz' Content type 'application/x-gzip' length 80638 bytes (78 KB) ================================================== downloaded 78 KB trying URL 'https://cloud.r- project.org/src/contrib/textshaping_0.3.7.tar.gz' Content type 'application/x-gzip' length 35100 bytes (34 KB) ================================================== downloaded 34 KB trying URL 'https://cloud.r-project.org/src/contrib/ragg_1.2.7.tar.gz' Content type 'application/x-gzip' length 425500 bytes (415 KB) ================================================== downloaded 415 KB trying URL 'https://cloud.r- project.org/src/contrib/tidyverse_2.0.0.tar.gz' Content type 'application/x-gzip' length 704618 bytes (688 KB) ================================================== downloaded 688 KB * installing *source* package ‘systemfonts’ ... ** package ‘systemfonts’ successfully unpacked and MD5 sums checked ** using staged installation Package fontconfig was not found in the pkg-config search path. Perhaps you should add the directory containing `fontconfig.pc' to the PKG_CONFIG_PATH environment variable No package 'fontconfig' found Package freetype2 was not found in the pkg-config search path. Perhaps you should add the directory containing `freetype2.pc' to the PKG_CONFIG_PATH environment variable No package 'freetype2' found Using PKG_CFLAGS= Using PKG_LIBS=-lfontconfig -lfreetype --------------------------- [ANTICONF] -------------------------------- Configuration failed to find the fontconfig freetype2 library. Try installing: * deb: libfontconfig1-dev (Debian, Ubuntu, etc) * rpm: fontconfig-devel (Fedora, EPEL) * csw: fontconfig_dev (Solaris) * brew: freetype (OSX) If fontconfig freetype2 is already installed, check that 'pkg-config' is in your PATH and PKG_CONFIG_PATH contains a fontconfig freetype2.pc file. If pkg-config is unavailable you can set INCLUDE_DIR and LIB_DIR manually via: R CMD INSTALL --configure-vars='INCLUDE_DIR=... LIB_DIR=...' -------------------------- [ERROR MESSAGE] --------------------------- <stdin>:1:10: fatal error: fontconfig/fontconfig.h: No such file or directory compilation terminated. -------------------------------------------------------------------- ERROR: configuration failed for package ‘systemfonts’ * removing ‘/home/luben/R/x86_64-pc-linux-gnu-library/4.3/systemfonts’ Warning in install.packages : installation of package ‘systemfonts’ had non-zero exit status ERROR: dependency ‘systemfonts’ is not available for package ‘textshaping’ * removing ‘/home/luben/R/x86_64-pc-linux-gnu-library/4.3/textshaping’ Warning in install.packages : installation of package ‘textshaping’ had non-zero exit status ERROR: dependencies ‘systemfonts’, ‘textshaping’ are not available for package ‘ragg’ * removing ‘/home/luben/R/x86_64-pc-linux-gnu-library/4.3/ragg’ Warning in install.packages : installation of package ‘ragg’ had non-zero exit status ERROR: dependency ‘ragg’ is not available for package ‘tidyverse’ * removing ‘/home/luben/R/x86_64-pc-linux-gnu-library/4.3/tidyverse’ Warning in install.packages : installation of package ‘tidyverse’ had non-zero exit status The downloaded source packages are in ‘/tmp/RtmpBTgwsS/downloaded_packages’ _______________________________________________ R-SIG-Debian mailing list R-SIG-Debian@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-debian
