[ Started: 2024-03-20 22:43:02 CET ] [ CARNIVAL v2.7.2 for BioC-3.19 from https://github.com/saezlab/CARNIVAL@master ] Hit:1 http://de.archive.ubuntu.com/ubuntu jammy InRelease Get:2 https://cloud.r-project.org/bin/linux/ubuntu jammy-cran40/ InRelease [3,626 B] Get:3 http://de.archive.ubuntu.com/ubuntu jammy-updates InRelease [119 kB] Hit:4 http://de.archive.ubuntu.com/ubuntu jammy-backports InRelease Get:5 http://security.ubuntu.com/ubuntu jammy-security InRelease [110 kB] Get:6 http://de.archive.ubuntu.com/ubuntu jammy-updates/main Translation-en [289 kB] Get:7 http://de.archive.ubuntu.com/ubuntu jammy-updates i386 Contents (deb) [44.8 MB] Get:8 http://security.ubuntu.com/ubuntu jammy-security/main Translation-en [229 kB] Get:9 http://security.ubuntu.com/ubuntu jammy-security i386 Contents (deb) [42.5 MB] Get:10 http://de.archive.ubuntu.com/ubuntu jammy-updates amd64 Contents (deb) [96.9 MB] Get:11 http://security.ubuntu.com/ubuntu jammy-security amd64 Contents (deb) [93.3 MB] Fetched 278 MB in 44s (6,371 kB/s) Reading package lists... [1] "Libraries: " "/home/omnipath/local/R/4.4-3.19" [3] "/home/omnipath/local/R/4.4" "/opt/R-devel/lib/R/library" trying URL 'https://cran.uni-muenster.de/src/contrib/remotes_2.5.0.tar.gz' Content type 'application/x-gzip' length 164496 bytes (160 KB) ================================================== downloaded 160 KB trying URL 'https://cran.uni-muenster.de/src/contrib/BiocManager_1.30.22.tar.gz' Content type 'application/x-gzip' length 582690 bytes (569 KB) ================================================== downloaded 569 KB * installing *source* package ‘remotes’ ... ** package ‘remotes’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** 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 (remotes) * installing *source* package ‘BiocManager’ ... ** package ‘BiocManager’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** 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 (BiocManager) The downloaded source packages are in ‘/tmp/RtmpNDAk2m/downloaded_packages’ Reading package lists... Building dependency tree... Reading state information... libicu-dev is already the newest version (70.1-2). The following packages were automatically installed and are no longer required: libclang-10-dev libclang-common-10-dev libclang1-10 libllvm10 libllvm13 libncurses5-dev libobjc-9-dev libstdc++-9-dev Use 'sudo apt autoremove' to remove them. 0 to upgrade, 0 to newly install, 0 to remove and 9 not to upgrade. Reading package lists... Building dependency tree... Reading state information... libglpk-dev is already the newest version (5.0-1). The following packages were automatically installed and are no longer required: libclang-10-dev libclang-common-10-dev libclang1-10 libllvm10 libllvm13 libncurses5-dev libobjc-9-dev libstdc++-9-dev Use 'sudo apt autoremove' to remove them. 0 to upgrade, 0 to newly install, 0 to remove and 9 not to upgrade. Reading package lists... Building dependency tree... Reading state information... libxml2-dev is already the newest version (2.9.13+dfsg-1ubuntu0.4). The following packages were automatically installed and are no longer required: libclang-10-dev libclang-common-10-dev libclang1-10 libllvm10 libllvm13 libncurses5-dev libobjc-9-dev libstdc++-9-dev Use 'sudo apt autoremove' to remove them. 0 to upgrade, 0 to newly install, 0 to remove and 9 not to upgrade. Reading package lists... Building dependency tree... Reading state information... make is already the newest version (4.3-4.1build1). The following packages were automatically installed and are no longer required: libclang-10-dev libclang-common-10-dev libclang1-10 libllvm10 libllvm13 libncurses5-dev libobjc-9-dev libstdc++-9-dev Use 'sudo apt autoremove' to remove them. 0 to upgrade, 0 to newly install, 0 to remove and 9 not to upgrade. Reading package lists... Building dependency tree... Reading state information... pandoc is already the newest version (2.9.2.1-3ubuntu2). The following packages were automatically installed and are no longer required: libclang-10-dev libclang-common-10-dev libclang1-10 libllvm10 libllvm13 libncurses5-dev libobjc-9-dev libstdc++-9-dev Use 'sudo apt autoremove' to remove them. 0 to upgrade, 0 to newly install, 0 to remove and 9 not to upgrade. Reading package lists... Building dependency tree... Reading state information... libcurl4-openssl-dev is already the newest version (7.81.0-1ubuntu1.15). The following packages were automatically installed and are no longer required: libclang-10-dev libclang-common-10-dev libclang1-10 libllvm10 libllvm13 libncurses5-dev libobjc-9-dev libstdc++-9-dev Use 'sudo apt autoremove' to remove them. 0 to upgrade, 0 to newly install, 0 to remove and 9 not to upgrade. Reading package lists... Building dependency tree... Reading state information... libssl-dev is already the newest version (3.0.2-0ubuntu1.15). The following packages were automatically installed and are no longer required: libclang-10-dev libclang-common-10-dev libclang1-10 libllvm10 libllvm13 libncurses5-dev libobjc-9-dev libstdc++-9-dev Use 'sudo apt autoremove' to remove them. 0 to upgrade, 0 to newly install, 0 to remove and 9 not to upgrade. apt-get install -y libicu-dev apt-get install -y libglpk-dev 0 0 apt-get install -y libxml2-dev apt-get install -y make 0 0 apt-get install -y pandoc apt-get install -y libcurl4-openssl-dev 0 0 apt-get install -y libssl-dev 0 [ Finished: 2024-03-20 22:43:59 CET ]