[ Started: 2022-10-18 20:36:25 CEST ] [ OmnipathR v3.5.23 for BioC-3.16 from https://github.com/saezlab/OmnipathR@master ] Hit:1 https://cloud.r-project.org/bin/linux/ubuntu focal-cran40/ InRelease Hit:2 http://security.ubuntu.com/ubuntu focal-security InRelease Hit:3 http://de.archive.ubuntu.com/ubuntu focal InRelease Hit:4 http://de.archive.ubuntu.com/ubuntu focal-updates InRelease Hit:5 http://ppa.launchpad.net/deadsnakes/ppa/ubuntu focal InRelease Hit:6 http://de.archive.ubuntu.com/ubuntu focal-backports InRelease Reading package lists... [1] "Libraries: " "/home/omnipath/local/R/4.2-3.16" [3] "/home/omnipath/local/R/4.2" "/usr/lib/R/library" Reading package lists... Building dependency tree... Reading state information... libcurl4-openssl-dev is already the newest version (7.68.0-1ubuntu2.13). 0 to upgrade, 0 to newly install, 0 to remove and 1 not to upgrade. Reading package lists... Building dependency tree... Reading state information... libssl-dev is already the newest version (1.1.1f-1ubuntu2.16). 0 to upgrade, 0 to newly install, 0 to remove and 1 not to upgrade. Reading package lists... Building dependency tree... Reading state information... libglpk-dev is already the newest version (4.65-2). 0 to upgrade, 0 to newly install, 0 to remove and 1 not to upgrade. Reading package lists... Building dependency tree... Reading state information... libgmp3-dev is already the newest version (2:6.2.0+dfsg-4ubuntu0.1). 0 to upgrade, 0 to newly install, 0 to remove and 1 not to upgrade. Reading package lists... Building dependency tree... Reading state information... libxml2-dev is already the newest version (2.9.10+dfsg-5ubuntu0.20.04.4). 0 to upgrade, 0 to newly install, 0 to remove and 1 not to upgrade. Reading package lists... Building dependency tree... Reading state information... make is already the newest version (4.2.1-1.2). 0 to upgrade, 0 to newly install, 0 to remove and 1 not to upgrade. Reading package lists... Building dependency tree... Reading state information... libicu-dev is already the newest version (66.1-2ubuntu2.1). 0 to upgrade, 0 to newly install, 0 to remove and 1 not to upgrade. Reading package lists... Building dependency tree... Reading state information... pandoc is already the newest version (2.5-3build2). 0 to upgrade, 0 to newly install, 0 to remove and 1 not to upgrade. Reading package lists... Building dependency tree... Reading state information... libfontconfig1-dev is already the newest version (2.13.1-2ubuntu3). 0 to upgrade, 0 to newly install, 0 to remove and 1 not to upgrade. Reading package lists... Building dependency tree... Reading state information... libfreetype6-dev is already the newest version (2.10.1-2ubuntu0.2). 0 to upgrade, 0 to newly install, 0 to remove and 1 not to upgrade. Reading package lists... Building dependency tree... Reading state information... zlib1g-dev is already the newest version (1:1.2.11.dfsg-2ubuntu1.5). 0 to upgrade, 0 to newly install, 0 to remove and 1 not to upgrade. Reading package lists... Building dependency tree... Reading state information... libgdal-dev is already the newest version (3.0.4+dfsg-1build3). 0 to upgrade, 0 to newly install, 0 to remove and 1 not to upgrade. Reading package lists... Building dependency tree... Reading state information... gdal-bin is already the newest version (3.0.4+dfsg-1build3). 0 to upgrade, 0 to newly install, 0 to remove and 1 not to upgrade. Reading package lists... Building dependency tree... Reading state information... libgeos-dev is already the newest version (3.8.0-1build1). 0 to upgrade, 0 to newly install, 0 to remove and 1 not to upgrade. Reading package lists... Building dependency tree... Reading state information... libglu1-mesa-dev is already the newest version (9.0.1-1build1). 0 to upgrade, 0 to newly install, 0 to remove and 1 not to upgrade. Reading package lists... Building dependency tree... Reading state information... libgsl-dev is already the newest version (2.5+dfsg-6build1). 0 to upgrade, 0 to newly install, 0 to remove and 1 not to upgrade. Reading package lists... Building dependency tree... Reading state information... jags is already the newest version (4.3.0-3focal0). 0 to upgrade, 0 to newly install, 0 to remove and 1 not to upgrade. Reading package lists... Building dependency tree... Reading state information... libmpfr-dev is already the newest version (4.0.2-1). 0 to upgrade, 0 to newly install, 0 to remove and 1 not to upgrade. Reading package lists... Building dependency tree... Reading state information... libopenmpi-dev is already the newest version (4.0.3-0ubuntu1). 0 to upgrade, 0 to newly install, 0 to remove and 1 not to upgrade. Reading package lists... Building dependency tree... Reading state information... libproj-dev is already the newest version (6.3.1-1). 0 to upgrade, 0 to newly install, 0 to remove and 1 not to upgrade. apt-get install -y libcurl4-openssl-dev apt-get install -y libssl-dev 0 0 apt-get install -y libglpk-dev apt-get install -y libgmp3-dev 0 0 apt-get install -y libxml2-dev apt-get install -y make 0 0 apt-get install -y libicu-dev apt-get install -y pandoc 0 0 apt-get install -y libfontconfig1-dev apt-get install -y libfreetype6-dev 0 0 apt-get install -y zlib1g-dev apt-get install -y libgdal-dev 0 0 apt-get install -y gdal-bin apt-get install -y libgeos-dev 0 0 apt-get install -y libglu1-mesa-dev apt-get install -y libgsl0-dev 0 0 apt-get install -y jags apt-get install -y libmpfr-dev 0 0 apt-get install -y libopenmpi-dev apt-get install -y libproj-dev 0 0 [ Finished: 2022-10-18 20:36:38 CEST ]