[ Started: 2023-02-02 02:02:36 CET ] [ progeny v1.17.3 for BioC-3.17 from https://github.com/saezlab/progeny@master ] Hit:1 http://de.archive.ubuntu.com/ubuntu jammy InRelease Get:2 http://security.ubuntu.com/ubuntu jammy-security InRelease [110 kB] Get:3 http://de.archive.ubuntu.com/ubuntu jammy-updates InRelease [114 kB] Get:4 http://de.archive.ubuntu.com/ubuntu jammy-backports InRelease [104 kB] Get:5 http://de.archive.ubuntu.com/ubuntu jammy-updates/main amd64 DEP-11 Metadata [102 kB] Get:6 http://de.archive.ubuntu.com/ubuntu jammy-updates/universe amd64 DEP-11 Metadata [265 kB] Get:7 http://de.archive.ubuntu.com/ubuntu jammy-updates/multiverse amd64 DEP-11 Metadata [940 B] Get:8 http://security.ubuntu.com/ubuntu jammy-security/main amd64 DEP-11 Metadata [41.4 kB] Get:9 http://security.ubuntu.com/ubuntu jammy-security/universe amd64 DEP-11 Metadata [13.2 kB] Get:10 http://de.archive.ubuntu.com/ubuntu jammy-backports/main DEP-11 48x48 Icons [6,986 B] Get:11 http://de.archive.ubuntu.com/ubuntu jammy-backports/main DEP-11 64x64 Icons [10.5 kB] Get:12 http://de.archive.ubuntu.com/ubuntu jammy-backports/main DEP-11 64x64@2 Icons [29 B] Get:13 http://de.archive.ubuntu.com/ubuntu jammy-backports/universe amd64 DEP-11 Metadata [11.6 kB] Fetched 780 kB in 1s (1,291 kB/s) Reading package lists... [1] "Libraries: " "/home/omnipath/local/R/4.2-3.17" [3] "/home/omnipath/local/R/4.2" "/usr/lib/R/library" Warning message: package ‘BiocCheck’ is not available for this version of R 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 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: gcc-10-base libclang-10-dev libclang-common-10-dev libclang1-10 libllvm10 libobjc-9-dev libstdc++-9-dev Use 'sudo apt autoremove' to remove them. 0 to upgrade, 0 to newly install, 0 to remove and 74 not to upgrade. Reading package lists... Building dependency tree... Reading state information... libcurl4-openssl-dev is already the newest version (7.81.0-1ubuntu1.7). The following packages were automatically installed and are no longer required: gcc-10-base libclang-10-dev libclang-common-10-dev libclang1-10 libllvm10 libobjc-9-dev libstdc++-9-dev Use 'sudo apt autoremove' to remove them. 0 to upgrade, 0 to newly install, 0 to remove and 74 not to upgrade. Reading package lists... Building dependency tree... Reading state information... libssl-dev is already the newest version (3.0.2-0ubuntu1.7). The following packages were automatically installed and are no longer required: gcc-10-base libclang-10-dev libclang-common-10-dev libclang1-10 libllvm10 libobjc-9-dev libstdc++-9-dev Use 'sudo apt autoremove' to remove them. 0 to upgrade, 0 to newly install, 0 to remove and 74 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: gcc-10-base libclang-10-dev libclang-common-10-dev libclang1-10 libllvm10 libobjc-9-dev libstdc++-9-dev Use 'sudo apt autoremove' to remove them. 0 to upgrade, 0 to newly install, 0 to remove and 74 not to upgrade. Reading package lists... Building dependency tree... Reading state information... libgmp3-dev is already the newest version (2:6.2.1+dfsg-3ubuntu1). The following packages were automatically installed and are no longer required: gcc-10-base libclang-10-dev libclang-common-10-dev libclang1-10 libllvm10 libobjc-9-dev libstdc++-9-dev Use 'sudo apt autoremove' to remove them. 0 to upgrade, 0 to newly install, 0 to remove and 74 not to upgrade. Reading package lists... Building dependency tree... Reading state information... libxml2-dev is already the newest version (2.9.13+dfsg-1ubuntu0.2). The following packages were automatically installed and are no longer required: gcc-10-base libclang-10-dev libclang-common-10-dev libclang1-10 libllvm10 libobjc-9-dev libstdc++-9-dev Use 'sudo apt autoremove' to remove them. 0 to upgrade, 0 to newly install, 0 to remove and 74 not to upgrade. Reading package lists... Building dependency tree... Reading state information... libpng-dev is already the newest version (1.6.37-3build5). The following packages were automatically installed and are no longer required: gcc-10-base libclang-10-dev libclang-common-10-dev libclang1-10 libllvm10 libobjc-9-dev libstdc++-9-dev Use 'sudo apt autoremove' to remove them. 0 to upgrade, 0 to newly install, 0 to remove and 74 not to upgrade. Reading package lists... Building dependency tree... Reading state information... python3 is already the newest version (3.10.6-1~22.04). The following packages were automatically installed and are no longer required: gcc-10-base libclang-10-dev libclang-common-10-dev libclang1-10 libllvm10 libobjc-9-dev libstdc++-9-dev Use 'sudo apt autoremove' to remove them. 0 to upgrade, 0 to newly install, 0 to remove and 74 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: gcc-10-base libclang-10-dev libclang-common-10-dev libclang1-10 libllvm10 libobjc-9-dev libstdc++-9-dev Use 'sudo apt autoremove' to remove them. 0 to upgrade, 0 to newly install, 0 to remove and 74 not to upgrade. Reading package lists... Building dependency tree... Reading state information... zlib1g-dev is already the newest version (1:1.2.11.dfsg-2ubuntu9.2). The following packages were automatically installed and are no longer required: gcc-10-base libclang-10-dev libclang-common-10-dev libclang1-10 libllvm10 libobjc-9-dev libstdc++-9-dev Use 'sudo apt autoremove' to remove them. 0 to upgrade, 0 to newly install, 0 to remove and 74 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: gcc-10-base libclang-10-dev libclang-common-10-dev libclang1-10 libllvm10 libobjc-9-dev libstdc++-9-dev Use 'sudo apt autoremove' to remove them. 0 to upgrade, 0 to newly install, 0 to remove and 74 not to upgrade. apt-get install -y libicu-dev apt-get install -y libcurl4-openssl-dev 0 0 apt-get install -y libssl-dev apt-get install -y libglpk-dev 0 0 apt-get install -y libgmp3-dev apt-get install -y libxml2-dev 0 0 apt-get install -y libpng-dev apt-get install -y python3 0 0 apt-get install -y make apt-get install -y zlib1g-dev 0 0 apt-get install -y pandoc 0 [ Finished: 2023-02-02 02:02:52 CET ]