[ Started: 2023-04-26 00:07:26 CEST ] [ CARNIVAL v2.7.2 for BioC-3.17 from https://github.com/saezlab/CARNIVAL@master ] Hit:1 http://de.archive.ubuntu.com/ubuntu jammy InRelease Get:2 http://de.archive.ubuntu.com/ubuntu jammy-updates InRelease [119 kB] Get:3 http://security.ubuntu.com/ubuntu jammy-security InRelease [110 kB] Get:4 http://de.archive.ubuntu.com/ubuntu jammy-backports InRelease [108 kB] Get:5 https://cloud.r-project.org/bin/linux/ubuntu jammy-cran40/ InRelease [3,626 B] Get:6 http://de.archive.ubuntu.com/ubuntu jammy-updates/main amd64 Packages [1,062 kB] Get:7 http://security.ubuntu.com/ubuntu jammy-security/main amd64 Packages [778 kB] Get:8 http://de.archive.ubuntu.com/ubuntu jammy-updates/main i386 Packages [484 kB] Get:9 http://de.archive.ubuntu.com/ubuntu jammy-updates/main Translation-en [220 kB] Get:10 http://de.archive.ubuntu.com/ubuntu jammy-updates/main amd64 DEP-11 Metadata [101 kB] Get:11 http://de.archive.ubuntu.com/ubuntu jammy-updates amd64 Contents (deb) [61.1 MB] Get:12 http://security.ubuntu.com/ubuntu jammy-security/main i386 Packages [289 kB] Get:13 http://security.ubuntu.com/ubuntu jammy-security/main Translation-en [153 kB] Get:14 http://security.ubuntu.com/ubuntu jammy-security/main amd64 DEP-11 Metadata [41.5 kB] Get:15 http://security.ubuntu.com/ubuntu jammy-security i386 Contents (deb) [26.4 MB] Get:16 http://security.ubuntu.com/ubuntu jammy-security amd64 Contents (deb) [54.3 MB] Get:17 http://security.ubuntu.com/ubuntu jammy-security/main amd64 c-n-f Metadata [9,024 B] Get:18 http://security.ubuntu.com/ubuntu jammy-security/restricted amd64 Packages [801 kB] Get:19 http://security.ubuntu.com/ubuntu jammy-security/restricted Translation-en [126 kB] Get:20 http://security.ubuntu.com/ubuntu jammy-security/universe amd64 Packages [724 kB] Get:21 http://security.ubuntu.com/ubuntu jammy-security/universe i386 Packages [521 kB] Get:22 http://security.ubuntu.com/ubuntu jammy-security/universe Translation-en [119 kB] Get:23 http://security.ubuntu.com/ubuntu jammy-security/universe amd64 DEP-11 Metadata [18.5 kB] Get:24 http://security.ubuntu.com/ubuntu jammy-security/universe amd64 c-n-f Metadata [14.2 kB] Get:25 http://security.ubuntu.com/ubuntu jammy-security/multiverse amd64 Packages [34.3 kB] Get:26 http://security.ubuntu.com/ubuntu jammy-security/multiverse Translation-en [6,464 B] Get:27 http://de.archive.ubuntu.com/ubuntu jammy-updates i386 Contents (deb) [30.0 MB] Get:28 http://de.archive.ubuntu.com/ubuntu jammy-updates/main amd64 c-n-f Metadata [14.1 kB] Get:29 http://de.archive.ubuntu.com/ubuntu jammy-updates/restricted amd64 Packages [873 kB] Get:30 http://de.archive.ubuntu.com/ubuntu jammy-updates/restricted Translation-en [137 kB] Get:31 http://de.archive.ubuntu.com/ubuntu jammy-updates/universe i386 Packages [609 kB] Get:32 http://de.archive.ubuntu.com/ubuntu jammy-updates/universe amd64 Packages [910 kB] Get:33 http://de.archive.ubuntu.com/ubuntu jammy-updates/universe Translation-en [182 kB] Get:34 http://de.archive.ubuntu.com/ubuntu jammy-updates/universe amd64 DEP-11 Metadata [269 kB] Get:35 http://de.archive.ubuntu.com/ubuntu jammy-updates/multiverse amd64 DEP-11 Metadata [940 B] Get:36 http://de.archive.ubuntu.com/ubuntu jammy-backports/main amd64 DEP-11 Metadata [7,988 B] Get:37 http://de.archive.ubuntu.com/ubuntu jammy-backports/universe amd64 DEP-11 Metadata [12.9 kB] Fetched 181 MB in 27s (6,713 kB/s) Reading package lists... [1] "Libraries: " "/home/omnipath/local/R/4.3-3.17" [3] "/home/omnipath/local/R/4.3" "/opt/R-devel/lib/R/library" 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 libllvm13 libobjc-9-dev libstdc++-9-dev Use 'sudo apt autoremove' to remove them. 0 to upgrade, 0 to newly install, 0 to remove and 59 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 libllvm13 libobjc-9-dev libstdc++-9-dev Use 'sudo apt autoremove' to remove them. 0 to upgrade, 0 to newly install, 0 to remove and 59 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 libllvm13 libobjc-9-dev libstdc++-9-dev Use 'sudo apt autoremove' to remove them. 0 to upgrade, 0 to newly install, 0 to remove and 59 not to upgrade. Reading package lists... Building dependency tree... Reading state information... libxml2-dev is already the newest version (2.9.13+dfsg-1ubuntu0.3). The following packages were automatically installed and are no longer required: gcc-10-base libclang-10-dev libclang-common-10-dev libclang1-10 libllvm10 libllvm13 libobjc-9-dev libstdc++-9-dev Use 'sudo apt autoremove' to remove them. 0 to upgrade, 0 to newly install, 0 to remove and 59 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 libllvm13 libobjc-9-dev libstdc++-9-dev Use 'sudo apt autoremove' to remove them. 0 to upgrade, 0 to newly install, 0 to remove and 59 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 libllvm13 libobjc-9-dev libstdc++-9-dev Use 'sudo apt autoremove' to remove them. 0 to upgrade, 0 to newly install, 0 to remove and 59 not to upgrade. Reading package lists... Building dependency tree... Reading state information... libcurl4-openssl-dev is already the newest version (7.81.0-1ubuntu1.10). The following packages were automatically installed and are no longer required: gcc-10-base libclang-10-dev libclang-common-10-dev libclang1-10 libllvm10 libllvm13 libobjc-9-dev libstdc++-9-dev Use 'sudo apt autoremove' to remove them. 0 to upgrade, 0 to newly install, 0 to remove and 59 not to upgrade. Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: gcc-10-base libclang-10-dev libclang-common-10-dev libclang1-10 libllvm10 libllvm13 libobjc-9-dev libstdc++-9-dev Use 'sudo apt autoremove' to remove them. The following additional packages will be installed: libssl3 libssl3:i386 Suggested packages: libssl-doc The following packages will be upgraded: libssl-dev libssl3 libssl3:i386 3 to upgrade, 0 to newly install, 0 to remove and 56 not to upgrade. Need to get 6,219 kB of archives. After this operation, 2,048 B of additional disk space will be used. Get:1 http://de.archive.ubuntu.com/ubuntu jammy-updates/main amd64 libssl-dev amd64 3.0.2-0ubuntu1.9 [2,373 kB] Get:2 http://de.archive.ubuntu.com/ubuntu jammy-updates/main i386 libssl3 i386 3.0.2-0ubuntu1.9 [1,943 kB] Get:3 http://de.archive.ubuntu.com/ubuntu jammy-updates/main amd64 libssl3 amd64 3.0.2-0ubuntu1.9 [1,902 kB] debconf: Unable to initialise frontend: Dialog debconf: (Dialogue frontend will not work on a dumb terminal, an Emacs shell buffer, or without a controlling terminal.) debconf: falling back to frontend: Readline debconf: Unable to initialise frontend: Readline debconf: (This frontend requires a controlling tty.) debconf: falling back to frontend: Teletype dpkg-preconfigure: Unable to re-open stdin: Fetched 6,219 kB in 1s (9,813 kB/s) (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 635209 files and directories currently installed.) Preparing to unpack .../libssl-dev_3.0.2-0ubuntu1.9_amd64.deb ... Unpacking libssl-dev:amd64 (3.0.2-0ubuntu1.9) over (3.0.2-0ubuntu1.8) ... Preparing to unpack .../libssl3_3.0.2-0ubuntu1.9_amd64.deb ... De-configuring libssl3:i386 (3.0.2-0ubuntu1.8), to allow configuration of libssl3:amd64 (3.0.2-0ubuntu1.8) ... Unpacking libssl3:amd64 (3.0.2-0ubuntu1.9) over (3.0.2-0ubuntu1.8) ... Preparing to unpack .../libssl3_3.0.2-0ubuntu1.9_i386.deb ... Unpacking libssl3:i386 (3.0.2-0ubuntu1.9) over (3.0.2-0ubuntu1.8) ... Setting up libssl3:amd64 (3.0.2-0ubuntu1.9) ... debconf: Unable to initialise frontend: Dialog debconf: (Dialogue frontend will not work on a dumb terminal, an Emacs shell buffer, or without a controlling terminal.) debconf: falling back to frontend: Readline Setting up libssl3:i386 (3.0.2-0ubuntu1.9) ... debconf: Unable to initialise frontend: Dialog debconf: (Dialogue frontend will not work on a dumb terminal, an Emacs shell buffer, or without a controlling terminal.) debconf: falling back to frontend: Readline Setting up libssl-dev:amd64 (3.0.2-0ubuntu1.9) ... Processing triggers for libc-bin (2.35-0ubuntu3.1) ... apt-get install -y libicu-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 make apt-get install -y pandoc 0 0 apt-get install -y libcurl4-openssl-dev apt-get install -y libssl-dev 0 0 [ Finished: 2023-04-26 00:08:20 CEST ]