[ Started: 2023-02-28 01:00:05 CET ] [ 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://de.archive.ubuntu.com/ubuntu jammy-backports InRelease [107 kB] Get:4 http://security.ubuntu.com/ubuntu jammy-security InRelease [110 kB] Get:5 http://de.archive.ubuntu.com/ubuntu jammy-updates/main amd64 Packages [899 kB] Get:6 http://de.archive.ubuntu.com/ubuntu jammy-updates/main i386 Packages [442 kB] Get:7 http://de.archive.ubuntu.com/ubuntu jammy-updates/main amd64 DEP-11 Metadata [101 kB] Get:8 http://de.archive.ubuntu.com/ubuntu jammy-updates i386 Contents (deb) [24.2 MB] Get:9 http://security.ubuntu.com/ubuntu jammy-security/main i386 Packages [258 kB] Get:10 http://security.ubuntu.com/ubuntu jammy-security/main amd64 Packages [645 kB] Get:11 http://security.ubuntu.com/ubuntu jammy-security/main Translation-en [135 kB] Get:12 http://security.ubuntu.com/ubuntu jammy-security/main amd64 DEP-11 Metadata [41.5 kB] Get:13 http://security.ubuntu.com/ubuntu jammy-security i386 Contents (deb) [21.0 MB] Get:14 http://de.archive.ubuntu.com/ubuntu jammy-updates amd64 Contents (deb) [48.1 MB] Get:15 http://security.ubuntu.com/ubuntu jammy-security amd64 Contents (deb) [42.4 MB] Get:16 http://security.ubuntu.com/ubuntu jammy-security/main amd64 c-n-f Metadata [8,500 B] Get:17 http://security.ubuntu.com/ubuntu jammy-security/universe i386 Packages [501 kB] Get:18 http://security.ubuntu.com/ubuntu jammy-security/universe amd64 Packages [685 kB] Get:19 http://security.ubuntu.com/ubuntu jammy-security/universe Translation-en [108 kB] Get:20 http://security.ubuntu.com/ubuntu jammy-security/universe amd64 DEP-11 Metadata [16.1 kB] Get:21 http://security.ubuntu.com/ubuntu jammy-security/universe DEP-11 48x48 Icons [13.9 kB] Get:22 http://security.ubuntu.com/ubuntu jammy-security/universe DEP-11 64x64 Icons [23.0 kB] Get:23 http://security.ubuntu.com/ubuntu jammy-security/universe amd64 c-n-f Metadata [13.2 kB] Get:24 http://de.archive.ubuntu.com/ubuntu jammy-updates/main amd64 c-n-f Metadata [13.5 kB] Get:25 http://de.archive.ubuntu.com/ubuntu jammy-updates/universe amd64 Packages [862 kB] Get:26 http://de.archive.ubuntu.com/ubuntu jammy-updates/universe i386 Packages [587 kB] Get:27 http://de.archive.ubuntu.com/ubuntu jammy-updates/universe Translation-en [167 kB] Get:28 http://de.archive.ubuntu.com/ubuntu jammy-updates/universe amd64 DEP-11 Metadata [268 kB] Get:29 http://de.archive.ubuntu.com/ubuntu jammy-updates/universe DEP-11 48x48 Icons [171 kB] Get:30 http://de.archive.ubuntu.com/ubuntu jammy-updates/universe DEP-11 64x64 Icons [259 kB] Get:31 http://de.archive.ubuntu.com/ubuntu jammy-updates/universe amd64 c-n-f Metadata [17.4 kB] Get:32 http://de.archive.ubuntu.com/ubuntu jammy-updates/multiverse amd64 DEP-11 Metadata [940 B] Get:33 http://de.archive.ubuntu.com/ubuntu jammy-backports/main amd64 DEP-11 Metadata [7,992 B] Get:34 http://de.archive.ubuntu.com/ubuntu jammy-backports/universe i386 Packages [10.7 kB] Get:35 http://de.archive.ubuntu.com/ubuntu jammy-backports/universe amd64 Packages [19.5 kB] Get:36 http://de.archive.ubuntu.com/ubuntu jammy-backports/universe Translation-en [14.0 kB] Get:37 http://de.archive.ubuntu.com/ubuntu jammy-backports/universe amd64 DEP-11 Metadata [12.5 kB] Get:38 http://de.archive.ubuntu.com/ubuntu jammy-backports/universe amd64 c-n-f Metadata [392 B] Fetched 142 MB in 23s (6,276 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 98 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 98 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 98 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 98 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 98 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 98 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 libobjc-9-dev libstdc++-9-dev Use 'sudo apt autoremove' to remove them. The following additional packages will be installed: curl libcurl4 Suggested packages: libcurl4-doc libidn11-dev libkrb5-dev libldap2-dev librtmp-dev The following packages will be upgraded: curl libcurl4 libcurl4-openssl-dev 3 to upgrade, 0 to newly install, 0 to remove and 95 not to upgrade. Need to get 869 kB of archives. After this operation, 5,120 B of additional disk space will be used. Get:1 http://de.archive.ubuntu.com/ubuntu jammy-updates/main amd64 libcurl4-openssl-dev amd64 7.81.0-1ubuntu1.8 [386 kB] Get:2 http://de.archive.ubuntu.com/ubuntu jammy-updates/main amd64 curl amd64 7.81.0-1ubuntu1.8 [194 kB] Get:3 http://de.archive.ubuntu.com/ubuntu jammy-updates/main amd64 libcurl4 amd64 7.81.0-1ubuntu1.8 [290 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 869 kB in 0s (4,850 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 ... 635017 files and directories currently installed.) Preparing to unpack .../libcurl4-openssl-dev_7.81.0-1ubuntu1.8_amd64.deb ... Unpacking libcurl4-openssl-dev:amd64 (7.81.0-1ubuntu1.8) over (7.81.0-1ubuntu1.7) ... Preparing to unpack .../curl_7.81.0-1ubuntu1.8_amd64.deb ... Unpacking curl (7.81.0-1ubuntu1.8) over (7.81.0-1ubuntu1.7) ... Preparing to unpack .../libcurl4_7.81.0-1ubuntu1.8_amd64.deb ... Unpacking libcurl4:amd64 (7.81.0-1ubuntu1.8) over (7.81.0-1ubuntu1.7) ... Setting up libcurl4:amd64 (7.81.0-1ubuntu1.8) ... Setting up curl (7.81.0-1ubuntu1.8) ... Setting up libcurl4-openssl-dev:amd64 (7.81.0-1ubuntu1.8) ... Processing triggers for man-db (2.10.2-1) ... Processing triggers for libc-bin (2.35-0ubuntu3.1) ... Reading package lists... Building dependency tree... Reading state information... libssl-dev is already the newest version (3.0.2-0ubuntu1.8). 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 95 not to upgrade. 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: 2023-02-28 01:00:49 CET ]