[ Started: 2022-11-20 01:05:50 CET ] [ cosmosR v1.5.1 for BioC-3.17 from https://github.com/saezlab/cosmosR@master ] Hit:1 https://cloud.r-project.org/bin/linux/ubuntu focal-cran40/ InRelease Hit:2 http://de.archive.ubuntu.com/ubuntu focal InRelease Hit:3 http://ppa.launchpad.net/deadsnakes/ppa/ubuntu focal InRelease Hit:4 http://de.archive.ubuntu.com/ubuntu focal-backports InRelease Get:5 http://de.archive.ubuntu.com/ubuntu focal-updates InRelease [114 kB] Get:6 http://security.ubuntu.com/ubuntu focal-security InRelease [114 kB] Get:7 http://de.archive.ubuntu.com/ubuntu focal-updates/main i386 Packages [753 kB] Get:8 http://de.archive.ubuntu.com/ubuntu focal-updates/main amd64 Packages [2,233 kB] Get:9 http://de.archive.ubuntu.com/ubuntu focal-updates/main Translation-en [389 kB] Get:10 http://de.archive.ubuntu.com/ubuntu focal-updates/main amd64 DEP-11 Metadata [275 kB] Get:11 http://security.ubuntu.com/ubuntu focal-security/main amd64 Packages [1,859 kB] Get:12 http://security.ubuntu.com/ubuntu focal-security/main Translation-en [305 kB] Get:13 http://security.ubuntu.com/ubuntu focal-security/main amd64 DEP-11 Metadata [40.7 kB] Get:14 http://security.ubuntu.com/ubuntu focal-security i386 Contents (deb) [60.3 MB] Get:15 http://de.archive.ubuntu.com/ubuntu focal-updates amd64 Contents (deb) [155 MB] Get:16 http://security.ubuntu.com/ubuntu focal-security amd64 Contents (deb) [143 MB] Get:17 http://security.ubuntu.com/ubuntu focal-security/universe amd64 DEP-11 Metadata [94.0 kB] Get:18 http://security.ubuntu.com/ubuntu focal-security/multiverse amd64 DEP-11 Metadata [940 B] Get:19 http://de.archive.ubuntu.com/ubuntu focal-updates i386 Contents (deb) [66.7 MB] Get:20 http://de.archive.ubuntu.com/ubuntu focal-updates/restricted amd64 Packages [1,424 kB] Get:21 http://de.archive.ubuntu.com/ubuntu focal-updates/restricted Translation-en [202 kB] Get:22 http://de.archive.ubuntu.com/ubuntu focal-updates/universe amd64 Packages [999 kB] Get:23 http://de.archive.ubuntu.com/ubuntu focal-updates/universe i386 Packages [702 kB] Get:24 http://de.archive.ubuntu.com/ubuntu focal-updates/universe amd64 DEP-11 Metadata [406 kB] Get:25 http://de.archive.ubuntu.com/ubuntu focal-updates/multiverse amd64 DEP-11 Metadata [940 B] Ign:15 http://de.archive.ubuntu.com/ubuntu focal-updates amd64 Contents (deb) Ign:15 http://de.archive.ubuntu.com/ubuntu focal-updates amd64 Contents (deb) Err:15 http://de.archive.ubuntu.com/ubuntu focal-updates amd64 Contents (deb) Write error - write (28: No space left on device) LZ4F: /var/lib/apt/lists/partial/de.archive.ubuntu.com_ubuntu_dists_focal-updates_Contents-amd64.lz4 Write error (6410: Unspecified error code) Ign:16 http://security.ubuntu.com/ubuntu focal-security amd64 Contents (deb) Ign:16 http://security.ubuntu.com/ubuntu focal-security amd64 Contents (deb) Err:16 http://security.ubuntu.com/ubuntu focal-security amd64 Contents (deb) Write error - write (28: No space left on device) LZ4F: /var/lib/apt/lists/partial/security.ubuntu.com_ubuntu_dists_focal-security_Contents-amd64.lz4 Write error (6644: Unspecified error code) Fetched 228 kB in 39s (5,795 B/s) Reading package lists... E: Failed to fetch http://de.archive.ubuntu.com/ubuntu/dists/focal-updates/Contents-amd64 Write error - write (28: No space left on device) LZ4F: /var/lib/apt/lists/partial/de.archive.ubuntu.com_ubuntu_dists_focal-updates_Contents-amd64.lz4 Write error (6410: Unspecified error code) E: Failed to fetch http://security.ubuntu.com/ubuntu/dists/focal-security/Contents-amd64 Write error - write (28: No space left on device) LZ4F: /var/lib/apt/lists/partial/security.ubuntu.com_ubuntu_dists_focal-security_Contents-amd64.lz4 Write error (6644: Unspecified error code) E: Some index files failed to download. They have been ignored, or old ones used instead. [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... libglpk-dev is already the newest version (4.65-2). 0 to upgrade, 0 to newly install, 0 to remove and 20 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 20 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 20 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 20 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 20 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 20 not to upgrade. apt-get install -y libglpk-dev apt-get install -y libgmp3-dev 0 0 apt-get install -y libxml2-dev apt-get install -y libicu-dev 0 0 apt-get install -y make apt-get install -y pandoc 0 0 [ Finished: 2022-11-20 01:06:35 CET ]