starting phase `set-SOURCE-DATE-EPOCH' phase `set-SOURCE-DATE-EPOCH' succeeded after 0.0 seconds starting phase `set-paths' environment variable `PATH' set to `/gnu/store/7nxvcm0jk30ipzbbw3k7rbljymmsqpkp-r-minimal-4.0.4/bin:/gnu/store/gww59gv5qxbfijg3vk5y182im7923s06-tar-1.32/bin:/gnu/store/2ayciqwxddkzq183dac82ijljc14j4zj-gzip-1.10/bin:/gnu/store/n1jk0w2wa4vpwmixaqn2y3la1l2sizzi-bzip2-1.0.8/bin:/gnu/store/7p36raqgk6vn47bflxc9bsclqiib3phi-xz-5.2.4/bin:/gnu/store/lpkf3ydcdvxn8gcrzaq9cp3ri05h8qhs-file-5.38/bin:/gnu/store/6gqaw09zqw8w0vcax6simlq71bq7l5r0-diffutils-3.7/bin:/gnu/store/qw20chpgkgbcqmzhs60c8hjl1hmblyc8-patch-2.7.6/bin:/gnu/store/b5y5scfmh2d8kxcpl9p84294z2198cgf-findutils-4.7.0/bin:/gnu/store/9iwlsj7d6ffqhshy8qshf7p4fqwfwrvn-gawk-5.0.1/bin:/gnu/store/q1nfjb24vqjs1cgi8mlnskw34h16y09r-sed-4.8/bin:/gnu/store/4qr6mcvsxyzknxa7x1wny8x30f5i0r3n-grep-3.4/bin:/gnu/store/2v61vg0bizgrhybkqbrki2k7kr094waz-coreutils-8.32/bin:/gnu/store/b7jbh7kzzig0bxfswdj8nfj9bkljyyya-make-4.3/bin:/gnu/store/v1g7f3p4f0851mywrla8qmr9hb8jgfjr-bash-minimal-5.0.16/bin:/gnu/store/dyqxnydqk1810afjfbqzfvh0n83xyl62-ld-wrapper-0/bin:/gnu/store/50lyzn9bz6x4da66648kry29wn8afird-binutils-2.34/bin:/gnu/store/afpgzln8860m6yfhxy6i8n9rywbp85cy-gcc-7.5.0/bin:/gnu/store/z4li262il798hbl0l1h1k3a5g7r6bffa-glibc-2.31/bin:/gnu/store/z4li262il798hbl0l1h1k3a5g7r6bffa-glibc-2.31/sbin' environment variable `R_LIBS_SITE' set to `/gnu/store/8dsrxl0v44l4p6y4ir66vgx5ynrbf6a9-r-knitr-1.33/site-library/:/gnu/store/78jp6nabbhw5jdwqy9rvq02mgniwp09p-r-yaml-2.2.1/site-library/:/gnu/store/grqy61c7v0nsq0ggh6r32s8wmvrbz1km-r-xfun-0.22/site-library/:/gnu/store/sr84ba6q3lw6yxbbh1nakl9gwn9r4ww5-r-stringr-1.4.0/site-library/:/gnu/store/0bj1n4ra7ndgszgc241hqa9xb0k8aakc-r-markdown-1.1/site-library/:/gnu/store/jx0bi0aqhpahijr088i6xsh9v9y353yk-r-highr-0.9/site-library/:/gnu/store/qmwb2r96wr52v7zny0rqzrz1z1p31ard-r-evaluate-0.14/site-library/:/gnu/store/gdjvngsf0ld256wrw6qzdilyxmv968q6-r-stringi-1.5.3/site-library/:/gnu/store/j2dl7sh5w69695f2dyma0jvck6jhcm5c-r-magrittr-2.0.1/site-library/:/gnu/store/2agxp2mzwcbdgd6cmq73l3xy8awf68qy-r-glue-1.4.2/site-library/:/gnu/store/wqz1g46xfkqcp16al79p3hvk9ingqvmg-r-mime-0.10/site-library/' environment variable `BASH_LOADABLES_PATH' unset environment variable `C_INCLUDE_PATH' set to `/gnu/store/n1jk0w2wa4vpwmixaqn2y3la1l2sizzi-bzip2-1.0.8/include:/gnu/store/7p36raqgk6vn47bflxc9bsclqiib3phi-xz-5.2.4/include:/gnu/store/lpkf3ydcdvxn8gcrzaq9cp3ri05h8qhs-file-5.38/include:/gnu/store/9iwlsj7d6ffqhshy8qshf7p4fqwfwrvn-gawk-5.0.1/include:/gnu/store/b7jbh7kzzig0bxfswdj8nfj9bkljyyya-make-4.3/include:/gnu/store/50lyzn9bz6x4da66648kry29wn8afird-binutils-2.34/include:/gnu/store/afpgzln8860m6yfhxy6i8n9rywbp85cy-gcc-7.5.0/include:/gnu/store/z4li262il798hbl0l1h1k3a5g7r6bffa-glibc-2.31/include:/gnu/store/hk7l42fwxmnrnlhyiixvaqf1i1crcckp-linux-libre-headers-5.4.20/include' environment variable `CPLUS_INCLUDE_PATH' set to `/gnu/store/n1jk0w2wa4vpwmixaqn2y3la1l2sizzi-bzip2-1.0.8/include:/gnu/store/7p36raqgk6vn47bflxc9bsclqiib3phi-xz-5.2.4/include:/gnu/store/lpkf3ydcdvxn8gcrzaq9cp3ri05h8qhs-file-5.38/include:/gnu/store/9iwlsj7d6ffqhshy8qshf7p4fqwfwrvn-gawk-5.0.1/include:/gnu/store/b7jbh7kzzig0bxfswdj8nfj9bkljyyya-make-4.3/include:/gnu/store/50lyzn9bz6x4da66648kry29wn8afird-binutils-2.34/include:/gnu/store/afpgzln8860m6yfhxy6i8n9rywbp85cy-gcc-7.5.0/include/c++:/gnu/store/afpgzln8860m6yfhxy6i8n9rywbp85cy-gcc-7.5.0/include:/gnu/store/z4li262il798hbl0l1h1k3a5g7r6bffa-glibc-2.31/include:/gnu/store/hk7l42fwxmnrnlhyiixvaqf1i1crcckp-linux-libre-headers-5.4.20/include' environment variable `LIBRARY_PATH' set to `/gnu/store/7nxvcm0jk30ipzbbw3k7rbljymmsqpkp-r-minimal-4.0.4/lib:/gnu/store/n1jk0w2wa4vpwmixaqn2y3la1l2sizzi-bzip2-1.0.8/lib:/gnu/store/7p36raqgk6vn47bflxc9bsclqiib3phi-xz-5.2.4/lib:/gnu/store/lpkf3ydcdvxn8gcrzaq9cp3ri05h8qhs-file-5.38/lib:/gnu/store/9iwlsj7d6ffqhshy8qshf7p4fqwfwrvn-gawk-5.0.1/lib:/gnu/store/50lyzn9bz6x4da66648kry29wn8afird-binutils-2.34/lib:/gnu/store/z4li262il798hbl0l1h1k3a5g7r6bffa-glibc-2.31/lib:/gnu/store/rzk3v28mhi4m7sh0qippp9a5rzy03rkg-glibc-2.31-static/lib:/gnu/store/x6i3vfg4gaqd42cqb6mzk52v4lds1467-glibc-utf8-locales-2.31/lib' environment variable `GUIX_LOCPATH' set to `/gnu/store/x6i3vfg4gaqd42cqb6mzk52v4lds1467-glibc-utf8-locales-2.31/lib/locale' phase `set-paths' succeeded after 0.0 seconds starting phase `install-locale' using 'en_US.utf8' locale for category "LC_ALL" phase `install-locale' succeeded after 0.0 seconds starting phase `unpack' BiocManager/ BiocManager/NAMESPACE BiocManager/README.md BiocManager/man/ BiocManager/man/install.Rd BiocManager/man/repositories.Rd BiocManager/man/BiocManager-pkg.Rd BiocManager/man/version.Rd BiocManager/man/available.Rd BiocManager/man/valid.Rd BiocManager/DESCRIPTION BiocManager/build/ BiocManager/build/vignette.rds BiocManager/tests/ BiocManager/tests/testthat/ BiocManager/tests/testthat/test_inet.R BiocManager/tests/testthat/test_version.R BiocManager/tests/testthat/test_install.R BiocManager/tests/testthat/test_valid.R BiocManager/tests/testthat/test_repositories.R BiocManager/tests/testthat.R BiocManager/vignettes/ BiocManager/vignettes/BiocManager.Rmd BiocManager/NEWS BiocManager/R/ BiocManager/R/repositories.R BiocManager/R/zzz.R BiocManager/R/install.R BiocManager/R/available.R BiocManager/R/BiocManager-pkg.R BiocManager/R/utilities.R BiocManager/R/valid.R BiocManager/R/version.R BiocManager/R/inet.R BiocManager/MD5 BiocManager/inst/ BiocManager/inst/doc/ BiocManager/inst/doc/BiocManager.R BiocManager/inst/doc/BiocManager.Rmd BiocManager/inst/doc/BiocManager.html phase `unpack' succeeded after 2.5 seconds starting phase `patch-usr-bin-file' phase `patch-usr-bin-file' succeeded after 0.0 seconds starting phase `patch-source-shebangs' phase `patch-source-shebangs' succeeded after 0.0 seconds starting phase `patch-generated-file-shebangs' phase `patch-generated-file-shebangs' succeeded after 0.0 seconds starting phase `install' * installing *source* package ‘BiocManager’ ... ** package ‘BiocManager’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** tests ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location Warning in file(con, "r") : URL 'https://bioconductor.org/config.yaml': status was 'Couldn't resolve host name' Warning in file(con, "r") : URL 'http://bioconductor.org/config.yaml': status was 'Couldn't resolve host name' ** testing if installed package can be loaded from final location Warning in file(con, "r") : URL 'https://bioconductor.org/config.yaml': status was 'Couldn't resolve host name' Warning in file(con, "r") : URL 'http://bioconductor.org/config.yaml': status was 'Couldn't resolve host name' ** testing if installed package keeps a record of temporary installation path * DONE (BiocManager) phase `install' succeeded after 3.1 seconds starting phase `check' Testing examples for package ‘BiocManager’ phase `check' succeeded after 1.0 seconds starting phase `patch-shebangs' phase `patch-shebangs' succeeded after 0.0 seconds starting phase `strip' phase `strip' succeeded after 0.0 seconds starting phase `validate-runpath' phase `validate-runpath' succeeded after 0.0 seconds starting phase `validate-documentation-location' phase `validate-documentation-location' succeeded after 0.0 seconds starting phase `delete-info-dir-file' phase `delete-info-dir-file' succeeded after 0.0 seconds starting phase `patch-dot-desktop-files' phase `patch-dot-desktop-files' succeeded after 0.0 seconds starting phase `install-license-files' installing 0 license files from '.' phase `install-license-files' succeeded after 0.0 seconds starting phase `reset-gzip-timestamps' phase `reset-gzip-timestamps' succeeded after 0.0 seconds starting phase `compress-documentation' phase `compress-documentation' succeeded after 0.0 seconds