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/fpxfr4pxli6p3fx646agfln7hqy04l7r-r-minimal-4.1.2/bin:/gnu/store/hqysqhh80g7qy8287b8p2gwz0379vh50-tar-1.34/bin:/gnu/store/8rvnivj15gmirawhikgbjaang5b4w779-gzip-1.10/bin:/gnu/store/64zk0izmaframq6cd0xlsmk0rxn3zc52-bzip2-1.0.8/bin:/gnu/store/z6bw81zw5b5jm3p02y906p0wnjbjqa7n-xz-5.2.5/bin:/gnu/store/jfmrxybjkd0nvh1n34hbzv0lwsnmxz1v-file-5.39/bin:/gnu/store/49j4cjqc8sckyh4qhf9j9dmc6anc8wk9-diffutils-3.8/bin:/gnu/store/znjj5y98lvi46fll85qg22ngz966gx1d-patch-2.7.6/bin:/gnu/store/yq3xalg1p2p5p5hfpw4v5jx0v86qw45w-findutils-4.8.0/bin:/gnu/store/bgyr8c7bl1sqhpapm2kghiya0k6zvi51-gawk-5.1.0/bin:/gnu/store/dsldg7i4y6hxdknh7cv93rbxbp17xm93-sed-4.8/bin:/gnu/store/4znchc8whjbs50mvxgc0skmkvyhy9xk1-grep-3.6/bin:/gnu/store/wllq3y3sl5bldm9vsx2fcwhcmks4i9ar-coreutils-8.32/bin:/gnu/store/zyhbjfyqh10yiw1dw1x1i7n70jm9ygdn-make-4.3/bin:/gnu/store/2an4h5ndc22dv62q3l985ciq862q4bj7-bash-minimal-5.1.8/bin:/gnu/store/g58zxpycy64m790vwjlzpadmbn065fia-ld-wrapper-0/bin:/gnu/store/cr38d3gvf52ckns2b01lwgw86hk3mvcc-binutils-2.37/bin:/gnu/store/h88kd46c8br0wc4i6hq19cjby081ina4-gcc-10.3.0/bin:/gnu/store/mjdjgiz9k5rrbj440r16z6p5g33nr7d7-glibc-2.33/bin:/gnu/store/mjdjgiz9k5rrbj440r16z6p5g33nr7d7-glibc-2.33/sbin'
environment variable `R_LIBS_SITE' set to `/gnu/store/a5ms2xqsialxlxx84qqqrlbzifm29z0d-r-evaluate-0.14/site-library/:/gnu/store/kqxwskrp6ibs25c97rg9fkdmprjjjm6b-r-highr-0.9/site-library/:/gnu/store/xsp9rs2dryj4p37r9kp81y2fyfx6jczb-r-stringr-1.4.0/site-library/:/gnu/store/qdvq4f6n1q469054glyihsggyamx4z0z-r-xfun-0.29/site-library/:/gnu/store/g318xp0lbn7mvcbjbdjzshiz0s18pq4q-r-yaml-2.2.1/site-library/:/gnu/store/3926n38rv4wy355n8xxi4kf8s4im0dj0-r-stringi-1.7.6/site-library/:/gnu/store/fd4abysk2s9q3p76ab16rl402fccqxis-r-magrittr-2.0.1/site-library/:/gnu/store/n8p7yv81vwcddgba17ayrw3d7fkc5c5k-r-glue-1.6.0/site-library/'
environment variable `BASH_LOADABLES_PATH' unset
environment variable `C_INCLUDE_PATH' set to `/gnu/store/64zk0izmaframq6cd0xlsmk0rxn3zc52-bzip2-1.0.8/include:/gnu/store/z6bw81zw5b5jm3p02y906p0wnjbjqa7n-xz-5.2.5/include:/gnu/store/jfmrxybjkd0nvh1n34hbzv0lwsnmxz1v-file-5.39/include:/gnu/store/bgyr8c7bl1sqhpapm2kghiya0k6zvi51-gawk-5.1.0/include:/gnu/store/zyhbjfyqh10yiw1dw1x1i7n70jm9ygdn-make-4.3/include:/gnu/store/cr38d3gvf52ckns2b01lwgw86hk3mvcc-binutils-2.37/include:/gnu/store/h88kd46c8br0wc4i6hq19cjby081ina4-gcc-10.3.0/include:/gnu/store/mjdjgiz9k5rrbj440r16z6p5g33nr7d7-glibc-2.33/include:/gnu/store/k8xlwnnmhgmvzyxxfjq3z3fci73zx7x9-linux-libre-headers-5.10.35/include'
environment variable `CPLUS_INCLUDE_PATH' set to `/gnu/store/64zk0izmaframq6cd0xlsmk0rxn3zc52-bzip2-1.0.8/include:/gnu/store/z6bw81zw5b5jm3p02y906p0wnjbjqa7n-xz-5.2.5/include:/gnu/store/jfmrxybjkd0nvh1n34hbzv0lwsnmxz1v-file-5.39/include:/gnu/store/bgyr8c7bl1sqhpapm2kghiya0k6zvi51-gawk-5.1.0/include:/gnu/store/zyhbjfyqh10yiw1dw1x1i7n70jm9ygdn-make-4.3/include:/gnu/store/cr38d3gvf52ckns2b01lwgw86hk3mvcc-binutils-2.37/include:/gnu/store/h88kd46c8br0wc4i6hq19cjby081ina4-gcc-10.3.0/include/c++:/gnu/store/h88kd46c8br0wc4i6hq19cjby081ina4-gcc-10.3.0/include:/gnu/store/mjdjgiz9k5rrbj440r16z6p5g33nr7d7-glibc-2.33/include:/gnu/store/k8xlwnnmhgmvzyxxfjq3z3fci73zx7x9-linux-libre-headers-5.10.35/include'
environment variable `LIBRARY_PATH' set to `/gnu/store/fpxfr4pxli6p3fx646agfln7hqy04l7r-r-minimal-4.1.2/lib:/gnu/store/64zk0izmaframq6cd0xlsmk0rxn3zc52-bzip2-1.0.8/lib:/gnu/store/z6bw81zw5b5jm3p02y906p0wnjbjqa7n-xz-5.2.5/lib:/gnu/store/jfmrxybjkd0nvh1n34hbzv0lwsnmxz1v-file-5.39/lib:/gnu/store/bgyr8c7bl1sqhpapm2kghiya0k6zvi51-gawk-5.1.0/lib:/gnu/store/cr38d3gvf52ckns2b01lwgw86hk3mvcc-binutils-2.37/lib:/gnu/store/mjdjgiz9k5rrbj440r16z6p5g33nr7d7-glibc-2.33/lib:/gnu/store/88bdm10sayqjnggrxlbdmk3rv1qqdrvl-glibc-2.33-static/lib:/gnu/store/y4x3whxg8i1p9w9vy67lz3cw8xfil8bh-glibc-utf8-locales-2.33/lib'
environment variable `GUIX_LOCPATH' set to `/gnu/store/y4x3whxg8i1p9w9vy67lz3cw8xfil8bh-glibc-utf8-locales-2.33/lib/locale'
phase `set-paths' succeeded after 0.0 seconds
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using 'en_US.utf8' locale for category "LC_ALL"
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knitr/
knitr/NAMESPACE
knitr/demo/
knitr/demo/gwidgets.R
knitr/demo/notebook.R
knitr/demo/00Index
knitr/.Rinstignore
knitr/man/
knitr/man/engine_output.Rd
knitr/man/stitch.Rd
knitr/man/read_rforge.Rd
knitr/man/knit_params.Rd
knitr/man/include_url.Rd
knitr/man/inline_expr.Rd
knitr/man/knitr-package.Rd
knitr/man/set_header.Rd
knitr/man/dep_auto.Rd
knitr/man/opts_hooks.Rd
knitr/man/vignette_engines.Rd
knitr/man/hook_plot.Rd
knitr/man/current_input.Rd
knitr/man/write_bib.Rd
knitr/man/rst2pdf.Rd
knitr/man/knit_global.Rd
knitr/man/knit2wp.Rd
knitr/man/knit_watch.Rd
knitr/man/knit_patterns.Rd
knitr/man/all_patterns.Rd
knitr/man/is_low_change.Rd
knitr/man/asis_output.Rd
knitr/man/pandoc.Rd
knitr/man/opts_template.Rd
knitr/man/hook_animation.Rd
knitr/man/raw_output.Rd
knitr/man/dep_prev.Rd
knitr/man/all_labels.Rd
knitr/man/knit_code.Rd
knitr/man/set_alias.Rd
knitr/man/raw_block.Rd
knitr/man/image_uri.Rd
knitr/man/kable.Rd
knitr/man/spin_child.Rd
knitr/man/knit_filter.Rd
knitr/man/knit_theme.Rd
knitr/man/knit_rd.Rd
knitr/man/combine_words.Rd
knitr/man/hook_document.Rd
knitr/man/rand_seed.Rd
knitr/man/sew.Rd
knitr/man/rocco.Rd
knitr/man/imgur_upload.Rd
knitr/man/Sweave2knitr.Rd
knitr/man/opts_knit.Rd
knitr/man/knit_params_yaml.Rd
knitr/man/knit_child.Rd
knitr/man/knit_print.Rd
knitr/man/wrap_rmd.Rd
knitr/man/fig_path.Rd
knitr/man/opts_chunk.Rd
knitr/man/fig_chunk.Rd
knitr/man/plot_crop.Rd
knitr/man/output_type.Rd
knitr/man/knit_engines.Rd
knitr/man/knit_expand.Rd
knitr/man/load_cache.Rd
knitr/man/set_parent.Rd
knitr/man/knit2pandoc.Rd
knitr/man/chunk_hook.Rd
knitr/man/knit_hooks.Rd
knitr/man/spin.Rd
knitr/man/read_chunk.Rd
knitr/man/knit_meta.Rd
knitr/man/clean_cache.Rd
knitr/man/knit2html.Rd
knitr/man/pat_fun.Rd
knitr/man/include_graphics.Rd
knitr/man/knit2pdf.Rd
knitr/man/cache_engines.Rd
knitr/man/knit_exit.Rd
knitr/man/output_hooks.Rd
knitr/man/knit.Rd
knitr/DESCRIPTION
knitr/build/
knitr/build/vignette.rds
knitr/tests/
knitr/tests/run-all.R
knitr/tests/testit/
knitr/tests/testit/test-table.R
knitr/tests/testit/test-tangle.R
knitr/tests/testit/knit-tikzDevice.Rnw
knitr/tests/testit/test-envir.R
knitr/tests/testit/acid.style
knitr/tests/testit/test-block.R
knitr/tests/testit/test-params.R
knitr/tests/testit/test-patterns.R
knitr/tests/testit/test-spin.R
knitr/tests/testit/test-citation.R
knitr/tests/testit/test-parser.R
knitr/tests/testit/test-closure.R
knitr/tests/testit/test-plot.R
knitr/tests/testit/test-sql.R
knitr/tests/testit/test-utils.R
knitr/tests/testit/test-themes.R
knitr/tests/testit/test-cache.R
knitr/tests/testit/test-output.R
knitr/tests/testit/test-templates.R
knitr/tests/testit/test-hooks-md.R
knitr/tests/testit/knit-envir.Rmd
knitr/vignettes/
knitr/vignettes/knit_print.Rmd
knitr/vignettes/docco-linear.Rmd
knitr/vignettes/datatables.Rmd
knitr/vignettes/knitr-refcard.Rmd
knitr/vignettes/knitr-markdown.Rmd
knitr/vignettes/docco-classic.Rmd
knitr/vignettes/assets/
knitr/vignettes/assets/template-refcard.tex
knitr/vignettes/knitr-html.Rhtml
knitr/vignettes/knit_expand.Rmd
knitr/vignettes/knitr-intro.Rmd
knitr/R/
knitr/R/hooks-asciidoc.R
knitr/R/hooks-rst.R
knitr/R/utils-sweave.R
knitr/R/hooks-latex.R
knitr/R/template.R
knitr/R/utils.R
knitr/R/zzz.R
knitr/R/pandoc.R
knitr/R/table.R
knitr/R/engine.R
knitr/R/hooks-html.R
knitr/R/utils-conversion.R
knitr/R/parser.R
knitr/R/concordance.R
knitr/R/hooks-chunk.R
knitr/R/params.R
knitr/R/hooks-extra.R
knitr/R/hooks.R
knitr/R/spin.R
knitr/R/hooks-md.R
knitr/R/utils-upload.R
knitr/R/defaults.R
knitr/R/block.R
knitr/R/rocco.R
knitr/R/hooks-textile.R
knitr/R/plot.R
knitr/R/cache.R
knitr/R/pattern.R
knitr/R/highlight.R
knitr/R/utils-vignettes.R
knitr/R/utils-rd2html.R
knitr/R/header.R
knitr/R/package.R
knitr/R/citation.R
knitr/R/output.R
knitr/R/themes.R
knitr/MD5
knitr/inst/
knitr/inst/opencpu/
knitr/inst/opencpu/apps/
knitr/inst/opencpu/apps/index.html
knitr/inst/examples/
knitr/inst/examples/upload-github.R
knitr/inst/examples/knitr-subfloats.Rnw
knitr/inst/examples/knitr-minimal.Rnw
knitr/inst/examples/knitr-twocolumn.lyx
knitr/inst/examples/knitr-minimal.lyx
knitr/inst/examples/knitr-manual.Rnw
knitr/inst/examples/knitr-themes.lyx
knitr/inst/examples/knitr-listings.lyx
knitr/inst/examples/knitr-minimal.brew
knitr/inst/examples/knitr-minimal.Rmd
knitr/inst/examples/knitr-graphics.lyx
knitr/inst/examples/knitr-packages.bib
knitr/inst/examples/knitr-latex.Rtex
knitr/inst/examples/README.md
knitr/inst/examples/knitr-beamer.Rnw
knitr/inst/examples/knitr-subfloats.lyx
knitr/inst/examples/knitr-minimal.Rrst
knitr/inst/examples/knitr-spin.Rmd
knitr/inst/examples/knit-all.R
knitr/inst/examples/knitr-twocolumn.Rnw
knitr/inst/examples/knitr-manual.lyx
knitr/inst/examples/knitr-graphics.Rnw
knitr/inst/examples/knitr-spin.R
knitr/inst/examples/knitr-listings.Rnw
knitr/inst/examples/knitr-manual.bib
knitr/inst/examples/Sweavel.sty
knitr/inst/examples/download_count.csv
knitr/inst/examples/knitr-input.Rnw
knitr/inst/examples/knitr-beamer.lyx
knitr/inst/examples/child/
knitr/inst/examples/child/knitr-child.Rmd
knitr/inst/examples/child/knitr-child-b.Rnw
knitr/inst/examples/child/knitr-main.Rnw
knitr/inst/examples/child/knitr-main.Rmd
knitr/inst/examples/child/sub/
knitr/inst/examples/child/sub/knitr-child-c.Rnw
knitr/inst/examples/child/knitr-child-a.Rnw
knitr/inst/examples/child/knitr-parent.Rnw
knitr/inst/examples/knitr-themes.Rnw
knitr/inst/examples/knitr-input-child.Rnw
knitr/inst/examples/knitr-spin.html
knitr/inst/misc/
knitr/inst/misc/knitr.css
knitr/inst/misc/stitch-test.R
knitr/inst/misc/knitr.sty
knitr/inst/misc/vignette.html
knitr/inst/misc/docco-classic.css
knitr/inst/misc/tweak_bib.csv
knitr/inst/misc/knitr-template.Rhtml
knitr/inst/misc/knitr-template.Rnw
knitr/inst/misc/tikz2pdf.tex
knitr/inst/misc/knitr-template.Rmd
knitr/inst/misc/vignette.css
knitr/inst/misc/docco-classic.html
knitr/inst/misc/Sweavel.sty
knitr/inst/misc/docco-template.html
knitr/inst/misc/R.css
knitr/inst/misc/gWidgetsWWW2-knitr.R
knitr/inst/misc/toggleR.js
knitr/inst/misc/datatables.html
knitr/inst/doc/
knitr/inst/doc/knitr-html.html
knitr/inst/doc/knit_print.Rmd
knitr/inst/doc/docco-linear.html
knitr/inst/doc/docco-linear.Rmd
knitr/inst/doc/knit_expand.html
knitr/inst/doc/knitr-refcard.pdf
knitr/inst/doc/datatables.Rmd
knitr/inst/doc/knitr-refcard.Rmd
knitr/inst/doc/knit_print.R
knitr/inst/doc/knitr-markdown.Rmd
knitr/inst/doc/docco-classic.Rmd
knitr/inst/doc/knitr-markdown.R
knitr/inst/doc/datatables.R
knitr/inst/doc/knit_print.html
knitr/inst/doc/knitr-html.Rhtml
knitr/inst/doc/knitr-intro.R
knitr/inst/doc/knitr-markdown.html
knitr/inst/doc/docco-classic.html
knitr/inst/doc/knit_expand.Rmd
knitr/inst/doc/knitr-intro.Rmd
knitr/inst/doc/knitr-html.R
knitr/inst/doc/docco-classic.R
knitr/inst/doc/docco-linear.R
knitr/inst/doc/knitr-intro.html
knitr/inst/doc/knit_expand.R
knitr/inst/doc/datatables.html
knitr/inst/bin/
knitr/inst/bin/knit
knitr/inst/CITATION
knitr/inst/themes/
knitr/inst/themes/bluegreen.css
knitr/inst/themes/anotherdark.css
knitr/inst/themes/candy.css
knitr/inst/themes/edit-xcode.css
knitr/inst/themes/freya.css
knitr/inst/themes/lucretia.css
knitr/inst/themes/greyscale0.css
knitr/inst/themes/camo.css
knitr/inst/themes/greyscale2.css
knitr/inst/themes/darkspectrum.css
knitr/inst/themes/orion.css
knitr/inst/themes/darkblue.css
knitr/inst/themes/earendel.css
knitr/inst/themes/edit-nedit.css
knitr/inst/themes/edit-eclipse.css
knitr/inst/themes/edit-vim-dark.css
knitr/inst/themes/acid.css
knitr/inst/themes/leo.css
knitr/inst/themes/clarity.css
knitr/inst/themes/edit-matlab.css
knitr/inst/themes/solarized-light.css
knitr/inst/themes/baycomb.css
knitr/inst/themes/rand01.css
knitr/inst/themes/greyscale1.css
knitr/inst/themes/bright.css
knitr/inst/themes/biogoo.css
knitr/inst/themes/nightshimmer.css
knitr/inst/themes/rootwater.css
knitr/inst/themes/zmrok.css
knitr/inst/themes/denim.css
knitr/inst/themes/edit-jedit.css
knitr/inst/themes/molokai.css
knitr/inst/themes/nuvola.css
knitr/inst/themes/maroloccio.css
knitr/inst/themes/edit-anjuta.css
knitr/inst/themes/zellner.css
knitr/inst/themes/default.css
knitr/inst/themes/darkness.css
knitr/inst/themes/relaxedgreen.css
knitr/inst/themes/aiseered.css
knitr/inst/themes/neon.css
knitr/inst/themes/zenburn.css
knitr/inst/themes/xoria256.css
knitr/inst/themes/oxygenated.css
knitr/inst/themes/navy.css
knitr/inst/themes/dante.css
knitr/inst/themes/darkbone.css
knitr/inst/themes/whitengrey.css
knitr/inst/themes/blacknblue.css
knitr/inst/themes/darkslategray.css
knitr/inst/themes/greenlcd.css
knitr/inst/themes/seashell.css
knitr/inst/themes/tcsoft.css
knitr/inst/themes/moe.css
knitr/inst/themes/edit-vim.css
knitr/inst/themes/ekvoli.css
knitr/inst/themes/peaksea.css
knitr/inst/themes/bclear.css
knitr/inst/themes/edit-emacs.css
knitr/inst/themes/matrix.css
knitr/inst/themes/tabula.css
knitr/inst/themes/fine_blue.css
knitr/inst/themes/navajo-night.css
knitr/inst/themes/autumn.css
knitr/inst/themes/easter.css
knitr/inst/themes/pablo.css
knitr/inst/themes/golden.css
knitr/inst/themes/vampire.css
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knitr/inst/themes/manxome.css
knitr/inst/themes/bipolar.css
knitr/inst/themes/rdark.css
knitr/inst/themes/edit-msvs2008.css
knitr/inst/themes/andes.css
knitr/inst/themes/solarized-dark.css
knitr/inst/themes/breeze.css
knitr/inst/themes/edit-flashdevelop.css
knitr/inst/themes/night.css
knitr/inst/themes/olive.css
knitr/inst/themes/kellys.css
knitr/inst/themes/edit-kwrite.css
knitr/inst/themes/edit-gedit.css
knitr/inst/themes/moria.css
knitr/inst/themes/print.css
knitr/inst/themes/dusk.css
knitr/inst/shiny/
knitr/inst/shiny/server.R
knitr/inst/shiny/www/
knitr/inst/shiny/www/ace-shiny.js
knitr/inst/shiny/www/ace-shiny.css
knitr/inst/shiny/ui.R
knitr/inst/NEWS.Rd
phase `unpack' succeeded after 0.0 seconds
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starting phase `patch-source-shebangs'
patch-shebang: ./inst/bin/knit: changing `/usr/bin/env Rscript' to `/gnu/store/fpxfr4pxli6p3fx646agfln7hqy04l7r-r-minimal-4.1.2/bin/Rscript'
patch-shebang: ./inst/examples/knit-all.R: changing `/usr/bin/env Rscript' to `/gnu/store/fpxfr4pxli6p3fx646agfln7hqy04l7r-r-minimal-4.1.2/bin/Rscript'
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* installing *source* package ‘knitr’ ...
files ‘inst/bin/knit’, ‘inst/examples/knit-all.R’ have the wrong MD5 checksums
** using staged installation
** R
** demo
** 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
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (knitr)
phase `install' succeeded after 11.0 seconds
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Testing examples for package ‘knitr’
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starting phase `reset-gzip-timestamps'
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starting phase `compress-documentation'
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