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2021-10-12Merge remote-tracking branch 'origin/master' into core-updates-frozen.Mathieu Othacehe
2021-10-08gnu: Update Haskell ecosystem.Lars-Dominik Braun
Bump packages’ versions to the lastest Stackage or Hackage release. Since packages are interdependent, do so in a single commit. 525 packages have been updated. These packages have been removed, because they fail to build, have no newer version available and no dependencies: corrode ghc-easytest ghc-edisonapi ghc-edisoncore ghc-pandoc-types ghc-regex-tdfa-text These have been removed, because they are no longer required: ghc-happy-1.19.9 ghc-prettyprinter-1.6 ghc-protolude-0.3 ghc-pandoc-citeproc and pandoc-citeproc have been removed, because pandoc does not use them any more. Co-authored-by: Xinglu Chen <public@yoctocell.xyz>
2021-10-05gnu: r-dt: Fix install location of minified JavaScript.Ricardo Wurmus
Reported-by: Marcel Schilling <marcel.schilling@uni-luebeck.de> * gnu/packages/statistics.scm (r-dt)[arguments]: Append "/js" directory to installation location of minified JavaScript.
2021-09-30gnu: r-glinternet: Update to 1.0.12.Ricardo Wurmus
* gnu/packages/statistics.scm (r-glinternet): Update to 1.0.12.
2021-09-30gnu: r-pbapply: Update to 1.5-0.Ricardo Wurmus
* gnu/packages/statistics.scm (r-pbapply): Update to 1.5-0.
2021-09-30gnu: r-rrcov: Update to 1.6-0.Ricardo Wurmus
* gnu/packages/statistics.scm (r-rrcov): Update to 1.6-0.
2021-09-30gnu: r-fastica: Update to 1.2-3.Ricardo Wurmus
* gnu/packages/statistics.scm (r-fastica): Update to 1.2-3.
2021-09-30gnu: r-sfsmisc: Update to 1.1-12.Ricardo Wurmus
* gnu/packages/statistics.scm (r-sfsmisc): Update to 1.1-12.
2021-09-30gnu: r-matrixstats: Update to 0.61.0.Ricardo Wurmus
* gnu/packages/statistics.scm (r-matrixstats): Update to 0.61.0.
2021-09-30gnu: r-r-utils: Update to 2.11.0.Ricardo Wurmus
* gnu/packages/statistics.scm (r-r-utils): Update to 2.11.0.
2021-09-30gnu: r-e1071: Update to 1.7-9.Ricardo Wurmus
* gnu/packages/statistics.scm (r-e1071): Update to 1.7-9.
2021-09-30gnu: r-rngtools: Update to 1.5.2.Ricardo Wurmus
* gnu/packages/statistics.scm (r-rngtools): Update to 1.5.2.
2021-09-30gnu: r-xml: Update to 3.99-0.8.Ricardo Wurmus
* gnu/packages/statistics.scm (r-xml): Update to 3.99-0.8.
2021-09-30gnu: r-rmarkdown: Update to 2.11.Ricardo Wurmus
* gnu/packages/statistics.scm (r-rmarkdown): Update to 2.11. [propagated-inputs]: Add r-jquerylib.
2021-09-30gnu: r-plotrix: Update to 3.8-2.Ricardo Wurmus
* gnu/packages/statistics.scm (r-plotrix): Update to 3.8-2.
2021-09-30gnu: r-hms: Update to 1.1.1.Ricardo Wurmus
* gnu/packages/statistics.scm (r-hms): Update to 1.1.1.
2021-09-30gnu: r-openssl: Update to 1.4.5.Ricardo Wurmus
* gnu/packages/statistics.scm (r-openssl): Update to 1.4.5.
2021-09-30gnu: r-roxygen2: Update to 7.1.2.Ricardo Wurmus
* gnu/packages/statistics.scm (r-roxygen2): Update to 7.1.2. [propagated-inputs]: Remove r-rcpp; add r-cpp11.
2021-09-30gnu: r-ade4: Update to 1.7-18.Ricardo Wurmus
* gnu/packages/statistics.scm (r-ade4): Update to 1.7-18.
2021-09-30gnu: r-tibble: Update to 3.1.4.Ricardo Wurmus
* gnu/packages/statistics.scm (r-tibble): Update to 3.1.4.
2021-09-30gnu: r-knitr: Update to 1.34.Ricardo Wurmus
* gnu/packages/statistics.scm (r-knitr): Update to 1.34. [propagated-inputs]: Remove r-markdown.
2021-09-30gnu: r-stringi: Update to 1.7.4.Ricardo Wurmus
* gnu/packages/statistics.scm (r-stringi): Update to 1.7.4.
2021-09-30gnu: r-digest: Update to 0.6.28.Ricardo Wurmus
* gnu/packages/statistics.scm (r-digest): Update to 0.6.28.
2021-09-30gnu: r-survival: Update to 3.2-13.Ricardo Wurmus
* gnu/packages/statistics.scm (r-survival): Update to 3.2-13.
2021-09-30gnu: r-mgcv: Update to 1.8-37.Ricardo Wurmus
* gnu/packages/statistics.scm (r-mgcv): Update to 1.8-37.
2021-09-30gnu: r-nlme: Update to 3.1-153.Ricardo Wurmus
* gnu/packages/statistics.scm (r-nlme): Update to 3.1-153.
2021-09-30gnu: r-lattice: Update to 0.20-45.Ricardo Wurmus
* gnu/packages/statistics.scm (r-lattice): Update to 0.20-45.
2021-09-30gnu: r-dt: Update to 0.19.Ricardo Wurmus
* gnu/packages/statistics.scm (r-dt): Update to 0.19. [source]: Remove minified JavaScript in a snippet. [arguments]: Minify JavaScript inputs. [propagated-inputs]: Add r-jquerylib. [inputs]: Add js-selectize. [native-inputs]: Add uglifyjs, datatables-plugins, js-nouislider, and all JavaScript source files. [licenses]: Remove asl2.0 from the list because selectize is no longer included.
2021-09-07Merge branch 'master' into core-updates-frozenLudovic Courtès
2021-09-06gnu: Use the non-deprecated TeX packages.Ludovic Courtès
This commit leaves 'dblatex' and 'texlive-hyperref' as users of deprecated packages, but these have many dependents. * gnu/packages/bioinformatics.scm (discrover)[native-inputs]: Use non-deprecated TeX Live packages. (velvet)[native-inputs]: Likewise. * gnu/packages/chez.scm (chez-scheme)[native-inputs]: Likewise. (chez-web)[native-inputs]: Likewise. * gnu/packages/engineering.scm (fastcap)[native-inputs]: Likewise. * gnu/packages/guile-xyz.scm (emacsy)[native-inputs]: Likewise. * gnu/packages/maths.scm (hypre)[native-inputs]: Likewise. * gnu/packages/music.scm (lilypond)[native-inputs]: Likewise. * gnu/packages/ocaml.scm (ocaml-bibtex2html)[native-inputs]: Likewise. * gnu/packages/plotutils.scm (asymptote)[native-inputs]: Likewise. * gnu/packages/python-xyz.scm (python-numpy-documentation)[native-inputs]: Likewise. (python-matplotlib-documentation)[native-inputs]: Likewise. (python-ipython-documentation)[native-inputs]: Likewise. (python-nbconvert)[native-inputs]: Likewise. (python-pypandoc)[native-inputs]: Likewise. * gnu/packages/statistics.scm (r-with-tests)[native-inputs]: Likewise. * gnu/packages/tex.scm (texlive-pstool)[propagated-inputs]: Likewise. (teximpatient)[native-inputs]: Likewise. (texlive-latex-pgf)[propagated-inputs]: Likewise. (texlive-beamer)[propagated-inputs]: Likewise.
2021-08-12Merge branch 'master' into core-updates-frozenMarius Bakke
Conflicts: gnu/packages/algebra.scm gnu/packages/games.scm gnu/packages/golang.scm gnu/packages/kerberos.scm gnu/packages/mail.scm gnu/packages/python.scm gnu/packages/ruby.scm gnu/packages/scheme.scm gnu/packages/tex.scm gnu/packages/tls.scm gnu/packages/version-control.scm
2021-08-03gnu: texlive-latex-base: Propagate ‘texlive-latex-l3backend’Thiago Jung Bauermann
Some packages need files from ‘texlive-latex-l3backend’ – which is a supporting package of LaTeX3 – so propagate it from ‘texlive-latex-base’. * gnu/packages/statistics.scm (r-with-tests)[native-inputs]: Remove ‘texlive-latex-l3backend’ from the texlive union. * gnu/packages/tex.scm (texlive-latex-base)[propagated-inputs]: Add ‘texlive-latex-l3backend’. (texlive-latex-xkeyval)[native-inputs]: Remove ‘texlive-latex-l3backend’. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2021-07-29Merge branch 'master' into core-updates-frozenMarius Bakke
Conflicts: gnu/packages/bioinformatics.scm gnu/packages/cmake.scm gnu/packages/curl.scm gnu/packages/emacs-xyz.scm gnu/packages/gpodder.scm gnu/packages/music.scm gnu/packages/patches/glibc-bootstrap-system.patch gnu/packages/python-xyz.scm gnu/packages/shells.scm gnu/packages/statistics.scm
2021-07-29gnu: r-matrixstats: Update to 0.60.0.Ricardo Wurmus
* gnu/packages/statistics.scm (r-matrixstats): Update to 0.60.0.
2021-07-29gnu: r-e1071: Update to 1.7-8.Ricardo Wurmus
* gnu/packages/statistics.scm (r-e1071): Update to 1.7-8.
2021-07-29gnu: r-with-tests: Add missing TeX Live packages.Ricardo Wurmus
* gnu/packages/statistics.scm (r-with-tests)[native-inputs]: Add texlive-grfext and texlive-latex-l3backend to the texlive union.
2021-07-28gnu: r-ranger: Update to 0.13.1.Ricardo Wurmus
* gnu/packages/statistics.scm (r-ranger): Update to 0.13.1.
2021-07-28gnu: r-blob: Update to 1.2.2.Ricardo Wurmus
* gnu/packages/statistics.scm (r-blob): Update to 1.2.2.
2021-07-28gnu: r-rcpparmadillo: Update to 0.10.6.0.0.Ricardo Wurmus
* gnu/packages/statistics.scm (r-rcpparmadillo): Update to 0.10.6.0.0.
2021-07-28gnu: r-readr: Update to 2.0.0.Ricardo Wurmus
* gnu/packages/statistics.scm (r-readr): Update to 2.0.0. [propagated-inputs]: Remove r-bh; add r-tzdb and r-vroom.
2021-07-28gnu: r-tibble: Update to 3.1.3.Ricardo Wurmus
* gnu/packages/statistics.scm (r-tibble): Update to 3.1.3.
2021-07-28gnu: r-pryr: Update to 0.1.5.Ricardo Wurmus
* gnu/packages/statistics.scm (r-pryr): Update to 0.1.5. [propagated-inputs]: Add r-lobstr and r-rcpp. [native-inputs]: Remove r-rcpp.
2021-07-28gnu: r-stringi: Update to 1.7.3.Ricardo Wurmus
* gnu/packages/statistics.scm (r-stringi): Update to 1.7.3.
2021-07-28gnu: r-with-tests: Hardcode path to coreutils’ rmLars-Dominik Braun
When running R in a container like this guix environment --no-cwd -C --ad-hoc r-minimal -- Rscript -e 'Sys.timezone()' it would print an additional line sh: rm: command not found before exiting. * gnu/packages/statistics.scm (r-with-tests) [#:phases]: Add substitute* to patch call to `rm` and rename phase to reflect what it does now.
2021-08-24gnu: r-xml: Update to 3.99-0.7.Ricardo Wurmus
* gnu/packages/statistics.scm (r-xml): Update to 3.99-0.7.
2021-08-24gnu: r-rsqlite: Update to 2.2.8.Ricardo Wurmus
* gnu/packages/statistics.scm (r-rsqlite): Update to 2.2.8.
2021-08-24gnu: r-rmarkdown: Update to 2.10.Ricardo Wurmus
* gnu/packages/statistics.scm (r-rmarkdown): Update to 2.10.
2021-08-24gnu: r-readr: Update to 2.0.1.Ricardo Wurmus
* gnu/packages/statistics.scm (r-readr): Update to 2.0.1.
2021-08-24gnu: r-r6: Update to 2.5.1.Ricardo Wurmus
* gnu/packages/statistics.scm (r-r6): Update to 2.5.1.
2021-08-24gnu: r-survival: Update to 3.2-12.Ricardo Wurmus
* gnu/packages/statistics.scm (r-survival): Update to 3.2-12.
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