branch wip-texlive updated (378d94e -> 9bd1333)

[guix-commits]

rekado pushed a change to branch wip-texlive
in repository guix.

      from  378d94e   Merge remote-tracking branch 'origin/master' into 
wip-texlive
      adds  932f795   gnu: kitty: Update to 0.14.3.
      adds  49fd98b   gnu: faudio: Update to 19.08.
      adds  6eccb08   gnu: r-boot: Update to 1.3-23.
      adds  ecebfe5   gnu: r-foreign: Update to 0.8-72.
      adds  d6e54e7   gnu: r-nlme: Update to 3.1-141.
      adds  c2e85d0   gnu: r-digest: Update to 0.6.20.
      adds  eae8e56   gnu: r-testthat: Update to 2.2.1.
      adds  7d36001   gnu: r-dplyr: Update to 0.8.3.
      adds  8d932e7   gnu: r-coda: Update to 0.19-3.
      adds  b29ecb8   gnu: r-xml2: Update to 1.2.1.
      adds  c02bb7e   gnu: r-checkmate: Update to 1.9.4.
      adds  3511aff   gnu: r-openssl: Update to 1.4.1.
      adds  9236b2c   gnu: r-httr: Update to 1.4.1.
      adds  1df8708   gnu: r-git2r: Update to 0.26.1.
      adds  78896ba   gnu: r-devtools: Update to 2.1.0.
      adds  9b02d1c   gnu: r-hms: Update to 0.5.0.
      adds  6af62ad   gnu: r-rcpparmadillo: Update to 0.9.600.4.0.
      adds  feb261e   gnu: r-rmarkdown: Update to 1.14.
      adds  2de0f88   gnu: r-blob: Update to 1.2.0.
      adds  9075204   gnu: r-rsqlite: Update to 2.1.2.
      adds  b41d03d   gnu: r-iterators: Update to 1.0.12.
      adds  5a01128   gnu: r-foreach: Update to 1.4.7.
      adds  8629598   gnu: r-doparallel: Update to 1.0.15.
      adds  8d84a0a   gnu: r-domc: Update to 1.3.6.
      adds  b2fea05   gnu: r-rngtools: Update to 1.4.
      adds  db93ef0   gnu: r-cowplot: Update to 1.0.0.
      adds  58aa971   gnu: r-fastica: Update to 1.2-2.
      adds  ddfd0af   gnu: r-mclust: Update to 5.4.5.
      adds  0910ff0   gnu: r-robust: Update to 0.4-18.1.
      adds  599fbee   gnu: r-pbapply: Update to 1.4-1.
      adds  17e43c4   gnu: r-quantreg: Update to 5.42.1.
      adds  d36430d   gnu: r-desolve: Update to 1.24.
      adds  710ecc9   gnu: r-clipr: Update to 0.7.0.
      adds  6a04f25   gnu: r-ellipsis: Update to 0.2.0.1.
      adds  3e0128e   gnu: r-callr: Update to 3.3.1.
      adds  b44c120   gnu: r-curl: Update to 4.0.
      adds  b89805f   gnu: r-haven: Update to 2.1.1.
      adds  cd7e9fb   gnu: r-pkgbuild: Update to 1.0.4.
      adds  4522ec8   gnu: r-rcpp: Update to 1.0.2.
      adds  80cdd36   gnu: r-lpsolve: Update to 5.6.13.2.
      adds  3337fd1   gnu: r-energy: Update to 1.7-6.
      adds  099b7c5   gnu: r-lava: Update to 1.6.6.
      adds  f3640ce   gnu: Add r-linprog.
      adds  a80620b   gnu: r-geometry: Update to 0.4.2.
      adds  417f7ed   gnu: r-recipes: Update to 0.1.6.
      adds  bed3424   gnu: r-jomo: Update to 2.6-9.
      adds  04d42a9   gnu: r-mice: Update to 3.6.0.
      adds  83e3e72   gnu: r-hardyweinberg: Update to 1.6.3.
      adds  7098019   gnu: r-vioplot: Update to 0.3.2.
      adds  503d5b5   gnu: r-processx: Update to 3.4.1.
      adds  56444d1   gnu: r-vctrs: Update to 0.2.0.
      adds  9f8f2d9   gnu: r-pillar: Update to 1.4.2.
      adds  dbd3950   gnu: r-shinyace: Update to 0.4.0.
      adds  9c69d79   gnu: r-radiant-data: Update to 1.0.0.
      adds  cc7176c   gnu: r-zip: Update to 2.0.3.
      adds  e3abc13   gnu: r-dosnow: Update to 1.0.18.
      adds  2d36377   gnu: r-reticulate: Update to 1.13.
      adds  c187e8f   gnu: r-factominer: Update to 1.42.
      adds  72c967e   gnu: r-abn: Update to 2.1.
      adds  44de742   gnu: r-insight: Update to 0.4.1.
      adds  a510dc6   gnu: r-proc: Update to 1.15.3.
      adds  2634feb   gnu: r-raster: Update to 2.9-23.
      adds  332c8df   gnu: r-magick: Update to 2.1.
      adds  5357c59   gnu: r-emmeans: Update to 1.4.
      adds  5ae4cbb   gnu: r-performance: Update to 0.3.0.
      adds  7343fa8   gnu: r-ggeffects: Update to 0.11.0.
      adds  a5a6481   gnu: r-sjplot: Update to 2.7.0.
      adds  99765ab   gnu: r-usethis: Update to 1.5.1.
      adds  65555b1   gnu: r-afex: Update to 0.24-1.
      adds  ef93e90   gnu: r-rgl: Update to 0.100.26.
      adds  14148ef   gnu: r-tidytree: Update to 0.2.5.
      adds  e0f20dc   gnu: r-sparsesvd: Update to 0.2.
      adds  b154b02   gnu: r-flare: Update to 1.6.0.2.
      adds  12618b5   gnu: r-rnifti: Update to 0.11.1.
      adds  031afc4   gnu: r-shades: Update to 1.4.0.
      adds  6275418   gnu: Add r-gargle.
      adds  504a513   gnu: r-bigrquery: Update to 1.2.0.
      adds  ffb97e6   gnu: r-spatialextremes: Update to 2.0-7.2.
      adds  d5d631b   gnu: r-future: Update to 1.14.0.
      adds  eebd93e   gnu: r-rsvd: Update to 1.0.2.
      adds  01629c6   gnu: r-bayesm: Update to 3.1-3.
      adds  51c9504   gnu: r-lavaan: Update to 0.6-4.
      adds  bd00835   gnu: r-irkernel: Update to 1.0.2.
      adds  8518744   gnu: r-rematch2: Update to 2.1.0.
      adds  24d4398   gnu: r-classint: Update to 0.4-1.
      adds  4eed03e   gnu: r-deldir: Update to 0.1-23.
      adds  2deb152   gnu: r-sf: Update to 0.7-7.
      adds  1a88de1   gnu: r-ldheatmap: Update to 0.99-7.
      adds  22d556a   gnu: r-bookdown: Update to 0.12.
      adds  006c3dc   gnu: r-dalex: Update to 0.4.4.
      adds  5b87fae   gnu: r-enrichr: Update to 2.0.
      adds  6fa5987   gnu: r-citr: Update to 0.3.1.
      adds  00300de   gnu: r-xgboost: Update to 0.90.0.2.
      adds  8a5f9d3   gnu: r-edger: Update to 3.26.6.
      adds  fbd761f   gnu: r-limma: Update to 3.40.6.
      adds  2ebd2b4   gnu: r-biomart: Update to 2.40.3.
      adds  6f8760d   gnu: r-summarizedexperiment: Update to 1.14.1.
      adds  e16fe0b   gnu: r-rtracklayer: Update to 1.44.2.
      adds  76d9b08   gnu: r-genomicfeatures: Update to 1.36.4.
      adds  afe4be4   gnu: r-rcas: Update to 1.10.1.
      adds  c8e141a   gnu: r-msnid: Update to 1.18.1.
      adds  109b8ad   gnu: r-chippeakanno: Update to 3.18.2.
      adds  fcbd896   gnu: r-genomicinteractions: Update to 1.18.1.
      adds  fbe5a08   gnu: r-atacseqqc: Update to 1.8.5.
      adds  d6158ec   gnu: r-abaenrichment: Update to 1.14.1.
      adds  b120789   gnu: r-rsubread: Update to 1.34.6.
      adds  86445c8   gnu: ffmpeg: Update to 4.2.
      adds  ec405a4   gnu: perl-hash-merge: Change inputs to propagated-inputs.
      adds  5bc7519   doc: Add note about signing keys.
      adds  d97ce20   machine: Rename 'system' field.
      adds  5f04e9f   reconfigure: Fix GC root installation.
      adds  fd3119d   machine: Implement safety checks.
      adds  5fe9ce9   gnu: r-bayestestr: Update to 0.2.5.
      adds  f275894   gnu: r-ggplotify: Update to 0.0.4.
      adds  ad68145   gnu: linux-libre@4.4: Update to 4.4.188.
      adds  2b6c7a7   gnu: linux-libre@4.9: Update to 4.9.188.
      adds  7acea31   gnu: linux-libre@4.14: Update to 4.14.137.
      adds  9f90e58   gnu: linux-libre@4.19: Update to 4.19.65.
      adds  9d52e3f   gnu: linux-libre: Update to 5.2.7.
      adds  18e7005   gnu: dolphin-emu: Update to commit 24718c1.
      adds  f503ed9   gnu: r-servr: Update to 0.15.
      adds  33af00e   gnu: r-tinytex: Update to 0.15.
      adds  2132e92   gnu: r-ggpubr: Update to 0.2.2.
      adds  42a8b01   gnu: r-epi: Update to 2.38.
      adds  fdc0688   gnu: r-dt: Update to 0.8.
      adds  9fa7c20   gnu: gnome-maps: Fix runtime error.
      adds  0d7f282   gnu: openconnect: Fix propagated-inputs.
      adds  db736ca   gnu: ocproxy: Remove extra build phase.
      adds  fe7023a   gnu: i3blocks: Remove extra build phase.
      adds  2230039   gnu: vapoursynth: Remove extra build phase.
      adds  d05e607   gnu: libsmpeg: Remove extra build phase.
      adds  1d05b68   gnu: libmediainfo: Remove extra build phase.
      adds  02abfcc   gnu: libetpan: Rework custom phases.
      adds  7b0efd4   gnu: dovecot-trees: Remove extra build phase.
      adds  1f53fda   gnu: dovecot-libsodium-plugin: Remove extra build phase.
      adds  e3a6993   gnu: ghmm: Update source file-name field.
      adds  a491856   gnu: ghmm: Remove extra build phase.
      adds  384242a   gnu: leptonica: Remove extra build phase.
      adds  3192f25   gnu: zimg: Remove extra build phase.
      adds  72bc58f   gnu: dosbox: Remove extra build phase.
      adds  355ba48   gnu: igt-gpu-tools: Rework custom phases.
      adds  ec12235   reconfigure: Improve tests for system activation.
      adds  55e238f   deploy: Use all machine modules when loading deployment
       new  9bd1333   Merge remote-tracking branch 'origin/master' into 
wip-texlive

The 1 revisions listed above as "new" are entirely new to this
repository and will be described in separate emails.  The revisions
listed as "adds" were already present in the repository and have only
been added to this reference.


Summary of changes:
 doc/guix.texi                       |  20 ++-
 gnu/machine.scm                     |  12 +-
 gnu/machine/ssh.scm                 | 148 ++++++++++++++++-
 gnu/packages/admin.scm              |   2 +-
 gnu/packages/audio.scm              |   4 +-
 gnu/packages/bioconductor.scm       |  20 +--
 gnu/packages/bioinformatics.scm     |  32 ++--
 gnu/packages/cran.scm               | 319 +++++++++++++++++++++---------------
 gnu/packages/emulators.scm          |  12 +-
 gnu/packages/geo.scm                |   9 +-
 gnu/packages/image.scm              |   9 -
 gnu/packages/linux.scm              |  20 +--
 gnu/packages/machine-learning.scm   |   7 +-
 gnu/packages/mail.scm               |  16 +-
 gnu/packages/maths.scm              |   4 +-
 gnu/packages/perl.scm               |   2 +-
 gnu/packages/statistics.scm         | 139 ++++++++--------
 gnu/packages/terminals.scm          |   6 +-
 gnu/packages/video.scm              |  32 ++--
 gnu/packages/vpn.scm                |  12 +-
 gnu/packages/wm.scm                 |   2 -
 gnu/tests/reconfigure.scm           |  32 +++-
 guix/scripts/deploy.scm             |   6 +-
 guix/scripts/system/reconfigure.scm |  20 ++-
 24 files changed, 551 insertions(+), 334 deletions(-)