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branch master updated (ea600ff -> c6e9b49)

From: guix-commits
Subject: branch master updated (ea600ff -> c6e9b49)
Date: Sat, 12 Jan 2019 17:35:59 -0500 (EST)

rekado pushed a change to branch master
in repository guix.

      from  ea600ff   gnu: python-pillow: Update homepage.
       new  7e634c2   refresh: Suggest input changes when updating.
       new  91e0555   import: cran: Suggest input changes.
       new  a2315c6   gnu: r-jsonlite: Update to 1.6.
       new  04a18a8   gnu: r-writexl: Update to 1.1.
       new  48102ce   gnu: r-mvabund: Update to 4.0.1.
       new  ef91530   gnu: r-readr: Update to 1.3.1.
       new  646e1ef   gnu: r-curl: Update to 3.3.
       new  25c67ec   gnu: Add r-generics.
       new  813d9c5   gnu: r-broom: Update to 0.5.1.
       new  2766d34   gnu: r-sjlabelled: Update to 1.0.16.
       new  0e87bf0   gnu: r-processx: Update to 3.2.1.
       new  44c69a5   gnu: r-rcpparmadillo: Update to
       new  0aad198   gnu: r-pracma: Update to 2.2.2.
       new  b140569   gnu: r-readxl: Update to 1.2.0.
       new  527c605   gnu: r-callr: Update to 3.1.1.
       new  11a3654   gnu: r-argparse: Update to 2.0.0.
       new  35cf487   gnu: r-survival: Update to 2.43-3.
       new  3dbd87f   gnu: r-class: Update to 7.3-15.
       new  60f1bce   gnu: r-codetools: Update to 0.2-16.
       new  ca2bc7e   gnu: r-mgcv: Update to 1.8-26.
       new  b6e2767   gnu: r-pheatmap: Update to 1.0.12.
       new  eae93bd   gnu: r-bh: Update to 1.69.0-1.
       new  bf3aded   gnu: r-markdown: Update to 0.9.
       new  495866a   gnu: r-knitr: Update to 1.21.
       new  c668a95   gnu: r-rlang: Update to 0.3.1.
       new  f12ed36   gnu: r-tibble: Update to 2.0.0.
       new  23347dc   gnu: r-dbplyr: Update to 1.3.0.
       new  ca4861c   gnu: r-backports: Update to 1.1.3.
       new  fe8c445   gnu: r-checkmate: Update to 1.9.0.
       new  02c89c5   gnu: r-commonmark: Update to 1.7.
       new  c12e429   gnu: r-httr: Update to 1.4.0.
       new  8f49d99   gnu: r-git2r: Update to 0.24.0.
       new  fb45934   gnu: r-rstudioapi: Update to 0.9.0.
       new  54ebdf6   gnu: r-rmarkdown: Update to 1.11.
       new  2c8594d   gnu: r-sfsmisc: Update to 1.1-3.
       new  7213ef0   gnu: r-rann: Update to 2.6.1.
       new  70ee5ab   gnu: r-cowplot: Update to 0.9.4.
       new  bcc17f7   gnu: r-rrcov: Update to 1.4-7.
       new  9b7df80   gnu: r-rcppeigen: Update to
       new  aa72d7f   gnu: r-quantreg: Update to 5.38.
       new  2e4fc4a   gnu: r-caret: Update to 6.0-81.
       new  0c025a7   gnu: r-clipr: Update to 0.5.0.
       new  37349c7   gnu: r-httpuv: Update to
       new  1add168   gnu: r-htmltable: Update to 1.13.1.
       new  69aad34   gnu: r-feather: Update to 0.3.2.
       new  dcf89cc   gnu: r-haven: Update to 2.0.0.
       new  422dea1   gnu: r-ps: Update to 1.3.0.
       new  72c4987   gnu: r-circlize: Update to 0.4.5.
       new  397dba0   gnu: r-powerlaw: Update to 0.70.2.
       new  8f88701   gnu: r-lava: Update to 1.6.4.
       new  77f9722   gnu: r-dimred: Add missing input.
       new  5703991   gnu: r-recipes: Add missing input.
       new  1c6d199   gnu: r-mitml: Update to 0.3-7.
       new  221b3b1   gnu: r-rmysql: Update to 0.10.16.
       new  fc74de4   gnu: r-ddalpha: Update to 1.3.8.
       new  ed46a05   gnu: r-laeken: Update to 0.5.0.
       new  111516f   gnu: r-gclus: Update to 1.3.2.
       new  fc00a1f   gnu: r-pillar: Update to 1.3.1.
       new  7e9e9c9   gnu: r-tinytex: Update to 0.10.
       new  9d83132   gnu: r-statnet-common: Update to 4.2.0.
       new  7abb15f   gnu: r-tseries: Update to 0.10-46.
       new  5f1f110   gnu: r-cubature: Update to 2.0.3.
       new  f0fe1a5   gnu: r-shinyace: Update to 0.3.3.
       new  f2fc34f   gnu: r-fnn: Update to
       new  962304c   gnu: r-arules: Update to 1.6-2.
       new  1417d5f   gnu: r-rio: Update to 0.5.16.
       new  1afe564   gnu: r-glmmtmb: Update to 0.2.3.
       new  9df469a   gnu: r-emmeans: Update to 1.3.1.
       new  1b14440   gnu: r-sjstats: Update to 0.17.3.
       new  fbd263c   gnu: r-abn: Update to 1.3.
       new  12502bf   gnu: r-prediction: Update to
       new  f0867a0   gnu: r-findpython: Update to 1.0.4.
       new  2652e25   gnu: r-refgenome: Update to
       new  de7631b   gnu: r-slam: Update to 0.1-44.
       new  6eab52e   gnu: r-ggeffects: Update to 0.8.0.
       new  16d296b   gnu: r-shades: Update to 1.3.1.
       new  9ad5f4b   gnu: r-grimport: Update to 0.9-1.1.
       new  e041740   gnu: r-chemometricswithr: Update to 0.1.13.
       new  209e504   gnu: r-ontologyindex: Update to 2.5.
       new  c3e5b45   gnu: r-protviz: Update to 0.4.0.
       new  3bc0667   gnu: r-bookdown: Update to 0.9.
       new  80c4e75   gnu: r-seqminer: Update to 7.1.
       new  5e8282a   gnu: r-rmpi: Update to 0.6-9.
       new  e45f4a4   gnu: r-sjmisc: Update to 2.7.7.
       new  fd73016   gnu: r-sjplot: Update to 2.6.2.
       new  feb561f   gnu: r-scran: Update to 1.10.2.
       new  f7e95c5   gnu: r-deseq2: Update to 1.22.2.
       new  ffe16ef   gnu: r-dexseq: Update to 1.28.1.
       new  3b8c884   gnu: r-rbgl: Update to 1.58.1.
       new  9c1b2b2   gnu: r-systempiper: Update to 1.16.1.
       new  00f105f   gnu: r-biocviews: Update to 1.50.10.
       new  a619850   gnu: r-edger: Update to 3.24.3.
       new  3fd4884   gnu: r-variantannotation: Update to 1.28.8.
       new  52c977a   gnu: r-limma: Update to 3.38.3.
       new  d4fc834   gnu: r-biocparallel: Update to 1.16.5.
       new  1fa12b2   gnu: r-biostrings: Update to 2.50.2.
       new  4bfde52   gnu: r-genomicalignments: Update to 1.18.1.
       new  4c7b922   gnu: r-tximport: Update to 1.10.1.
       new  86162c7   gnu: r-rhdf5: Update to 2.26.2.
       new  5c72eba   gnu: r-copywriter: Update to 2.14.1.
       new  c20426e   gnu: r-methylkit: Update to 1.8.1.
       new  46508c3   gnu: r-sva: Update to 3.30.1.
       new  a4f038d   gnu: r-mzr: Update to 2.16.1.
       new  6451af7   gnu: r-mzid: Update to 1.20.1.
       new  880ed11   gnu: r-msnbase: Update to 2.8.3.
       new  9abf344   gnu: r-msnid: Update to 1.16.1.
       new  3bdc41b   gnu: r-deseq: Update to 1.34.1.
       new  ab4a862   gnu: r-edaseq: Update to 2.16.3.
       new  4615cf9   gnu: r-annotationhub: Update to 2.14.2.
       new  15d89fe   gnu: r-gage: Update to 2.32.1.
       new  43931ff   gnu: r-dirichletmultinomial: Update to 1.24.1.
       new  27194ef   gnu: r-ensembldb: Update to 2.6.3.
       new  c805959   gnu: r-biovizbase: Update to 1.30.1.
       new  19cacb5   gnu: r-gviz: Update to 1.26.4.
       new  ad10b39   gnu: r-qvalue: Update to 2.14.1.
       new  40561d0   gnu: r-hdf5array: Update to 1.10.1.
       new  a0224bd   gnu: r-rhdf5lib: Update to 1.4.2.
       new  0f268bb   gnu: r-singlecellexperiment: Update to 1.4.1.
       new  1e107b0   gnu: r-scater: Update to 1.10.1.
       new  c476edc   gnu: r-rtracklayer: Update to 1.42.1.
       new  add2b19   gnu: r-chippeakanno: Update to 3.16.1.
       new  7f2b1c4   gnu: r-goseq: Update to 1.34.1.
       new  0b469ee   gnu: r-glimma: Update to 1.10.1.
       new  45dcd7d   gnu: r-rots: Update to 1.10.1.
       new  cad6fb2   gnu: Add r-plgem.
       new  d220bab   gnu: Add r-txdb-mmusculus-ucsc-mm9-knowngene.
       new  c86fc96   gnu: r-inspect: Update to 1.12.1.
       new  c6e9b49   gnu: r-ruvseq: Update to 1.16.1.

The 128 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:
 gnu/packages/bioconductor.scm   |  89 +++++++++++---
 gnu/packages/bioinformatics.scm | 149 ++++++++++++------------
 gnu/packages/cran.scm           | 252 ++++++++++++++++++++++------------------
 gnu/packages/maths.scm          |   6 +-
 gnu/packages/statistics.scm     | 126 ++++++++++----------
 guix/import/cran.scm            |  29 +++--
 guix/scripts/refresh.scm        |  23 +++-
 guix/upstream.scm               |  90 ++++++++++++--
 8 files changed, 477 insertions(+), 287 deletions(-)

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