py-docx: updated to 0.8.11

0.8.11:
- Small build changes and Python 3.8 version changes like collections.abc location.

(adam)

py-magic: updated to 0.4.24

Changes to 0.4.24:
- Fix regression in library loading on some Alpine docker images.

(adam)

py-m3u8: updated to 0.9.0

0.9.0:
Add Github actions to test the code
Treat S3 as a URL instead of a local file

(adam)

py-authlib: updated to 0.15.4

0.15.4:
Unknown changes

(adam)

R-shiny: remove R-bslib, does not exist

(wiz)

dinotrace: restrict to web2c>=2020 instead of -2020*

(wiz)

remove conflict indicators

(markd)

texlive collection updates

(markd)

texlive-collection-langjapanese: update to revision 58754

(markd)

print: add tex-gckanbun{,-doc}

(markd)

tex-gckanbun{,-doc} add version 1.2

This package provides a Kanbun (Han Wen , "Chinese writing")
typesetting for (u)pLaTeX and LuaLaTeX.

(markd)

texlive-collection-latexrecommended: update to revision 57862

(markd)

print: add tex-pdfmanagement-testphase{,-doc}

(markd)

tex-pdfmanagement-testphase{,-doc}: add version 0.95d

This is a temporary package, which is used during a test phase
to load the new PDF management code of LaTeX. The new PDF
management code offers backend independant interfaces to
central PDF dictionaries, tools to create annotations, form
Xobjects, to embed files, and to handle PDF standards. The code
is provided, during a testphase, as an independant package to
allow users and package authors to safely test the code. At a
later stage it will be integrated into the LaTeX kernel (or in
parts into permanent support packages), and the current
testphase bundle will be removed.

(markd)

texlive-collection-xetex: update to revision 58543

(markd)

texlive-collection-publishers: update to revision 59310

(markd)

texlive-collection-plaingeneric: update to revision 58874

(markd)

texlive-collection-pictures: update to revision 59115

(markd)

texlive-collection-music: update to revision 57878

(markd)

texlive-collection-mathscience: update to revision 59247

(markd)

texlive-collection-luatex: update to revision 59184

(markd)

texlive-collection-latexextra: update to revision 59271

(markd)

texlive-collection-langother: update to revision 57757

(markd)

texlive-collection-langeuropean: update to revision 58626

(markd)

texlive-collection-langenglish: update to revision 58290

(markd)

texlive-collection-langchinese: update to revision 58965

(markd)

texlive-collection-langarabic: update to revision 59003

(markd)

texlive-collection-games: update to revision 58896

(markd)

texlive-collection-fontsextra: update to revision 58253

(markd)

texlive-collection-bibtexextra: update to revision 58437

(markd)

texlive-collection-basic: update to 2021

(markd)

texlive-collection-basic-doc: remove tex-texlive-docindex-doc

(markd)

print: removed tex-texlive-docindex-doc

(markd)

tex-texlive-docindex-doc: removed - no longer used

(markd)

(devel/R-bit64) Update DEPENDS version for R-bit

(mef)

(textproc/R-htmltools) Add missing DEPENDS (R-rlang)

(mef)

doc: Updated devel/R-bit to 4.0.4

(mef)

(devel/R-bit) Update 1.1.14 to 4.0.4

        CHANGES IN bit VERSION 4.0.4
USER VISIBLE CHANGES

    o copy() and reverse() have been renamed to
    copy_vector() and reverse_vector() to avoid
    naming conflict with data.table

        CHANGES IN bit VERSION 4.0.3
BUG FIXES
    o temporarily removed link to clone.ff
      to satisfy CRAN checks

        CHANGES IN bit VERSION 4.0.2
USER VISIBLE CHANGES

    o Vignettes nolonger execute ff code
      for ff-version prior 4.0.0

BUG FIXES
    o NA could crash bit_extract_unsorted
    o now DESCRIPTION URL points to github

        CHANGES IN bit VERSION 4.0.1
USER VISIBLE CHANGES

    o bbatch now checks input N >= 0, B > 0
      and returns batchsize b in 1..N

BUG FIXES
    o NA could crash bit_extract_unsorted

        CHANGES IN bit VERSION 4.0.0

NEW FEATURES

    o new superclass ?booltype now allows proper method
      dispatch even for two user defined booleans, e.g. (bit | bitwhich)
    o new ordinal 'booltypes' nobool < logical < bit < bitwhich < which < ri
      and diagnostic functions booltype() and is.booltype()
    o bitwhich now has methods for [[ [ [[<- and [<-
    o new functions 'c', '==', '!=', '|', '&', 'xor' for .booltype
    o new function bitwhich_representation() to inspect the bitwhich
      representation without the cost of unclass()
    o new method 'is' for .which, .ri, .hi (and .booltype)
    o new coercion generic as.booltype with .default method
    o new coercion method as.logical.which
    o new generic as.ri with methods for .ri and .default (lossy)
    o new methods rep, rev, as.character and str for .bit and .bitwhich
    o new methods all, any, min, max, range, sum, summary for .booltype, .which
    o new method anyNA for all booltypes
    o new dummy method 'is.na' for .bit, .bitwhich
    o new function in.bitwhich much faster than %in%
    o new integer sorting function bitsort() using bit_sort() or bit_sort_unique()
      which can be by an order of magnitude faster than radix sorts
      or falling back to one of countsort(), quicksort2(), quicksort3()
    o new symmetric set function symdiff
    o new functions copy(), reverse() for copying and reversing integer vectors
    o new helper functions range_na(), range_nanozero(), range_sortna()
      join multiple tasks in one go
    o new fast unary functions for integers: bit_unique, bit_duplicated,
      bit_anyDuplicated, bit_sumDuplicated
    o new fast binary functions for integers: bit_in, bit_intersect, bit_union,
      bit_setequal, bit_symdiff, bit_setdiff, bit_rangediff
    o new fast unary functions for sorted integers: merge_rev,
      merge_unique, merge_duplicated, merge_anyDuplicated, merge_sumDuplicated,
      merge_first, merge_last,
    o new fast binary functions for sorted integers:
      merge_firstin, merge_firstnotin, merge_lastin, merge_lastnotin,
      merge_match, merge_in, merge_notin,
      merge_union, merge_intersect, merge_setdiff, merge_symdiff,
      merge_setequal
    o new even faster binary functions when the first argument is a range of integers:
      merge_rangein, merge_rangenotin, merge_rangesect, merge_rangediff
    o new function firstNA substantially faster than which.max(is.na(x))
    o new function getsetattr() does setattr() but returns the old attr()
    o new function get_length() directly returns LENGTH(SEXP)
      circumventing all method dispatch for length()
    o new methods rlepack.integer, rleunpack.rlepack anyDuplicated.rlepack

USER VISIBLE CHANGES

    o license has been extendend from GPL-2 to GPL-2 | GPL-3
    o S3methods are no longer exported in NAMESPACE
      (except for .booltype)
    o class bitwhich
    - now is a fully functional alternative to bit vectors
    - has argument order changed to (maxindex, x, poslength)
    - its internal representation of bitwhich(0) has been changed
      from FALSE to logical() and from unsorted to sorted integers
    o class 'which' now carries an attribute 'maxindex' if available
    o as.which() and bitwhich() now filter zeroes and store data unique(sort(x))
    o as.which() now has methods for .which, .logical, .integer and .numeric
      instead of .default.
    o bit() and bitwhich() now behave more like logical(), without
      arguments they return objects of length zero
    o as.bit, as.bitwhich and as.which now have methods for class NULL
      such that for example as.bit(c()) will return bit(0)
      (wish of Martijn Schuemle)
    o binary operators now allow for different lengths
      and recycle instead of throwing an error
    o xor.default now keeps the original definition of xor() and uses
      a new method xor.logical to speed-up logicals
    o the generics poslength and maxindex have been moved from package ff
      with methods now for .default, .logical, .bit, .bitwhich, .which, .ri
    o old method chunk.default has been renamed to chunks and now returns with names
      (for backward compatibility chunk() with named arguments behaves as before)
    o new method chunk.default calls chunks() along the length(x)
      using typeof(x) or vmode(x), this replaces chunk.bit from package ff
    o clone.default now uses R's C-function duplicate()
      and clone.list has been removed
    o intisasc() and intisdesc() have a new argument
      na.method=c("none","break","skip") to specify tie handling

TESTING and DOCUMENTATION

    o there are much more regression tests now
    o testing uses package testthat
    o documentation uses package roxygen2 now
    o new vignettes bit-demo, bit-usage and bit-performance

BUG FIXES

    o assignment functions '[<-.bit' now behave like '[<-.logical' when it
      comes to NAs or ZEROs in subscripts
    o length<-.bit no longer tries to access memory before it is allocated
    o as.bit.bitwhich now handles non-positive bitwhich correctly
    o declare as static many functions/variables in bit.c. (Thanks to Brian Ripley)

(mef)

(math/R-tibble) Update DEPEDNDS version for R-pillar

(mef)

doc: Updated misc/R-pillar to 1.6.1

(mef)

(misc/R-pillar) Updated 1.4.2 to 1.6.1

# pillar 1.6.1

- Bump required versions of ellipsis and vctrs to avoid warning during package load.
- `obj_sum()` no longer includes shape twice (#315).

# pillar 1.6.0

## Features

- New `num()` and `char()` offer a flexible way to customize the display of numeric and character columns (#191, #84).
- New `"pillar.max_dec_width"` option (#308).
- New `format_type_sum.AsIs()` avoids the need to implement your own `format_type_sum()` method (#286).
- `align()` gains `space` argument to control the character used for filling (#285).
- Numbers in scientific and decimal notation are formatted with the same rules regarding significant or decimal digits (#297).

## Bug fixes

- Load the debugme package only if the `DEBUGME` environment variable is set.
- More accurate detection if the decimal dot is necessary, and how many digits to show after the decimal dot (#298).
- Use display width instead of number of characters when truncating character columns.

## Documentation

- New `vignette("numbers")` and `vignette("digits")` (#308).

## Internal

- Compatibility with vctrs 0.3.7 (#291).
- `format.pillar_shaft_simple()` requires `"na"` attribute and no longer defaults to `pillar_na()` (#273).

# pillar 1.5.1

## Features

- New `format_glimpse()` (#177).

## Bug fixes

- Color and formatting can now be reliably turned off by setting the `"cli.num_colors"` option to 1 (#269).

## Documentation

- Add examples for new functions (#264).
- Fix lifecycle badges everywhere.

# pillar 1.5.0

## Breaking changes

- `obj_sum()` now always returns a string. `pillar_shaft.list()` iterates over its elements and calls `obj_sum()` for each (#137).

- Breaking: `print.pillar()` and `print.pillar_ornament()` now show  `<pillar>` `<pillar_ornament>` in the first line (#227, #228).

- pillar has been re-licensed as MIT (#215).

## Extensibility

- New `size_sum()` generic (#239).

- New `ctl_new_pillar()` and `ctl_new_compound_pillar()` used via `print.tbl()`, `format.tbl()` and `tbl_format_setup.tbl()` (#230).

- New `new_pillar()` low-level constructor (#230).

- New `new_pillar_component()` and `pillar_component()` (#230).

- New articles `vignette("extending")` and `vignette("printing")` (#251).

## Formatting

- All printing code has been moved from tibble to pillar (#179), including `glimpse()` (#234). This concentrates the printing code in one package and allows for better extensibility.

- Improve formatting for `"Surv"` and `"Surv2"` classes from the survival package (#199).

- Vectors of the `vctrs_unspecified()` class are formatted better (#256).

- Arrays are now formatted by showing only their first slice (#142).

- Avoid wrapping extra column names with spaces (#254).

## Internal

- Now using debugme to simplify understand the complex control flow, see `vignette("debugme")` (#248).

- New `format.pillar_ornament()` (#228).

- Using testthat 3e (#218).

- Avoid pillar.bold option in most tests (#216).

- Change internal storage format for `colonnade()` and `extra_cols()` (#204).

# pillar 1.4.7

- Adapt to changed environment on CRAN's Solaris machine.

# pillar 1.4.6

- Restore compatibility with R 3.2.

# pillar 1.4.5

## Features

- New `pillar.min_chars` option allows controlling the minimum number of characters shown for a character column (#178, @statsmaths).

- `bit64::integer64()` columns are now formatted the same way as numeric columns (#175).

- New `align()` to support easy alignment of strings within a character vector (existing function exported by @davidchall, #185).

## Technical

- `pillar_shaft()`, `format_type_sum()` and `extra_cols()` issue a warning if dots are unused.

- `new_pillar_title()` and `new_pillar_type()` warn if `...` is not empty.

## Internal

- Use lifecycle package.

- Remove compatibility code for R < 3.3.

# pillar 1.4.4

- `obj_sum()` uses `vctrs::vec_size()` internally.

- `is_vector_s3.default()` is soft-deprecated and no longer used. Please ensure that `vctrs::vec_is()` is `TRUE` for your class.

- Rely on vctrs for type abbreviations.

# pillar 1.4.3

- `new_pillar_shaft_simple()` gains `na` argument to control appearance of `NA` values.

- String columns are quoted if at least one value needs quotes (#171).

- Apply subtle style to `list_of` columns (#172).

- Fix formatting if mantissa is very close to 1 (#174).

- Use `as.character()` instead of `as_character()`.

- Remove compatibility with testthat < 2.0.0.

(mef)

more tex package updates

(markd)

texlive2pkg: update to 1.10

bump default to 2021
fixup some license matches

(markd)

tex-texlive-scripts{,-doc}: update to 2021

changes unknown

(markd)

tex-texlive.infra: update to 2021

changes unknown

(markd)

tex-plautopatch{,-doc}: update to 0.9p

* Prepare for LaTeX2e 2021-06-01.

* Do not delay pxjahyper loading.

(markd)

tex-platex-tools{,-doc}: update to 2021

* Stopped to use \IfHookExistsTF since it is deprecated.

* Bug fix for pxeveryshi.sty.

(markd)

tex-platex{,-doc}: update to 2021

* More fix of \fontshape etc to work fine with LaTeX2e 2021-06-01.
* Fix an error with rolling back with the platexrelease package.

Provides a format `pLaTeX2e <2021-06-01>`,
aiming to synchronize with `LaTeX2e <2021-06-01>`.

(markd)

tex-uplatex{,-doc}: update to 2021

Sync with `pLaTeX2e <2021-06-01>`.

(markd)

print: add tex-latex-firstaid-dev{,-doc}

(markd)

tex-latex-firstaid-dev{,-doc}: add version 1.0l

Development pre-release of the LaTeX firstaid package

(markd)

tex-tlshell{,-doc}: update to 2021

changes unknown

(markd)

tex-texdoc{,-doc}: update to 3.3.1

This is Texdoc update aiming to be contained in TeX Live 2021:

- Show all possible config files for -vf
- Show diagnostic message of DISPLAY only if viewer failed
- Alias adjustments
- Documentation tweaks

(markd)

tex-pxrubrica{,-doc}: update to 1.3d

changes unknown

(markd)

tex-pxjahyper{,-doc}: update to 0.9b

changes unknown

(markd)

tex-pxbase{,-doc}: update to 1.3

changes unknown

(markd)

tex-ptex2pdf{,-doc}: update to 20200520.0.58632

minor change

(markd)

tex-pl{,-doc}: update to 1.09a

1. Cleaned up (hopefully all) references to licensing to not withstand our
claim that the package is under Knuth license. 2. In many places encoding
of texts changed to UTF-8, to make them easier to read. 3. Functionality
should be same.

(markd)

tex-mex{,-doc}: update to 1.05a

1. Cleaned up (hopefully all) references to licensing to not withstand
our claim that the package is under Knuth lincese. 2. In many places
encoding of texts changed to UTF-8, to make easier to read. 3.
Functionality should be same.

(markd)

tex-metafont: update to 2021

changes unknown

(markd)

tex-lwarp{,-doc}: update to 0.898

0.898
Produces fewer underfull \hbox warnings.
Improves wrapfig and keyfloat.

0.897
Added rollback for siunitx v2.
Improved fixme, float.
Added centerlastline, decorule, fancypar, froufrou, pbalance.
Verified works as-is with fnpct.

0.896
Many fixes and improvements.
Now prints theorem footnotes next to theorems.
Accessibility improvements.
Improved citation back references.
Updated chemfig, bigdelim, xetexko.
Added ccicons, classicthesis, orcidlink, enotez.
Verified support for doi, doipubmed.

0.895
Updated multirow, acro, fancyhdr, changes.
Improved epsfig, rotating.
Greatly improved MathJax emulation for siunitx.
Added MathJax emulation for isomath, mattens, maybemath, skmath, tensor.
Added epsf, impnattypo, isotope, lpic, luavlna, mdwmath, pinlabel, rlepsf,
tikz-imagelabels, xevlna.
Verified to work as-is: tensind.

(markd)

tex-koma-script: update to 3.33

- scrlayer-fancyhdr has been removed from KOMA-Script bundle. It will be
released as stand-alone package soon.

- Several adaptions for better coorperation with up-comming LaTeX 2021/05/01.

(markd)

doc: Updated x11/libX11 to 1.7.2

(wiz)

libX11: update to 1.7.2.

This is a bug fix release, correcting a regression [1] introduced by and
improving the checks from the fix for CVE-2021-31535.

[1] https://gitlab.freedesktop.org/xorg/lib/libx11/-/issues/133

Alan Coopersmith (1):
      libX11 1.7.2

Matthieu Herrb (2):
      include <limits.h> always, not if HAVE_CONFIG_H is set.
      Check for NULL strings before getting their lengths

Tobias Stoeckmann (1):
      Protect against overly long strings

(wiz)

doc: Updated games/gemrb to 0.8.8

(nia)

gemrb: update to 0.8.8

GemRB v0.8.8 (2021-06-02):
  New features:
    - gameplay content for the demo
    - Heart of Fury support
    - SDLAudio caching and volume control
    - PlayStation Vita port
    - simpler invocation, AppImage packages

  Improved features:
    - lightning bolts, iwd2 stealth, iwd effects, pst levelup
    - scripting, audio backends, logging
    - build system, portability and performance improvements
    - externalized summoning limit, trap limit, narration text speed
    - bugfixes

(nia)

doc: Updated games/manaplus to 2.1.3.17

(nia)

manaplus: update to 2.1.3.17

2021-03-17 New release 2.1.3.17
fix: clear background under too small maps.
fix: porting fix for mumblemanager from NetBSD.
fix: alternate ip address for char and map servers.
fix: back to login button in world selection window.
fix: foreground theme color in popups.
add: separate auto move sync distance for legacy servers.
add: support for items with id bigger than 65535.
add: chat command /trimmemory for force trim freed memory.
add: switch game console support in source (by cpasjuste).
update: golden delicious theme.
change: protocol version changed to 26.
change: installed desktop icon type to svg (*nix).

(nia)

doc: Updated sysutils/macchina to 0.9.1

(pin)

sysutils/macchina: update to 0.9.1

0.9.1
=====
-Corrected the order of the resolution readout.

0.9.0
=====
-Added a resolution readout.

(pin)

doc: Updated sysutils/xplr to 0.14.0

(pin)

sysutils/xplr: update to 0.14.0

Changes & fixes:
-Added basic CLI arguments. Try xplr --help.
-Fixed config path for macOS. New priority: -c <PATH> > ~/.config/xplr/init.lua
> /etc/xplr/init.lua.
-Further improved the library API.
-Added support for FIFO-based previewer.
-Added option to disable the recover mode (config.general.disable_recover_mode).
-Added support for specifying read only mode via CLI argument.

(pin)

(textproc/R-markdown) Add missing one DEPENDS (R-xfun)

(mef)

(textproc/R-highr) Add missing one DEPENDS (R-xfun)

(mef)

(textproc/R-htmltools) Add missing one DEPENDS

(mef)

(math/R-tibble) correct typo

(mef)

(math/R-tibble) Add missing two DEPENDS+

(mef)

doc: Updated devel/R-IRdisplay to 1.0

(mef)

(devel/R-IRdisplay) Updated 0.7.0 to 1.0, explicit NEWS.md unknown

(mef)

doc: Updated math/R-xts to 0.12.1

(mef)

(math/R-xts) Updated 0.11.2 to 0.12.1

Changed in xts 0.12.1:

o  Various function could change the tclass of xts objects. This would happen
  in calls to reclass(), period.apply(), and for logical operations on
  POSIXct indexes. Thanks to Tom Andrews for the report and testing, and to
  Panagiotis Cheilaris for contributing test cases (#322, #323).

o  plot.xts() now supports y-axis labels via 'ylab'. Thanks to Jasen Mackie
  for the suggestion and PR (#333, #334).

o  The API header has been updated to fix the signatures of do_merge_xts() and
  is_xts, which did not return a SEXP as required of functions callable by
  .Call(). Thanks to Tomas Kalibera for the report (#317), and Dirk
  Eddelbuettel for the PR (#337). This is a breaking change, but is required
  to avoid the potential for a segfault.

o  Michael Chirico added an internal isUTC() function to recognize many UTC-
  equivalent time zones (#319).

o  first() now operates correctly on non-xts objects when 'n = -1'. Previously
  it would always return the last two values. Thanks to GitHub user vxg20
  for the report (#325).

o  The .xts() constructor would create an xts object with row names if 'x' had
  row names. This shouldn't happen, because xts objects do not have or
  support row names (#298).

o  Claymore Marshall added many examples of time-of-day subsetting to
  ?subset.xts. He also fixed a bug in time-of-day subsetting where subsetting
  by hour only returned wrong results (#304, #326, #328).

Changed in xts 0.12-0:

o  All the index-attributes have been removed from the xts object and are now
  only attached to the index itself (#245). We took great care to maintain
  backward compatibility, and throw warnings when deprecated functions are
  called and when index-attributes are found on the xts object. But there
  still may be some breaking changes lurking in edge cases.

  o @SamoPP found one edge case (#297) where an error was thrown when index()
    was called on an xts object with an index that had no tclass attribute.
  o ...which led Joshua to find that the index setting functions did not
    always copy index attributes (#305).

o  Several binary operations (e.g. +, -, !=, <, etc.) on variations of
  uncommon xts objects with other xts, matrix, or vector objects, could
  result in malformed xts objects (#295). Some examples of the types of
  uncommon xts objects: no dim attribute, zero-width, zero-length.

o  Calling as.matrix() on an xts object without a dim attribute no longer
  throws an error (#294).

o  merge.xts() now honors check.names = FALSE (#293).

o  The possible values for major.ticks, minor.ticks, and grid.ticks.on in the
  Details section of ?plot.xts have been corrected. Thanks to Harvey Smith
  (@harvey131) for the report and patch (#291).

o  as.zoo.xts() is now only registered for zoo versions prior to 1.8-5. Methods
  to convert an object to another class should reside in the package that
  implements the target class. Thanks to Kurt Hornik for the report (#287).

o  .parseISO8601() no longer has a potential length-1 logical error. Thanks to
  Kurt Hornik for the report (#280).

o  endpoints() now honors k > 0 when on = "quarters". Thanks to @alkment for
  the report (#279).

o  Performance for the period.XYZ() functions (sum, prod, min, max) is much
  faster (#278). Thanks to Harvey Smith (@harvey131) for the report and
  examples.

o  merge.xts() now creates shorter column names when passed unnamed objects.
  This is now consistent with zoo (#248).

o  Time-of-day performance is ~200x faster, thanks to StackOverflow
  user3226167 (#193).

(mef)

doc: Updated math/R-zoo to 1.8.9

(mef)

(math/R-zoo) Updated 1.8.6 to 1.8.9

Changes in Version 1.8-9

  o Added a basic boxplot(x, ...) method for zoo objects that simply calls
    boxplot(coredata(x), ...).

  o Bug fix in [.zoo and [<-.zoo where indexing with matrices did not
    work correctly anymore in R 4.x.y because "matrix" objects now additionally
    inherit from "array" objects. (Reported by Bill Cunliffe.)

  o Improved internal functionality in na.spline.default() in the same way
    na.approx.default() was enhanced in zoo 1.7-14 and 1.7-13. One difference
    is that while na.approx() requires at least two non-NA observations,
    na.spline() just needs one non-NA observation (using a constant to
    interpolate in that case).

  o If the FUN in rollapply() returns a matrix or data.frame with more than
    one row per element/time point, then this is flattened now so that the
    result is again a matrix with one row per element/time point.

  o merge.zoo() now handles the case of all indexes being integer or numeric
    by coercing the integer indexes to numeric (reported by Simone Giannerini).

  o zooreg(x) now allows to create an integer index if start (and end, if any)
    are integer and the implied deltat is not numerically different from an
    integer value.

Changes in Version 1.8-8

  o diff.zoo(x, arithmetic = FALSE) now also works if x contains negative
    data.

  o merge.zoo() now handles the combination of Date and numeric indexes
    explicitly to work around the new behavior of c.Date() in R >= 4.1.0.

Changes in Version 1.8-7

  o Added scale_type() methods for yearmon/yearqtr to facilitate ggplot2
    visualizations of zoo series with yearmon/yearqtr time index (suggested
    by Brian Diggs). This requires at least ggplot2 3.0.0.

  o In merge.zoo() "character" columns are now processed in the same way
    as "logical" columns.

  o Replaced the "fruitohms" example in the "zoo" vignette because the
    corresponding "DAAG" package is not actively maintained on CRAN anymore.
    Instead the "Journals" data from the "AER" package is used.

(mef)

(graphics/R-munsell) Add one TEST_DEPENDS+=

(mef)

doc: Updated graphics/R-ggplot2 to 3.3.3

(mef)

(graphics/R-ggplot2) Updated 3.2.0 to 3.3.0

# ggplot2 3.3.3
This is a small patch release mainly intended to address changes in R and CRAN.
It further changes the licensing model of ggplot2 to an MIT license.

* Update the ggplot2 licence to an MIT license (#4231, #4232, #4233, and #4281)
* Use vdiffr conditionally so ggplot2 can be tested on systems without vdiffr
* Update tests to work with the new `all.equal()` defaults in R >4.0.3

# ggplot2 3.3.2
This is a small release focusing on fixing regressions introduced in 3.3.1.

* Added an `outside` option to `annotation_logticks()` that places tick marks
  outside of the plot bounds. (#3783, @kbodwin)

* `annotation_raster()` adds support for native rasters. For large rasters,
  native rasters render significantly faster than arrays (@kent37, #3388)

* Facet strips now have dedicated position-dependent theme elements
  (`strip.text.x.top`, `strip.text.x.bottom`, `strip.text.y.left`,
  `strip.text.y.right`) that inherit from `strip.text.x` and `strip.text.y`,
  respectively. As a consequence, some theme stylings now need to be applied to
  the position-dependent elements rather than to the parent elements. This
  change was already introduced in ggplot2 3.3.0 but not listed in the
  changelog. (@thomasp85, #3683)

* Facets now handle layers containing no data (@yutannihilation, #3853).

* A newly added geom `geom_density_2d_filled()` and associated stat
  `stat_density_2d_filled()` can draw filled density contours
  (@clauswilke, #3846).

* A newly added `geom_function()` is now recommended to use in conjunction
  with/instead of `stat_function()`. In addition, `stat_function()` now
  works with transformed y axes, e.g. `scale_y_log10()`, and in plots
  containing no other data or layers (@clauswilke, #3611, #3905, #3983).

* Fixed a bug in `geom_sf()` that caused problems with legend-type
  autodetection (@clauswilke, #3963).

* Support graphics devices that use the `file` argument instead of `fileneame`
  in `ggsave()` (@bwiernik, #3810)

* Default discrete color scales are now configurable through the `options()` of
  `ggplot2.discrete.colour` and `ggplot2.discrete.fill`. When set to a character
  vector of colour codes (or list of character vectors)  with sufficient length,
  these colours are used for the default scale. See `help(scale_colour_discrete)`
  for more details and examples (@cpsievert, #3833).

* Default continuous colour scales (i.e., the `options()`
  `ggplot2.continuous.colour` and `ggplot2.continuous.fill`, which inform the
  `type` argument of `scale_fill_continuous()` and `scale_colour_continuous()`)
  now accept a function, which allows more control over these default
  `continuous_scale()`s (@cpsievert, #3827).

* A bug was fixed in `stat_contour()` when calculating breaks based on
  the `bins` argument (@clauswilke, #3879, #4004).

* Data columns can now contain `Vector` S4 objects, which are widely used in the
  Bioconductor project. (@teunbrand, #3837)

# ggplot2 3.3.1

This is a small release with no code change. It removes all malicious links to a
site that got hijacked from the readme and pkgdown site.

# ggplot2 3.3.0

This is a minor release but does contain a range of substantial new features,
along with the standard bug fixes. The release contains a few visual breaking
changes, along with breaking changes for extension developers due to a shift in
internal representation of the position scales and their axes. No user breaking
changes are included.

This release also adds Dewey Dunnington (@paleolimbot) to the core team.

## Breaking changes
There are no user-facing breaking changes, but a change in some internal
representations that extension developers may have relied on, along with a few
breaking visual changes which may cause visual tests in downstream packages to
fail.

* The `panel_params` field in the `Layout` now contains a list of list of
  `ViewScale` objects, describing the trained coordinate system scales, instead
  of the list object used before. Any extensions that use this field will likely
  break, as will unit tests that checks aspects of this.

* `element_text()` now issues a warning when vectorized arguments are provided,
  as in `colour = c("red", "green", "blue")`. Such use is discouraged and not
  officially supported (@clauswilke, #3492).

* Changed `theme_grey()` setting for legend key so that it creates no border
  (`NA`) rather than drawing a white one. (@annennenne, #3180)

* `geom_ribbon()` now draws separate lines for the upper and lower intervals if
  `colour` is mapped. Similarly, `geom_area()` and `geom_density()` now draw
  the upper lines only in the same case by default. If you want old-style full
  stroking, use `outline.type = "full"` (@yutannihilation, #3503 / @thomasp85, #3708).

## New features

* The evaluation time of aesthetics can now be controlled to a finer degree.
  `after_stat()` supersedes the use of `stat()` and `..var..`-notation, and is
  joined by `after_scale()` to allow for mapping to scaled aesthetic values.
  Remapping of the same aesthetic is now supported with `stage()`, so you can
  map a data variable to a stat aesthetic, and remap the same aesthetic to
  something else after statistical transformation (@thomasp85, #3534)

* All `coord_*()` functions with `xlim` and `ylim` arguments now accept
  vectors with `NA` as a placeholder for the minimum or maximum value
  (e.g., `ylim = c(0, NA)` would zoom the y-axis from 0 to the
  maximum value observed in the data). This mimics the behaviour
  of the `limits` argument in continuous scale functions
  (@paleolimbot, #2907).

* Allowed reversing of discrete scales by re-writing `get_limits()`
  (@AnneLyng, #3115)

* All geoms and stats that had a direction (i.e. where the x and y axes had
  different interpretation), can now freely choose their direction, instead of
  relying on `coord_flip()`. The direction is deduced from the aesthetic
  mapping, but can also be specified directly with the new `orientation`
  argument (@thomasp85, #3506).

* Position guides can now be customized using the new `guide_axis()`, which can
  be passed to position `scale_*()` functions or via `guides()`. The new axis
  guide (`guide_axis()`) comes with arguments `check.overlap` (automatic removal
  of overlapping labels), `angle` (easy rotation of axis labels), and
  `n.dodge` (dodge labels into multiple rows/columns) (@paleolimbot, #3322).

* A new scale type has been added, that allows binning of aesthetics at the
  scale level. It has versions for both position and non-position aesthetics and
  comes with two new guides (`guide_bins` and `guide_coloursteps`)
  (@thomasp85, #3096)

* `scale_x_continuous()` and `scale_y_continuous()` gains an `n.breaks` argument
  guiding the number of automatic generated breaks (@thomasp85, #3102)

* Added `stat_contour_filled()` and `geom_contour_filled()`, which compute
  and draw filled contours of gridded data (@paleolimbot, #3044).
  `geom_contour()` and `stat_contour()` now use the isoband package
  to compute contour lines. The `complete` parameter (which was undocumented
  and has been unused for at least four years) was removed (@paleolimbot, #3044).

* Themes have gained two new parameters, `plot.title.position` and
  `plot.caption.position`, that can be used to customize how plot
  title/subtitle and plot caption are positioned relative to the overall plot
  (@clauswilke, #3252).

## Extensions

* `Geom` now gains a `setup_params()` method in line with the other ggproto
  classes (@thomasp85, #3509)

* The newly added function `register_theme_elements()` now allows developers
  of extension packages to define their own new theme elements and place them
  into the ggplot2 element tree (@clauswilke, #2540).

## Minor improvements and bug fixes

* `coord_trans()` now draws second axes and accepts `xlim`, `ylim`,
  and `expand` arguments to bring it up to feature parity with
  `coord_cartesian()`. The `xtrans` and `ytrans` arguments that were
  deprecated in version 1.0.1 in favour of `x` and `y`
  were removed (@paleolimbot, #2990).

* `coord_trans()` now calculates breaks using the expanded range
  (previously these were calculated using the unexpanded range,
  which resulted in differences between plots made with `coord_trans()`
  and those made with `coord_cartesian()`). The expansion for discrete axes
  in `coord_trans()` was also updated such that it behaves identically
  to that in `coord_cartesian()` (@paleolimbot, #3338).

* `expand_scale()` was deprecated in favour of `expansion()` for setting
  the `expand` argument of `x` and `y` scales (@paleolimbot).

* `geom_abline()`, `geom_hline()`, and `geom_vline()` now issue
  more informative warnings when supplied with set aesthetics
  (i.e., `slope`, `intercept`, `yintercept`, and/or `xintercept`)
  and mapped aesthetics (i.e., `data` and/or `mapping`).

* Fix a bug in `geom_raster()` that squeezed the image when it went outside
  scale limits (#3539, @thomasp85)

* `geom_sf()` now determines the legend type automatically (@microly, #3646).

* `geom_sf()` now removes rows that can't be plotted due to `NA` aesthetics
  (#3546, @thomasp85)

* `geom_sf()` now applies alpha to linestring geometries
  (#3589, @yutannihilation).

* `gg_dep()` was deprecated (@perezp44, #3382).

* Added function `ggplot_add.by()` for lists created with `by()`, allowing such
  lists to be added to ggplot objects (#2734, @Maschette)

* ggplot2 no longer depends on reshape2, which means that it no longer
  (recursively) needs plyr, stringr, or stringi packages.

* Increase the default `nbin` of `guide_colourbar()` to place the ticks more
  precisely (#3508, @yutannihilation).

* `manual_scale()` now matches `values` with the order of `breaks` whenever
  `values` is an unnamed vector. Previously, unnamed `values` would match with
  the limits of the scale and ignore the order of any `breaks` provided. Note
  that this may change the appearance of plots that previously relied on the
  unordered behaviour (#2429, @idno0001).

* `scale_manual_*(limits = ...)` now actually limits the scale (#3262,
  @yutannihilation).

* Fix a bug when `show.legend` is a named logical vector
  (#3461, @yutannihilation).

* Added weight aesthetic option to `stat_density()` and made scaling of
  weights the default (@annennenne, #2902)

* `stat_density2d()` can now take an `adjust` parameter to scale the default
  bandwidth. (#2860, @haleyjeppson)

* `stat_smooth()` uses `REML` by default, if `method = "gam"` and
  `gam`'s method is not specified (@ikosmidis, #2630).

* stacking text when calculating the labels and the y axis with
  `stat_summary()` now works (@ikosmidis, #2709)

* `stat_summary()` and related functions now support rlang-style lambda functions
  (#3568, @dkahle).

* The data mask pronoun, `.data`, is now stripped from default labels.

* Addition of partial themes to plots has been made more predictable;
  stepwise addition of individual partial themes is now equivalent to
  addition of multple theme elements at once (@clauswilke, #3039).

* Facets now don't fail even when some variable in the spec are not available
  in all layers (@yutannihilation, #2963).

# ggplot2 3.2.1

This is a patch release fixing a few regressions introduced in 3.2.0 as well as
fixing some unit tests that broke due to upstream changes.

* `position_stack()` no longer changes the order of the input data. Changes to
  the internal behaviour of `geom_ribbon()` made this reordering problematic
  with ribbons that spanned `y = 0` (#3471)
* Using `qplot()` with a single positional aesthetic will no longer title the
  non-specified scale as `"NULL"` (#3473)
* Fixes unit tests for sf graticule labels caused by chages to sf

(mef)

doc: Updated geography/R-sf to 0.9.8

(mef)

(geography/R-sf) Updated 0.9.5 to 0.9.8

# version 0.9-8

* add `st_as_sf` method for terra's `SpatVector` class; #1567

* `distinct.sf` works by default on all variables, and keeps active geometry
  afctive; #1613

* improve (fix?) polygonize/contour code; #1608

* `sf_proj_network()` reports whether PROJ uses network (CDN) grids, can switch
  it on or off, and can set the CDN url.

* `st_write` returns obj, invisibly; #1597

* fix regression in n-ary `st_intersection()`, #1595, introduced at #1549

* `st_inscribed_circle` computes the maximum inscribed circle for polygons
  (requires GEOS >= 3.9.0)

* allow to `st_cast` COMPOUNDCURVE, MULTISURFACE or CURVEPOLYGON to
  GEOMETRYCOLLECTION (and back); #1573

* Fixed a bug in `st_as_grob()` when plotting a mix of MULTI and non-MULTI
  geometries of the same base type

# version 0.9-7

* n-ary `st_intersection` skips failing geometries, rather than returning an
  error; #1549

* use `s2_centroid` for geographical coordinates if `sf_use_s2()` is `TRUE`.

* `st_as_text` method for `crs` objects can return projjson (if GDAL >= 3.1.0
  and PROJ > 6.2.0)

* `st_transform` no longer warns on conversions like `"+proj=ob_tran
  +o_proj=longlat +o_lat_p=45 +o_lon_p=30"`

* `st_as_wkb` takes `srid` from `wkt` field of `crs` when `input` field doesn't
  contain it; #1490

* `plot.sf` adds `key.pos=0` option to run the logic behind the key without
  plotting it; #1487

* fix bug in `select.sf` when selected variables were renamed; #1483

* `st_as_sf.stars` with `merge = TRUE` now works if crs is `NA`; #1389

* add (dynamically loaded) `as_wkb` methods for `sf`, `sfc` and `sfg`, making
  `st_as_s2()` unnecessary

* `st_as_s2` transforms non-longlat objects to EPSG:4326 first

# version 0.9-6

* `gdal_utils` print (GDAL-style) progress bar if `quiet = FALSE` (except for
  `info` and `mdiminfo`)

* fix `CPL_gdal_warper` for multi bands; https://github.com/r-spatial/stars/issues/320

* `sf_proj_search_paths()` retrieves and sets the proj search path (if GDAL > 3.0.3)

* when loading sf, `sf_use_s2` is set to `FALSE` unless environment variable
  `_SF_USE_S2` equals `true`

* resolve GDAL/PROJ version vulnerabilities in CRS-crs conversion; #1479

* `st_sample` gains an argument, `by_polygon`, to more clevery sample
  `MULTIPOLYGON` geometries; #1480

* `st_sample` accepts non-integer sample sizes, with a (suppressable) warning
  and handles values of sizes that would round to zero; #1480

* `gdal_utils` adds utils `mdiminfo` and `mdimtranslate` (requires GDAL >= 3.1)

* `st_union` gains an argument `is_coverage`, which, when set to `TRUE`, leads
  to much faster unioning in case features form a coverage (polygons don't
  overlap); #1462 by Don Baston

* fix `gdal_utils("translate")` locking input file; #1452

* `st_make_grid` no longer selects cells intersecting with `x`; #1447

* use `s2::s2_dwithin_matrix` in `st_is_within_distance`; #1367

(mef)

doc: Updated devel/R-waldo to 0.2.5

(mef)

(devel/R-waldo) Updated 0.2.3 to 0.2.5

# waldo 0.2.5

* On platforms without UTF-8 support, strings that differ only in their
  encoding are now correctly considered to be identical (#66).

# waldo 0.2.4

* Additional arguments to `compare()` generate a more informative warning
  (#58).

* Numbers use a better algorithm for picking the number of decimal places to
  show (#63).

* ASTs with identical deparsed strings now show exactly how the AST differs.
  Source references are now more comprehensively stripped using
  `rlang::zap_srcrefs()`

* S3 objects now show the base type, and no longer fails when the types are
  incompatible.

(mef)

doc: Updated math/R-forcats to 0.5.1

(mef)

doc: Updated lang/janet to 1.16.0

(nia)

janet: update to 1.16.0

## 1.16.0 - 2021-05-30
- Add color documentation to the `doc` macro - enable/disable with `(dyn :doc-color)`.
- Remove simpler HTML docs from distribution - use website or built-in documentation instead.
- Add compiler warnings and deprecation levels.
- Add `as-macro` to make using macros within quasiquote easier to do hygienically.
- Expose `JANET_OUT_OF_MEMORY` as part of the Janet API.
- Add `native-deps` option to `decalre-native` in `jpm`. This lets native libraries link to other
  native libraries when building with jpm.
- Remove the `tarray` module. The functionality of typed arrays will be moved to an external module
  that can be installed via `jpm`.
- Add `from-pairs` to core.
- Add `JPM_OS_WHICH` environment variable to jpm to allow changing auto-detection behavior.
- The flychecker will consider any top-level calls of functions that start with `define-` to
  be safe to execute and execute them. This allows certain patterns (like spork/path) to be
  better processed by the flychecker.

(nia)

(math/R-forcats) Updated 0.4.0 to 0.5.1

# forcats 0.5.1

* Re-license as MIT (#277).

* `fct_lump_n()` no longer uses a partial argument name (@malcolmbarrett, #276).

# forcats 0.5.0

* `as_factor()` gains a logical method that always returns a factor with
  levels "FALSE" and "TRUE" (#185).

* `fct_c()`, `fct_collapse()` and `fct_recode()` are now explicitly
  documented as using [dynamic dots](https://rlang.r-lib.org/reference/dyn-dots.html)
  (@labouz, #234).

* `fct_collapse()` now accepts a `other_level` argument, to allow a
  user-specified `Other` level (@gtm19, #194). It now correctly collapses
  factors when `other_level` is not `NULL` (#172), and makes `"Other"` the
  last level (#202) (@gtm19, #172 & #202)

* `fct_count()` no longer converts implicit NAs into explicit NAs (#151).

* `fct_inseq()` behaves more robustly when factor levels aren't all numbers
  (#221).

* `fct_lump()` has been split up into three new functions: `fct_lump_prop()`,
  `fct_lump_n()`, and `fct_lump_lowfreq()`. (@jonocarroll, #167, #142).
  All `fct_lump_()` functions check their inputs more carefully
  (@robinson_es, #169)

* `fct_reorder2()` gains a helper function `first2()`, that sorts `.y` by the
  first value of `.x` (@jtr13).

(mef)

mini_httpd: define LICENSE, link -lcrypt on all nondarwin

(nia)