Search Results: "tali"

19 December 2023

Dirk Eddelbuettel: tinythemes 0.0.1 at CRAN: New Package

Delighted to announce a new package that arrived on CRAN today: tinythemes. It repackages the theme_ipsum_rc() function by Bob Rudis from his hrbrthemes package in a zero (added) dependency way. A simple example is (also available as a demo inside the packages in the next update) contrasts the default style (on left) with the one added by this package (on the right): The GitHub repo also shows this little example: total dependencies of hrbrthemes over what ggplot2 installs:
> db <- tools::CRAN_package_db()
> deps <- tools::package_dependencies(c("ggplot2", "hrbrthemes"), recursive=TRUE, db=db
> Filter(\(x) x != "ggplot2", setdiff(deps[[2]], deps[[1]]))
 [1] "extrafont"         "knitr"             "rmarkdown"         "htmltools"        
 [5] "tools"             "gdtools"           "extrafontdb"       "Rttf2pt1"         
 [9] "Rcpp"              "systemfonts"       "gfonts"            "curl"             
[13] "fontquiver"        "base64enc"         "digest"            "ellipsis"         
[17] "fastmap"           "evaluate"          "highr"             "xfun"             
[21] "yaml"              "bslib"             "fontawesome"       "jquerylib"        
[25] "jsonlite"          "stringr"           "tinytex"           "cachem"           
[29] "memoise"           "mime"              "sass"              "fontBitstreamVera"
[33] "fontLiberation"    "shiny"             "crul"              "crayon"           
[37] "stringi"           "cpp11"             "urltools"          "httpcode"         
[41] "fs"                "rappdirs"          "httpuv"            "xtable"           
[45] "sourcetools"       "later"             "promises"          "commonmark"       
[49] "triebeard"        
>
Comments and suggestions are welcome at the GitHub repo. If you like this or other open-source work I do, you can sponsor me at GitHub.

This post by Dirk Eddelbuettel originated on his Thinking inside the box blog. Please report excessive re-aggregation in third-party for-profit settings.

17 December 2023

Dirk Eddelbuettel: littler 0.3.19 on CRAN: Several Updates

max-heap image The twentieth release of littler as a CRAN package landed a few minutes ago, following in the now seventeen year history (!!) as a package started by Jeff in 2006, and joined by me a few weeks later. littler is the first command-line interface for R as it predates Rscript. It allows for piping as well for shebang scripting via #!, uses command-line arguments more consistently and still starts faster. It also always loaded the methods package which Rscript only began to do in recent years. littler lives on Linux and Unix, has its difficulties on macOS due to yet-another-braindeadedness there (who ever thought case-insensitive filesystems as a default were a good idea?) and simply does not exist on Windows (yet the build system could be extended see RInside for an existence proof, and volunteers are welcome!). See the FAQ vignette on how to add it to your PATH. A few examples are highlighted at the Github repo:, as well as in the examples vignette. This release contains a fair number of small changes and improvements to some of the example scripts is run daily. The full change description follows.

Changes in littler version 0.3.19 (2023-12-17)
  • Changes in examples scripts
    • The help or usage text display for r2u.r, ttt.r, check.r has been improved, expanded or corrected, respectively
    • installDeps.r has a new argument for dependency selection
    • An initial 'single test file' runner tttf.r has been added
    • r2u.r has two new options for setting / varying the Debian build version of package that is built, and one for BioConductor builds, one for a 'dry run' build, and a new --compile option
    • installRSPM.r, installPPM.r, installP3M.r have been updates to reflect the name changes
    • installRub.r now understands 'package@universe' too
    • tt.r flips the default of the --effects switch

My CRANberries service provides a comparison to the previous release. Full details for the littler release are provided as usual at the ChangeLog page, and also on the package docs website. The code is available via the GitHub repo, from tarballs and now of course also from its CRAN page and via install.packages("littler"). Binary packages are available directly in Debian as well as (in a day or two) Ubuntu binaries at CRAN thanks to the tireless Michael Rutter. Comments and suggestions are welcome at the GitHub repo. If you like this or other open-source work I do, you can sponsor me at GitHub.

This post by Dirk Eddelbuettel originated on his Thinking inside the box blog. Please report excessive re-aggregation in third-party for-profit settings.

14 December 2023

Dirk Eddelbuettel: RProtoBuf 0.4.21 on CRAN: Updated Upstream Support!

An exciting new release 0.4.21 of RProtoBuf arrived on CRAN earlier today. RProtoBuf provides R with bindings for the Google Protocol Buffers ( ProtoBuf ) data encoding and serialization library used and released by Google, and deployed very widely in numerous projects as a language and operating-system agnostic protocol. ProtoBuf development, following what seemed like a multi-year lull, all of a sudden picked up again with a vengeance a little while ago. And the library releases we rely on for convenience and provided by the Linux distributions are lagging. So last summer we received an excellent, and focussed, pull request #93 offering to update the package to the newer ProtoBuf 22.0 and beyond. (Aside: When a library ditches its numbering scheme you know changes are for real . My Ubuntu 23.10 box is still at 3.21 in a different counting scheme .) But it wasn t until last weekend the issue ticket #95 by Sebastian ran into the same issue, but recognized it and contained a container recipe! So now all of a sudden we were able to build under a newer ProtoBuf which made accepting the PR #93 much easier! We added this as an additional continuous unit test, and made a few other smaller updates to documentation and style. The following section from the NEWS.Rd file has full details.

Changes in RProtoBuf version 0.4.21 (2022-12-13)
  • Package now builds with ProtoBuf >= 22.x thanks to Matteo Gianella (#93 addressing #92).
  • An Alpine 3.19-based workflow was added to test this in continuous integration thanks to a suggestion by Sebastian Meyer.
  • A large number of old-style .Call were updated (#96).
  • Several packaging, dcoumentation and testing items were updated.

Thanks to my CRANberries, there is a diff to the previous release. The RProtoBuf page has copies of the (older) package vignette, the quick overview vignette, and the pre-print of our JSS paper. Questions, comments etc should go to the GitHub issue tracker off the GitHub repo. If you like this or other open-source work I do, you can sponsor me at GitHub.

This post by Dirk Eddelbuettel originated on his Thinking inside the box blog. Please report excessive re-aggregation in third-party for-profit settings.

9 December 2023

Dirk Eddelbuettel: RcppInt64 0.0.4 on CRAN: Minor Bugfix

The new-ish package RcppInt64 (announced earlier this fall in this post, with two small updates following) arrived on CRAN minutes ago as relase 0.0.4. RcppInt64 collects some of the previous conversions between 64-bit integer values in R and C++, and regroups them in a single package. It offers two interfaces: both a more standard as<>() converter from R values along with its companions wrap() to return to R, as well as more dedicated functions from and to . This release addresses an issues Sebastian reported a few hours and which is reported by newer, pickier compilers: We need to include <cstdint> so that int64_t is declared. CRAN was at its usual best processing this efficiently including tests of the by now two reverse dependencies. Twenty two minutes total, all automated: The brief NEWS entry follows:

Changes in version 0.0.4 (2023-12-09)
  • The cstdint header is now included (closes #1).

Courtesy of my CRANberries, there is a diffstat report relative to previous release. If you like this or other open-source work I do, you can sponsor me at GitHub.

This post by Dirk Eddelbuettel originated on his Thinking inside the box blog. Please report excessive re-aggregation in third-party for-profit settings.

5 December 2023

Dirk Eddelbuettel: RcppArmadillo 0.12.6.6.1 on CRAN: No More Deprecation

armadillo image Armadillo is a powerful and expressive C++ template library for linear algebra and scientific computing. It aims towards a good balance between speed and ease of use, has a syntax deliberately close to Matlab, and is useful for algorithm development directly in C++, or quick conversion of research code into production environments. RcppArmadillo integrates this library with the R environment and language and is widely used by (currently) 1126 other packages on CRAN, downloaded 31.7 million times (per the partial logs from the cloud mirrors of CRAN), and the CSDA paper (preprint / vignette) by Conrad and myself has been cited 569 times according to Google Scholar. This release ends the practice on asking Armadillo to suppress deprecation warnings. RcppArmadillo, as noted, has a large user base. Sometimes Conrad sometimes made changes without too much of a heads-up so at times it was opportune to not bring those warnings to dozens (or maybe hundreds) of packages at CRAN. Yet we need to balance this with the demonstrable need to call out older deprecated code use. So sixteen months ago, with GitHub issue #391, we started to alert author of 30+ affected packages and supplied either pull requests or emailed patches to all. Eleven months ago GitHub issues #402 was added for a second deprecation. And the time of making the switch has come. Release 0.12.6.6.1 no longer defines ARMA_IGNORE_DEPRECATED_MARKER. So among the over 1100 packages using RcppArmadillo at CRAN, around a good dozen or so were flagged in the upload but CRAN concurred and let the package migrate to CRAN. If you maintain an affected package, consider applying the patch or pull request now. A simple stop-gap measure also exists by adding -DARMA_IGNORE_DEPRECATED_MARKER to src/Makevars as either PKG_CPPFLAGS or PKG_CXXFLAGS to reactivate it. But a proper code update, which is generally simple, may be better. If you are unsure, do not hesitate to get in touch. The set of changes since the last CRAN release follows.

Changes in RcppArmadillo version 0.12.6.6.1 (2023-12-03)
  • Following the extendeded transition in #391 and #402, this release no longer sets ARMA_IGNORE_DEPRECATED_MARKER. Maintainers of affected packages have received pull requests or patches and can set -DARMA_IGNORE_DEPRECATED_MARKER as PKG_CPPFLAGS.

Courtesy of my CRANberries, there is a diffstat report relative to previous release. More detailed information is on the RcppArmadillo page. Questions, comments etc should go to the rcpp-devel mailing list off the Rcpp R-Forge page. If you like this or other open-source work I do, you can sponsor me at GitHub.

This post by Dirk Eddelbuettel originated on his Thinking inside the box blog. Please report excessive re-aggregation in third-party for-profit settings.

3 December 2023

Dirk Eddelbuettel: dang 0.0.16: New Features, Some Maintenance

A new release of my mixed collection of things package dang package arrived at CRAN a little while ago. The dang package regroups a few functions of mine that had no other home as for example lsos() from a StackOverflow question from 2009 (!!), the overbought/oversold price band plotter from an older blog post, the market monitor blogged about as well as the checkCRANStatus() function tweeted about by Tim Taylor. And more so take a look. This release brings a number of updates, including a rather nice improvement to the market monitor making updates buttery smooth and not flickering (with big thanks to Paul Murrell who calmly pointed out once again that base R does of course have the functionality I was seeking) as well as three new functions (!!) and then a little maintenance on the -Wformat print format string issue that kept everybody busy this week. The NEWS entry follows.

Changes in version 0.0.16 (2023-12-02)
  • Added new function str.language() based on post by Bill Dunlap
  • Added new argument sleep in intradayMarketMonitor
  • Switched to dev.hold() and dev.flush() in intradayMarketMonitor with thanks to Paul Murrell
  • Updated continued integration setup, twice, and package badges
  • Added new function shadowedPackages
  • Added new function limitDataTableCores
  • Updated two error() calls to updated tidyCpp signature to not tickle -Wformat warnings under R-devel
  • Updated two URL to please link checks in R-devel
  • Switch two tests for variable of variable to is.* and inherits(), respectively

Courtesy of my CRANberries, there is a comparison to [the previous release][previous releases]. For questions or comments use the the issue tracker at the GitHub repo. If you like this or other open-source work I do, you can now sponsor me at GitHub.

This post by Dirk Eddelbuettel originated on his Thinking inside the box blog. Please report excessive re-aggregation in third-party for-profit settings.

2 December 2023

Dirk Eddelbuettel: tidyCpp 0.0.7 on CRAN: Maintenance

A maintenance release of the tidyCpp package arrived on CRAN this morning. The packages offers a clean C++ layer (as well as one small C++ helper class) on top of the C API for R which aims to make use of this robust (if awkward) C API a little easier and more consistent. See the vignette for motivating examples. This release follows a number of other releases this week in accomodating the recently added -Wformat -Wformat-security from the development branch of R. It also includes a new example snippet illustrating creation of a numeric matrix. The NEWS entry follows.

Changes in tidyCpp version 0.0.7 (2023-11-30)
  • Add an example for a numeric matrix creator
  • Update the continuous integration setup
  • Accomodate print format warnings from r-devel

Thanks to my CRANberries, there is also a diffstat report for this release. For questions, suggestions, or issues please use the issue tracker at the GitHub repo. If you like this or other open-source work I do, you can now sponsor me at GitHub.

This post by Dirk Eddelbuettel originated on his Thinking inside the box blog. Please report excessive re-aggregation in third-party for-profit settings.

1 December 2023

Dirk Eddelbuettel: RcppClassicExamples 0.1.3 on CRAN: Maintenance

Another upgrade triggered solely by changing CRAN standards (see previous one from five years ago). This time it concerns warnings under r-devel with -Wformat -Wformat-security so we injected a number of "%s" into Rf_error() calls. No new code or features. Full details below. And as a reminder, don t use the old RcppClassic use Rcpp instead.

Changes in version 0.1.3 (2023-11-30)
  • Update Rf_error() call to not tickle -Wformat
  • Minor other packaging and continuous integration tweaks

Thanks to CRANberries, you can also look at a diff to the previous release. If you like this or other open-source work I do, you can sponsor me at GitHub.

This post by Dirk Eddelbuettel originated on his Thinking inside the box blog. Please report excessive re-aggregation in third-party for-profit settings.

30 November 2023

Dirk Eddelbuettel: RcppSpdlog 0.0.15 on CRAN: Maintenance

Version 0.0.15 of RcppSpdlog is now on CRAN and will be uploaded to Debian. RcppSpdlog bundles spdlog, a wonderful header-only C++ logging library with all the bells and whistles you would want that was written by Gabi Melman, and also includes fmt by Victor Zverovich. You can learn more at the nice package documention site. This releases updates the code to address warning now shown under R-devel when -Wformat -Wformat-security are enabled. This amounted to re-generating RcppExports.cpp under an updated [Rcpp][rcpp] version. It also updates the package default help page by removing some stubs that were not filled in. The NEWS entry for this release follows.

Changes in RcppSpdlog version 0.0.15 (2023-11-29)
  • Correct default package help page slighly
  • RcppExports.cpp has been regenerated under an updated Rcpp to address a format string warning under R-devel

Courtesy of my CRANberries, there is also a diffstat report. More detailed information is on the RcppSpdlog page, or the package documention site. If you like this or other open-source work I do, you can sponsor me at GitHub.

This post by Dirk Eddelbuettel originated on his Thinking inside the box blog. Please report excessive re-aggregation in third-party for-profit settings.

Dirk Eddelbuettel: qlcal 0.0.9 on CRAN: Maintenance

The ninth release of the qlcal package arrivied at CRAN today. qlcal delivers the calendaring parts of QuantLib. It is provided (for the R package) as a set of included files, so the package is self-contained and does not depend on an external QuantLib library (which can be demanding to build). qlcal covers over sixty country / market calendars and can compute holiday lists, its complement (i.e. business day lists) and much more. This releases updates the code to address warning now shown under R-devel when -Wformat -Wformat-security are enabled. This amounted to re-generating RcppExports.cpp under an updated Rcpp version. We also no longer set C++14 explicitly as a compilation standard but rather determine at build time if it is needed or not.

Changes in version 0.0.9 (2023-11-29)
  • configure now uses a new helper script to only set a compilation standard when needed for R versions older than 4.2.0
  • The file RcppExports.cpp was regenerated to avoid a string format warning from R-devel

Courtesy of my CRANberries, there is a diffstat report for this release. See the project page and package documentation for more details, and more examples. If you like this or other open-source work I do, you can now sponsor me at GitHub.

This post by Dirk Eddelbuettel originated on his Thinking inside the box blog. Please report excessive re-aggregation in third-party for-profit settings.

Dirk Eddelbuettel: RcppQuantuccia 0.1.1 on CRAN: Maintenance

A minor release of RcppQuantuccia arrived on CRAN today. RcppQuantuccia started from the Quantuccia header-only subset / variant of QuantLib which it brings it to R. This project validated the idea of making the calendaring functionality of QuantLib available in a more compact and standalone project which we now do with qlcal which can be seen as a successor to this. This releases updates the code to address warning now shown under R-devel when -Wformat -Wformat-security are enabled. This amounted to re-generating RcppExports.cpp under an updated Rcpp version. We also no longer set C++14 explicitly as a compilation standard. The complete list changes for this release follows.

Changes in version 0.1.2 (2023-11-29)
  • RcppExports.cpp has been regenerated under an updated Rcpp to address a format string warning under R-devel
  • The compilation standard is no longer set to C++14

Courtesy of CRANberries, there is also a diffstat report relative to the previous release. More information is on the RcppQuantuccia page. Issues and bugreports should go to the GitHub issue tracker. If you like this or other open-source work I do, you can now sponsor me at GitHub.

This post by Dirk Eddelbuettel originated on his Thinking inside the box blog. Please report excessive re-aggregation in third-party for-profit settings.

28 November 2023

Dirk Eddelbuettel: RcppSimdJson 0.1.11 on CRAN: Maintenance

A new maintenance release 0.1.11 of the RcppSimdJson package is now on CRAN. RcppSimdJson wraps the fantastic and genuinely impressive simdjson library by Daniel Lemire and collaborators. Via very clever algorithmic engineering to obtain largely branch-free code, coupled with modern C++ and newer compiler instructions, it results in parsing gigabytes of JSON parsed per second which is quite mindboggling. The best-case performance is faster than CPU speed as use of parallel SIMD instructions and careful branch avoidance can lead to less than one cpu cycle per byte parsed; see the video of the talk by Daniel Lemire at QCon. This release responds to a CRAN request to address issues now identified by -Wformat -Wformat-security. These are frequently pretty simple changes as it was here: all it took was an call to compileAttributes() from an updated Rcpp version which now injects "%s" as a format string when calling Rf_error(). The (very short) NEWS entry for this release follows.

Changes in version 0.1.11 (2023-11-28)
  • RcppExports.cpp has been regenerated under an update Rcpp to address a print format warning (Dirk in #88).

Courtesy of my CRANberries, there is also a diffstat report for this release. For questions, suggestions, or issues please use the issue tracker at the GitHub repo. If you like this or other open-source work I do, you can now sponsor me at GitHub.

This post by Dirk Eddelbuettel originated on his Thinking inside the box blog. Please report excessive re-aggregation in third-party for-profit settings.

Dirk Eddelbuettel: RcppCNPy 0.2.12 on CRAN: More Maintenance

A new (and again somewhat minor) maintenance release of the RcppCNPy package arrived on CRAN earlier today. RcppCNPy provides R with read and write access to NumPy files thanks to the cnpy library by Carl Rogers along with Rcpp for the glue to R. Recent changes in r-devel hone in on issues concerning printf format string inaccuracies the compiler can detect via the -Wformat -Wformat-security flags. Two fairly simplye ones were present here and have been addressed. In the time since the last release about twenty months ago two or three other minor packaging and setup details have also been taken care of, details are below.

Changes in version 0.2.12 (2022-11-27)
  • The continuous integration workflow received a trivial update, twice.
  • The C++ compilation standard is now implicit per CRAN and R preference.
  • The CITATION file format has been updated for the current usage.
  • Two print format string issues reported by current R-devel have been addressed.

CRANberries also provides a diffstat report for the latest release. As always, feedback is welcome and the best place to start a discussion may be the GitHub issue tickets page. If you like this or other open-source work I do, you can now sponsor me at GitHub.

This post by Dirk Eddelbuettel originated on his Thinking inside the box blog. Please report excessive re-aggregation in third-party for-profit settings.

26 November 2023

Dirk Eddelbuettel: RQuantLib 0.4.20 on CRAN: More Maintenance

A new release 0.4.20 of RQuantLib arrived at CRAN earlier today, and has already been uploaded to Debian as well. QuantLib is a rather comprehensice free/open-source library for quantitative finance. RQuantLib connects (some parts of) it to the R environment and language, and has been part of CRAN for more than twenty years (!!) as it was one of the first packages I uploaded there. This release of RQuantLib brings a few more updates for nags triggered by recent changes in the upcoming R release (aka r-devel , usually due in April). The Rd parser now identifies curly braces that lack a preceding macro, usually a typo as it was here which affected three files. The printf (or alike) format checker found two more small issues. The run-time checker for examples was unhappy with the callable bond example so we only run it in interactive mode now. Lastly I had alread commented-out the setting for a C++14 compilation (required by the remaining Boost headers) as C++14 has been the default since R 4.2.0 (with suitable compilers, at least). Those who need it explicitly will have to uncomment the line in src/Makevars.in. Lastly, the expand printf format strings also found a need for a small change in Rcpp so the development version (now 1.0.11.5) has that addressed; the change will be part of Rcpp 1.0.12 in January.

Changes in RQuantLib version 0.4.20 (2023-11-26)
  • Correct three help pages with stray curly braces
  • Correct two printf format strings
  • Comment-out explicit selection of C++14
  • Wrap one example inside 'if (interactive())' to not exceed total running time limit at CRAN checks

Courtesy of my CRANberries, there is also a diffstat report for the this release 0.4.20. As always, more detailed information is on the RQuantLib page. Questions, comments etc should go to the rquantlib-devel mailing list. Issue tickets can be filed at the GitHub repo. If you like this or other open-source work I do, you can now sponsor me at GitHub.

This post by Dirk Eddelbuettel originated on his Thinking inside the box blog. Please report excessive re-aggregation in third-party for-profit settings.

Niels Thykier: Providing online reference documentation for debputy

I do not think seasoned Debian contributors quite appreciate how much knowledge we have picked up and internalized. As an example, when I need to look up documentation for debhelper, I generally know which manpage to look in. I suspect most long time contributors would be able to a similar thing (maybe down 2-3 manpages). But new contributors does not have the luxury of years of experience. This problem is by no means unique to debhelper. One thing that debhelper does very well, is that it is hard for users to tell where a addon "starts" and debhelper "ends". It is clear you use addons, but the transition in and out of third party provided tools is generally smooth. This is a sign that things "just work(tm)". Except when it comes to documentation. Here, debhelper's static documentation does not include documentation for third party tooling. If you think from a debhelper maintainer's perspective, this seems obvious. Embedding documentation for all the third-party code would be very hard work, a layer-violation, etc.. But from a user perspective, we should not have to care "who" provides "what". As as user, I want to understand how this works and the more hoops I have to jump through to get that understanding, the more frustrated I will be with the toolstack. With this, I came to the conclusion that the best way to help users and solve the problem of finding the documentation was to provide "online documentation". It should be possible to ask debputy, "What attributes can I use in install-man?" or "What does path-metadata do?". Additionally, the lookup should work the same no matter if debputy provided the feature or some third-party plugin did. In the future, perhaps also other types of documentation such as tutorials or how-to guides. Below, I have some tentative results of my work so far. There are some improvements to be done. Notably, the commands for these documentation features are still treated a "plugin" subcommand features and should probably have its own top level "ask-me-anything" subcommand in the future.
Automatic discard rules Since the introduction of install rules, debputy has included an automatic filter mechanism that prunes out unwanted content. In 0.1.9, these filters have been named "Automatic discard rules" and you can now ask debputy to list them.
$ debputy plugin list automatic-discard-rules
+-----------------------+-------------+
  Name                    Provided By  
+-----------------------+-------------+
  python-cache-files      debputy      
  la-files                debputy      
  backup-files            debputy      
  version-control-paths   debputy      
  gnu-info-dir-file       debputy      
  debian-dir              debputy      
  doxygen-cruft-files     debputy      
+-----------------------+-------------+
For these rules, the provider can both provide a description but also an example of their usage.
$ debputy plugin show automatic-discard-rules la-files
Automatic Discard Rule: la-files
================================
Documentation: Discards any .la files beneath /usr/lib
Example
-------
    /usr/lib/libfoo.la        << Discarded (directly by the rule)
    /usr/lib/libfoo.so.1.0.0
The example is a live example. That is, the provider will provide debputy with a scenario and the expected outcome of that scenario. Here is the concrete code in debputy that registers this example:
api.automatic_discard_rule(
    "la-files",
    _debputy_prune_la_files,
    rule_reference_documentation="Discards any .la files beneath /usr/lib",
    examples=automatic_discard_rule_example(
        "usr/lib/libfoo.la",
        ("usr/lib/libfoo.so.1.0.0", False),
    ),
)
When showing the example, debputy will validate the example matches what the plugin provider intended. Lets say I was to introduce a bug in the code, so that the discard rule no longer worked. Then debputy would start to show the following:
# Output if the code or example is broken
$ debputy plugin show automatic-discard-rules la-files
[...]
Automatic Discard Rule: la-files
================================
Documentation: Discards any .la files beneath /usr/lib
Example
-------
    /usr/lib/libfoo.la        !! INCONSISTENT (code: keep, example: discard)
    /usr/lib/libfoo.so.1.0.0
debputy: warning: The example was inconsistent. Please file a bug against the plugin debputy
Obviously, it would be better if this validation could be added directly as a plugin test, so the CI pipeline would catch it. That is one my personal TODO list. :) One final remark about automatic discard rules before moving on. In 0.1.9, debputy will also list any path automatically discarded by one of these rules in the build output to make sure that the automatic discard rule feature is more discoverable.
Plugable manifest rules like the install rule In the manifest, there are several places where rules can be provided by plugins. To make life easier for users, debputy can now since 0.1.8 list all provided rules:
$ debputy plugin list plugable-manifest-rules
+-------------------------------+------------------------------+-------------+
  Rule Name                       Rule Type                      Provided By  
+-------------------------------+------------------------------+-------------+
  install                         InstallRule                    debputy      
  install-docs                    InstallRule                    debputy      
  install-examples                InstallRule                    debputy      
  install-doc                     InstallRule                    debputy      
  install-example                 InstallRule                    debputy      
  install-man                     InstallRule                    debputy      
  discard                         InstallRule                    debputy      
  move                            TransformationRule             debputy      
  remove                          TransformationRule             debputy      
  [...]                           [...]                          [...]        
  remove                          DpkgMaintscriptHelperCommand   debputy      
  rename                          DpkgMaintscriptHelperCommand   debputy      
  cross-compiling                 ManifestCondition              debputy      
  can-execute-compiled-binaries   ManifestCondition              debputy      
  run-build-time-tests            ManifestCondition              debputy      
  [...]                           [...]                          [...]        
+-------------------------------+------------------------------+-------------+
(Output trimmed a bit for space reasons) And you can then ask debputy to describe any of these rules:
$ debputy plugin show plugable-manifest-rules install
Generic install ( install )
===========================
The generic  install  rule can be used to install arbitrary paths into packages
and is *similar* to how  dh_install  from debhelper works.  It is a two "primary" uses.
  1) The classic "install into directory" similar to the standard  dh_install 
  2) The "install as" similar to  dh-exec 's  foo => bar  feature.
Attributes:
 -  source  (conditional): string
    sources  (conditional): List of string
   A path match ( source ) or a list of path matches ( sources ) defining the
   source path(s) to be installed. [...]
 -  dest-dir  (optional): string
   A path defining the destination *directory*. [...]
 -  into  (optional): string or a list of string
   A path defining the destination *directory*. [...]
 -  as  (optional): string
   A path defining the path to install the source as. [...]
 -  when  (optional): manifest condition (string or mapping of string)
   A condition as defined in [Conditional rules](https://salsa.debian.org/debian/debputy/-/blob/main/MANIFEST-FORMAT.md#Conditional rules).
This rule enforces the following restrictions:
 - The rule must use exactly one of:  source ,  sources 
 - The attribute  as  cannot be used with any of:  dest-dir ,  sources 
[...]
(Output trimmed a bit for space reasons) All the attributes and restrictions are auto-computed by debputy from information provided by the plugin. The associated documentation for each attribute is supplied by the plugin itself, The debputy API validates that all attributes are covered and the documentation does not describe non-existing fields. This ensures that you as a plugin provider never forget to document new attributes when you add them later. The debputy API for manifest rules are not quite stable yet. So currently only debputy provides rules here. However, it is my intention to lift that restriction in the future. I got the idea of supporting online validated examples when I was building this feature. However, sadly, I have not gotten around to supporting it yet.
Manifest variables like PACKAGE I also added a similar documentation feature for manifest variables such as PACKAGE . When I implemented this, I realized listing all manifest variables by default would probably be counter productive to new users. As an example, if you list all variables by default it would include DEB_HOST_MULTIARCH (the most common case) side-by-side with the the much less used DEB_BUILD_MULTIARCH and the even lessor used DEB_TARGET_MULTIARCH variable. Having them side-by-side implies they are of equal importance, which they are not. As an example, the ballpark number of unique packages for which DEB_TARGET_MULTIARCH is useful can be counted on two hands (and maybe two feet if you consider gcc-X distinct from gcc-Y). This is one of the cases, where experience makes us blind. Many of us probably have the "show me everything and I will find what I need" mentality. But that requires experience to be able to pull that off - especially if all alternatives are presented as equals. The cross-building terminology has proven to notoriously match poorly to people's expectation. Therefore, I took a deliberate choice to reduce the list of shown variables by default and in the output explicitly list what filters were active. In the current version of debputy (0.1.9), the listing of manifest-variables look something like this:
$ debputy plugin list manifest-variables
+----------------------------------+----------------------------------------+------+-------------+
  Variable (use via:   NAME  )   Value                                    Flag   Provided by  
+----------------------------------+----------------------------------------+------+-------------+
  DEB_HOST_ARCH                      amd64                                           debputy      
  [... other DEB_HOST_* vars ...]    [...]                                           debputy      
  DEB_HOST_MULTIARCH                 x86_64-linux-gnu                                debputy      
  DEB_SOURCE                         debputy                                         debputy      
  DEB_VERSION                        0.1.8                                           debputy      
  DEB_VERSION_EPOCH_UPSTREAM         0.1.8                                           debputy      
  DEB_VERSION_UPSTREAM               0.1.8                                           debputy      
  DEB_VERSION_UPSTREAM_REVISION      0.1.8                                           debputy      
  PACKAGE                            <package-name>                                  debputy      
  path:BASH_COMPLETION_DIR           /usr/share/bash-completion/completions          debputy      
+----------------------------------+----------------------------------------+------+-------------+
+-----------------------+--------+-------------------------------------------------------+
  Variable type           Value    Option                                                 
+-----------------------+--------+-------------------------------------------------------+
  Token variables         hidden   --show-token-variables OR --show-all-variables         
  Special use variables   hidden   --show-special-case-variables OR --show-all-variables  
+-----------------------+--------+-------------------------------------------------------+
I will probably tweak the concrete listing in the future. Personally, I am considering to provide short-hands variables for some of the DEB_HOST_* variables and then hide the DEB_HOST_* group from the default view as well. Maybe something like ARCH and MULTIARCH, which would default to their DEB_HOST_* counter part. This variable could then have extended documentation that high lights DEB_HOST_<X> as its source and imply that there are special cases for cross-building where you might need DEB_BUILD_<X> or DEB_TARGET_<X>. Speaking of variable documentation, you can also lookup the documentation for a given manifest variable:
$ debputy plugin show manifest-variables path:BASH_COMPLETION_DIR
Variable: path:BASH_COMPLETION_DIR
==================================
Documentation: Directory to install bash completions into
Resolved: /usr/share/bash-completion/completions
Plugin: debputy
This was my update on online reference documentation for debputy. I hope you found it useful. :)
Thanks On a closing note, I would like to thanks Jochen Sprickerhof, Andres Salomon, Paul Gevers for their recent contributions to debputy. Jochen and Paul provided a number of real world cases where debputy would crash or not work, which have now been fixed. Andres and Paul also provided corrections to the documentation.

22 November 2023

Valhalla's Things: PDF planners 2024

Posted on November 22, 2023
A few years ago I wrote a bit of code to generate a custom printable planner, precisely to my taste. And then I showed the result to other people, and added a few variants for their own tastes. And I ve just generated the first 2024 file (yes, this year I m late with the printing and binding), and realized that it may be worth posting all the variants on this blog, in case somebody else is interested in using them. The files with -book in the name have been imposed on A4 paper for a 16 pages signature. All of the fonts have been converted to paths, for ease of printing (yes, this means that customizing the font requires running the script, sorry). A few planners in English: The same planners, in Italian: And finally a monthly planner with ephemerids for the town of Como (I mean, everybody everywhere needs one of those, right?); here the --book files are impressed for a 3 sheet (12 pages) signature. I hereby release all the PDFs linked in this blog post under the CC0 license. I ve just realized that the git repository linked above does not have licensing information, but I m not sure what s the right thing to do, since it s mostly a dump of unsupported works-for-me code, but if you need it for something (that is compatible with its unsupported status) other than running it for personal use (for which afaik there is an implicit license) let me know and I ll push decide on a license higher on the stack of things to do :D

4 November 2023

Dirk Eddelbuettel: RcppEigen 0.3.3.9.4 on CRAN: Maintenance, Matrix Changes

A new release 0.3.3.9.4 of RcppEigen arrived on CRAN yesterday, and went to Debian today. Eigen is a C++ template library for linear algebra: matrices, vectors, numerical solvers, and related algorithms. This update contains a small amount of the usual maintenance (see below), along with a very nice pull request by Mikael Jagan which simplifies to interface with the Matrix package and inparticular the CHOLMOD library that is part of SuiteSparse. This release is coordinated with lme4 and OpenMx which are also being updated. The complete NEWS file entry follows.

Changes in RcppEigen version 0.3.3.9.4 (2023-11-01)
  • The CITATION file has been updated for the new bibentry style.
  • The package skeleton generator has been updated and no longer sets an Imports:.
  • Some README.md URLs and badged have been updated.
  • The use of -fopenmp has been documented in Makevars, and a simple thread-count reporting function has been added.
  • The old manual src/init.c has been replaced by an autogenerated version, the RcppExports file have regenerated
  • The interface to package Matrix has been updated and simplified thanks to an excllent patch by Mikael Jagan.
  • The new upload is coordinated with packages lme4 and OpenMx.

Courtesy of CRANberries, there is also a diffstat report for the most recent release. If you like this or other open-source work I do, you can sponsor me at GitHub.

This post by Dirk Eddelbuettel originated on his Thinking inside the box blog. Please report excessive re-aggregation in third-party for-profit settings.

1 November 2023

Matthew Garrett: Why ACPI?

"Why does ACPI exist" - - the greatest thread in the history of forums, locked by a moderator after 12,239 pages of heated debate, wait no let me start again.

Why does ACPI exist? In the beforetimes power management on x86 was done by jumping to an opaque BIOS entry point and hoping it would do the right thing. It frequently didn't. We called this Advanced Power Management (Advanced because before this power management involved custom drivers for every machine and everyone agreed that this was a bad idea), and it involved the firmware having to save and restore the state of every piece of hardware in the system. This meant that assumptions about hardware configuration were baked into the firmware - failed to program your graphics card exactly the way the BIOS expected? Hurrah! It's only saved and restored a subset of the state that you configured and now potential data corruption for you. The developers of ACPI made the reasonable decision that, well, maybe since the OS was the one setting state in the first place, the OS should restore it.

So far so good. But some state is fundamentally device specific, at a level that the OS generally ignores. How should this state be managed? One way to do that would be to have the OS know about the device specific details. Unfortunately that means you can't ship the computer without having OS support for it, which means having OS support for every device (exactly what we'd got away from with APM). This, uh, was not an option the PC industry seriously considered. The alternative is that you ship something that abstracts the details of the specific hardware and makes that abstraction available to the OS. This is what ACPI does, and it's also what things like Device Tree do. Both provide static information about how the platform is configured, which can then be consumed by the OS and avoid needing device-specific drivers or configuration to be built-in.

The main distinction between Device Tree and ACPI is that Device Tree is purely a description of the hardware that exists, and so still requires the OS to know what's possible - if you add a new type of power controller, for instance, you need to add a driver for that to the OS before you can express that via Device Tree. ACPI decided to include an interpreted language to allow vendors to expose functionality to the OS without the OS needing to know about the underlying hardware. So, for instance, ACPI allows you to associate a device with a function to power down that device. That function may, when executed, trigger a bunch of register accesses to a piece of hardware otherwise not exposed to the OS, and that hardware may then cut the power rail to the device to power it down entirely. And that can be done without the OS having to know anything about the control hardware.

How is this better than just calling into the firmware to do it? Because the fact that ACPI declares that it's going to access these registers means the OS can figure out that it shouldn't, because it might otherwise collide with what the firmware is doing. With APM we had no visibility into that - if the OS tried to touch the hardware at the same time APM did, boom, almost impossible to debug failures (This is why various hardware monitoring drivers refuse to load by default on Linux - the firmware declares that it's going to touch those registers itself, so Linux decides not to in order to avoid race conditions and potential hardware damage. In many cases the firmware offers a collaborative interface to obtain the same data, and a driver can be written to get that. this bug comment discusses this for a specific board)

Unfortunately ACPI doesn't entirely remove opaque firmware from the equation - ACPI methods can still trigger System Management Mode, which is basically a fancy way to say "Your computer stops running your OS, does something else for a while, and you have no idea what". This has all the same issues that APM did, in that if the hardware isn't in exactly the state the firmware expects, bad things can happen. While historically there were a bunch of ACPI-related issues because the spec didn't define every single possible scenario and also there was no conformance suite (eg, should the interpreter be multi-threaded? Not defined by spec, but influences whether a specific implementation will work or not!), these days overall compatibility is pretty solid and the vast majority of systems work just fine - but we do still have some issues that are largely associated with System Management Mode.

One example is a recent Lenovo one, where the firmware appears to try to poke the NVME drive on resume. There's some indication that this is intended to deal with transparently unlocking self-encrypting drives on resume, but it seems to do so without taking IOMMU configuration into account and so things explode. It's kind of understandable why a vendor would implement something like this, but it's also kind of understandable that doing so without OS cooperation may end badly.

This isn't something that ACPI enabled - in the absence of ACPI firmware vendors would just be doing this unilaterally with even less OS involvement and we'd probably have even more of these issues. Ideally we'd "simply" have hardware that didn't support transitioning back to opaque code, but we don't (ARM has basically the same issue with TrustZone). In the absence of the ideal world, by and large ACPI has been a net improvement in Linux compatibility on x86 systems. It certainly didn't remove the "Everything is Windows" mentality that many vendors have, but it meant we largely only needed to ensure that Linux behaved the same way as Windows in a finite number of ways (ie, the behaviour of the ACPI interpreter) rather than in every single hardware driver, and so the chances that a new machine will work out of the box are much greater than they were in the pre-ACPI period.

There's an alternative universe where we decided to teach the kernel about every piece of hardware it should run on. Fortunately (or, well, unfortunately) we've seen that in the ARM world. Most device-specific simply never reaches mainline, and most users are stuck running ancient kernels as a result. Imagine every x86 device vendor shipping their own kernel optimised for their hardware, and now imagine how well that works out given the quality of their firmware. Does that really seem better to you?

It's understandable why ACPI has a poor reputation. But it's also hard to figure out what would work better in the real world. We could have built something similar on top of Open Firmware instead but the distinction wouldn't be terribly meaningful - we'd just have Forth instead of the ACPI bytecode language. Longing for a non-ACPI world without presenting something that's better and actually stands a reasonable chance of adoption doesn't make the world a better place.

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Dirk Eddelbuettel: RcppArmadillo 0.12.6.6.0 on CRAN: Bugfix, Thread Throttling

armadillo image Armadillo is a powerful and expressive C++ template library for linear algebra and scientific computing. It aims towards a good balance between speed and ease of use, has a syntax deliberately close to Matlab, and is useful for algorithm development directly in C++, or quick conversion of research code into production environments. RcppArmadillo integrates this library with the R environment and language and is widely used by (currently) 1110 other packages on CRAN, downloaded 31.2 million times (per the partial logs from the cloud mirrors of CRAN), and the CSDA paper (preprint / vignette) by Conrad and myself has been cited 563 times according to Google Scholar. This release brings upstream bugfix releases 12.6.5 (sparse matrix corner case) and 12.6.6 with an ARPACK correction. Conrad released it this this morning, I had been running reverse dependency checks anyway and knew we were in good shape so for once I did not await a full run against the now over 1100 (!!) packages using RcppArmadillo. This release also contains a change I prepared on Sunday and which helps with much-criticized (and rightly I may add) insistence by CRAN concerning throttling . The motivation is understandable: CRAN tests many packages at once on beefy servers and can ill afford tests going off and requesting numerous cores. But rather than providing a global setting at their end, CRAN insists that each package (!!) deals with this. The recent traffic on the helpful-as-ever r-pkg-devel mailing clearly shows that this confuses quite a few package developers. Some have admitted to simply turning examples and tests off: a net loss for all of us. Now, Armadillo defaults to using up to eight cores (which is enough to upset CRAN) when running with OpenMP (which is generally only on Linux for reasons I rather not get into ). With this release I expose a helper functions (from OpenMP) to limit this. I also set up an example package and repo RcppArmadilloOpenMPEx detailing this, and added a demonstration of how to use the new throttlers to the fastLm example. I hope this proves useful to users of the package. The set of changes since the last CRAN release follows.

Changes in RcppArmadillo version 0.12.6.6.0 (2023-10-31)
  • Upgraded to Armadillo release 12.6.6 (Cortisol Retox)
    • Fix eigs_sym(), eigs_gen() and svds() to generate deterministic results in ARPACK mode
  • Add helper functions to set and get the number of OpenMP threads
  • Store initial thread count at package load and use in thread-throttling helper (and resetter) suitable for CRAN constraints

Changes in RcppArmadillo version 0.12.6.5.0 (2023-10-14)
  • Upgraded to Armadillo release 12.6.5 (Cortisol Retox)
    • Fix for corner-case bug in handling sparse matrices with no non-zero elements

Courtesy of my CRANberries, there is a diffstat report relative to previous release. More detailed information is on the RcppArmadillo page. Questions, comments etc should go to the rcpp-devel mailing list off the Rcpp R-Forge page. If you like this or other open-source work I do, you can sponsor me at GitHub.

This post by Dirk Eddelbuettel originated on his Thinking inside the box blog. Please report excessive re-aggregation in third-party for-profit settings.

23 October 2023

Russ Allbery: Review: Going Postal

Review: Going Postal, by Terry Pratchett
Series: Discworld #33
Publisher: Harper
Copyright: October 2004
Printing: November 2014
ISBN: 0-06-233497-2
Format: Mass market
Pages: 471
Going Postal is the 33rd Discworld novel. You could probably start here if you wanted to; there are relatively few references to previous books, and the primary connection (to Feet of Clay) is fully re-explained. I suspect that's why Going Postal garnered another round of award nominations. There are arguable spoilers for Feet of Clay, however. Moist von Lipwig is a con artist. Under a wide variety of names, he's swindled and forged his way around the Disc, always confident that he can run away from or talk his way out of any trouble. As Going Postal begins, however, it appears his luck has run out. He's about to be hanged. Much to his surprise, he wakes up after his carefully performed hanging in Lord Vetinari's office, where he's offered a choice. He can either take over the Ankh-Morpork post office, or he can die. Moist, of course, immediately agrees to run the post office, and then leaves town at the earliest opportunity, only to be carried back into Vetinari's office by a relentlessly persistent golem named Mr. Pump. He apparently has a parole officer. The clacks, Discworld's telegraph system first seen in The Fifth Elephant, has taken over most communications. The city is now dotted with towers, and the Grand Trunk can take them at unprecedented speed to even far-distant cities like Genua. The post office, meanwhile, is essentially defunct, as Moist quickly discovers. There are two remaining employees, the highly eccentric Junior Postman Groat who is still Junior because no postmaster has lasted long enough to promote him, and the disturbingly intense Apprentice Postman Stanley, who collects pins. Other than them, the contents of the massive post office headquarters are a disturbing mail sorting machine designed by Bloody Stupid Johnson that is not picky about which dimension or timeline the sorted mail comes from, and undelivered mail. A lot of undelivered mail. Enough undelivered mail that there may be magical consequences. All Moist has to do is get the postal system running again. Somehow. And not die in mysterious accidents like the previous five postmasters. Going Postal is a con artist story, but it's also a startup and capitalism story. Vetinari is, as always, solving a specific problem in his inimitable indirect way. The clacks were created by engineers obsessed with machinery and encodings and maintenance, but it's been acquired by... well, let's say private equity, because that's who they are, although Discworld doesn't have that term. They immediately did what private equity always did: cut out everything that didn't extract profit, without regard for either the service or the employees. Since the clacks are an effective monopoly and the new owners are ruthless about eliminating any possible competition, there isn't much to stop them. Vetinari's chosen tool is Moist. There are some parts of this setup that I love and one part that I'm grumbly about. A lot of the fun of this book is seeing Moist pulled into the mission of resurrecting the post office despite himself. He starts out trying to wriggle out of his assigned task, but, after a few early successes and a supernatural encounter with the mail, he can't help but start to care. Reformed con men often make good protagonists because one can enjoy the charisma without disliking the ethics. Pratchett adds the delightfully sharp-witted and cynical Adora Belle Dearheart as a partial reader stand-in, which makes the process of Moist becoming worthy of his protagonist role even more fun. I think that a properly functioning postal service is one of the truly monumental achievements of human society and doesn't get nearly enough celebration (or support, or pay, or good working conditions). Give me a story about reviving a postal service by someone who appreciates the tradition and social role as much as Pratchett clearly does and I'm there. The only frustration is that Going Postal is focused more on an immediate plot, so we don't get to see the larger infrastructure recovery that is clearly needed. (Maybe in later books?) That leads to my grumble, though. Going Postal and specifically the takeover of the clacks is obviously inspired by corporate structures in the later Industrial Revolution, but this book was written in 2004, so it's also a book about private equity and startups. When Vetinari puts a con man in charge of the post office, he runs it like a startup: do lots of splashy things to draw attention, promise big and then promise even bigger, stumble across a revenue source that may or may not be sustainable, hire like mad, and hope it all works out. This makes for a great story in the same way that watching trapeze artists or tightrope walkers is entertaining. You know it's going to work because that's the sort of book you're reading, so you can enjoy the audacity and wonder how Moist will manage to stay ahead of his promises. But it is still a con game applied to a public service, and the part of me that loves the concept of the postal service couldn't stop feeling like this is part of the problem. The dilemma that Vetinari is solving is a bit too realistic, down to the requirement that the post office be self-funding and not depend on city funds and, well, this is repugnant to me. Public services aren't businesses. Societies spend money to build things that they need to maintain society, and postal service is just as much one of those things as roads are. The ability of anyone to send a letter to anyone else, no matter how rural the address is, provides infrastructure on which a lot of important societal structure is built. Pratchett made me care a great deal about Ankh-Morpork's post office (not hard to do), and now I want to see it rebuilt properly, on firm foundations, without splashy promises and without a requirement that it pay for itself. Which I realize is not the point of Discworld at all, but the concept of running a postal service like a startup hits maybe a bit too close to home. Apart from that grumble, this is a great book if you're in the mood for a reformed con man story. I thought the gold suit was a bit over the top, but I otherwise thought Moist's slow conversion to truly caring about his job was deeply satisfying. The descriptions of the clacks are full of askew Discworld parodies of computer networking and encoding that I enjoyed more than I thought I would. This is also the book that introduced the now-famous (among Pratchett fans at least) GNU instruction for the clacks, and I think that scene is the most emotionally moving bit of Pratchett outside of Night Watch. Going Postal is one of the better books in the Discworld series to this point (and I'm sadly getting near the end). If you have less strongly held opinions about management and funding models for public services, or at least are better at putting them aside when reading fantasy novels, you're likely to like it even more than I did. Recommended. Followed by Thud!. The thematic sequel is Making Money. Rating: 8 out of 10

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