Bug#1076808: ITP: r-cran-doby -- GNU R package for Groupwise Statistics, LSmeans, Linear Estimates, Utilities

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel 
Severity: wishlist

* Package name: r-cran-doby
  Version : 4.6.22
  Upstream Author : Søren Højsgaard and Ulrich Halekoh
* URL or Web page : https://cran.r-project.org/package=doBy
* License : GPL-2+
  Description : GNU R package for Groupwise Statistics, LSmeans, Linear 
Estimates, Utilities

This package is now a (build and run-time) dependency of package
r-cran-pbkrtest which has been in Debian since 2015. Having packaged its new
dependencies r-cran-deriv (#1076114) and r-cran-microbenchmark (#1076632) we
can now package r-cran-doby (aka 'doBy' on CRAN) so that r-cran-pbkrtest can
be updated to its newest release made a few weeks ago.  My thanks to the
release team for processing the two earlier ITPs so promptly.

Dirk

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Bug#1076632: ITP: r-cran-microbenchmark -- GNU R package for Accurate Timing Functions

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel 
Severity: wishlist

* Package name: r-cran-microbenchmark
  Version : 1.4.10
  Upstream Author : Olaf Mersmann
* URL or Web page : https://cran.r-project.org/package=microbenchmark
* License : BSD-2-clause
  Description : GNU R package for Accurate Timeing Functions

This zero-dependency export helper package is a second new dependency of
package doBy which itself became a dependency of package r-cran-pbkrtest
which has been in Debian since 2015. We will package doBy (ie r-cran-doby)
once this package enters unstable. 

Dirk

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Bug#1076114: ITP: r-cran-deriv -- GNU R package for Symbolic Differentiation

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel 
Severity: wishlist

* Package name: r-cran-deriv
  Version : 4.1.3
  Upstream Author : Andrew Clausen and Serguei Sokol
* URL or Web page : https://cran.r-project.org/package=Deriv
* License : GPL-3
  Description : GNU R package to peform Symbolic Differentiation

This zero-dependency export helper package is a dependency of package doBy
which itself became a dependency of package r-cran-pbkrtest which has been in
Debian since 2015. We will package doBy (ie r-cran-doby) once this package
enters unstable.

Dirk

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Bug#970021: Seeking a small group to package Apache Arrow (was: Bug#970021: RFP: apache-arrow -- cross-language development platform for in-memory analytics)

[Dirk Eddelbuettel]

On 9 April 2024 at 18:45, Jose Manuel Abuin Mosquera wrote:
| If possible, I would like to contribute. At work we use the Go and 
| Python implementations, also, in the short term, we will start using the 
| Rust one.

Similar for us, and we have seen plenty of build headaches across pypi or
conda ...

(Hence my earlier hint about nanoarrow. No linking, uses the C API of two
void pointers.)

| Just to point out, the Rust version has its own native implementation, 
| here: https://github.com/apache/arrow-rs .

And IIRC there is an independent Arrow implementation (in Rust) used by polars
making it two possible ITPs: vanilla Arrow from Apache and Arrow from polars.

Dirk 

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Bug#970021: Seeking a small group to package Apache Arrow (was: Bug#970021: RFP: apache-arrow -- cross-language development platform for in-memory analytics)

[Dirk Eddelbuettel]

Julian,

Arrow is a complicated and large package. We use it at work (where there is a
fair amount of Python, also to Conda etc) and do have issues with more
complex builds especially because it is 'data infrastructure' and can come in
from different parts. I would recommend against packaging at old one -- we
also have seen issues with different (py)arrow version biting.

Have you seen https://github.com/apache/arrow-nanoarrow ?

It works via the C API to Arrow which interchanges data via two void* to the
the two structs for arrow array and schema -- and avoids linkage issue. (In
user space the pyarrow or R arrow packages can still be used also interfacing
via these.)  I have been using it for R package bindings for some time and we
plan to expand that (again, at work) -- as do others. It is already use by
duckdb, by the Arrow 'ADBC' interfaces (which are generic in the ODBC/JDBC
sense but for Arrow, and also by a python interface to snowflake.

Dirk

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Bug#1052291: ITP: r-cran-writexl -- GNU R package for export Excel xlsx format

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel 
Severity: wishlist

* Package name: r-cran-writexl
  Version : 1.4.2
  Upstream Author : Jeroen Ooms 
* URL or Web page : https://cran.r-project.org/package=writexl
* License : BSD-2
  Description : GNU R package to write xlsx file

This zero-dependency export helper package is now a dependency of package rio
(aka r-cran-rio) which has been in Debian since May 2018.

Dirk

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Bug#1024628: ITP: r-cran-spdl -- GNU R package for spdlog wrapper

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel 
Severity: wishlist

* Package name: r-cran-spdl
  Version : 0.0.1
  Upstream Author : Dirk Eddelbuettel
* URL or Web page : https://cran.r-project.org/package=spdl
* License : GPL (>= 2)
  Description : GNU R package for spdlog wrapper

The r-cran-tiledb will need this soon.

Dirk

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Bug#1023947: ITP: r-cran-cvar -- GNU R package to Computed Expected Shortfall and Value at Risk

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel 
Severity: wishlist

* Package name: r-cran-cvar
  Version : 0.5
  Upstream Author : Georgi N. Boshnakov
* URL or Web page : https://cran.r-project.org/package=cvar
* License : GPL (>= 2)
  Description : GNU R package to Computed Expected Shortfall and Value at 
Risk


This package is now a build-dependency of a long-time Debian package
(r-cran-fgarch) (and building this was dependent on getting r-cran-gbutils
into Debian first so big thanks for the prompt passage from the NEW queue).

Dirk

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Bug#1023549: ITP: r-cran-gbutils -- R CRAN Package with Utilities for Simulation, Plots, Quantile Functions and Programming

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel 
Severity: wishlist

* Package name: r-cran-gbutils
  Version : 0.5
  Upstream Author : Georgi N. Boshnakov
* URL or Web page : https://cran.r-project.org/package=gbutils
* License : GPL (>= 2)
  Description : R CRAN Package with Utilities for Simulation, Plots, 
Quantile Functions and Programming

This package is now a build-dependency of another build-dependency (cvar, to
become r-cran-cvar) of a long-time Debian package (r-cran-fgarch).

Dirk

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Bug#1021782: ITP: r-cran-rcppspdlog -- R package for spdlog C++ logging

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel 
Severity: wishlist

* Package name: r-cran-rcppspdlog
  Version : 0.0.8
  Upstream Author : Dirk Eddelbuettel
* URL or Web page : https://eddelbuettel.github.io/rcppspdlog/
* License : GPL (>= 2)
  Description : R package for spdlog C++ logging

This package may soon be needed by the r-cran-tiledb (src: tile-r) package.

Dirk

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Bug#1010953: O: tiledb-py -- TileDB Python bindings

[Dirk Eddelbuettel]

Hi Nilesh,

On 15 May 2022 at 07:48, Dirk Eddelbuettel wrote:
| On 15 May 2022 at 14:10, Nilesh Patra wrote:
| | Can I ask you to please take a look at my changes once?
| 
| I will try that a little later.

They look good.  They are even more minimal than what I attempted (i.e. you
knew to only modify one requirements file, I stumbled along with several) and
you correctly nuked a few more items in there.

I didn't get there. It still wanted to call git from remote components and I
am too Python newb to figure out what caused it.

So thanks for the fix and the upload.  We just release TileDB 2.9.0 on Friday
(which I just uploaded to NEW (due to new soname) / unstable) so a tiledb-py
version 0.15.0 will come soon too.

Cheers, Dirk

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Bug#1010953: O: tiledb-py -- TileDB Python bindings

[Dirk Eddelbuettel]

Hi Nilesh,

On 15 May 2022 at 14:10, Nilesh Patra wrote:
| 
| Hi Dirk,
| 
| On Fri, 13 May 2022 19:57:11 -0500 Dirk Eddelbuettel  wrote:
| > As noted in a mail to debian-python [1], the tiledb-py package is creating a
| > few issues I do not currently have time to work through.
| 
| I saw your email[1] at debian-python@ that brought me to this bug report.
| 
| > I will continue to
| > look after the tiledb package, and after the R bindings in package tiledb-r.
| > If someone can devote some time to this package, I would be delighted to
| > help.
| 
| I have imported latest upstream source and got it building with a few 
enhancements, all changes in salsa.

Awesome!

| Can I ask you to please take a look at my changes once?

I will try that a little later.

I may now have some CMake work to for TileDB itself ...

| I'll upload if it looks fine.

I would say ... just upload.  This is team maintained anyway -- Adam (CC'ed)
started it and I chipped in when he couldn't carry it alone. I had some
qualification for as I work at TileDB and build the Python bindings sometimes
anyway.  But the package is so highly constrained (for Conda etc) that I ran
into a brickwall maintaining it -- I am not _that_ deep into Python and
espcially Python packaging.
 
| > I have some packaging experience, and I know (and work at) TileDB, but
| > I am just not that familiar with Python packaging tricks.
| 
| I am maintaining a number of packages as well, but could try take over this, 
ofcourse if
| you would allow me to :)
| But it would be awesome if you and/or Adam could co-maintain this along.

I'd be up for trying this. Skills seem to complement, I can provide some
upstream news as well but as seen here sinc 0.14.1 I do need some help.

Dirk

| > [1] https://lists.debian.org/debian-python/2022/05/msg4.html
| 
| 
| -- 
| Best,
| Nilesh
| [DELETED ATTACHMENT signature.asc, application/pgp-signature]

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Bug#1010953: O: tiledb-py -- TileDB Python bindings

[Dirk Eddelbuettel]

Package: wnpp
Severity: normal

As noted in a mail to debian-python [1], the tiledb-py package is creating a
few issues I do not currently have time to work through. I will continue to
look after the tiledb package, and after the R bindings in package tiledb-r.
If someone can devote some time to this package, I would be delighted to
help. I have some packaging experience, and I know (and work at) TileDB, but
I am just not that familiar with Python packaging tricks.

Thanks,  Dirk

[1] https://lists.debian.org/debian-python/2022/05/msg4.html

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Bug#1006652: ITP: r-cran-tiledb -- R Interface to the TileDB Storage Engine

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel 
Severity: wishlist

* Package name: r-cran-tiledb
  Version : 0.11.0
  Upstream Author : TileDB Inc
* URL or Web page : https://github.com/TileDB-Inc/TileDB-R
* License : MIT
  Description : R Interface to the TileDB Storage Engine

This also complements the TileDB Python package.

Dirk

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Bug#1004591: ITP: r-cran-simplermarkdown -- GNU R package with simple engine for generating reports

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel 
Severity: wishlist

* Package name: r-cran-simplermarkdown
  Version : 0.0.4
  Upstream Author : Jan van der Laan
* URL or Web page : https://cran.r-project.org/package=simplermarkdown
* License : GPL (>= 3)
  Description : GNU R Package for Simple Engine for Generating Reports

This is a reasonably new package, but started to be used across CRAN
(including by six packages of mine) and package I intend package for Debian.

Cheers, Dirk

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Bug#991859: BioConductor MOFA2 needs basilisk - which installs a conda environment

[Dirk Eddelbuettel]

On 20 September 2021 at 07:50, Andreas Tille wrote:
| On Sun, Sep 19, 2021 at 03:45:57PM -0500, Dirk Eddelbuettel wrote:
| > 
| > | I'm thinking about a "fake-basilisk" like r-cran-bh or r-bioc-zlib.
| > 
| > I had a similar thought. I am also friends with the author of it.
| > 
| > They are doing 'The Right Thing' there for _their_ purposes at BioC in
| > abstracting OSs away and offering 'Python as a Service' for all setups.
| > 
| > We have a much more controlled setup and _maybe_ we could splice in a
| > 'basilisk-lite' not requiring conda and all that crap.  Would be worth a
| > shot, but is almost a new research project. I don't have time to dive into
| > this though. I could ask him if it ever came up before.
| 
| It would be great if you could involve upstream into the discussion
| here.

Tricky. I think I take a pass. I said I am friendly with Aaron, I did not say
I would promise to pull him into a discussion he did not sign up for. What
they have does solve their problem -- we have to learn to accept that.

I still have a problem with us pestering upstream _for packages that are
scoring perfect at CRAN_ and have no errors there.  Our dirty laundry (often
due to us mismatching packages) is not their problem.  Anyway, I said it
before, nobody listened to it then so no hope today either ...

'basilisk-lite' is a really nice (research) idea and would be a seller on
cloud services. Maybe Aaron would even be interested in working on it. You
could ask him, his email is public. 

Dirk

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Bug#991859: BioConductor MOFA2 needs basilisk - which installs a conda environment

[Dirk Eddelbuettel]

On 19 September 2021 at 16:09, Andreas Tille wrote:
| On Sun, Sep 19, 2021 at 05:31:14PM +0530, Nilesh Patra wrote:
| > 
| > But I do wonder if more packages in future might as well end up needing 
basilisk too.
| 
| I'm thinking about a "fake-basilisk" like r-cran-bh or r-bioc-zlib.

I had a similar thought. I am also friends with the author of it.

They are doing 'The Right Thing' there for _their_ purposes at BioC in
abstracting OSs away and offering 'Python as a Service' for all setups.

We have a much more controlled setup and _maybe_ we could splice in a
'basilisk-lite' not requiring conda and all that crap.  Would be worth a
shot, but is almost a new research project. I don't have time to dive into
this though. I could ask him if it ever came up before.

Dirk

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Bug#991748: ITP: r-cran-vroom -- GNU R package to read and write rectangular data quickly

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel 
Severity: wishlist

* Package name: r-cran-vroom
  Version : 1.5.3
  Upstream Author : James Hester and Hadley Wickham
* URL or Web page : https://cran.r-project.org/package=vroom
* License : MIT
  Description : GNU R package to read and write rectangular data quickly

This is now a build-depends of (r-cran-)readr which has long been part of
Debian.  This package depends on (r-cran-)tzdb which is still in the NEW
queue so I won't upload it for now, but the packaging is all done in the
salsa repo at https://salsa.debian.org/edd/r-cran-vroom -- it also needs
r-cran-cpp11 from experimental.

Dirk

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Bug#991643: ITP: r-cran-tzdb -- GNU R package for Time Zone Database Information

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel 
Severity: wishlist

* Package name: r-cran-tzdb
  Version : 0.1.2
  Upstream Author : Davis Vaughan
* URL or Web page : https://cran.r-project.org/package=tzdb
* License : MIT
  Description : GNU R package for Time Zone Database Information

It is needed by (r-cran-)vroom -- which I will upload next -- which is now a
build-dependency of (r-cran-)readr.

It build-depends on a version of (r-cran-)cpp11 that is (during the freeze)
only in experimental.

Dirk

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Bug#981064: ITP: xrprof -- External sampling profiler for R

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel 
Severity: wishlist

* Package name: xrprof
  Version : 0.3.1
  Upstream Author : Aaron Jacobs
* URL or Web page : https://github.com/atheriel/xrprof
* License : GPL-2
  Description : External sampling profiler for R

This (still fairly small) tool permits profiling of R code alongside with
compiled code extensions to R which sets it apart from other profiling
solution from R (though Google perftools can help).

Dirk

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Bug#980430: ITP: r-cran-nanotime -- nanosecond resolution date and time calculations for R

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel 
Severity: wishlist

* Package name: r-cran-nanotime
  Version : 0.3.2
  Upstream Author : Dirk Eddelbuettel and Leonardo Silvestri
* URL or Web page : https://github.com/eddelbuettel/nanotime
* License : GPL-2+
  Description : nanosecond resolution date and time calculations for R

Dirk

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Bug#978136: RFP: r-cran-rcppdate -- R bindings of Date library

[Dirk Eddelbuettel]

Package: wnpp
Severity: wishlist

* Package name: r-cran-rcppdate
  Version : 0.0.1
  Upstream Author : Dirk Eddelbuettel
* URL or Web page : https://cran.r-project.org/package=RcppDate
* License : GPL (>= 2)
  Description : R bindings of Date library

This is the second of two build-dependencies for my upstream package
(r-cran-)nanotime I plan to package for Debian.

Dirk


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Bug#978134: RFP: r-cran-rcppcctz -- R binding for CCTZ

[Dirk Eddelbuettel]

Package: wnpp
Severity: wishlist

* Package name: r-cran-rcppcctz
  Version : 0.2.9-0
  Upstream Author : Dirk Eddelbuettel
* URL or Web page : https://cran.r-project.org/package=RcppCCTZ
* License : GPL (>= 2)
  Description : R binding for CCTZ

This is one of three build-dependencies for my upstream package
(r-cran-)nanotime I plan to package for Debian.

Dirk

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Bug#975611: ITP: r-cran-mathjaxr -- GNU R package for 'Mathjax' use in Rd files

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel 
Severity: wishlist

* Package name: r-cran-mathjaxr
  Version : 1.0-1
  Upstream Author : Wolfgang Viechtbauer
* URL or Web page : https://github.com/wviechtb/mathjaxr
* License : GPL-3
  Description : GNU R package for 'Mathjax' use in Rd files

This package is now a build-dependency of package 'rgl' which has been in
Debian since 2004.

Dirk

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Bug#964753: ITP: r-cran-conquer -- GNU R package for convolution-type smoothed quantile regression

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel 
Severity: wishlist

* Package name: r-cran-conquer
  Version : 1.0.1
  Upstream Author : Xuming He, Xiaoou Pan, Kean Ming Tan, and Wen-Xin Zhou
* URL or Web page : https://cran.r-project.org/package=conquer
* License : GPL-3
  Description : GNU R package for convolution-type smoothed quantile 
regression

This package is now a (Build-)Depends of r-cran-quantreg which has been in
Debian since 2014.

Dirk

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Bug#962361: ITP: r-cran-tmvnsim -- GNU R package for truncated multivariate normal simulation

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel 
Severity: wishlist

* Package name: r-cran-tmvnsim
  Version : 1.0-2
  Upstream Author : Samsiddhi Bhattacjarjee
* URL or Web page : https://cran.r-project.org/package=tmvnsim
* License : GPL-2
  Description : GNU R package for truncated multivariate normal simulation

This package is now a build-depends of package r-cran-mnormt which has been
in Debian since 2007.

Dirk

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Bug#923043: ITP: r-cran-ellipsis -- GNU R package for working with ...

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel 
Severity: wishlist

* Package name: r-cran-ellipsis
  Version : 0.1.0
  Upstream Author : Hadley Wickham
* URL or Web page : https://cran.r-project.org/package=ellipsis
* License : GPL-3
  Description : GNU R package for working with ...

A new Build-Depends of r-cran-forcats

Dirk

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Bug#900484: ITP: r-cran-zip -- GNU R package for cross-platform zip compression

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel 
Severity: wishlist

* Package name: r-cran-zip
  Version : 1.0.0-1
  Upstream Author : Gábor Csárdi, Kuba Podgórski, and Rich Geldreich
* URL or Web page : https://cran.r-project.org/package=zip
* License : CC0
  Description : GNU R package for cross-platform zip compression

This is a new (Build-)Depends of package r-cran-openxlsx now in Debian.

Dirk

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Bug#900386: ITP: r-cran-rio -- GNU R package with Swiss-army knife for data i/o

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel 
Severity: wishlist

* Package name: r-cran-rio
  Version : 0.5.10
  Upstream Author : Thomas Leeper 
* URL or Web page : https://cran.r-project.org/package=rio
* License : GPL-2
  Description : GNU R package with Swiss-army knife for data i/o

This is another new Build-Depends of package r-cran-car (which has been in
Debian since 2003); this package had been waiting on its own Build-Depends
r-cran-openxlsx for a few weeks.

Dirk

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Bug#894633: ITP: r-cran-openxlsx -- GNU R package for XLSX files

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel <e...@debian.org>
Severity: wishlist

* Package name: r-cran-openxlsx
  Version : 4.0.17
  Upstream Author : Alexander Walker
* URL or Web page : https://github.com/awalker89/openxlsx
* License : GPL-3
  Description : GNU R package for XLSX files

This is a build dependency of package (r-cran-)rio which we will need to
package as an added (build-)dependency of package (r-cran-)car which has been
in Debian for 15+ years.

Dirk

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Bug#894304: ITP: r-cran-manipulatewidgets -- GNU R package for more interactivity in interactive charts

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel <e...@debian.org>
Severity: wishlist

* Package name: r-cran-manipulatewidgets
  Version : 0.9.0
  Upstream Author : Jalal-Edine Zawam, Francois Guillem, JJ Allaire, Marion 
Praz, Benoit Thieurmel, Titouan Robert and Duncan Murdoch
* URL or Web page : https://github.com/rte-antares-rpackage/manipulateWidget
* License : GPL-2+
  Description : GNU R package for more interactivity in interactive charts

This is a newly added Build-Depends of the package r-cran-rgl which has been
in Debian for fifteen year.

Dirk

--
http://dirk.eddelbuettel.com | @eddelbuettel | e...@debian.org

Bug#886815: r-cran-git2r uses private header files of libgit2 (Was: Help with libgit2 needed to strip code copy from r-cran-git2r)

[Dirk Eddelbuettel]

I had some friendly emails with Stefan (git2r upstream) when he started the R
package git2r (as I needed some features in my drat R package) and he
expressed quite some frustration at working with libgit2 as it changed so
much upstream.

I know we collectively really hate embedding copies, but r-cran-git2r may be
defensible case because libgot2 is too complex / volatile.

Just my $0.02.

Dirk

-- 
http://dirk.eddelbuettel.com | @eddelbuettel | e...@debian.org

Bug#883484: ITP: r-cran-rstudioapi -- GNU R package to access the RStudio API

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel <e...@debian.org>
Severity: wishlist

* Package name: r-cran-rstudioapi
  Version : 0.7
  Upstream Author : JJ Allaire, Hadley Wickham, Kevin Ushey and Gary Ritchie
* URL or Web page : https://github.com/rstudio/rstudioapi
* License : MIT
  Description : GNU R package for access to the RStudio API

This package is now a (Build-)Depends of our existing package r-cran-htmltable.

Dirk

-- 
http://dirk.eddelbuettel.com | @eddelbuettel | e...@debian.org

Bug#882035: ITP: r-cran-fastica -- GNU R package for ICA and Projection Pursuit

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel <e...@debian.org>
Severity: wishlist

* Package name: r-cran-fastica
  Version : 1.2-1
  Upstream Author : J L Marchin, C Heaton and B D Ripley
* URL or Web page : https://cran.r-project.org/package=fastICA
* License : GPL (>= 2)
  Description : GNU R package for ICA and Projection Pursuit

This package is a new build-dependency of the existing package r-cran-fgarch
we have had in Debian for a decade.

Dirk

-- 
http://dirk.eddelbuettel.com | @eddelbuettel | e...@debian.org

Bug#880939: ITP: r-cran-haven -- GNU R package to import/export SPSS, Stata and SAS files

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel <e...@debian.org>
Severity: wishlist

* Package name: r-cran-haven
  Version : 1.1.0-1
  Upstream Author : Hadley Wickham and Evan Miller
* URL or Web page : https://github.com/tidyverse/haven
* License : MIT
  Description : GNU R package to import/export SPSS, Stata and SAS files

This is yet another new build-dependency of the package Rcmdr (via its
spinoff and build-dependency RcmdrMisc).  Rcmdr aka r-cran-rcmdr has been in
Debian since 2003.

Dirk

-- 
http://dirk.eddelbuettel.com | @eddelbuettel | e...@debian.org

Bug#879242: ITP: r-cran-nortest -- GNU R package with five tests for normality

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel <e...@debian.org>
Severity: wishlist

* Package name: r-cran-nortest
  Version : 1.0-4
  Upstream Author : Juergen Gross and Uwe Ligges
* URL or Web page : https://cran.r-project.org/package=nortest
* License : GPL (>= 2)
  Description : GNU R package with five tests for normality

And another new Build-Depends for r-cran-rcmdrmisc which itself was carved
out of, and is a Build-Depends for r-cran-rcmdr, which has been in Debian
since 2003.

Dirk

-- 
http://dirk.eddelbuettel.com | @eddelbuettel | e...@debian.org

Bug#878957: ITP: r-cran-cardata -- GNU R package for datasets for Companion to Applied Regression

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel <e...@debian.org>
Severity: wishlist

* Package name: r-cran-cardata
  Version : 3.0-0
  Upstream Author : John Fox, Sanford Weisberg and Brad Price
* URL or Web page : https://cran.r-project.org/package=carData
* License : GPL (>= 2)
  Description : GNU R package for datasets for Companion to Applied 
Regression

This package was carved out of r-cran-car (which has been in Debian since
2003) and is now a Build-Depends for it.

Dirk

-- 
http://dirk.eddelbuettel.com | @eddelbuettel | e...@debian.org

Bug#878676: ITP: r-cran-forcats -- GNU R package for working with categorical variables (factors)

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel <e...@debian.org>
Severity: wishlist

* Package name: r-cran-forcats
  Version : 0.2.0
  Upstream Author : Hadley Wickham
* URL or Web page : https://github.com/tidyverse/forcats
* License : GPL-3
  Description : GNU R package for working with categorical variables 
(factors)

This package is needed by to-be-packaged package r-cran-haven which is now a
Build-Depends for package r-cran-rcmdrmisc which got carved out of
r-cran-rcmdr --- which has been in Debian since 2003.  

Dirk

-- 
http://dirk.eddelbuettel.com | @eddelbuettel | e...@debian.org

Bug#878675: ITP: r-cran-readr -- GNU R package to read rectangular text data

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel <e...@debian.org>
Severity: wishlist

* Package name: r-cran-readr
  Version : 1.1.1
  Upstream Author : Hadley Wickham, Jim Hester, Romain Francois
* URL or Web page : https://github.com/tidyverse/readr
* License : GPL (>= 2)
  Description : GNU R package to read rectangular text data

This package is needed by to-be-packaged package r-cran-haven which is now a
Build-Depends for package r-cran-rcmdrmisc which got carved out of
r-cran-rcmdr --- which has been in Debian since 2003.  

Dirk

-- 
http://dirk.eddelbuettel.com | @eddelbuettel | e...@debian.org

Bug#874079: ITP: r-cran-readstata13 -- Functions to read and write 'Stata' files

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel <e...@debian.org>
Severity: wishlist

* Package name: r-cran-readstata13
  Version : 0.9.0-1
  Upstream Author : Jan Marvin Garbuszus, Sebastian Jeworutzki
* URL or Web page : https://github.com/sjewo/readstata13
* License : GPL-2
  Description : R functions to read and write 'Stata' files


This R package is now a (Build-)Depends of the existing package
r-cran-rcmdrmisc which is itself a (Build-)Depends of r-cran-rcmdr which has
been in Debian for probably 15 years.

Dirk

-- 
http://dirk.eddelbuettel.com | @eddelbuettel | e...@debian.org

Bug#865761: ITP: r-cran-ttr -- GNU R package to construct technical trading rules

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel <e...@debian.org>
Severity: wishlist

* Package name: r-cran-ttr
  Version : 0.23-1
  Upstream Author : Joshua Ulrich
* URL or Web page : https://github.com/joshuaulrich/TTR
* License : GPL-2
  Description : GNU R package to construct technical trading rules

This package is a dependency of the (to be packaged next) package
(r-cran-)quantmod which is now a depency of the r-cran-tseries package we had
in Debian for fourteen years.

Dirk

-- 
http://dirk.eddelbuettel.com | @eddelbuettel | e...@debian.org

Bug#860776: ITP: r-cran-cellranger -- GNU R package to map spreadsheet cell ranges to rows and columns

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel <e...@debian.org>
Severity: wishlist

* Package name: r-cran-cellranger
  Version : 1.1.0
  Upstream Author : Jennifer Bryan
* URL or Web page : 
https://cloud.r-project.org/web/packages/cellranger/index.html
* License : MIT
  Description : GNU R package to map spreadsheet cell ranges to rows and 
columns

Just like yesterday's ITP r-cran-rematch (which is used by this package),
r-cran-cellranger is now a build-dependency of the existing package
r-cran-readxl.

Thanks for accepting r-cran-rematch within a day.  Much appreciated.  Once
this one is in I can update r-cran-readxl.

Dirk

-- 
http://dirk.eddelbuettel.com | @eddelbuettel | e...@debian.org

Bug#860594: ITP: r-cran-rematch -- R package to match regular expressions with a nicer 'api'

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel <e...@debian.org>
Severity: wishlist

* Package name: r-cran-rematch
  Version : 1.0.1-1
  Upstream Author : Gabor Csardi
* URL or Web page : https://cran.r-project.org/package=rematch
* License : MIT
  Description : R package to match regular expressions with a nicer 'api'

This package is a new Build-Depends of a new Build-Depends of the existing
package r-cran-readxl.

Dirk

-- 
http://dirk.eddelbuettel.com | @eddelbuettel | e...@debian.org

Bug#859291: ITP: r-cran-viridislite -- Default Color Maps from 'matplotlib' (Lite Version)

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel <e...@debian.org>
Severity: wishlist

* Package name: r-cran-viridislite
  Version : 0.2.0
  Upstream Author : Simon Garnier
* URL or Web page : 
https://cloud.r-project.org/web/packages/viridisLite/index.html
* License : MIT
  Description : Default Color Maps from 'matplotlib' (Lite Version)

The already-existing fuller-scale package r-cran-viridis now has a
Build-Depends on this ligher version.

It provides color scales from (Python's) matplotlib which are becoming quite
popular.

Dirk

-- 
http://dirk.eddelbuettel.com | @eddelbuettel | e...@debian.org

Bug#819389: ITP: r-cran-bh -- GNU R package with Boost headers

[Dirk Eddelbuettel]

On 3 December 2016 at 08:51, Andreas Tille wrote:
| Hi Dirk,
| 
| I just realised that this ITP seems not to be closes.  I somehow forgot
| this since the former requirement I had for this package seems to have
| vanished.  However, my attempt to upgrade r-cran-rsqlite to its latest
| upstream version due to the missing r-cran-bh.

Done! 

Let's hope it passes NEW.  I am a little worried I may have to extract
copyright information from thousands of header files ...  Worst case we could
still do what we discussed once and have r-cran-bh be a Debian-specific
'wrapper' depending on our Boost header packages.  But I don't like that as
the R builds would then [potentially] behave differently.

| Do you intend to upload this soon to enable me upgrading r-cran-rsqlite?

The other option is to just edit it out of DESCRIPTION.  There will never be
any R code coming from BH; it is (really !!) just a way (for R) to set the -I
flag for the compiler -- and we have that covered differently.

But on balance I still prefer to package CRAN 'as is'.  That is the better
way (even if marginally 'less Debian')

Dirk

-- 
http://dirk.eddelbuettel.com | @eddelbuettel | e...@debian.org

Bug#843124: ITP: r-cran-viridis -- GNU R package with color maps from matplotlib

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel <e...@debian.org>
Severity: wishlist

* Package name: r-cran-viridis
  Version : 0.3.4-1
  Upstream Author : Simon Garnier 
* URL or Web page : https://cran.r-project.org/package=viridis
* License : MIT
  Description : GNU R package with color maps from matplotlib

This is a new dependency of the existing package r-cran-hmisc.

Dirk

-- 
http://dirk.eddelbuettel.com | @eddelbuettel | e...@debian.org

Bug#843123: ITP: r-cran-htmltable -- GNU R package for advanced html tables

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel <e...@debian.org>
Severity: wishlist

* Package name: r-cran-htmltable
  Version : 1.7-1
  Upstream Author : Max Gordon
* URL or Web page : https://cran.r-project.org/package=htmlTable
* License : GPL-3
  Description : GNU R package for advanced html tables

This is a new dependency of the existing package r-cran-hmisc.

Dirk

-- 
http://dirk.eddelbuettel.com | @eddelbuettel | e...@debian.org

Bug#833653: ITP: r-cran-gsl -- GNU R package to interface the GNU GSL

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel <e...@debian.org>
Severity: wishlist

* Package name: r-cran-gsl
  Version : 0.3.0-1
  Upstream Author : Dirk Eddelbuettel and Romain Francois
* URL or Web page : http://dirk.eddelbuettel.com/code/rcpp.gsl.html
* License : GPL-2
  Description : GNU R package to interface the GNU GSL

This is by request of Andreas Tille who wants to package something that
depends on this, and he kindly let me (as upstream) maintain my own package.

Dirk

-- 
http://dirk.eddelbuettel.com | @eddelbuettel | e...@debian.org

Bug#819343: ITP: r-cran-dplyr -- A Grammar of Data Manipulation for GNU R

[Dirk Eddelbuettel]

On 30 March 2016 at 19:01, Andreas Tille wrote:
| On Wed, Mar 30, 2016 at 07:02:04AM -0500, Dirk Eddelbuettel wrote:
| > 
| > | Could you please explain what size exactly is doubled?  As far as I
| > | understood r-cran-bh would be just a wrapper for the Debian packaged
| > | libboost.
| > 
| > Nope. As I explained to you before and in this thread, there is downside in
| > differing from what is on CRAN.
| 
| OK.  At a second look I noticed how simple it is to replace BH by the
| Debian packaged boost.  I think I've got the downside but to my opinion

Yes, it is a simple sed call on DESCRIPTION, coupled with a Build-Depends.

But -- you risk creating different packages, creating different behaviour and
possibly very different to track bugs.

Having thought about this for a bit, I came to the conclusion that I'd rather
package r-cran-bh.

| its way more sensible to avoid code duplication as a general rule and
| run the accompanying test suite of the packages to ensure that
| everything works as expected.
| 
| In other words I do not need the r-cran-bh package as a predependency
| of my packages any more.

Entirely your call, but as I state above, one that I would NOT make.

One of the strongest things about R is the consistent reliability across
installation.  You are starting to differ here.   It may not matter most of
the time, only to all of sudden become an issue -- that may be hard to track
form someone not familiar with these details.

In my view saving 5mb in the archive is not worth it.

Dirk 

| 
| Kind regards
| 
| Andreas. 
| 
| -- 
| http://fam-tille.de

-- 
http://dirk.eddelbuettel.com | @eddelbuettel | e...@debian.org

Bug#819343: ITP: r-cran-dplyr -- A Grammar of Data Manipulation for GNU R

[Dirk Eddelbuettel]

On 30 March 2016 at 13:34, Andreas Tille wrote:
| On Wed, Mar 30, 2016 at 06:21:55AM -0500, Dirk Eddelbuettel wrote:
| > 
| > | I talked about this with Dirk[1] and may be I should have done this for
| > | the moment as well.  Meanwhile Dirk has ITPed r-cran-bh (#819389) and
| > | has uploaded it to new - so this should be dealt with hopefully soon.
| > 
| > It is messy and I can see it two ways. It is good not to double up installed
| > size.
| 
| Could you please explain what size exactly is doubled?  As far as I
| understood r-cran-b would be just a wrapper for the Debian packaged
| libboost.

Nope. As I explained to you before and in this thread, there is downside in
differing from what is on CRAN.  So r-cran-bh, as packaged and so far only on
my box, does what every r-cran-* package does: include the CRAN package:

edd@max:~/src/debian/CRAN$ ls -lh /var/cache/pbuilder/result/*bh*
-rw-r--r-- 1 root root 5.6M Mar 27 17:25 
/var/cache/pbuilder/result/r-cran-bh_1.60.0-1-1_all.deb
-rw-rw-r-- 1 edd  edd  2.4K Mar 27 17:25 
/var/cache/pbuilder/result/r-cran-bh_1.60.0-1-1_amd64.changes
-rw-rw-r-- 1 edd  edd   379 Mar 27 16:58 
/var/cache/pbuilder/result/r-cran-bh_1.60.0-1-1_amd64.local.upload
-rw-r--r-- 1 root root 4.1K Mar 27 17:24 
/var/cache/pbuilder/result/r-cran-bh_1.60.0-1-1.diff.gz
-rw-rw-r-- 1 edd  edd  1.7K Mar 27 17:25 
/var/cache/pbuilder/result/r-cran-bh_1.60.0-1-1.dsc
-rw-rw-r-- 1 edd  edd  9.2M Dec 28 08:13 
/var/cache/pbuilder/result/r-cran-bh_1.60.0-1.orig.tar.gz
edd@max:~/src/debian/CRAN$ 

But what is another 14mb between friends.
 
| > It is bad to have a package behave differently -- eg users of a 'fake'
| > r-cran-bh in Debian would see a complete Boost and be tempted to include
| > headers users of the other one do not see.  Plus, small deltas.
| 
| I totally fail to understand what you mean.

i)  BH is not a complete Boost. Never was, never will be. Headers only. And a
selected subset. So some non-Debian R users of BH would potentially see a
build including 'boost-foo' fail whereas we do.

ii) Small delta: 1.58 != 1.60.
 
| > BH is at
| > 1.60.0; Debian still uses 1.58.0.
| 
| That should be a temporary thing since 1.60.0 is in new[1].

We had BH 1.60 for several months now.

Dirk

-- 
http://dirk.eddelbuettel.com | @eddelbuettel | e...@debian.org

Bug#819343: ITP: r-cran-dplyr -- A Grammar of Data Manipulation for GNU R

[Dirk Eddelbuettel]

On 29 March 2016 at 08:28, Andreas Tille wrote:
| Hi Chris,
| 
| On Mon, Mar 28, 2016 at 08:45:41PM -0400, Chris Lawrence wrote:
| > On Mon, Mar 28, 2016 at 9:21 AM, Andreas Tille  wrote:
| > > Thanks for this ITP since it is also on my list of needed packages for
| > > r-cran-treescape which needs several dependencies.  I have noticed
| > > that its even in NEW.  I wonder how you was able to build it without
| > > r-cran-bh since I also tried to package r-cran-dplyr[1] but I had the
| > > impression that r-cran-bh (#819389) would be required.
| > 
| > The short answer is... I cheated.
| 
| Ahhh. :-)
| 
| > I edited out the BH reference in LinkingTo in DESCRIPTION and made the
| > source package depend on libboost-all-dev (>= 1.58). Since all BH does
| > is package a subset of libboost-all-dev, it works even though it's a
| > minor hack of the upstream source. In principle, we should be able to
| > do the same with anything that uses LinkingTo that isn't (yet)
| > packaged with an r-cran-* shell package but we have Debian packages
| > for.
| > 
| > Dirk and I did talk about putting together an r-cran-bh that didn't
| > needlessly duplicate the libboost-*-dev packages it brings in, but I
| > don't know where that stands.
| 
| I talked about this with Dirk[1] and may be I should have done this for
| the moment as well.  Meanwhile Dirk has ITPed r-cran-bh (#819389) and
| has uploaded it to new - so this should be dealt with hopefully soon.

It is messy and I can see it two ways. It is good not to double up installed
size. It is bad to have a package behave differently -- eg users of a 'fake'
r-cran-bh in Debian would see a complete Boost and be tempted to include
headers users of the other one do not see.  Plus, small deltas. BH is at
1.60.0; Debian still uses 1.58.0.

Dirk

| It would be nice to have a look into your packaging anyway in the mean
| time.  So finding it in some VCS (see below) would be helpful.
|  
| > > It would be great if you would move your packaging to some VCS (for
| > > instance Debian Science).  I would volunteer to commit autopkg stuff
| > > which I've just prepared[1].
| > >
| > > Kind regards
| > >
| > >   Andreas.
| > >
| > > [1] 
svn://anonscm.debian.org/debian-med/trunk/packages/R/r-cran-dplyr/trunk/
| > 
| > One of these decades I'll have to learn how to use VCSes for
| > packaging. 
| 
| I'd recommend using Git in this case since there seem to be a tendency
| inside Debian into this direction.  While you can see from the URL above
| I started in SVN.  The rationale is that R packaging is in most cases
| simple enough that we keep only the debian/ dir which is in line with
| the usual workflow in SVN while the typical workflow in Git is to store
| upstream source and packaging in one repository.
| 
| Since I think r-cran-dplyr would be sensible inside the Debian Science
| team you can read how to do it in the Debian Science policy document[2].
| I would volunteer to inject your packaging into Debian Science Git if
| this would help you in the beginning.  If you want me to do this simply
| put somewhere online to enable me downloading it (while it resides in
| new).
| 
| Kind regards
| 
|  Andreas.
| 
| [2] 
https://debian-science.alioth.debian.org/debian-science-policy.html#idp45010192
| 
| -- 
| http://fam-tille.de
| 

-- 
http://dirk.eddelbuettel.com | @eddelbuettel | e...@debian.org

Bug#819389: ITP: r-cran-bh -- GNU R package with Boost headers

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel <e...@debian.org>
Severity: wishlist

* Package name: r-cran-bh
  Version : 1.60.0-1-1
  Upstream Author : Jay Emerson and Dirk Eddelbuettel
* URL or Web page : http://cloud.r-project.org/package=BH
* License : BSL-1.0
  Description : GNU R package with Boost header

This package (for which I upstream as well) has become a build dependency for
a number of CRAN packages, and hence Andreas Tille asked me to package this.

There is of course overlap with liboost-all-dev and its components. BH is
however very useful in the R and CRAN world as it provides a uniform layer of
Boost headers there (with minimal patching; I have to shorten one path name).
So in the interest of having Debian behave like other systems it makes sense
to package it here. We are also currently ahead of Debian packaging which is
still at Boost 1.58.0.

Regards,  Dirk

-- 
http://dirk.eddelbuettel.com | @eddelbuettel | e...@debian.org

Bug#813481: ITP: r-cran-markdown -- GNU R package providing R bindings to the Sundown Markdown rendering library

[Dirk Eddelbuettel]

On 2 February 2016 at 13:43, Joost van Baal-Ilić wrote:
| Package: wnpp
| Severity: wishlist
| 
| * Package name: r-cran-markdown
|   Version : 0.7.7
|   Upstream Author : Yihui Xie 
| * URL : https://cran.r-project.org/web/packages/markdown/
| * License : GPL e.a.
|   Programming Lang: R, C
|   Description : GNU R package providing R bindings to the Sundown 
Markdown rendering library
| 
|  Provides R bindings to the Sundown Markdown rendering library by Vicent 
Marti e.a.,
|  based upon work by Natacha Porté.  Markdown is a plain-text formatting 
syntax that can
|  be converted to XHTML or other formats.
|  .
|  The R function `markdownToHTML` renders a markdown file to HTML. Options
|  controlling HTML output and supported markdown extensions can be optionally
|  specified.
|  .
|  The package also exports the underlying Sundown C extension API which
|  enables creating and calling custom renderers using the `renderMarkdown`
|  function.

It's also outdated (but still a depends). All never processed call the newer
package rmarkdown (leading r, uses pandoc), also by RStudio, which in turns
call knitr for some parts.  But markdown should be easy enough to package,
hopefully.

Thanks for doing this.

Dirk
 
| 
| The R markdown package is a dependency for r-cran-knitr (ITP Bug#808155);
| r-cran-knitr is needed for RStudio's Shiny Server.
| 
| I'll work on the packaging using debian-science's git at Alioth, at
| 
http://anonscm.debian.org/gitweb/?p=debian-science/packages/r-cran-markdown.git 
.
| 
| See also https://lists.debian.org/<20151110083253.gb6...@dijkstra.uvt.nl>
| "running RStudio's Shiny Server the Debian way".
| 
| Bye,
| 
| Joost
| 
| x[DELETED ATTACHMENT signature.asc, application/pgp-signature]

-- 
http://dirk.eddelbuettel.com | @eddelbuettel | e...@debian.org

Bug#617296: RFP: rstudio -- IDE for GNU R

[Dirk Eddelbuettel]

FWIW I am very good and close friends with the RStudio founders and several
of their engineers.  But most (power R) users I know (myself included)
happily use their dailies from http://www.rstudio.org/download/daily/

It would be a lot of work to get (and keep) this packaged as RStudio found
over the years to often require newer-than-packaged tools like Qt, Boost,
and more. While it would be nice to see it packaged, maybe we have other more
urgent tasks.  Not sure.

Good luck anyway!

Dirk

-- 
http://dirk.eddelbuettel.com | @eddelbuettel | e...@debian.org

Bug#795924: ITP: r-cran-matrixmodels -- GNU R package for sparse and dense matrix models

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel e...@debian.org
Severity: wishlist

* Package name: r-cran-matrixmodels
  Version : 0.4-0
  Upstream Author : Douglas Bates and Martin Maechler
* URL or Web page : 
https://cran.rstudio.com/web/packages/MatrixModels/index.html
* License : GPL (= 2)
  Description : GNU R package for sparse and dense matrix models

This package is now a dependency on the existing package r-cran-quantreg.

Dirk

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Bug#783439: ITP: r-cran-readxl -- GNU R package to read Excel files

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel e...@debian.org
Severity: wishlist

* Package name: r-cran-readxl
  Version : 0.1.0-1
  Upstream Author : Hadley Wickham
* URL or Web page : http://cran.r-project.org/web/packages/readxl/index.html
* License : GPL-3 (package) and BSD-2 (included code)
  Description : GNU R package to read Excel files

This will become a run-time dependency of r-cran-rcmdr which has been in
Debian for a decade.  The readxl / r-cran-readxl package itself will probably
also become somewhat popular in the near future as it is better than the
existing .xls / .xlsx readers.

Dirk

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Bug#778660: ITP: r-cran-gridextra -- GNU R package with extensions for the grid package

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel e...@debian.org
Severity: wishlist

* Package name: r-cran-gridextra
  Version : 0.9-1-1
  Upstream Author : Baptiste Auguie
* URL or Web page : http://cran.r-project.org/web/packages/gridExtra/index.html
* License : GPL-2
  Description : GNU R extensions to grid graphics

This package is a new Build-Depends for the r-cran-rms package which has been
in Debian for many years.

Dirk

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Bug#776740: ITP: r-cran-pbkrtest -- GNU R package for tests in linear mixed-effect model

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel e...@debian.org
Severity: wishlist

* Package name: r-cran-pbkrtest
  Version : 0.4-2-1
  Upstream Author : Ulrich Halekoh and Søren Højsgaard
* URL or Web page : http://people.math.aau.dk/~sorenh/software/pbkrtest/
* License : GPL (= 2)
  Description : GNU R package for tests in linear mixed-effect model

This package is about to become a build-depends of the r-cran-car package
which has been in Debian for about a decade.

Dirk

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Bug#771031: ITP: r-cran-kernlab -- GNU R package for kernel-based machine learning lab

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel e...@debian.org
Severity: wishlist

* Package name: r-cran-kernlab
  Version : 0.9-19
  Upstream Author : Alexandros Karatzoglou, Alex Smola, Kurt Hornik
* URL or Web page : http://cran.r-project.org/web/packages/kernlab/index.html
* License : GPL-2
  Description : GNU R package for kernel-based machine learning lab

This is an older and very stable package which has also become a
Build-Depends: of r-cran-fportfolio.

Dirk

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Bug#769979: ITP: r-cran-rneos -- GNU R package with XML-RPC interface to NEOS

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel e...@debian.org
Severity: wishlist

* Package name: r-cran-rneos
  Version : 0.2-7-1
  Upstream Author : Bernhard Pfaff
* URL or Web page : http://cran.r-project.org/web/packages/rneos/index.html
* License : GPL (= 2)
  Description : GNU R package with XML-RPC interface to NEOS

This is a very small package -- which is now a (Build-)Depends of the
r-cran-fportfolio package which has been in Debian for many years.

Dirk

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Bug#768523: ITP: r-omegahat-xmlrpc -- GNU R package for RPC over XML

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel e...@debian.org
Severity: wishlist

* Package name: r-omegahat-xmlrpc
  Version : 0.3-0
  Upstream Author : Duncan Temple Lang
* URL or Web page : http://www.omegahat.org/XMLRPC/
* License : BSD
  Description : GNU R package for RPC over XML

This (tiny) package is a (Build-)-Depends of (r-cran-)rneos which itself is
now a (Build-)Depends of (r-cran-)fportfolio which has been in Debian for
close to a decade.

Dirk

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Bug#761364: ITP: abc -- A System for Sequential Synthesis and Verification

[Dirk Eddelbuettel]

On 15 September 2014 at 17:33, Andreas Tille wrote:
| On Sat, Sep 13, 2014 at 11:38:48AM +0200, ruben.undh...@gmail.com wrote:
|  Please provide feedback on the naming of the package!
|  Perhaps the name abc is a bad name to use in debian although
|  it's the correct upstream name.
| 
| I admit I immediately stumbled upon this name but I fail to give a
| better alternative. 

Tricky.  

Wikipedia for 'abc' has seven entries in science and medicine alone, and
three more in math (with the last one a new-ish estimation technique).

Might be worthwile to prefix abc with something if anybody can come up with a
good value for somehting...

Dirk

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Bug#761506: ITP: r-cran-acepack -- GNU R package for regression transformations

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel e...@debian.org
Severity: wishlist

* Package name: r-cran-acepack
  Version : 1.3.3.3-1
  Upstream Author : Phil Spector, Jerome Friedman, Robert Tibshirani, and 
Thomas Lumley
* URL or Web page : http://cran.r-project.org/web/packages/acepack/index.html
* License : MIT
  Description : GNU R package for regression transformations

The package was in Debian from 2004 until ~ 2012 when we withdrew it as it
had been orphaned upstream, and hence been removed from the CRAN network.  

It is back on CRAN now, with a new [upstream] maintainer. I refreshed
debian/copyright, the rest is unchanged.

The package is again a Build-Depends on package r-cran-hmisc which has also
been in Debian since 2004.

Dirk

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Bug#761142: ITP: r-cran-pkgkitten -- GNU R package to create package skeletons

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel e...@debian.org
Severity: wishlist

* Package name: r-cran-pkgkitten
  Version : 0.1.1-1
  Upstream Author : Dirk Eddelbuettel
* URL or Web page : http://dirk.eddelbuettel.com/code/pkgkitten.html
* License : GPL (= 2)
  Description : GNU R package to create package skeletons

This is a little helper package I wrote in order to have sample packages
created which immediately pass the (recommended) 'R CMD check' test. 

I will need this package in the Rcpp version.

Dirk

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Bug#760685: ITP: r-cran-cubature -- GNU R package for multivariate integration

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel e...@debian.org
Severity: wishlist

* Package name: r-cran-cubature
  Version : 1.1-2-1
  Upstream Author : Balasubramanian Narasimhan and Steven G. Johnson
* URL or Web page : http://cran.r-project.org/web/packages/cubature/index.html
* License : GPL (= 2)
  Description : GNU R package for multivariate integration

This is a new Build-Depends: of the existing package r-cran-fmultivar (aka
fMultivar on CRAN) which has been in Debian for many years.

The package is straightforward and just contains a few GPL-2'ed C files plus
an R wrapper.

Dirk

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Bug#759587: ITP: r-cran-rcmdrmisc -- GNU R Commander miscellaneous functions

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel e...@debian.org
Severity: wishlist

* Package name: r-cran-rcmdrmisc
  Version : 1.0-1
  Upstream Author : John Fox
* URL or Web page : http://cran.r-project.org/web/packages/RcmdrMisc/index.html
* License : GPL (= 2)
  Description : GNU R Commander miscellaneous functions

This is a new Build-Depends of, and spin-off from, the Rcmdr (== r-cran-rcmdr) 
GUI for R. Rcmdr has been in Debian for a decade, and is a pretty widely-used
beginner's GUI for R with the added advantage of being cross-platform.

This package added one Build-Depends of its own: the r-cran-e1071 package
which reached unstable today.  

Dirk

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Bug#759170: ITP: r-cran-e1071 -- GNU R package with miscellaneous functions of the Dept of Statisics (e1071)

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel e...@debian.org
Severity: wishlist

* Package name: r-cran-e1071
  Version : 1.6-3-1
  Upstream Author : David Meyer, Evgenia Dimitriadou, Kurt Hornik, Andreas 
Weingessel, and Friedrich Leisch.
* URL or Web page : http://cran.rstudio.com/web/packages/e1071/index.html
* License : GPL-2
  Description : GNU R package with miscellaneous functions of the Dept of 
Statisics (e1071)

This package is a Build-Depends: of RcmdrMisc (== r-cran-rcmdrmisc) which
itself is a Build-Depends of Rcmdr (== r-cran-cmdr) which is a package we had
in Debian for a decade.

e1071 is a stable package which reflects work by the authors when working in
the Dept of Statistics at TU Wien.  They have all moved on to different
departments/universities, and the package is in maintenance mode.

It includes a wrapper to libsvm which itself is BSD licensed and pretty
widely used within R via this package.

Dirk

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Bug#753852: ITP: r-cran-nloptr -- GNU R package for interface to NLopt

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel e...@debian.org
Severity: wishlist

* Package name: r-cran-nloptr
  Version : 1.0.0-1
  Upstream Author : Jelmer Ypma
* URL or Web page : http://cran.r-project.org/web/packages/nloptr/index.html
* License : LGPL-3
  Description : GNU R package for interface to NLopt

This package is now a Build-Depends: for r-cran-lme4, which is a core R
package we have had in Debian since the 1990s.  

I have modified r-cran-nloptr to use Debian's libnlopt library, and will work
with upstream to set up a configure snippet in the package itself.

Dirk

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Bug#617296: Any Progress with RStudio?

[Dirk Eddelbuettel]

On 15 May 2014 at 10:15, Andreas Tille wrote:
| simple.  I agree that the pure fact Dirk is stating is true:  Yes, we
| are lagging behind upstream.

And you make that a policy. I don't think that flies. Remember this line:

Our priorities are our users

| My point is that we are delivering Debian stable *releases* to

You just singlehandedly redefined Debian as not caring about current packages
in unstable / testing.  

I have been here almost 19 years, and I have met many maintainers.  Not one
shares the view that we should rot packages and only update for stable.

That is just plain nonsense.

| fine for me but I'm bored to discuss this over and over.

Me too as you will never change your mind.


FWIW to install (or update) R package I use two five-liner R scripts
(included as examples in my 'littler' package) as I would much rather have
__current__ packages in /usr/local/ than your bitrot in /usr.  And then there
is Don Armstrong's marvelous debian-r.debian.net which renders all this moot.

This is really really sad and upsetting as I have poured a decade into making
R good on Debian, and maintain a hundred __current and bugfree__ packages. If
I may add, I do run into people thanking me for making R on Debian
awesome. To have you sabotage this with planned bitrot is just sad.

But maybe I will write some posts over on the R side explaining to people
they should just avoid and ignore your packages. Which is a win for you too
as you'll never get the bug reports asking for an update.  

Don't bother following up.

Dirk

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Bug#617296: Any Progress with RStudio?

[Dirk Eddelbuettel]

On 14 May 2014 at 22:43, Andreas Tille wrote:
| Why not commiting your work to Debian Science repository and let others
| have a look?  I'd be interested and might spent some time cycles into it.

Well if you have spare cycles, would you mind looking at the various r-cran-*
packages some of which are __several__ CRAN releases behind?

I can help with the package level diagnosis from the R end of things (that is
after all what my CRANberries at http://dirk.eddelbuettel.com/cranberries/
already does, and stores in a local database) but I have not yet had time to
look at accessing the Debian DB to check out versions.  

A casual look at
http://qa.debian.org/developer.php?login=debian-med-packag...@lists.alioth.debian.org
reveals

r-cran-epir
r-cran-msm
r-bioc-biobas
r-bioc-limma
r-bioc-affy
r-bioc-affyio

and dozens more to be behind -- there is a LOT more pink (behind) than
green (current).

I don't think that is good, and I don't understand why you folks keep adding
packages only to let them fall behind.

Many seem to have had a single upload, only to get forgotten later.

Dirk

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Bug#617296: Any Progress with RStudio?

[Dirk Eddelbuettel]

On 14 May 2014 at 17:08, Rogério Brito wrote:
| Is there anybody that wants to get rstudio packaged, even if in a dirty
| state, while other dependencies are not yet in Debian?
| 
| I just started looking at the source and it seems to mostly compile with
| what we have in Debian, but I don't know (yet) how to convince the build
| system to use the local hunspell or the local mathjax.
| 
| Anyway, I can push the *super* embrionary packaging that I have so far.  I
| would like some help with the maintainance of this package since I have
| barely any time left with the amount of packages that I maintain.

I am semi-regularly IM'ing or emailing with the RStudio founder whom I'll
meet tomorrow. I also have pretty good contacts with a number of other
RStudio developers and engineers. 

You want to look at the current dev packages, eg (in binary)
  http://rstudio.org/download/daily/
which, inter alia, contain a very cooked-up local build of pandoc to be able
to get the very, very latest pandoc binary without any depends.

I am not sure how ready this is even for Debian unstable, and they _do_
provide ready-made .deb packages that users like myself deploy.

I can ask tomorrow, but RStudio is still a pretty fast moving target.

Dirk

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Bug#617296: Any Progress with RStudio?

[Dirk Eddelbuettel]

On 14 May 2014 at 18:45, Rogério Brito wrote:
| Dear Dirk and others,
| 
| On May 14 2014, Dirk Eddelbuettel wrote:
|  On 14 May 2014 at 17:08, Rogério Brito wrote:
|  | Anyway, I can push the *super* embrionary packaging that I have so far.  I
|  | would like some help with the maintainance of this package since I have
|  | barely any time left with the amount of packages that I maintain.
|  
|  I am semi-regularly IM'ing or emailing with the RStudio founder whom I'll
|  meet tomorrow. I also have pretty good contacts with a number of other
|  RStudio developers and engineers.
| 
| That's great. I would love to know what to do about RStudio to convince it
| to (while building) to use some off-the-tree packages like hunspell, mathjax
| and possibly others.
| 
|  You want to look at the current dev packages, eg (in binary)
|http://rstudio.org/download/daily/
|  which, inter alia, contain a very cooked-up local build of pandoc to be able
|  to get the very, very latest pandoc binary without any depends.
| 
| Thanks. Somehow I missed that directory.
| 
|  I am not sure how ready this is even for Debian unstable, and they _do_
| 
| You probably meant experimental here?

Maybe :)
 
|  provide ready-made .deb packages that users like myself deploy.
| 
| I installed and started using rstudio and I have never been so impressed
| with an IDE like this in ages. There are so many goodies with it that it
| would be a real pity to not have it in Debian.

Yes. And eg that newest pandoc stuff and their underlying rmarkdown package
is mindboggling as well. Those guys are really good.
 
| That being said, I don't think that the FTP masters would let us upload
| something that duplicates a lot of stuff, but that shouldn't prevent us (or

Agreed. But whenever I bring it up with JJ et al the answer is ... that they
just need too much stuff that is too current ... Eg a whole slew of Qt things.

Might be best to file a bug report with them. I'll ask JJ tomorrow who
besides him a good contact would be.

I presume you started off their GitHub repo?

| the interested parties) from working on the package and start solving the
| small problems (like those that I mentioned before), detecting unpackaged
| dependencies (e.g., knitr and possibly many others) etc.
| 
|  I can ask tomorrow, but RStudio is still a pretty fast moving target.
| 
| Thanks. It would be nice to know if they are moving from Qt4 to Qt5 in the
| short time or not. Also, if they would like to see RStudio packaged
| independently from them.
| 
| And there are probably other smaller issues like linking rstudio with
| openssl, given that rstudio is licensed under the agplv3 and I didn't see
| any licensing exception while skimming the sources (but it may be there).

Dunno either.

Dirk

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Bug#742792: ITP: r-cran-energy -- GNU R package for distribution comparison

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel e...@debian.org
Severity: wishlist

* Package name: r-cran-energy
  Version : 1.6.1
  Upstream Author : Maria L. Rizzo and Gabor J. Szekely
* URL or Web page : http://cran.r-project.org/package=energy
* License : GPL-2
  Description : GNU R package for distribution comparison

This package is now a Build-Depends: of fAssets (aka r-cran-fassets), another
package which has been part of Debian since 2007.

Dirk

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Bug#742794: ITP: r-cran-mvnormtest -- GNU R package for multivariate normality test

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel e...@debian.org
Severity: wishlist

* Package name: r-cran-mvnormtest
  Version : 0.1-9
  Upstream Author : Slawomir Jarek
* URL or Web page : http://cran.r-project.org/package=mvnormtest
* License : GPL-2
  Description : GNU R package for multivariate normality test

This package is now a Build-Depends: of fAssets (aka r-cran-fassets), another
package which has been part of Debian since 2007.

Dirk

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Bug#742791: ITP: r-cran-ecodist -- GNU R package for dissimilarity-based ecological analysis

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel e...@debian.org
Severity: wishlist

* Package name: r-cran-ecodist
  Version : 1.2.9-1
  Upstream Author : Sarah Goslee and Dean Urban
* URL or Web page : http://cran.r-project.org/package=ecodist
* License : GPL-2
  Description : GNU R package for dissimilarity-based ecological analysis

This package is now a Build-Depends: of fAssets (aka r-cran-fassets), another
package which has been part of Debian since 2007.

Dirk

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Bug#737533: ITP: r-cran-rnetcdf -- GNU R package that provides an R Interface to NetCDF Datasets

[Dirk Eddelbuettel]

On 5 February 2014 at 14:20, Andreas Tille wrote:
| Hi Sebastian,
| 
| please consider maintaining the package in Debian Science team.
| 
| Moreover please enhance the long description since not every reader
| knows about netcdf and it just helps people who don't if they realise
| tht this package is not for them without doing additional research.

Also, there are three packages on CRAN interfacing the NetCDF library:

  RNetCDF
  ncdf4
  ncdf

I never know which one is maintained and good as I don't use NetCDF-store
data.  Maybe you do and RNetCDF is the clear winner -- if not take a quick
look at the other two please.

Cheers, Dirk
 
| Kind regards and thanks for your ITP
| 
|  Andreas.
| 
| On Mon, Feb 03, 2014 at 03:59:08PM +0100, Sebastian Gibb wrote:
|  Package: wnpp
|  Severity: wishlist
|  Owner: Sebastian Gibb sgibb.deb...@gmail.com
|  
|  * Package name: r-cran-rnetcdf
|Version : 1.6.1-2
|Upstream Author : Pavel Michna mic...@giub.unibe.ch
|  * URL : 
http://cran.r-project.org/web/packages/RNetCDF/index.html
|  * License : GPL=2
|Programming Lang: R
|Description : GNU R package that provides an R Interface to NetCDF 
Datasets
|  
|  This package provides an interface to Unidata's NetCDF library functions
|  (version 3) and furthermore access to Unidata's UDUNITS calendar 
conversions.
| 
| -- 
| http://fam-tille.de
| 
| 
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| 

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Bug#737533: ITP: r-cran-rnetcdf -- GNU R package that provides an R Interface to NetCDF Datasets

[Dirk Eddelbuettel]

On 5 February 2014 at 19:19, Sebastian Gibb wrote:
| On Wednesday 05 February 2014 14:37:00 Dirk Eddelbuettel wrote:
|  Also, there are three packages on CRAN interfacing the NetCDF library:
|  
|RNetCDF
|ncdf4
|ncdf
|  
|  I never know which one is maintained and good as I don't use NetCDF-store
|  data.  Maybe you do and RNetCDF is the clear winner -- if not take a quick
|  look at the other two please.
|
| ncdf is obsolete and superseded by ncdf4. Both ncdf4 and RNetCDF provide a 
good 
| interface to NetCDF.

Ack.

| I prefer RNetCDF because CRAN ships windows binaries of it, too. For reasons 
| unknown to me RNetCDF is built for windows but ncdf4 is not.

Generally the author(s)/maintainer have to extra effort. For two more
complicated CRAN packages of mine, we give CRAN static libs [for 32 and 64
bit windows] of the required external library.  [ In one case, RQuantLib, we
have done so for many years. For another, RProtoBuf, we only did so very
recently and a friend / co-author actually cross-built the windows libraries
on Ubuntu (and had to try three different g++-mingw versions; apparently only
4.7 worked) ]

Dirk

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Bug#737483: ITP: r-cran-deoptimr -- GNU R package for Diffential Evolution in pure R

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel e...@debian.org
Severity: wishlist

* Package name: r-cran-deoptimr
  Version : 1.0-0
  Upstream Author : Eduardo L. T. Conceicao and Martin Maechler
* URL or Web page : http://cran.r-project.org/web/packages/DEoptimR/index.html
* License : GPL (= 2)
  Description : GNU R package for Diffential Evolution in pure R

This is now a (Build-)Depends of the package r-cran-robustbase which has been
in Debian since October 2007.

Dirk

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Bug#735081: ITP: r-cran-numderiv -- GNU R package for accurate numerical derivatives

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel e...@debian.org
Severity: wishlist

* Package name: r-cran-numderiv
  Version : 2012.9-1
  Upstream Author : Paul Gilbert and Ravi Varadhan
* URL or Web page : http:http://optimizer.r-forge.r-project.org/
* License : GPL-2
  Description : GNU R package for accurate numerical derivatives

This is a small package containing just R code; and it is now a reverse
dependency of the 'r-cran-sn' package which has been in Debian since Oct 2007.

Dirk

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Bug#731631: ITP: r-cran-tcltk2 -- GNU R package for Tcl/Tk additions

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel e...@debian.org
Severity: wishlist

* Package name: r-cran-tcltk2
  Version : 1.2-8
  Upstream Author : Phillipe Grosjean 
* URL or Web page : http://cran.r-project.org/package=tcltk2
* License : LGPL-3
  Description : GNU R package for Tcl/Tk additions

This package is now a (Build-)Depends on the popular RCmdr GUI for R (in
package r-cran-rcmdr, and part of Debian since August 2003).  

Tcl/Tk is a trusted cross-platform toolkit used by a few R packages; RCmdr
now uses some of the tklib extensions.  

Dirk

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Bug#728443: ITP: r-cran-th.data -- GNU R datasets by Torsten Hothorn

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel e...@debian.org
Severity: wishlist

* Package name: r-cran-th.data
  Version : 1.0-2
  Upstream Author : Torsten Hothorn
* URL or Web page : http://cran.r-project.org/web/packages/TH.data/index.html
* License : GPL-3
  Description : GNU R datasets by Torsten Hothorn

This package is a new (Build-)Depends of his package multcomp (aka
r-cran-multcomp) which has been in Debian since 2004.

As it is common with R datasets, these are stored as compressed R data files,
but each datasets has a full documentation page including source references.

Dirk

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Bug#722651: ITP: r-cran-minqa -- GNU R package for quadratic optimisation without derivatives

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel e...@debian.org
Severity: wishlist

* Package name: r-cran-minqa
  Version : 1.2.1-1
  Upstream Author : Douglas Bates, Katharine M. Mullen, John C. Nash, Ravi 
Varadhan
* URL or Web page : http://cran.r-project.org/package=minqa
* License : GPL-2
  Description : GNU R package for quadratic optimisation without derivatives

This package is now a Build-Depends: of the existing package r-cran-lme4
(with source 'lme4') which has been in Debian since 2004.

Dirk

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Bug#722652: ITP: r-cran-rcppeigen -- GNU R package for Eigen templated linear algebra

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel e...@debian.org
Severity: wishlist

* Package name: r-cran-rcppeigen
  Version : 0.3.1.2.1-1
  Upstream Author : Douglas Bates, Romain Francois and Dirk Eddelbuettel
* URL or Web page : http://cran.r-project.org/package=RcppEigen
* License : GPL-2
  Description : GNU R package for Eigen templated linear algebra

This package is now a Build-Depends: of the existing package r-cran-lme4
(with source 'lme4') which has been in Debian since 2004.

Dirk

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Bug#617296: Any Progress with RStudio?

[Dirk Eddelbuettel]

On 6 September 2013 at 16:38, Lifeng Sun wrote:
| Hi,
| 
| On 02:58 Fri 09/06/13 Sep , Rogério Brito wrote:
|  If there is indeed interest in packaging R Studio, Lifeng, can you say so?
|  The last public activity from yours was making this bug an ITP on 12 Oct
|  2012, which soon will be 12 months old.
| 
| A short answer is yes, but ...
| 
| IMHO, the most difficult part to get rstudio in Debian official
| archive is that rstudio build-depends on several (5 or so) Java
| packages missing in Debian. The upstream approach is to ship them as
| convenient libraries in binary package, which is unreasonable for
| Debian official package, and it's quite a lot of nontrivial work to
| package them first.  For example, one of them is gwt, a large complex
| Java library once in unstable removed recently due to grave bugs.

Really? I am pretty good friends with the RStudio team, and know them as
hard-core C++-ers.  There are (were?) newer Qt parts, Boost parts, ... in
there but I'd be very surprised to find Java.

[ And yes, it remains a very large and complicated package. I have no
capacity to help, sorry. ]

Dirk

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Bug#617296: Any Progress with RStudio?

[Dirk Eddelbuettel]

On 6 September 2013 at 05:30, Dirk Eddelbuettel wrote:
| 
| On 6 September 2013 at 16:38, Lifeng Sun wrote:
| | Hi,
| | 
| | On 02:58 Fri 09/06/13 Sep , Rogério Brito wrote:
| |  If there is indeed interest in packaging R Studio, Lifeng, can you say so?
| |  The last public activity from yours was making this bug an ITP on 12 Oct
| |  2012, which soon will be 12 months old.
| | 
| | A short answer is yes, but ...
| | 
| | IMHO, the most difficult part to get rstudio in Debian official
| | archive is that rstudio build-depends on several (5 or so) Java
| | packages missing in Debian. The upstream approach is to ship them as
| | convenient libraries in binary package, which is unreasonable for
| | Debian official package, and it's quite a lot of nontrivial work to
| | package them first.  For example, one of them is gwt, a large complex
| | Java library once in unstable removed recently due to grave bugs.
| 
| Really? I am pretty good friends with the RStudio team, and know them as
| hard-core C++-ers.  There are (were?) newer Qt parts, Boost parts, ... in
| there but I'd be very surprised to find Java.

Checked with upstream over IM, and yes, they do use Java to generate 300k of
Javascript.  So GWT is used for that.

JJ also mentioned that they need to upgrade to Qt 5.1.1 which entail a number
of changes; probably not worth packaging before that.  

The 0.99 release may be a good starting point at which they plan to update
their dependencies.  So wait and see..
 
Dirk

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Bug#719332: ITP: r-cran-sparsem -- GNU R basic linear algebra for sparse matrices

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel e...@debian.org
Severity: wishlist

* Package name: r-cran-sparsem
  Version : 1.03
  Upstream Author : Roger Koenker and Pin Ng
* URL or Web page : http://www.econ.uiuc.edu/~roger/research/sparse/sparse.html
* License : GPL-2
  Description : GNU R basic linear algebra for sparse matrices

This package is a new dependency of the package r-cran-rms -- which has been
in Debian for a decade+ under this and its predecessor names r-cran-design.

The SparseM package itself has been on CRAN since 2002 and is pretty mature.

Cheers, Dirk

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Bug#716861: RFP: r-cran-formula -- GNU R package for extended model formulas

[Dirk Eddelbuettel]

Package: wnpp
Severity: wishlist

* Package name: r-cran-formula
  Version : 1.1-1
  Upstream Author : Achim Zeileis and Yves Croissant
* URL or Web page : http://cran.r-project.org/web/packages/Formula/index.html
* License : GPL-2
  Description : GNU R package for extended model formulas

This small, simple and mature package is now a Depends of the r-cran-hmisc
package we have had in Debian for close a decade and hence needed to maintain
hmisc.

Dirk

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Bug#706541: ITP: r-cran-gss -- R package for multivariate smoothing splines

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel e...@debian.org
Severity: wishlist

* Package name: r-cran-gss
  Version : 2.0-13
  Upstream Author : Chong Gu
* URL or Web page : http://cran.r-project.org/web/packages/gss/index.html
* License : GPL (= 2)
  Description : GNU R package for multivariate estimation using smoothing 
splines

This package is a new dependency of our r-cran-fbasics package (which itself
has been in the archive since 2004).  

r-cran-gss is a standard CRAN package and should not pose any issues. 

Dirk

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Bug#706179: ITP: r-cran-rsclient -- R client for the headless Rserve R server

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel e...@debian.org
Severity: wishlist

* Package name: r-cran-rsclient
  Version : 0.7-2
  Upstream Author : Simon Urbanek
* URL or Web page : http://www.rforge.net/RSclient/index.html
* License : GPL-2 plus OpenSSL exception
  Description : R client for the headless Rserve R server

This package extend the 'rserve' package we have had in Debian since 2007.
'rserve' already includes several reference clients, but this package
provides a more extensive version.

The package uses OpenSSL, and at my urging, Simon added the following to his
top-level LICENSE file:

[Summary: GPL-2 with OpenSSL linking exception]

RSclient
Copyright (C) 2002-2013 Simon Urbanek

This program is free software; you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
the Free Software Foundation; version 2 of the License.

This program is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
GNU General Public License for more details.

You should have received a copy of the GNU General Public License along
with this program; if not, write to the Free Software Foundation, Inc.,
51 Franklin Street, Fifth Floor, Boston, MA 02110-1301 USA.

In addition, as a special exception, the copyright holders give
permission to link the code of portions of this program with the
OpenSSL project's OpenSSL library (or with modified versions of
it that use the same license as the OpenSSL library - see
http://www.openssl.org/), and distribute linked combinations
including the two.

You must obey the GNU General Public License in all respects
for all of the code used other than OpenSSL.  If you modify
file(s) with this exception, you may extend this exception to your
version of the file(s), but you are not obligated to do so.  If you
do not wish to do so, delete this exception statement from your
version.  If you delete this exception statement from all source
files in the program, then also delete it here.


which is followed by a full copy of the GPL-2.  I believe that this meets our
standards. 

Dirk

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Bug#704746: ITP: r-cran-armadillo -- R bindings to Armadillo C++ linear algebra library

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel e...@debian.org
Severity: wishlist

* Package name: r-cran-armadillo
  Version : 0.3.800.1-1
  Upstream Author : Dirk Eddelbuettel et al (for RcppArmadillo), 
Conrad Sanderson (for Armadillo)
* URL or Web page : http://dirk.eddelbuettel.com/code/rcpp.armadillo.html
* License : GPL (= 2) [for RcppArmadillo], MPL 2 [for Armadillo]
  Description : R bindings to Armadillo C++ linear algebra library

RcppArmadillo is becoming more popular within the R world, there are now
about 30 CRAN packages which use it -- and that now includes Amelia (which
is packaged as r-cran-amelia) so we need it in Debian anyway.

I am upstream and should be able to provide concurrent releases within Debian
as I have done for years with Rcpp (that this packages depends upon).

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Bug#704746: ITP: r-cran-armadillo -- R bindings to Armadillo C++ linear algebra library

[Dirk Eddelbuettel]

On 5 April 2013 at 07:02, Dirk Eddelbuettel wrote:
| 
| Package: wnpp
| Owner: Dirk Eddelbuettel e...@debian.org
| Severity: wishlist
| 
| * Package name: r-cran-armadillo

Sorry:   r-cran-rcpparmadillo

Seems like I no longer remember the name of own [upstream] packages ...

Dirk

|   Version : 0.3.800.1-1
|   Upstream Author : Dirk Eddelbuettel et al (for RcppArmadillo), 
| Conrad Sanderson (for Armadillo)
| * URL or Web page : http://dirk.eddelbuettel.com/code/rcpp.armadillo.html
| * License : GPL (= 2) [for RcppArmadillo], MPL 2 [for Armadillo]
|   Description : R bindings to Armadillo C++ linear algebra library
| 
| RcppArmadillo is becoming more popular within the R world, there are now
| about 30 CRAN packages which use it -- and that now includes Amelia (which
| is packaged as r-cran-amelia) so we need it in Debian anyway.
| 
| I am upstream and should be able to provide concurrent releases within Debian
| as I have done for years with Rcpp (that this packages depends upon).
| 
| -- 
| Dirk Eddelbuettel | e...@debian.org | http://dirk.eddelbuettel.com

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Bug#690544: ITP: xts -- GNU R package for time series analysis

[Dirk Eddelbuettel]

On 15 October 2012 at 14:37, Julien Cristau wrote:
| On Mon, Oct 15, 2012 at 20:13:33 +0800, Lifeng Sun wrote:
| 
|  Package: wnpp
|  Severity: wishlist
|  Owner: Lifeng Sun lifong...@gmail.com
|  X-Debbugs-Cc: debian-de...@lists.debian.org, debian-scie...@lists.debian.org
|  
|  * Package name: xts

All (newer) R CRAN package use the r-cran-$foo naming style. Please follow
suit here too.

Dirk

|Version : 0.8-6
|Upstream Author : Jeffrey A. Ryan jeff.a.r...@gmail.com
|  Josh M. Ulrich
|  * URL : http://r-forge.r-project.org/projects/xts/
|  * License : GPL-2
|Description : GNU R package for time series analysis -- xts
|  
|  This package provide uniform handling of R's different time-based data
|  classes by extending r-cran-zoo, maximizing native format information
|  preservation and allowing for user level customization and extension,
|  while simplifying cross-class interoperability.
|  
| Any chance you could choose a better package name?  Something that hints
| at this being related to R.  xts to me is the X Test Suite, which has
| nothing to do with this.
| 
| Thanks,
| Julien
| application/pgp-signature [Press RETURN to save to a file]

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Bug#677846: r-cran-rcurl is almost ready

[Dirk Eddelbuettel]

On 17 June 2012 at 19:55, Praveen A wrote:
| It is uploaded to mentors.debian.net but needs some hardening fixes
| http://mentors.debian.net/package/r-cran-rcurl
| 
| Hi Dirk,
| 
| I think it needs some changes to upstream build files. Can you please check?

I see the following at the webpage

– Buildsystem: Package uses CDBS
+ Package closes a WNPP bug
+ Homepage control field present
+ Package has lintian warnings
  W hardening-no-fortify-functions usr/lib/R/site-library/RCurl/libs/RCurl.so
  W hardening-no-relro usr/lib/R/site-library/RCurl/libs/RCurl.so
  P no-upstream-changelog
– Maintainer email is the same as the uploader
– Package is not native
– Package is the latest upstream version

so some comments in turn:

1) cdbs is a non-issue, all r-cran-* packages currently work that that way.
2) Lintian:
   2a) Hardering: no idea, I never did anything to my packages
   2b) No upstream changelog:  Is there really nothing in the upstream tarball?
3) Maintainer same as uploader: no idea
4) Package is not native: you need to fix that by saving it as 
foo_1.2.3.orig.tar.gz
5) Package is latest upstream version: no idea what that is about
| 
Cheers, Dirk

| Thanks
| Praveen
| -- 
| പ്രവീണ്‍ അരിമ്പ്രത്തൊടിയില്‍
| You have to keep reminding your government that you don't get your
| rights from them; you give them permission to rule, only so long as
| they follow the rules: laws and constitution.

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Bug#657919: ITP: r-cran-digest - Create cryptographic hash digests of R objects

[Dirk Eddelbuettel]

On 30 January 2012 at 00:22, Andreas Tille wrote:
| Hi Carlos,
| 
| thanks for your ITP.
| 
| On Sun, Jan 29, 2012 at 06:14:30PM -0500, Carlos Borroto wrote:
|  Package: wnpp
|  Severity: wishlist
|  Owner: Carlos Borroto carlos.borr...@gmail.com
|  X-Debbugs-Cc: debian-...@lists.debian.org
|  
|  
|  * Package name: r-cran-digest
|  Version: 0.5.1
|  Upstream Author: Dirk Eddelbuettel e...@debian.org
| 
| Well, Dirk is the main packager of R software inside Debian.  If he is
| upstream of some software but did not packaged it for Debian, he might
| have his reasons to do so.  I would like Dirk to comment on this ITP
| before uploading something.

I'll do it. The package turned out to be a) relatively widely used for all
the caching things that use it as a base and b) changes rarely. 

I'll make an initial upload in a few days.

Thanks for the heads-up!

Dirk

| 
| Kind regards
| 
| Andreas.
| 
|  * URL: http://dirk.eddelbuettel.com/code/digest.html
|  * License: GPL-2+
|  Programming Lang: C
|  Description: Create cryptographic hash digests of R objects
|  
|  The digest package provides a function 'digest()' for the creation of
|  hash digests of arbitrary R objects (using the md5, sha-1, sha-256 and
|  crc32 algorithms) permitting easy comparison of R language objects, as
|  well as a function 'hmac()' to create hash-based message
|  authentication code. The md5 algorithm by Ron Rivest is specified in
|  RFC 1321, the SHA-1 and SHA-256 algorithms are specified in FIPS-180-1
|  and FIPS-180-2, and the crc32 algorithm is described in
|  ftp://ftp.rocksoft.com/cliens/rocksoft/papers/crc_v3.txt. For md5,
|  sha-1 and sha-256, this packages uses small standalone implementations
|  that were provided by Christophe Devine. For crc32, code from the zlib
|  library is used. Please note that this package is not meant to be
|  deployed for cryptographic purposes for which more comprehensive (and
|  widely tested) libraries such as OpenSSL should be used.
|  
|  
|  
|  -- 
|  To UNSUBSCRIBE, email to debian-med-requ...@lists.debian.org
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|  
|  
| 
| -- 
| http://fam-tille.de

-- 
Outside of a dog, a book is a man's best friend. Inside of a dog, it is too
dark to read. -- Groucho Marx



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Bug#657919: ITP: r-cran-digest - Create cryptographic hash digests of R objects

[Dirk Eddelbuettel]

On 29 January 2012 at 19:18, Carlos Borroto wrote:
| On Sun, Jan 29, 2012 at 6:42 PM, Dirk Eddelbuettel e...@debian.org wrote:
| 
|  On 30 January 2012 at 00:22, Andreas Tille wrote:
|  | Hi Carlos,
|  |
|  | thanks for your ITP.
|  |
|  | On Sun, Jan 29, 2012 at 06:14:30PM -0500, Carlos Borroto wrote:
|  |  Package: wnpp
|  |  Severity: wishlist
|  |  Owner: Carlos Borroto carlos.borr...@gmail.com
|  |  X-Debbugs-Cc: debian-...@lists.debian.org
|  | 
|  | 
|  |  * Package name: r-cran-digest
|  |  Version: 0.5.1
|  |  Upstream Author: Dirk Eddelbuettel e...@debian.org
|  |
|  | Well, Dirk is the main packager of R software inside Debian.  If he is
|  | upstream of some software but did not packaged it for Debian, he might
|  | have his reasons to do so.  I would like Dirk to comment on this ITP

I didn't answer this bit:  No particular reason. I have 10+ packages on CRAN
but only maintain two or three in Debian ... as the others install so easily
in R itself. (digest for example has not further depends).  And I already
have 120+ packages so time is somewhat limited.

But (r-cran-)digest makes some sense.

|  | before uploading something.
| 
|  I'll do it. The package turned out to be a) relatively widely used for all
|  the caching things that use it as a base and b) changes rarely.
| 
|  I'll make an initial upload in a few days.
| 
|  Thanks for the heads-up!
| 
| 
| Hi Dirk, Andreas,
| 
| I noted the @debian.org, but I did not know Dirk is the main R maintainer.
| 
| My interest is to package cummeRbund[1], which needs ggplot2, which in
| turn needs digest.

Oh, something from BioConductor -- nice. I just did a quick apt-cache search
r-bioc and there to be four others so I suppose you know the suggested 
r-bioc-cummerbund pattern?

| I'll be packaging the rest of the dependencies and I'll wait for Dirk
| for digest. Should I remove this wnpp bug?

Up to you. I can simply close it.

Will be nice to have ggplot2 and reshape in as well.

Dirk

| 
| Thanks,
| Carlos
| 
| [1]http://www.bioconductor.org/packages/release/bioc/html/cummeRbund.html

-- 
Outside of a dog, a book is a man's best friend. Inside of a dog, it is too
dark to read. -- Groucho Marx



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Bug#649538: ITP: r-cran-int64 -- R package providing 64-bit integers

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel e...@debian.org
Severity: wishlist

* Package name: r-cran-int64
  Version : 1.0.0
  Upstream Author : Romain Francois
* URL or Web page : 
* License : GPL (= 2)
  Description : R package providing 64-bit integers

This is a new package (sponsored by Google's Open Source Office). It extends
R to support int64 types (modeled after int64_t and uint64_t) which permits
indexed objects of much larger size than with R's standard 32-bit sized
integers.

We need the package in Debian as Rcpp (== r-cran-rcpp) will require it
(upstream) in order to provide int64 support for things like RProtoBuf.

Romain (who wrote int64) is also my co-author for Rcpp, our joint package for
R / C++ integration (and which I maintain in Debian too).

Dirk

-- 
Outside of a dog, a book is a man's best friend. Inside of a dog, it is too
dark to read. -- Groucho Marx



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Bug#649270: ITP: r-cran-rms -- Regression Modeling Strategies

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel e...@debian.org
Severity: wishlist

* Package name: r-cran-rms
  Version : 3.3-2-1
  Upstream Author : Frank Harrell
* URL or Web page : http://biostat.mc.vanderbilt.edu/wiki/Main/Rrms
* License : GPL-2
  Description : Regression Modeling Strategies

This is replacement package / continuation of the existing package 'Design'
(binary name:  r-cran-design)  which I have been maintaining in Debian since
2003.  

At some point Prof Harrell switched the name to reflect the name of the book,
and I had not yet updated the package.  This should happen now.

See  http://packages.qa.debian.org/d/design.html  for the PTS page of the
package it replaces.

Dirk

-- 
Outside of a dog, a book is a man's best friend. Inside of a dog, it is too
dark to read. -- Groucho Marx



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Bug#589685: KDE 3's libs removal ping

[Dirk Eddelbuettel]

On 15 April 2011 at 13:27, Jameson Graef Rollins wrote:
| Hi, folks.  So what exactly is the current status of kst?  I see that it
| has been removed entirely from testing, which is very unfortunate.  Is
| someone taking over packaging?
| 
| kst2 is also now available, and it even looks like it's packaged for
| Ubuntu:
| 
| https://launchpad.net/~stevebenton/+archive/kst2
| 
| Can we get this into Debian as well? 

Yes please!

| Can kst2 just take over the kst
| name, seeing as there's not currently a kst package?

Maybe but http://kst-plot.kde.org/ makes it clear that 'kst1' and 'kst2' are
not feature-by-feature substitutes.  

Not sure if it worth dealing with /etc/alternatives/ though.

Dirk
 
-- 
Dirk Eddelbuettel | e...@debian.org | http://dirk.eddelbuettel.com



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Bug#618789: ITP: r-cran-stabledist -- Stable distribution functions

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel e...@debian.org
Severity: wishlist

* Package name: r-cran-stabledist
  Version : 0.6-0
  Upstream Author : Diethelm Wuertz and Martin Maechler
* URL or Web page : http://cran.r-project.org/web/packages/stabledist/index.html
* License : GPL (= 2)
  Description : Stable distribution functions

This is code that was factored out of the existing package fBasics (aka
r-cran-fbasics) which will now depend on it.  Martin Maechler, an R Core
member, refactored and improved it.  

In case you want to read up on stable distributions, you can start here at
http://en.wikipedia.org/wiki/Stable_distribution 

The debian/control file is

  Source: r-cran-stabledist
  Section: gnu-r
  Priority: optional
  Maintainer: Dirk Eddelbuettel e...@debian.org
  Build-Depends: debhelper (= 7.0.0), r-base-dev (= 2.12.2), cdbs
  Standards-Version: 3.9.1
  Homepage: http://www.rmetrics.org
   
  Package: r-cran-stabledist
  Architecture: any
  Depends: ${shlibs:Depends}, r-base-core (= 2.12.2)
  Suggests: r-cran-runit, r-cran-fbasics
  Description: GNU R package for stable distribution functions
   This package provides density, probability and quantile functions,
   and random number generation for (skew) stable distributions, using
   the parametrizations of Nolan.
  
and my copyright draft (yes, with an outdated FSF address but I just emailed
Martin about it) is below.  There are only three source files and the two
main ones carry the (old) FSF snippets but no per-file copyright assignments.

Cheers, Dirk


  This is the Debian GNU/Linux r-cran-stabledist package of stabledist,
  a set of function for density, probability and quantile functions, and
  random number generation for (skew) stable distributions. It was
  factored out of the Rmetrics package fBasics which now depends on
  it. Rmetrics is a collection of packages for financial engineering and
  computational finance. stabledist was started by Diethelm Wuertz
  andwas extended by Martin Maechler who now maintains it.
  
  This package was created by Dirk Eddelbuettel e...@debian.org.
  The sources were downloaded from the main CRAN site
http://cran.r-project.org/src/contrib/
  and are also available from all CRAN mirrors as e.g.
http://cran.us.r-project.org/src/contrib/
  
  The package was renamed from its upstream name 'stabledist' to
  'r-cran-stabledist' to fit the pattern of CRAN (and non-CRAN) packages for
  R.
  
  Copyright (C) 1999 - 2008 Diethelm Wuertz
  Copyright (C) 1999 - 2010 Rmetrics Foundation
  Copyright (C) 2011 - 2010 Diethelm Wuertz and Martin Maechler
  
  License: GPL
  
  stabledist is copyright by Diethelm Wuertz, Martin Maechler and
  others, and released under the GNU General Public License (GPL)
  version 2 or greater.
  
  On a Debian GNU/Linux system, the GPL license (v2) is included in the
  file /usr/share/common-licenses/GPL-2.
  
  For reference, the upstream DESCRIPTION file is included below:

   Package: stabledist
   Version: 0.6-0
   Date: 2011-03-12
   Title: Stable Distribution Functions
   Author: Diethelm Wuertz, Martin Maechler and Rmetrics core team
   members.
   Maintainer: Martin Maechler maech...@stat.math.ethz.ch
   Depends: R (= 2.10.1)
   Suggests: fBasics, RUnit
   Description: Density, Probability and Quantile functions, and random
   number generation for (skew) stable distributions, using the
   parametrizations of Nolan.
   LazyLoad: yes
   LazyData: yes
   License: GPL (= 2)
   URL: http://www.rmetrics.org
   Packaged: 2011-03-14 13:15:38 UTC; maechler
   Repository: CRAN
   Date/Publication: 2011-03-15 16:41:43
   
  and the following segment was extracted from the header of
  R/dist-stableMode.R [ and yes, that is the old FSF address but I am
  quoting here ]
  
 # This R package is free software; you can redistribute it and/or
 # modify it under the terms of the GNU Library General Public
 # License as published by the Free Software Foundation; either
 # version 2 of the License, or (at your option) any later version.
 #
 # This R package is distributed in the hope that it will be useful,
 # but WITHOUT ANY WARRANTY; without even the implied warranty of
 # MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
 # GNU Library General Public License for more details.
 #
 # You should have received a copy of the GNU Library General
 # Public License along with this R package; if not, write to the
 # Free Foundation, Inc., 59 Temple Place, Suite 330, Boston,
 # MA  02111-1307  USA
 
 
 

 # FUNCTIONS:   DESCRIPTION:
 #  stableMode   Computes the mode of the stable DF
 

 
 ##' Computes the mode of the alpha stable distribution

Bug#580667: ITP: r-cran-inline -- GNU R package to inline Fortran, C and C++ functions

[Dirk Eddelbuettel]

Package: wnpp
Owner: Dirk Eddelbuettel e...@debian.org
Severity: wishlist

* Package name: r-cran-inline
  Version : 0.3.4
  Upstream Author : Oleg Sklyar, Duncan Murdoch, Mike Smith, Dirk Eddelbuettel 
* URL or Web page : http://cran.r-project.org/web/packages/inline/
* License : LGPL-2.1
  Description : GNU R package to inline Fortran, C and C++ functions

This is a really small but immensely useful package which 'inlines' source
code from Fortran, C, or C++ into R -- and which compiles, links and loads
the resulting object code.  

We make extensive use of this in Rcpp (r-cran-rcpp) for the 230+ unit test
functions and now have a Depends rather than Suggests on it.

-- 
  Regards, Dirk



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