Hi Gabriel,
It's very nice usage you provided here. Maybe instead of adding new
function we could extend packages_depenedncies then? To accept file path to
dsc file.
What about repos.dcf? Maybe additional repositories could be an attribute
attached to returned character vector.
The use case is to, for a given package sources, obtain its dependencies,
so one can use that for installing them/mirroring CRAN subset, or whatever.
The later is especially important for a production environment where one
wants to have fixed version of packages, and mirroring relevant subset of
CRAN is the most simple, and IMO reliable, way to manage such environment.
Regards
Jan
On Fri, Oct 14, 2022, 23:34 Gabriel Becker <gabembecker at gmail.com>
wrote:
> Hi Jan and Jan,
>
> Can you explain a little more what exactly you want the non-recursive,
> non-version aware dependencies from an individual package for?
>
> Either way package_dependencies will do this for you* with a little
> "aggressive convincing". It wants output from available.packages,
but who
> really cares what it wants? It's a function and we are people :)
>
> > library(tools)
> > db <-
read.dcf("~/gabe/checkedout/rtables_clean/DESCRIPTION")
> > package_dependencies("rtables", db, which =
intersect(c("Depends",
> "Suggests", "Imports", "LinkingTo"),
colnames(db)))
> $rtables
> [1] "methods" "magrittr" "formatters"
"dplyr" "tibble"
> [6] "tidyr" "testthat" "xml2"
"knitr" "rmarkdown"
> [11] "flextable" "officer" "stats"
"htmltools" "grid"
>
>
> The only gotcha that I see immediately is that "LinkingTo"
isn't always
> there (whereas it is with real output from available.packages). If you
> know your package doesn't have that (or that it does) at call time ,
this
> becomes a one-liner:
>
> package_dependencies("rtables", db >
read.dcf("~/gabe/checkedout/rtables_clean/DESCRIPTION"), which >
c("Depends", "Suggests", "Imports"))
> $rtables
> [1] "methods" "magrittr" "formatters"
"dplyr" "tibble"
> [6] "tidyr" "testthat" "xml2"
"knitr" "rmarkdown"
> [11] "flextable" "officer" "stats"
"htmltools" "grid"
>
> You can also trick it a slightly different way by giving it what it
> actually wants
>
> > tdir <- tempdir()
> > file.copy("~/gabe/checkedout/rtables_clean/DESCRIPTION",
file.path(tdir,
> "PACKAGES"))
> [1] TRUE
> > avl <- available.packages(paste0("file://", tdir))
> > library(tools)
> > package_dependencies("rtables", avl)
> $rtables
> [1] "methods" "magrittr" "formatters"
"stats" "htmltools"
> [6] "grid"
>
> > package_dependencies("rtables", avl, which =
"all")
> $rtables
> [1] "methods" "magrittr" "formatters"
"stats" "htmltools"
> [6] "grid" "dplyr" "tibble"
"tidyr" "testthat"
> [11] "xml2" "knitr" "rmarkdown"
"flextable" "officer"
>
> So the only real benefits I see that we'd be picking up here is
automatic
> filtering by priority, and automatic extraction of the package name from
> the DESCRIPTION file. I'm not sure either of those warrant a new
exported
> function that R-core has to maintain forever.
>
> Best,
> ~G
>
> * I haven't tested this across all OSes, but I dont' know of any
reason it
> wouldn't work generally.
>
> On Fri, Oct 14, 2022 at 2:33 PM Jan Gorecki <j.gorecki at wit.edu.pl>
wrote:
>
>> Hello Jan,
>>
>> Thanks for confirming about many packages reinventing this missing
>> functionality.
>> packages.dcf was not meant handle versions. It just extracts names of
>> dependencies... Yes, such a simple thing, yet missing in base R.
>>
>> Versions of packages can be controlled when setting up R pkgs repo.
This
>> is
>> how I used to handle it. Making a CRAN subset mirror of fixed version
>> pkgs.
>> BTW. function for that is also included in mentioned branch. I am just
not
>> proposing it, to increase the chance of having at least this simple,
>> missing, functionality merged.
>>
>> Best
>> Jan
>>
>> On Fri, Oct 14, 2022, 15:14 Jan Net?k <netikja at gmail.com>
wrote:
>>
>> > Hello Jan,
>> >
>> > I have seen many packages that implemented dependencies
"extraction" on
>> > their own for internal purposes and today I was doing exactly that
for
>> > mine. It's not a big deal using read.dcf on DESCRIPTION. It
was
>> sufficient
>> > for me, but I had to take care of some \n chars (the overall
returned
>> value
>> > has some rough edges, in my opinion). However, the function from
the
>> branch
>> > seems to not care about version requirements, which are crucial
for me.
>> > Maybe that is something to reconsider before merging.
>> >
>> > Best,
>> > Jan
>> >
>> > p? 14. 10. 2022 v 2:27 odes?latel Jan Gorecki <j.gorecki at
wit.edu.pl>
>> > napsal:
>> >
>> >> Dear R devs,
>> >>
>> >> I would like to raise a request for a simple helper function.
>> >> Utility function to extract package dependencies from
DESCRIPTION file.
>> >>
>> >> I do think that tools package is better place, for such a
fundamental
>> >> functionality, than community packages.
>> >>
>> >> tools pkg seems perfect fit (having already great function
>> >> write_PACKAGES).
>> >>
>> >> Functionality I am asking for is already in R svn repository
since
>> 2016,
>> >> in
>> >> a branch tools4pkgs. Function is called
'packages.dcf'.
>> >> Another one 'repos.dcf' would be a good functional
complementary to it.
>> >>
>> >> Those two simple helper functions really makes it easier for
>> organizations
>> >> to glue together usage of their own R packages repos and CRAN
repo in a
>> >> smooth way. That could possibly help to offload CRAN from new
>> submissions.
>> >>
>> >> gh mirror link for easy preview:
>> >>
>> >>
>>
https://github.com/wch/r-source/blob/tools4pkgs/src/library/tools/R/packages.R#L419
>> >>
>> >> Regards
>> >> Jan Gorecki
>> >>
>> >> [[alternative HTML version deleted]]
>> >>
>> >> ______________________________________________
>> >> R-devel at r-project.org mailing list
>> >> https://stat.ethz.ch/mailman/listinfo/r-devel
>> >>
>> >
>>
>> [[alternative HTML version deleted]]
>>
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>>
>
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