[R-pkg-devel] Package dependency graphs of packages in development (local)
Rainer M Krug
R@|ner @end|ng |rom krug@@de
Thu May 9 12:31:20 CEST 2019
But I don’t get it to run.
When I do
> itdepends::dep_plot_size(".")
ℹ Checking for package metadata updates
✖ Metadata download failed
Error in stop(http_error(resp)) :
Not Found (HTTP 404).
Could not load or update metadata cache. If you think your local cache is broken, try deleting it with `meta_cache_cleanup()`, or the
`$cleanup()` method.
d>
I get an error. Suggestions?
Rainer
> On 9 May 2019, at 12:20, Rainer M Krug <Rainer using krugs.de> wrote:
>
> Thanks.
>
> This sounds like a really useful package - I’ll check it out.
>
>
>> On 9 May 2019, at 12:15, Maëlle SALMON <maelle.salmon using yahoo.se <mailto:maelle.salmon using yahoo.se>> wrote:
>>
>> Could https://github.com/jimhester/itdepends <https://github.com/jimhester/itdepends> help?
>>
>> Maëlle.
>> Den torsdag 9 maj 2019 12:10:14 CEST, Rainer M Krug <Rainer using krugs.de <mailto:Rainer using krugs.de>> skrev:
>>
>>
>> Thanks Gabor.
>>
>> This gives me an impressive long list. Is there a way to see this graphically? Parsing seems to be a long, tedious process.
>>
>> I want to identify packages which I should leave out to reduce the number of (indirect) dependencies.
>>
>> Rainer
>>
>>
>> > On 9 May 2019, at 11:24, Gábor Csárdi <csardi.gabor using gmail.com <mailto:csardi.gabor using gmail.com>> wrote:
>> >
>> > You can do something like this with https://github.com/r-lib/pkgdepends: <https://github.com/r-lib/pkgdepends:>
>> >
>> > pr <- pkgdepends::remotes()$new("local::.", library = tempfile())
>> > #> ℹ Creating library directory:
>> > `/var/folders/59/0gkmw1yj2w7bf2dfc3jznv5w0000gn/T//Rtmpo5NL9R/filee95427c73f55`
>> >
>> > pr$solve()
>> > #> ℹ Checking for package metadata updates
>> > #> ✔ All 10 metadata files are current.
>> > #> ✔ Using session cached package metadata
>> > #> ✔ Using cached package metadata
>> > #> PKG SOLUTION, 1 refs, resolved in 1.2s, solved in 193ms
>> > ───────────────────────
>> > #> local::.
>> > #> Dependencies:
>> > #> github:
>> > #> r-lib/crancache, r-lib/rcmdcheck
>> > #> standard:
>> > #> askpass, assertthat, backports, base64enc, bit, bit64, blob, callr,
>> > #> cli, clisymbols, cranlike, crayon, curl, DBI, debugme, desc,
>> > #> digest, evaluate, fansi, glue, gmailr, highr, hms, httr, jsonlite,
>> > #> knitr, magrittr, markdown, memoise, mime, openssl, parsedate,
>> > #> pillar, pkgbuild, pkgconfig, prettyunits, processx, progress, ps,
>> > #> R6, rappdirs, Rcpp, rematch2, remotes, rlang, rprojroot, RSQLite,
>> > #> sessioninfo, stringi, stringr, sys, tibble, utf8, whoami, withr,
>> > #> xfun, xopen, yaml
>> >
>> > tibble::as_tibble(pr$get_solution()$data)
>> > #> # A tibble: 61 x 27
>> > #> ref type direct status package version license
>> > needscompilation priority
>> > #> <chr> <chr> <lgl> <chr> <chr> <chr> <chr> <lgl> <chr>
>> > #> 1 loca… local TRUE OK revdep… 1.0.0.… MIT + … NA NA
>> > #> 2 askp… stan… FALSE OK askpass 1.1 NA FALSE NA
>> > #> 3 asse… stan… FALSE OK assert… 0.2.1 NA FALSE NA
>> > #> 4 back… stan… FALSE OK backpo… 1.1.4 NA FALSE NA
>> > #> 5 base… stan… FALSE OK base64… 0.1-3 NA FALSE NA
>> > #> 6 bit64 stan… FALSE OK bit64 0.9-7 NA FALSE NA
>> > #> 7 bit stan… FALSE OK bit 1.1-14 NA FALSE NA
>> > #> 8 blob stan… FALSE OK blob 1.1.1 NA FALSE NA
>> > #> 9 callr stan… FALSE OK callr 3.2.0 NA FALSE NA
>> > #> 10 cli stan… FALSE OK cli 1.1.0 NA FALSE NA
>> > #> # … with 51 more rows, and 18 more variables: md5sum <chr>, sha256 <chr>,
>> > #> # filesize <int>, built <chr>, platform <chr>, rversion <chr>,
>> > repodir <chr>,
>> > #> # target <chr>, deps <list>, mirror <chr>, sources <list>, remote <list>,
>> > #> # error <list>, metadata <list>, extra <list>, dep_types <list>,
>> > #> # cache_status <chr>, lib_status <chr>
>> >
>> > And the `deps` column there shows the direct dependencies of the dependencies:
>> >
>> > ❯ pr$get_solution()$data$deps[1:2]
>> > #> [[1]]
>> > #> # A tibble: 25 x 5
>> > #> ref type package op version
>> > #> <chr> <chr> <chr> <chr> <chr>
>> > #> 1 assertthat Imports assertthat "" ""
>> > #> 2 callr Imports callr "" ""
>> > #> 3 cli Imports cli "" ""
>> > #> 4 clisymbols Imports clisymbols "" ""
>> > #> 5 r-lib/crancache Imports crancache >= 0.0.0.9001
>> > #> 6 crayon Imports crayon "" ""
>> > #> 7 DBI Imports DBI "" ""
>> > #> 8 desc Imports desc >= 1.1.1.9002
>> > #> 9 glue Imports glue "" ""
>> > #> 10 gmailr Imports gmailr "" ""
>> > #> # … with 15 more rows
>> > #>
>> > #> [[2]]
>> > #> # A tibble: 2 x 5
>> > #> ref type package op version
>> > #> <chr> <chr> <chr> <chr> <chr>
>> > #> 1 testthat suggests testthat "" ""
>> > #> 2 sys imports sys >= 2.1
>> >
>> > Gabor
>> >
>> > On Thu, May 9, 2019 at 8:53 AM Rainer M Krug <Rainer using krugs.de <mailto:Rainer using krugs.de>> wrote:
>> >>
>> >> Hi
>> >>
>> >> I am quite sure, there was a recent discussion about dependency graphs of packages. I saw the post from Dirk at http://dirk.eddelbuettel.com/blog/2018/02/28/#017_dependencies <http://dirk.eddelbuettel.com/blog/2018/02/28/#017_dependencies>but `tools::package_dependencies()` does only work on packages on CRAN.
>> >>
>> >> But my package is not yet on CRAN (but on GitHub and a drat repo), and I would like to look at the package dependencies BEFORE submitting to CRAN.
>> >>
>> >> Is there a tool which allows me to plot a dependency graph for my local package?
>> >>
>> >> Thanks,
>> >>
>> >> Rainer
>> >>
>> >>
>> >> --
>> >> Rainer M. Krug, PhD (Conservation Ecology, SUN), MSc (Conservation Biology, UCT), Dipl. Phys. (Germany)
>> >>
>> >> Orcid ID: 0000-0002-7490-0066
>> >>
>> >> Department of Evolutionary Biology and Environmental Studies
>> >> University of Zürich
>> >> Office Y34-J-74
>> >> Winterthurerstrasse 190
>> >> 8075 Zürich
>> >> Switzerland
>> >>
>> >> Office: +41 (0)44 635 47 64
>> >> Cell: +41 (0)78 630 66 57
>> >> email: Rainer.Krug using uzh.ch <mailto:Rainer.Krug using uzh.ch>
>> >> Rainer using krugs.de <mailto:Rainer using krugs.de>
>> >> Skype: RMkrug
>> >>
>> >> PGP: 0x0F52F982
>> >>
>> >> ______________________________________________
>> >> R-package-devel using r-project.org <mailto:R-package-devel using r-project.org> mailing list
>> >> https://stat.ethz.ch/mailman/listinfo/r-package-devel <https://stat.ethz.ch/mailman/listinfo/r-package-devel>
>>
>> --
>> Rainer M. Krug, PhD (Conservation Ecology, SUN), MSc (Conservation Biology, UCT), Dipl. Phys. (Germany)
>>
>> Orcid ID: 0000-0002-7490-0066
>>
>> Department of Evolutionary Biology and Environmental Studies
>> University of Zürich
>> Office Y34-J-74
>> Winterthurerstrasse 190
>> 8075 Zürich
>> Switzerland
>>
>> Office: +41 (0)44 635 47 64
>> Cell: +41 (0)78 630 66 57
>> email: Rainer.Krug using uzh.ch <mailto:Rainer.Krug using uzh.ch>
>> Rainer using krugs.de <mailto:Rainer using krugs.de>
>> Skype: RMkrug
>>
>> PGP: 0x0F52F982
>>
>>
>>
>>
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>>
>>
>> ______________________________________________
>> R-package-devel using r-project.org <mailto:R-package-devel using r-project.org> mailing list
>> https://stat.ethz.ch/mailman/listinfo/r-package-devel <https://stat.ethz.ch/mailman/listinfo/r-package-devel>
> --
> Rainer M. Krug, PhD (Conservation Ecology, SUN), MSc (Conservation Biology, UCT), Dipl. Phys. (Germany)
>
> Orcid ID: 0000-0002-7490-0066
>
> Department of Evolutionary Biology and Environmental Studies
> University of Zürich
> Office Y34-J-74
> Winterthurerstrasse 190
> 8075 Zürich
> Switzerland
>
> Office: +41 (0)44 635 47 64
> Cell: +41 (0)78 630 66 57
> email: Rainer.Krug using uzh.ch <mailto:Rainer.Krug using uzh.ch>
> Rainer using krugs.de <mailto:Rainer using krugs.de>
> Skype: RMkrug
>
> PGP: 0x0F52F982
>
>
>
--
Rainer M. Krug, PhD (Conservation Ecology, SUN), MSc (Conservation Biology, UCT), Dipl. Phys. (Germany)
Orcid ID: 0000-0002-7490-0066
Department of Evolutionary Biology and Environmental Studies
University of Zürich
Office Y34-J-74
Winterthurerstrasse 190
8075 Zürich
Switzerland
Office: +41 (0)44 635 47 64
Cell: +41 (0)78 630 66 57
email: Rainer.Krug using uzh.ch
Rainer using krugs.de
Skype: RMkrug
PGP: 0x0F52F982
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