[R-pkg-devel] Package dependency graphs of packages in development (local)

But I don?t get it to run.

When I do

itdepends::dep_plot_size(".")

? 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 at krugs.de> wrote:

Thanks.

This sounds like a really useful package - I?ll check it out.


On 9 May 2019, at 12:15, Ma?lle SALMON <maelle.salmon at yahoo.se> wrote:

Could https://github.com/jimhester/itdepends help?

Ma?lle.
Den torsdag 9 maj 2019 12:10:14 CEST, Rainer M Krug <Rainer at 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, G?bor Cs?rdi <csardi.gabor at gmail.com> wrote:

You can do something like this with https://github.com/r-lib/pkgdepends:

pr <- pkgdepends::remotes()$new("local::.", library = tempfile())
#> ? Creating library directory:
`/var/folders/59/0gkmw1yj2w7bf2dfc3jznv5w0000gn/T//Rtmpo5NL9R/filee95427c73f55`

pr$solve()
#> ? 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 at 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 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 Z?rich
Office Y34-J-74
Winterthurerstrasse 190
8075 Z?rich
Switzerland

Office: +41 (0)44 635 47 64
Cell:          +41 (0)78 630 66 57
email:      Rainer.Krug at uzh.ch
               Rainer at 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 Z?rich
Office Y34-J-74
Winterthurerstrasse 190
8075 Z?rich
Switzerland

Office:    +41 (0)44 635 47 64
Cell:          +41 (0)78 630 66 57
email:      Rainer.Krug at uzh.ch
        Rainer at krugs.de
Skype:    RMkrug

PGP: 0x0F52F982




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