[GRASS-user] Rscript error when using v.class.mlR

Jamille Haarloo j.r.haarloo at gmail.com
Fri Jul 14 16:04:31 PDT 2023 

Dear all,

What was the solution to this error? I recently got a similar error from
the same module v.class.mlR. I am using GRASS GIS 8.2.1  on Windows 10.

Best,
Jamille

----
Running R now. Following output is R output.
Traceback (most recent call last):
  File "C:\Users\haarlooj\AppData\Roaming\GRASS8\addons\scri
pts\v.class.mlR.py", line 977, in <module>
    main()
  File "C:\Users\haarlooj\AppData\Roaming\GRASS8\addons\scri
pts\v.class.mlR.py", line 908, in main
    subprocess.check_call(
  File "C:\OSGeo4W\apps\Python39\lib\subprocess.py", line
368, in check_call
    retcode = call(*popenargs, **kwargs)
  File "C:\OSGeo4W\apps\Python39\lib\subprocess.py", line
349, in call
    with Popen(*popenargs, **kwargs) as p:
  File "C:\OSGeo4W\apps\Python39\lib\subprocess.py", line
951, in __init__
    self._execute_child(args, executable, preexec_fn,
close_fds,
  File "C:\OSGeo4W\apps\Python39\lib\subprocess.py", line
1420, in _execute_child
    hp, ht, pid, tid = _winapi.CreateProcess(executable,
args,
FileNotFoundError: [WinError 2] The system cannot find the
file specified


On Sun, Feb 20, 2022 at 8:24 AM Nicklas Larsson via grass-user <
grass-user at lists.osgeo.org> wrote:

> Daniel,
>
> I assume you use the official GRASS app bundle for mac. If you are not
> using the final 8.0.0 version, but one of the release candidates, I'd
> suggest you download the latest. There are changes in the startup script in
> the final version that relate to PATH issues like this.
>
>
>
> Best,
> Nicklas
>
>
>
>
>
>
>
> On Sunday, 20 February 2022, 01:55:28 CET, Daniel Kozar via grass-user <
> grass-user at lists.osgeo.org> wrote:
>
>
>
>
>
> Hi Micha,
>
> Thanks for the reply. I ran the script lines you sent both in the terminal
> as well as a GRASS session. Rscript is recognized in the terminal command
> but not in the GRASS 8.0 command. Since GRASS 8.0 did not recognize Rscript
> I tried making a symbolic link for "Rscript" to the full path:
> /usr/local/bin/Rscript. This still doesn't recognize the command and I'm
> unsure how else to work around it.
>
> Any Mac aficionados reading this - do you have an idea to resolve this?
>
> Thanks
> Daniel
>
> On Sat, Feb 19, 2022 at 1:46 AM Micha Silver <tsvibar at gmail.com> wrote:
> > Hi
> >
> >
> > On 19/02/2022 04:27, Daniel Kozar via grass-user wrote:
> >> Hi everyone,
> >>
> >> When using the extension "v.class.mlR" I get an error [Message 1] (see
> >> below) that "Rscript" cannot be located. I traced this back to the
> >> script for "v.class.mlR" and edited line 908 to read the direct path
> >> to Rscript - '/usr/local/bin/Rscript' rather than 'Rscript' alone.
> >> However, when I re-open GRASS 8.0 I get an error [Message 2] that the
> >> extension failed when loading and that the operation isn't permitted.
> >> I allowed for the application to have administrative rights but it
> >> still doesn't work. Does anyone know how to work around this or solve
> >> the issue finding "Rscript"?
> >>
> >> I have R running and have installed necessary packages. I'm
> >> running GRASS on MacOS Monterey.
> >
> >
> > This looks like a Mac problem (which I know nothing about).
> >
> > To test, can you run, first from a terminal:
> >
> > micha at RMS:~$ Rscript -e "sessionInfo()"
> >
> > Now run the same from within a GRASS session:
> >
> > (here's what I get)
> >
> > micha at RMS:QGIS$ g.version
> > GRASS 8.1.dev (2022)
> >
> > micha at RMS:QGIS$ Rscript -e "sessionInfo()"
> > R version 4.1.2 (2021-11-01)
> > Platform: x86_64-pc-linux-gnu (64-bit)
> > Running under: Debian GNU/Linux 11 (bullseye)
> >
> > Matrix products: default
> > BLAS:   /usr/lib/x86_64-linux-gnu/ openblas-pthread/libblas.so.3
> > LAPACK: /usr/lib/x86_64-linux-gnu/ openblas-pthread/libopenblasp-
> r0.3.13.so
> >
> > locale:
> >   [1] LC_CTYPE=en_GB.UTF-8       LC_NUMERIC=C
> >   [3] LC_TIME=en_GB.UTF-8        LC_COLLATE=en_GB.UTF-8
> >   [5] LC_MONETARY=en_GB.UTF-8    LC_MESSAGES=en_GB.UTF-8
> >   [7] LC_PAPER=en_GB.UTF-8       LC_NAME=C
> >   [9] LC_ADDRESS=C               LC_TELEPHONE=C
> > [11] LC_MEASUREMENT=en_GB.UTF-8 LC_IDENTIFICATION=C
> >
> > attached base packages:
> > [1] stats     graphics  grDevices utils     datasets  methods base
> >
> > loaded via a namespace (and not attached):
> > [1] compiler_4.1.2
> >
> > If the Rscript executable is not found, then v.class.mlR cannot be run.
> >
> >
> >>
> >> Any help would be appreciated.
> >> - Daniel
> >> ------------------------------ ------------------------------
> -----------------
> >> *[Message 1]*
> >>
> >> Running R now. Following output is R output.
> >>
> >> Traceback (most recent call last):
> >>
> >> File "/Users/dankozar/Library/ GRASS/8.0/Addons/scripts/v. class.mlR",
> >> line 977, in <module>
> >>
> >> main()
> >>
> >> File "/Users/dankozar/Library/ GRASS/8.0/Addons/scripts/v. class.mlR",
> >> line 908, in main
> >>
> >> subprocess.check_call(
> >>
> >> File
> >> "/Applications/GRASS-8.0.app/ Contents/Resources/lib/
> python3.9/subprocess.py",
> >> line 368, in check_call
> >>
> >> retcode = call(*popenargs, **kwargs)
> >>
> >> File
> >> "/Applications/GRASS-8.0.app/ Contents/Resources/lib/
> python3.9/subprocess.py",
> >> line 349, in call
> >>
> >> with Popen(*popenargs, **kwargs) as p:
> >>
> >> File
> >> "/Applications/GRASS-8.0.app/ Contents/Resources/lib/
> python3.9/subprocess.py",
> >> line 951, in __init__
> >>
> >> self._execute_child(args, executable, preexec_fn, close_fds,
> >>
> >> File
> >> "/Applications/GRASS-8.0.app/ Contents/Resources/lib/
> python3.9/subprocess.py",
> >> line 1821, in _execute_child
> >>
> >> raise child_exception_type(errno_ num, err_msg, err_filename)
> >>
> >> FileNotFoundError: [Errno 2] No such file or directory: 'Rscript'
> >>
> >>
> >> *[Message 2]*
> >>
> >> Details: <[Errno 1] Operation not permitted: 'v.class.mlR'>
> >>
> >> WARNING: Some addons failed when loading. Please consider to update
> >> your addons by running 'g.extension.all -f'.
> >>
> >>
> >> --
> >> Thank you,
> >>
> >> Daniel Kozar
> >> PhD Candidate
> >> UC Davis - Hydrologic Sciences
> >> djkozar at ucdavis.edu
> >> (814) 380-6900
> >>
> >> ______________________________ _________________
> >> grass-user mailing list
> >> grass-user at lists.osgeo.org
> >> https://lists.osgeo.org/ mailman/listinfo/grass-user
> >
> > --
> > Micha Silver
> > Ben Gurion Univ.
> > Sde Boker, Remote Sensing Lab
> > cell: +972-523-665918
> >
> >
>
>
> --
> Thank you,
>
> Daniel Kozar
> Graduate Student
> UC Davis - Hydrologic Sciences
> djkozar at ucdavis.edu
> (814) 380-6900
>
>
> --
> Thank you,
>
> Daniel Kozar
> Graduate Student
> UC Davis - Hydrologic Sciences
> djkozar at ucdavis.edu
> (814) 380-6900
>
>
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