Re: [R] Help trying to understand R documentation on libraries paths
I am not going to search the sources for it (your problem, your work ;-) ), but
the wording would be consistent with a call like
.libPaths(c(Sys.getenv("R_LIBS"), Sys.getenv("R_LIBS_USER")))
-pd
> On 17 Jun 2024, at 13:40 , Iago Giné Vázquez wrote:
>
> Thanks,
>
> Regarding .libPaths, I am asking for the call to `.libPaths()`, so I
> understand there is no `new` in the call, as in the documentation I cited.
>
> Iago
>
> De: peter dalgaard
> Enviat el: dilluns, 17 de juny de 2024 13:26
> Per a: Iago Giné Vázquez
> A/c: r-help@r-project.org
> Tema: Re: [R] Help trying to understand R documentation on libraries paths
>
> (Inline)
>
> > On 17 Jun 2024, at 09:51 , Iago Giné Vázquez wrote:
> >
> > Hi,
> >
> > 1 - On help(".libPaths", help_type = "text") one can read:
> >
> > First, '.Library.site' is initialized from 'R_LIBS_SITE'.
> >
> > However, I have
> >
> >> Sys.getenv("R_LIBS_SITE")
> > [1] "c:/Users/i.gine/AppData/Local/Programs/R/R-4.4.1/site-library"
> >> .Library.site
> > character(0)
> >
> > Is this consistent?
>
> It is implied that R_LIBS_SITE should point to an existing directory. I see
> the same thing on Mac:
>
> > .Library.site
> character(0)
> > Sys.getenv("R_LIBS_SITE")
> [1] "/Library/Frameworks/R.framework/Resources/site-library"
> > list.files(Sys.getenv("R_LIBS_SITE"))
> character(0)
>
> I.e., R_LIBS_SITE is where a site library _if any_ should live. If it is not
> there, there is no poin in searching it. Unless you actually have a
> site-library, I don't think there is a problem.
>
> >
> > 2 - Next, on the same help document, one can read:
> >
> > Then, '.libPaths()' is called with the combination
> > of the directories given by 'R_LIBS' and 'R_LIBS_USER'.
> >
> >
> > This time, I get
> >> Sys.getenv("R_LIBS")
> > [1] ""
> >> Sys.getenv("R_LIBS_USER")
> > [1] "c:/Users/i.gine/AppData/Local/Programs/R/R-4.4.0/library"
> >> .libPaths()
> > [1] "C:/Users/i.gine/AppData/Local/Programs/R/R-4.4.0/library"
> > "C:/Users/i.gine/AppData/Local/Programs/R/R-4.4.1/library"
> >
> >
> > Later is written:
> >
> > Function '.libPaths' always uses the values of '.Library' and
> > '.Library.site' in the base namespace.
> >
> > and indeed
> >
> >> .Library
> > [1] "c:/Users/i.gine/AppData/Local/Programs/R/R-4.4.1/library"
> >
> >
> > Then, shouldn't be this specified above together with "directories given by
> > 'R_LIBS' and 'R_LIBS_USER'"?
> >
>
> The logic of .libPath() is
>
> > .libPaths
> function (new, include.site = TRUE)
> {
> if (!missing(new)) {
> new <- Sys.glob(path.expand(new))
> paths <- c(new, if (include.site) .Library.site, .Library)
> paths <- paths[dir.exists(paths)]
> .lib.loc <<- unique(normalizePath(paths, "/"))
> }
> else .lib.loc
> }
>
> so if you "call it with" new=something, then (.Library.site, .Library) is
> automagically appended, unless you expressly tell it not to.
>
> -pd
>
> >
> > Am I understanding it wrongly? Otherwise, what do you think on the current
> > way this help page is explained?
> >
> > Thank you for your help and time.
> >
> > Best regards,
> >
> > Iago
> >
> >[[alternative HTML version deleted]]
> >
> > __
> > R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
> > https://stat.ethz.ch/mailman/listinfo/r-help
> > PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
> > and provide commented, minimal, self-contained, reproducible code.
>
> --
> Peter Dalgaard, Professor,
> Center for Statistics, Copenhagen Business School
> Solbjerg Plads 3, 2000 Frederiksberg, Denmark
> Phone: (+45)38153501
> Office: A 4.23
> Email: pd@cbs.dk Priv: pda...@gmail.com
--
Peter Dalgaard, Professor,
Center for Statistics, Copenhagen Business School
Solbjerg Plads 3, 2000 Frederiksberg, Denmark
Phone: (+45)38153501
Office: A 4.23
Email: pd@cbs.dk Priv: pda...@gmail.com
__
R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
Re: [R] Help trying to understand R documentation on libraries paths
Thanks,
Regarding .libPaths, I am asking for the call to `.libPaths()`, so I understand
there is no `new` in the call, as in the documentation I cited.
Iago
De: peter dalgaard
Enviat el: dilluns, 17 de juny de 2024 13:26
Per a: Iago Gin� V�zquez
A/c: r-help@r-project.org
Tema: Re: [R] Help trying to understand R documentation on libraries paths
(Inline)
> On 17 Jun 2024, at 09:51 , Iago Gin� V�zquez wrote:
>
> Hi,
>
> 1 - On help(".libPaths", help_type = "text") one can read:
>
> First, '.Library.site' is initialized from 'R_LIBS_SITE'.
>
> However, I have
>
>> Sys.getenv("R_LIBS_SITE")
> [1] "c:/Users/i.gine/AppData/Local/Programs/R/R-4.4.1/site-library"
>> .Library.site
> character(0)
>
> Is this consistent?
It is implied that R_LIBS_SITE should point to an existing directory. I see the
same thing on Mac:
> .Library.site
character(0)
> Sys.getenv("R_LIBS_SITE")
[1] "/Library/Frameworks/R.framework/Resources/site-library"
> list.files(Sys.getenv("R_LIBS_SITE"))
character(0)
I.e., R_LIBS_SITE is where a site library _if any_ should live. If it is not
there, there is no poin in searching it. Unless you actually have a
site-library, I don't think there is a problem.
>
> 2 - Next, on the same help document, one can read:
>
> Then, '.libPaths()' is called with the combination
> of the directories given by 'R_LIBS' and 'R_LIBS_USER'.
>
>
> This time, I get
>> Sys.getenv("R_LIBS")
> [1] ""
>> Sys.getenv("R_LIBS_USER")
> [1] "c:/Users/i.gine/AppData/Local/Programs/R/R-4.4.0/library"
>> .libPaths()
> [1] "C:/Users/i.gine/AppData/Local/Programs/R/R-4.4.0/library"
> "C:/Users/i.gine/AppData/Local/Programs/R/R-4.4.1/library"
>
>
> Later is written:
>
> Function '.libPaths' always uses the values of '.Library' and
> '.Library.site' in the base namespace.
>
> and indeed
>
>> .Library
> [1] "c:/Users/i.gine/AppData/Local/Programs/R/R-4.4.1/library"
>
>
> Then, shouldn't be this specified above together with "directories given by
> 'R_LIBS' and 'R_LIBS_USER'"?
>
The logic of .libPath() is
> .libPaths
function (new, include.site = TRUE)
{
if (!missing(new)) {
new <- Sys.glob(path.expand(new))
paths <- c(new, if (include.site) .Library.site, .Library)
paths <- paths[dir.exists(paths)]
.lib.loc <<- unique(normalizePath(paths, "/"))
}
else .lib.loc
}
so if you "call it with" new=something, then (.Library.site, .Library) is
automagically appended, unless you expressly tell it not to.
-pd
>
> Am I understanding it wrongly? Otherwise, what do you think on the current
> way this help page is explained?
>
> Thank you for your help and time.
>
> Best regards,
>
> Iago
>
>[[alternative HTML version deleted]]
>
> __
> R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.
--
Peter Dalgaard, Professor,
Center for Statistics, Copenhagen Business School
Solbjerg Plads 3, 2000 Frederiksberg, Denmark
Phone: (+45)38153501
Office: A 4.23
Email: pd@cbs.dk Priv: pda...@gmail.com
[[alternative HTML version deleted]]
__
R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
Re: [R] Help trying to understand R documentation on libraries paths
(Inline)
> On 17 Jun 2024, at 09:51 , Iago Giné Vázquez wrote:
>
> Hi,
>
> 1 - On help(".libPaths", help_type = "text") one can read:
>
> First, '.Library.site' is initialized from 'R_LIBS_SITE'.
>
> However, I have
>
>> Sys.getenv("R_LIBS_SITE")
> [1] "c:/Users/i.gine/AppData/Local/Programs/R/R-4.4.1/site-library"
>> .Library.site
> character(0)
>
> Is this consistent?
It is implied that R_LIBS_SITE should point to an existing directory. I see the
same thing on Mac:
> .Library.site
character(0)
> Sys.getenv("R_LIBS_SITE")
[1] "/Library/Frameworks/R.framework/Resources/site-library"
> list.files(Sys.getenv("R_LIBS_SITE"))
character(0)
I.e., R_LIBS_SITE is where a site library _if any_ should live. If it is not
there, there is no poin in searching it. Unless you actually have a
site-library, I don't think there is a problem.
>
> 2 - Next, on the same help document, one can read:
>
> Then, '.libPaths()' is called with the combination
> of the directories given by 'R_LIBS' and 'R_LIBS_USER'.
>
>
> This time, I get
>> Sys.getenv("R_LIBS")
> [1] ""
>> Sys.getenv("R_LIBS_USER")
> [1] "c:/Users/i.gine/AppData/Local/Programs/R/R-4.4.0/library"
>> .libPaths()
> [1] "C:/Users/i.gine/AppData/Local/Programs/R/R-4.4.0/library"
> "C:/Users/i.gine/AppData/Local/Programs/R/R-4.4.1/library"
>
>
> Later is written:
>
> Function '.libPaths' always uses the values of '.Library' and
> '.Library.site' in the base namespace.
>
> and indeed
>
>> .Library
> [1] "c:/Users/i.gine/AppData/Local/Programs/R/R-4.4.1/library"
>
>
> Then, shouldn't be this specified above together with "directories given by
> 'R_LIBS' and 'R_LIBS_USER'"?
>
The logic of .libPath() is
> .libPaths
function (new, include.site = TRUE)
{
if (!missing(new)) {
new <- Sys.glob(path.expand(new))
paths <- c(new, if (include.site) .Library.site, .Library)
paths <- paths[dir.exists(paths)]
.lib.loc <<- unique(normalizePath(paths, "/"))
}
else .lib.loc
}
so if you "call it with" new=something, then (.Library.site, .Library) is
automagically appended, unless you expressly tell it not to.
-pd
>
> Am I understanding it wrongly? Otherwise, what do you think on the current
> way this help page is explained?
>
> Thank you for your help and time.
>
> Best regards,
>
> Iago
>
> [[alternative HTML version deleted]]
>
> __
> R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.
--
Peter Dalgaard, Professor,
Center for Statistics, Copenhagen Business School
Solbjerg Plads 3, 2000 Frederiksberg, Denmark
Phone: (+45)38153501
Office: A 4.23
Email: pd@cbs.dk Priv: pda...@gmail.com
__
R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
[R] Help trying to understand R documentation on libraries paths
Hi,
1 - On help(".libPaths", help_type = "text") one can read:
First, '.Library.site' is initialized from 'R_LIBS_SITE'.
However, I have
> Sys.getenv("R_LIBS_SITE")
[1] "c:/Users/i.gine/AppData/Local/Programs/R/R-4.4.1/site-library"
> .Library.site
character(0)
Is this consistent?
2 - Next, on the same help document, one can read:
Then, '.libPaths()' is called with the combination
of the directories given by 'R_LIBS' and 'R_LIBS_USER'.
This time, I get
> Sys.getenv("R_LIBS")
[1] ""
> Sys.getenv("R_LIBS_USER")
[1] "c:/Users/i.gine/AppData/Local/Programs/R/R-4.4.0/library"
> .libPaths()
[1] "C:/Users/i.gine/AppData/Local/Programs/R/R-4.4.0/library"
"C:/Users/i.gine/AppData/Local/Programs/R/R-4.4.1/library"
Later is written:
Function '.libPaths' always uses the values of '.Library' and
'.Library.site' in the base namespace.
and indeed
> .Library
[1] "c:/Users/i.gine/AppData/Local/Programs/R/R-4.4.1/library"
Then, shouldn't be this specified above together with "directories given by
'R_LIBS' and 'R_LIBS_USER'"?
Am I understanding it wrongly? Otherwise, what do you think on the current way
this help page is explained?
Thank you for your help and time.
Best regards,
Iago
[[alternative HTML version deleted]]
__
R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
