[R] problem with system.file

[Pau Marc Muñoz Torres]

hi to you both

 You are right peter, I probably miss understood the system.file function.
I was trying to use it with a package from bioconductor and when i saw that
it didn't work for me, I tested with readxl and still do not working, so I
am doing something wrong with system.file

the original script was


library(SICtools)

bam1 <- system.file(package='SICtools','extdata','example1.bam')

the example1.bam file is supposed to be at the working directory (i changed
the directory using setwd()), it was changed to /home/paumarc/Bam

 i tried to change extdata for my working directory but it did not work

thanks

Pau Marc Muñoz Torres
skype: pau_marc
http://www.linkedin.com/in/paumarc
http://www.researchgate.net/profile/Pau_Marc_Torres3/info/


2017-05-22 14:53 GMT+02:00 peter dalgaard <pdalgd en gmail.com>:

>
> > On 22 May 2017, at 14:43 , Pau Marc Muñoz Torres <paumarc en gmail.com>
> wrote:
> >
> > Hello everybody
> >
> > I am trying to use system.file but it returns not file found
> >
> > what I have done is
> >
> >> sample <- system.file("results.xlsx","estdata", package =
> > "readxl",mustWork = TRUE)
> > Error in system.file("results.xlsx", "estdata", package = "readxl",
> > mustWork = TRUE) :
> >  no file found
> >
> > i have checked the path was correct and the file exists with
> >
> > FILES <- file.path("results.xlsx")
> > present <- file.exists(FILES)
> >
> > and it returned a true values. Anyone can tell me which can be the
> problem ?
>
> Not if you don't tell us WHERE you expect to find the file...
>
> Where is it located, and what is the value of FILES above?
>
> It is not unlikely that you misunderstande what system.file() is supposed
> to do.
>
> -pd
>
>
> >
> > thanks
> >
> > Pau Marc Muñoz Torres
> > skype: pau_marc
> > http://www.linkedin.com/in/paumarc
> > http://www.researchgate.net/profile/Pau_Marc_Torres3/info/
> >
> >       [[alternative HTML version deleted]]
> >
> > ______________________________________________
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>
> --
> Peter Dalgaard, Professor,
> Center for Statistics, Copenhagen Business School
> Solbjerg Plads 3, 2000 Frederiksberg, Denmark
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> Office: A 4.23
> Email: pd.mes en cbs.dk  Priv: PDalgd en gmail.com
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