[R] problem with system.file

[Jeff Newmiller]

Did not look to me like Windows was a factor here... OP referred to /home/paumarc/Bam. I think the issue was trying to access his own data using an inappropriate function.
-- 
Sent from my phone. Please excuse my brevity.

On May 22, 2017 3:22:06 PM PDT, Jim Lemon <drjimlemon at gmail.com> wrote:
>Windows. A funny name for a operating system that doesn't let you see
>anything.
>
>Jim
>
>On Mon, May 22, 2017 at 11:59 PM, Pau Marc Muñoz Torres
><paumarc at gmail.com> wrote:
>> i could make it worl, thanks for your help, it was usefull
>>
>> 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 15:38 GMT+02:00 Pau Marc Muñoz Torres <paumarc at gmail.com>:
>>
>>> 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 at gmail.com>:
>>>
>>>>
>>>> > On 22 May 2017, at 14:43 , Pau Marc Muñoz Torres
><paumarc at 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]]
>>>> >
>>>> > ______________________________________________
>>>> > R-help at 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/posti
>>>> ng-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.mes at cbs.dk  Priv: PDalgd at gmail.com
>>>>
>>>>
>>>>
>>>>
>>>>
>>>>
>>>>
>>>>
>>>>
>>>>
>>>
>>
>>         [[alternative HTML version deleted]]
>>
>> ______________________________________________
>> R-help at 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 at 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.