[BioC] cellHTS2 readPlateList
Jose Garcia-Bernardo
jose.garcia at vjf.cnrs.fr
Tue Aug 25 17:23:09 CEST 2009
Thank you to both for your quick replies!
Yes, indeed are all files in the folder of the specified path and I changed
twice the path to make sure it was the right one. However I still get the
same message. These are the first few lines of the code that I wrote:
> RasV12="Bioconductordata"
> dataPath=('C:/Documents\ and Settings/....../Bioconductordata')
> dataPath
[1] "C:/Documents and Settings/......./Bioconductordata"
> rev(dir(dataPath))[1:351]
[1] "platelist.txt" "Plateconf.txt"
"Plate9Replicate2.txt" "Plate9Replicate1.txt" "Plate99Replicate2.txt"
"Plate99Replicate1.txt"
[7] "Plate98Replicate2.txt" "Plate98Replicate1.txt"
"Plate97Replicate2.txt" "Plate97Replicate1.txt" "Plate96Replicate2.txt"
"Plate96Replicate1.txt"
[13] "Plate95Replicate2.txt" "Plate95Replicate1.txt"
"Plate94Replicate2.txt" "Plate94Replicate1.txt" "Plate93Replicate2.txt"
"Plate93Replicate1.txt"
[19] "Plate92Replicate2.txt" "Plate92Replicate1.txt"
"Plate91Replicate2.txt" "Plate91Replicate1.txt" "Plate90Replicate2.txt"
"Plate90Replicate1.txt"
[25] "Plate8Replicate2.txt" "Plate8Replicate1.txt"
"Plate89Replicate2.txt" "Plate89Replicate1.txt" "Plate88Replicate2.txt"
"Plate88Replicate1.txt"
And then I try to read into the object as follows:
> x=readPlateList("platelist.txt",
+ name=RasV12,
+ path=dataPath)
Erreur dans readPlateList("platelist.txt", name = RasV12, path = dataPath) :
None of the files were found in the given 'path': C:/Documents and
Settings/Natalia Araujo/Bureau/Bioconductordata
Is the problem perhaps related to the experimentName?
Thank you!
Jose
-----Message d'origine-----
De : Manca Marco (PATH) [mailto:m.manca at path.unimaas.nl]
Envoyé : mardi 25 août 2009 16:18
À : Jose Garcia-Bernardo; bioconductor at stat.math.ethz.ch
Objet : R: [BioC] cellHTS2 readPlateList
Dear Jose
are you sure your platelist.txt file (and all the other relevant files as
well) is in your working directory? I assume you are using R for windows (I
guess by the path you are getting in the error message) thus you may easily
check that by going into "File" -> "Change dir..." and when prompted to
select your desired working directory go for the path your files are in...
I hope this helps.
Best regards,
Marco
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________________________________________
Da: bioconductor-bounces at stat.math.ethz.ch
[bioconductor-bounces at stat.math.ethz.ch] per conto di Jose Garcia-Bernardo
[jose.garcia at vjf.cnrs.fr]
Inviato: martedì 25 agosto 2009 16.14
A: bioconductor at stat.math.ethz.ch
Oggetto: [BioC] cellHTS2 readPlateList
Dear all
A very basic question from a complete beginner.
I'm getting an error message every time I try to read the data into the
object x:
Erreur dans readPlateList("platelist.txt", name = experimentName, path =
dataPath) :
None of the files were found in the given 'path': C:/Documents and
Settings/.. Screen/in
When using the following (standard) code:
> x <- readPlateList("platelist.txt",
+ name=experimentName,
+ path=dataPath)
All measurement files and the platelist file are in the same folder within
the same directory. Not sure if it's a fundamental problem or just a simple
bug in the code (apologies for this).
Any help will be very much appreciated
Jose
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