[BioC] ShortRead information

[Jennifer Dupiot]

Dear all,

I am new to bioconductor and little experienced in R.
I work on illumina data, and would like to analyse Run with ShortRead.
I have questions about using ShortRead :
    * Is it  necessary  to  use  whole illumina run folder to do quality 
analysis ? or only fastq files could be sufficients ?
    * I tried to run following command :
 > 
sp<-SolexaPath("/media/data/CSE/Delivery_2010.02.26/17.2_FlowCell61BWR_75ntX75nt_3.7GB/",analysisPath="/media/data/CSE/Delivery_2010.02.26/17.2_FlowCell61BWR_75ntX75nt_3.7GB/17.2_6_1_sequence.fastq/")
 > ap<-analysisPath (sp)
 > reads<-readFastq(ap,"fastq")

and it returns :
"Erreur dans .local(dirPath, pattern, ...) :
  cannot open file 
/media/data/CSE/Delivery_2010.02.26/17.2_FlowCell61BWR_75ntX75nt_3.7GB/17.2_6_1_sequence.fastq//s_6_1_sequence.fastq"

Do I do something wrong ?
Do I miss something ?
Could you give me some clues on this ?

For information, computer configuration is :
    ubuntu 9.10
    R 2.9.2
    ShortRead 1.2.1

Thanks for your help.
Regards,

Jennifer