Hi,
I am getting problem in downloading a particular GSE matrix file  
(GSE1074)  as an expression set by turning the GSEMatrix 'true' as  
following:
gseid<-"GSE1074"
GEOgse<-getGEO(gseid,GSEMatrix=TRUE)
The GSE1074 has two platforms, GPL1261 and GPL560. I am able to  
download the GSE1074_GPL1261_series_matrix.txt, but getting the  
following error for GSE1074_GPL560_series_matrix.txt file.

trying URL 'ftp://ftp.ncbi.nih.gov/pub/geo/DATA/SeriesMatrix/GSE1074/GSE1074-GPL560_series_matrix.txt.gz'
ftp data connection made, file length 69494 bytes
opened URL
==================================================
downloaded 67 Kb

Error in read.table(con, sep = "\t", header = FALSE, nrows = i) :
incomplete final line found by readTableHeader on GSE1074- 
GPL560_series_matrix.txt.gz
The sessionInfo() is
R version 2.8.0 (2008-10-20)
i386-apple-darwin8.11.1

locale:
en_GB.UTF-8/en_GB.UTF-8/C/C/en_GB.UTF-8/en_GB.UTF-8

attached base packages:
[1] tools     stats     graphics  grDevices datasets  utils     methods
[8] base

other attached packages:
  [1] biomaRt_1.16.0    limma_2.16.5      GEOmetadb_1.2.1    
RSQLite_0.7-1
  [5] DBI_0.2-4         GEOquery_2.6.0    RCurl_0.94-1       
Biobase_2.2.2
  [9] R.utils_1.1.1     R.oo_1.4.6        R.methodsS3_1.0.3

loaded via a namespace (and not attached):
[1] XML_2.3-0

Any help?

Thanks
Harpreet

Harpreet Kaur Saini
Enright Group
EMBL-European Bioinformatics Institute
Wellcome Trust Genome Campus
Hinxton, Cambridge
CB10 1SD
Tel: +44-(0) 1223-492676






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