Hello there,

I am probably doing something really stupid, but I have searched the web and
the mailing lists and have so far not been able to solve my problem. My
overall aim is to run gcrma on custom affy arrays. As part of this I have
been looking at matchprobes and makecdfenv packages. I can successuly use
make.cdf.env and make.cdf.package. The trouble I am having is in trying to
install my new CDF package. The output of make.cdf.package is a directory
which i have then tried to zip up using winzip, in order to use the install
from local zipped file option. when i do this i get the following error
message.
> make.cdf.package("XYZ.cdf",species = "Homo_sapiens")
Creating package in C:/R/custom/xyzcdf
[1] "xyzcdf"
> utils:::menuInstallLocal()
Error in gzfile(file, "r") : unable to open connection
In addition: Warning messages:
1: error -1 in extracting from zip file
2: cannot open compressed file 'xyzcdf/DESCRIPTION'

I was hoping to install the custom cdf as a package so that I could run
makeProbePackage. When I run makeProbePackage, I get the following error

XYZ = make.cdf.env("XYZ.cdf")
makeProbePackage("XYZ",
                  datafile   = gzfile("XYZ_probes.txt", open="r"),
                  outdir     = outdir,
                  maintainer = "me"
                  version    = "0.0.1",
                  species    = "Homo_sapiens",
                  check      = FALSE,
                  force      = TRUE)
Importing the data.
Error in library("xyzcdf") : there is no package called 'xyzcdf'
Any pointers as to wehre I am going wrong and how i can resolve this would
be great.
Many thanks

claire

 sessionInfo()
R version 2.5.0 (2007-04-23)
i386-pc-mingw32

locale:
LC_COLLATE=English_United Kingdom.1252;LC_CTYPE=English_United
Kingdom.1252;LC_MONETARY=English_United
Kingdom.1252;LC_NUMERIC=C;LC_TIME=English_United Kingdom.1252

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

other attached packages:
hgu133plus2cdf    matchprobes     simpleaffy     genefilter
survival     makecdfenv           affy         affyio        Biobase
      "1.16.0"        "1.8.1"      " 2.10.31"       "1.14.1"
"2.31"
"1.14.0"       "1.14.1"        "1.4.0"       "1.14.0"

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