Dear all,

I am struggling to input .gpr by using the " read.maimages " command in the
linux machine

The try2.gpr file has the column names:

Block    Column    Row    Name    ID    X    Y    Dia.    F635 Median
F635 Mean    F635 SD    B635 Median    B635 Mean    B635 SD    % >
B635+1SD    % > B635+2SD    F635 % Sat.    F532 Median    F532 Mean    F532
SD    B532 Median    B532 Mean    B532 SD    % > B532+1SD    % > B532+2SD
F532 % Sat.    Ratio of Medians (635/532)    Ratio of Means (635/532)
Median of Ratios (635/532)    Mean of Ratios (635/532)    Ratios SD
(635/532)    Rgn Ratio (635/532)    Rgn R² (635/532)    F Pixels    B
Pixels    Sum of Medians    Sum of Means    Log Ratio (635/532)    F635
Median - B635    F532 Median - B532    F635 Mean - B635    F532 Mean -
B532    F635 Total Intensity    F532 Total Intensity    SNR 635    SNR
532    Flags    Normalize


and when I read it by using:

> mraw <- read.maimages("try2.gpr", columns=list(R = "F635 Median", G="F532
Median", Rb="B635 Median", Gb="B532 Median"),
annotation=c("Block","Row","Column","ID","Name"))

I get the error messages:

Error in readGenericHeader(fullname, columns = columns, sep = sep) :
        Specified column headings not found in file
In addition: Warning message:
input string 1 is invalid in this locale in: grep(pattern, x, ignore.case,
extended,value, fixed, useBytes)


So, I try to use the same command in my PC, and it can successfully read the
try2.gpr file. Both my PC and the linux machine are using the same R and
Bioconductor version.

Does anyone know what's the problem here ? I greatly appreciate for any
suggestion.


Thanks,
Alex -

Medical University of South Carolina

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