Hi Everyone,
I am very new to R. When i run the code yesterday, it was working fine. I
was able to find gene annotation.
somehow, today, when i try to run it again, it is giving me errors message
that i don't understand. It says that it cannot open file. what file is it
looking for?
######################################################
##make sure to install and load annotationtool in R
annotation_HGU133Plus2 <- read.csv("c://affymetrix.csv", colClasses =
"character")
annotation_probesets <- scan('c://ttest.csv',skip=1,what='')
dataDirectory <- system.file("data", package = "annotationTools")
annotation_stuff <- read.csv(paste(dataDirectory,
annotation_HGU133Plus2, sep = "/"), colClasses = "character")
myPS <- c(annotation_probesets)
getGENESYMBOL(myPS, annotation_stuff)
getGENEONTOLOGY(myPS, annotation_HGU133Plus2)
###############error message########################
> annotation_stuff <- read.csv(paste(dataDirectory,
+ annotation_HGU133Plus2, sep = "/"), colClasses = "character")
Error in file(file, "r") : unable to open connection
In addition: Warning messages:
1: In file(file, "r") : only first element of 'description' argument used
2: In file(file, "r") :
cannot open file
'C:/PROGRA~1/R/R-26~1.2/library/annotationTools/data/c("1007_s_at",
"1053_at", "117_at", "121_at", "1255_g_at", "1294_at", "1316_at", "1320_at",
"1405_i_at", "1431_at", "1438_at", "1487_at", "1494_f_at", "1552256_a_at",
"1552257_a_at", "1552258_at", "1552261_at", "1552263_at", "1552264_a_at",
"1552266_at", "1552269_at", "1552271_at", "1552272_a_at", "1552274_at",
"1552275_s_at", "1552276_a_at", "1552277_a_at", "1552278_a_at",
"1552279_a_at", "1552280_at", "1552281_at", "1552283_s_at", "1552286_at",
"1552287_s_at", "1552288_at", "1552289_a_at", "1552291_at", ', reason 'No
such file or directory'
>
thank you,
claire
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