Hi Tammy,
On Oct 1, 2009, at 11:04 AM, Tammy Ma wrote:
Hi, R-Users,'
I have written a programe to process the bunch of files in one folder.
But there is a error came out;
How can I know which file returns error when being processed?
I have tested the first 1-10th files, no any problem. But the
problems is I have more than 500 files. How can I know which file
has the problem?
See ?tryCatch
Here's some (untested) code that should give you an idea of what to do:
which.files <- dir(path="/directory/with/files", full.names=TRUE)
for (file.name in which.files) {
result <- tryCatch(process.file(file.name), error=function(err) err)
if (inherits(result, 'error')) {
cat("File", file.name, "is hosed\n")
}
}
This assumes you have a function called 'process.file' that does what
you want. If the function throws an error, it will be caught and
stored in the result variable. In this case, the file.name will be
written to your workspace.
Instead of just printing to your workspace, you could consider storing
the bad file names in a list and post-process later.
Hope that helps,
-steve
--
Steve Lianoglou
Graduate Student: Computational Systems Biology
| Memorial Sloan-Kettering Cancer Center
| Weill Medical College of Cornell University
Contact Info: http://cbio.mskcc.org/~lianos/contact
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