Re: [R] Question in using e1071 svm routine
R, by default, has some of the most cryptic error / debug messages ever
invented. The error message encountered by the two posters:
Error in if (any(co)) { : missing value where TRUE/FALSE needed
In addition: Warning message:
In FUN(newX[, i], ...) : NAs introduced by coercion
results from the inclusion of a factor variable in the x data frame passed
to the svm(x,y) call. I've mistakenly done this many times; the text of the
error message gives no indication that this is the source of the problem.
Removing the factor(s) from x will eliminate the error.
Nathan Kupp
Ph.D. Candidate
Department of Electrical Engineering
Yale University
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Re: [R] Question in using e1071 svm routine
On Nov 9, 2010, at 2:18 PM, nathan.kupp wrote:
R, by default, has some of the most cryptic error / debug messages
ever
invented. The error message encountered by the two posters:
Error in if (any(co)) { : missing value where TRUE/FALSE needed
In addition: Warning message:
In FUN(newX[, i], ...) : NAs introduced by coercion
results from the inclusion of a factor variable in the x data frame
passed
to the svm(x,y) call.
?svm
No documentation for 'svm' in specified packages and libraries:
you could try '??svm'
So svm is not part of R core.
The inference is that the authors of svm built a package that did not
provide informative error messages ... NOT that R is responsible.
I've mistakenly done this many times; the text of the
error message gives no indication that this is the source of the
problem.
Removing the factor(s) from x will eliminate the error.
Instead of sending this message to a group of people who have no
control over the process ... Why don't you take a more constructive
path and suggest to the authors of svm that they test for invalid data
being passed to the portion of the code that is throwing this error?
Perhaps you could offer code since it appears you have examined the
problem in more than
--
avid.
Nathan Kupp
Ph.D. Candidate
Department of Electrical Engineering
Yale University
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Re: [R] Question in using e1071 svm routine
On Tue, Nov 9, 2010 at 11:18 AM, nathan.kupp nathan.k...@yale.edu wrote:
R, by default, has some of the most cryptic error / debug messages ever
invented.
I nominate the html 404 error for that.
The error message encountered by the two posters:
Error in if (any(co)) { : missing value where TRUE/FALSE needed
In addition: Warning message:
In FUN(newX[, i], ...) : NAs introduced by coercion
results from the inclusion of a factor variable in the x data frame passed
to the svm(x,y) call. I've mistakenly done this many times; the text of the
error message gives no indication that this is the source of the problem.
Passing data to a function without knowing its str()ucture is like
going into surgery without knowing which leg should be
amputated---it's polite if your surgeon knows, but I'd never rely on
it.
Removing the factor(s) from x will eliminate the error.
Nathan Kupp
Ph.D. Candidate
Department of Electrical Engineering
Yale University
--
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--
Joshua Wiley
Ph.D. Student, Health Psychology
University of California, Los Angeles
http://www.joshuawiley.com/
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Re: [R] Question in using e1071 svm routine
Hi all,
I am encountering the same error Error in if (any(co)) { : missing value
where TRUE/FALSE needed
when i run:model - svm(databctrain, classesbctrain)
I am not sure what this error means . is it some problem with the dataset ?
Could i get some help ?
Thanks,
Akshatha
losemind wrote:
Hi all,
I've got the following error message in using e1071 svm routine...
Could anybody please help me?
Thank you!
-
model - svm(y=factor(mytraindata[, 1]), x=mytraindata[, -1],
probability=T)
Error in if (any(co)) { : missing value where TRUE/FALSE needed
In addition: Warning message:
In FUN(newX[, i], ...) : NAs introduced by coercion
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Re: [R] Question in using e1071 svm routine
On Nov 25, 2009, at 7:54 PM, akal wrote:
Hi all,
I am encountering the same error Error in if (any(co)) { : missing
value
where TRUE/FALSE needed
when i run:model - svm(databctrain, classesbctrain)
I am not sure what this error means . is it some problem with the
dataset ?
How do you propose that we address this question?
Could i get some help ?
Only if you supply sufficient information. Read the Posting Guide
before reposting, please.
--
David
Thanks,
Akshatha
losemind wrote:
Hi all,
I've got the following error message in using e1071 svm routine...
Could anybody please help me?
Thank you!
-
model - svm(y=factor(mytraindata[, 1]), x=mytraindata[, -1],
probability=T)
Error in if (any(co)) { : missing value where TRUE/FALSE needed
In addition: Warning message:
In FUN(newX[, i], ...) : NAs introduced by coercion
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http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
--
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David Winsemius, MD
Heritage Laboratories
West Hartford, CT
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[R] Question in using e1071 svm routine
Hi all,
I've got the following error message in using e1071 svm routine...
Could anybody please help me?
Thank you!
-
model - svm(y=factor(mytraindata[, 1]), x=mytraindata[, -1], probability=T)
Error in if (any(co)) { : missing value where TRUE/FALSE needed
In addition: Warning message:
In FUN(newX[, i], ...) : NAs introduced by coercion
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PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
Re: [R] Question in using e1071 svm routine
Unlike Splus, R does not use T for TRUE.
On Tue, Jul 7, 2009 at 6:05 PM, Michaelcomtech@gmail.com wrote:
Hi all,
I've got the following error message in using e1071 svm routine...
Could anybody please help me?
Thank you!
-
model - svm(y=factor(mytraindata[, 1]), x=mytraindata[, -1], probability=T)
Error in if (any(co)) { : missing value where TRUE/FALSE needed
In addition: Warning message:
In FUN(newX[, i], ...) : NAs introduced by coercion
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R-help@r-project.org mailing list
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and provide commented, minimal, self-contained, reproducible code.
--
Max
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Re: [R] Question in using e1071 svm routine
Isn't the initial value of the variable T equal to the constant TRUE?
So unless he's modified the value of T, shouldn't it work?
-s
On 7/7/09, Max Kuhn mxk...@gmail.com wrote:
Unlike Splus, R does not use T for TRUE.
On Tue, Jul 7, 2009 at 6:05 PM, Michaelcomtech@gmail.com wrote:
Hi all,
I've got the following error message in using e1071 svm routine...
Could anybody please help me?
Thank you!
-
model - svm(y=factor(mytraindata[, 1]), x=mytraindata[, -1],
probability=T)
Error in if (any(co)) { : missing value where TRUE/FALSE needed
In addition: Warning message:
In FUN(newX[, i], ...) : NAs introduced by coercion
__
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PLEASE do read the posting guide
http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
--
Max
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Re: [R] Question in using e1071 svm routine
Hi,
On Jul 7, 2009, at 8:37 PM, Stavros Macrakis wrote:
Isn't the initial value of the variable T equal to the constant TRUE?
So unless he's modified the value of T, shouldn't it work?
Yes, it should.
Perhaps we should be looking at your data:
model - svm(y=factor(mytraindata[, 1]), x=mytraindata[, -1],
probability=T)
Error in if (any(co)) { : missing value where TRUE/FALSE needed
In addition: Warning message:
In FUN(newX[, i], ...) : NAs introduced by coercion
1) Where is the NAs introduced by coercion warning coming from? When
you're trying to convert your y into a factor? Are there NA's in your
predictors or labels?
2) It looks like the codepath that leads to your error: `if
any(co)) ...` only is meant to execute when `length(scale)` != 1 ...
why is it going there? (See the source of svm.default to see what I
mean)
Otherwise, your code should work just fine, see:
R library(e1071)
Loading required package: class
R data(iris)
R model - svm(y=iris[,5], x=iris[,-5], probability=T)
R model
Call:
svm.default(x = iris[, -5], y = iris[, 5], probability = T)
Parameters:
SVM-Type: C-classification
SVM-Kernel: radial
cost: 1
gamma: 0.25
Number of Support Vectors: 51
-steve
--
Steve Lianoglou
Graduate Student: Physiology, Biophysics and Systems Biology
Weill Medical College of Cornell University
Contact Info: http://cbio.mskcc.org/~lianos
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