Re: [R] gnlsControl

2006-08-04 Thread Dieter Menne 
Daniel Coleman coleman.daniel at gene.com writes:

 
 When I run gnls I get the error:
 
 Error in nls(y ~ cbind(1, 1/(1 + exp((xmid - x)/exp(lscal, data = xy,  :
 
 step factor 0.000488281 reduced below 'minFactor' of 0.000976563
 
 My first thought was to decrease minFactor but gnlsControl does not contain
 minFactor nor nlsMinFactor (see below).  It does however contain nlsMaxIter
 and nlsTol which I assume are the analogs of maxiter and tol in nls.control.
 I would be happy to hear from anyone who has an idea on what parameters in
 gnlsControl to change to get convergence.  

Try nlsTol with a large value, e.g. 0.3. If I am really desparate, I put the
gnls in a try() structure, halving nlsTol until it fails, and take the last
successful. 

Dieter

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[R] gnlsControl

2006-08-03 Thread Daniel Coleman 
When I run gnls I get the error:

 

Error in nls(y ~ cbind(1, 1/(1 + exp((xmid - x)/exp(lscal, data = xy,  :


step factor 0.000488281 reduced below 'minFactor' of 0.000976563

 

My first thought was to decrease minFactor but gnlsControl does not contain
minFactor nor nlsMinFactor (see below).  It does however contain nlsMaxIter
and nlsTol which I assume are the analogs of maxiter and tol in nls.control.
I would be happy to hear from anyone who has an idea on what parameters in
gnlsControl to change to get convergence.  

 

Cheers

 

Dan Coleman

Genentech Inc.

 

 gnlsControl

function (maxIter = 50, nlsMaxIter = 7, msMaxIter = 50, minScale = 0.001, 

tolerance = 1e-06, nlsTol = 0.001, msTol = 1e-07, msScale = lmeScale, 

returnObject = FALSE, msVerbose = FALSE, apVar = TRUE, .relStep =
(.Machine$double.eps)^(1/3), 

nlmStepMax = 100, opt = c(nlminb, optim), optimMethod = BFGS, 

minAbsParApVar = 0.05) 

{

list(maxIter = maxIter, nlsMaxIter = nlsMaxIter, msMaxIter = msMaxIter, 

minScale = minScale, tolerance = tolerance, nlsTol = nlsTol, 

msTol = msTol, msScale = msScale, returnObject = returnObject, 

msVerbose = msVerbose, apVar = apVar, nlmStepMax = nlmStepMax, 

opt = match.arg(opt), optimMethod = optimMethod, .relStep =
.relStep, 

minAbsParApVar = minAbsParApVar)

}

 

 nls.control

$maxiter

[1] 50

 

$tol

[1] 1e-05

 

$minFactor

[1] 0.0009765625


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