[R] applying coda package effectiveSize function to a list

[PIKAL Petr]

Hi

Please no HTML posting. It is almost unreadable.

Do not post twice the same question, it is unnecessary.

I do not know coda package but without further info you probably do not get sensible answer.

Is your splits data  mcmc or mcmc.list object?

How does objects for which the function works differ from your other tested objects?

Just a wild guess - some part of an object for which effectivSize throws error has dimension 1 or 0.

Cheers
Petr





> -----Original Message-----
> From: R-help [mailto:r-help-bounces at r-project.org] On Behalf Of debra
> ragland via R-help
> Sent: Wednesday, July 01, 2015 3:23 PM
> To: r-help at r-project.org
> Subject: [R] applying coda package effectiveSize function to a list
>
> Please help,I am spinning my wheels behind what should be a pretty
> simple solution. I found a solution by asking another question on here
> but it seems to not be effective on all my files of similar make up to
> the test case. I am simply trying to read data into R, group/order it
> by chain and atom number (V2 and V3 in the test data) and apply the
> effectiveSize function from the coda package to the grouped data.
> Previously I have tried splitting the data, and then applying the
> function over the new list, which, as I previously stated, only works
> in the test case.sapply(lst, function(x)
> coda::effectiveSize(x["variable"])) see comments Apply a function from
> a specific R package to all files in folderI have tried aggregate,
> ddply, and a host of other commands/packages to no avail.My data files
> are very large so I am hoping that someone willing to help can retrieve
> a file from hereI cannot interpret the error I that I am getting, that
> seems to pop up no matter what I do.Error in ar.yw.default(x, aic =
> aic, order.max = order.max, na.action = na.action,  : 'order.max' must
> be >= 1One dataset is
> here https://drive.google.com/open?id=0B0I4hNiJD0ErZWR5UDZjd1BiNm
>       [[alternative HTML version deleted]]
>
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