[FLR-list] [FLR-devel] length
Laurie Kell
lauriekell at googlemail.com
Thu May 16 19:45:53 CEST 2013
something we also need are methods for sampling individuals, e.g. when
sampling for an ALK we want integers. I am therefore going to implement
some methods for randomly drawing integers.
Laurie
On Tue, May 14, 2013 at 8:45 PM, Iago MOSQUEIRA (JRC) <
iago.mosqueira-sanchez at jrc.ec.europa.eu> wrote:
>
> For what specific use of length data?
>
>
> Iago
>
> On 05/14/2013 07:11 PM, Laurie wrote:
> > Think it would make sense to have a specific class inherited from FLPar
> > for length.
> >
> > Laurie
> >
> > On 14/05/13 15:05, Iago Mosqueira wrote:
> >>
> >>
> >> On 05/13/2013 05:51 PM, Laurie Kell wrote:
> >>> maybe allowing param dim to be named len in FLPar, as is allowed for
> >>> quant and age in FLQuant may be all that is needed.
> >> Right now the validity only checks that last dim is iter
> >>
> >> validFLPar <- function(object) {
> >>
> >> # Last dimension is called 'iter' ...
> >> if(names(dimnames(object))[length(dim(object))] != "iter")
> >> return("last dimension must be named 'iter'")
> >> # ... and the first 'params'
> >>
> >> return(TRUE)
> >> }
> >>
> >> So len will work, let's see which methods fail. But maybe for an
> >> specific type of information like this it would make more sense to have
> >> a class based on FLPar, with appropriate validity checks and specific
> >> methods. You could then dispatch on it any ALK method
> >>
> >>
> >> Iago
> >>
> >>>
> >>> On Mon, May 13, 2013 at 9:09 AM, Laurie <lauriekell at googlemail.com
> >>> <mailto:lauriekell at googlemail.com>> wrote:
> >>>
> >>> Thanks, I worked with Alberto Murta and José Francisco Loff to
> >>> implement ALKr which is on CRAN. There are some method for
> >>> simulation, e.g. to generate size from length and growth paramters
> >>> and also to simuate ALKs and LFDs, that will be in the next
> >>> release.
> >>> I am thinking about how to store ALKs and length data in FLR and
> >>> for
> >>> methods to work on them.
> >>>
> >>> Laurie
> >>>
> >>>
> >>>
> >>>
> >>> On 13/05/13 07:56, Ernesto wrote:
> >>>
> >>> HI,
> >>>
> >>> I'm about to start looking at it. My idea is to develop a
> >>> method to
> >>> convert length to ages using vB (or other) to feed the a4a
> >>> stock
> >>> assessment method. Still working on the details but I want
> >>> to use vB
> >>> parameters and their uncertainty to introduce uncertainty on
> >>> the
> >>> FLStock
> >>> object and run the model for each iteration. Kind of
> >>> operating model
> >>> approach.
> >>>
> >>> I've done something similar for setting up M. It's all based
> on
> >>> a new
> >>> FLModelSim class (in dev now).
> >>>
> >>> You can take a look at it using the prototype. Source this one
> >>>
> >>>
> https://raw.github.com/__ejardim/a4a/master/packages/__FLa4a/R/FLSimpleModel-class.R
> >>>
> >>>
> >>> <
> https://raw.github.com/ejardim/a4a/master/packages/FLa4a/R/FLSimpleModel-class.R
> >
> >>>
> >>> and the new M class for a4a is here
> >>>
> >>>
> https://raw.github.com/__ejardim/a4a/master/packages/__FLa4a/R/a4aM-class.R
> >>>
> >>>
> >>> <
> https://raw.github.com/ejardim/a4a/master/packages/FLa4a/R/a4aM-class.R>
> >>>
> >>> , there's some examples.
> >>>
> >>> Best
> >>>
> >>> EJ
> >>>
> >>> On 05/10/2013 11:09 AM, Laurie wrote:
> >>>
> >>> Hi
> >>>
> >>> I am working on length and age data as part of linking the
> >>> ALKr package
> >>> and FLR.
> >>>
> >>> I was going to propose to use FLPar to add the length dim.
> >>>
> >>> Has anybody done anything with length, i.e. methods, data
> >>> classes etc....
> >>>
> >>> Laurie
> >>>
> >>>
> >>>
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>
> --
> Dr Iago Mosqueira
>
> European Commission – Joint Research Center
> Institute for the Protection and Security of the Citizen (IPSC)
> Maritime Affairs Unit FISHREG – Scientific Support to Fisheries
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