[FLR-list] Function fwd

Ernesto ernesto.jardim at jrc.ec.europa.eu
Fri Apr 26 10:24:59 CEST 2013 

Sorry, didn't meant to disturb.

EJ

On 04/26/2013 10:19 AM, Laurie wrote:
> Ernesto has accepted the invite, so I cant!
>
> could you invite me again at Laurie Kell <lauriekell at googlemail.com>
>
> On 26/04/13 10:07, Diana González wrote:
>> No, I mean that in R2.8.1 (FLR 1.99-91), the fwd function works but 
>> the fit of the Ricker SR doesn't. In R2.14.1 (FLR 2.4), the fwd 
>> doesn´t work, but the Ricker fit is good. I need a mix of both!!!
>>
>> -----Mensaje original-----
>> De: flr-list-bounces at lists.r-forge.r-project.org 
>> [mailto:flr-list-bounces at lists.r-forge.r-project.org] En nombre de 
>> Laurie
>> Enviado el: viernes, 26 de abril de 2013 10:04
>> Para: flr-list at flr-project.org
>> Asunto: Re: [FLR-list] Function fwd
>>
>> when you say doesnt work. is that in fwd?
>> On 26/04/13 09:45, Diana González wrote:
>>> I am sorry, I am using Ricker and Segmented Regression and my head 
>>> is on Friday... I just wanted to say Ricker "stock-recruitment" 
>>> relationship. That was why I changed the version of R, because for 
>>> one of the operating models the Ricker relationship doesn´t work. 
>>> The segmented regression relationship works in all the operating 
>>> models because for its fit we use another algorithm, the Julious 
>>> algorithm.
>>>
>>> Thanks for all.
>>>
>>> Best,
>>> Diana
>>>
>>> -----Mensaje original-----
>>> De: flr-list-bounces at lists.r-forge.r-project.org
>>> [mailto:flr-list-bounces at lists.r-forge.r-project.org] En nombre de
>>> Laurie Enviado el: viernes, 26 de abril de 2013 9:38
>>> Para: flr-list at flr-project.org
>>> Asunto: Re: [FLR-list] Function fwd
>>>
>>> I am in an albacore assessment at the moment, so cant look immediately.
>>> But 1 question, what do you mean by ricker segmented regression?
>>>
>>> On 26/04/13 09:34, Diana González wrote:
>>>> Dear Laurie,
>>>>
>>>> I have put the code in a DropBox folder and I have invited this 
>>>> email address to share it. The folder is call "GHL_MSE_Diana" and 
>>>> the code is in the folder "Code" and is called 
>>>> "GhalMSE2010_RickeR2.14_Laurie.r" and is prepared to be run 
>>>> directly, with no loops in the middle (there are three loops that I 
>>>> removed: om loop, rp loop and ms loop, in order to make it easier). 
>>>> There is only one loop remains, the year loop, that is in line 672 
>>>> and is for the projection years. The fwd function is called inside 
>>>> this loop, in line 736. I am trying to use R2.14.1 and: FLCore 2.4, 
>>>> FLAsses 2.0.1 and FLash 0.7.5.
>>>>
>>>> The problem, as I said yesterday, is that this code, written by 
>>>> David Miller in 2008, was used under R8.2.1 and older versions of 
>>>> FLR. But when we try to fit the Ricker Segmented regression 
>>>> relationship, that FLR doesn´t fit appropriately, whereas the 
>>>> R2.14.1 with the version of FLR that I said you works perfectly. 
>>>> So, I have tried to run all the code with R2.14.1 and the new FLR, 
>>>> and it works perfectly until the function fwd. It says me that 
>>>> there are unused parameters.
>>>>
>>>> Thank you very much for all.
>>>>
>>>> Best,
>>>> Diana
>>>>
>>>> -----Mensaje original-----
>>>> De: flr-list-bounces at lists.r-forge.r-project.org
>>>> [mailto:flr-list-bounces at lists.r-forge.r-project.org] En nombre de
>>>> Diana González Enviado el: jueves, 25 de abril de 2013 17:53
>>>> Para: flr-list at flr-project.org
>>>> Asunto: RE: [FLR-list] Function fwd
>>>>
>>>> Ok, I have to go now but tomorrow I will share a DropBox folder 
>>>> with you if it is ok for you.
>>>>
>>>> Thanks!!
>>>> Diana
>>>>
>>>>
>>>> -----Mensaje original-----
>>>> De: flr-list-bounces at lists.r-forge.r-project.org en nombre de Laurie
>>>> Enviado el: jue 25/04/2013 17:40
>>>> Para: flr-list at flr-project.org
>>>> Asunto: Re: [FLR-list] Function fwd
>>>> why not put your workspace in a dropbox folder and I will look at it
>>>>
>>>> Laurie
>>>>
>>>> On 25/04/13 17:14, Diana González wrote:
>>>>> Dear Laurie,
>>>>>
>>>>> Thank you for your answer. I have loaded FLash and now I have
>>>>> another error message. The code for fwd is the following
>>>>>
>>>>> res <- fwd(GH.biol, GH.fleet, year=y, TAC=yrCatch,
>>>>> sr.model="ricker", sr.param=sr.params,
>>>>> sr.residuals=sr.resids[,ac(y)])
>>>>>
>>>>> GH.biol is a FLBiol and GH.fleet is a FLFleet. I have loaded the 
>>>>> libraries FLCore, FLXSA, FLAssess and FLash.
>>>>>
>>>>> Now the program gives me the following error:
>>>>>
>>>>> Error en .local(object, fleets, ...) :
>>>>> the argument was no used (year = 2010, TAC = 25375, sr.model
>>>>> = "ricker", sr.param = c(35.7146729757961, 9.63966684532422e-05))
>>>>>
>>>>> I don´t know if the code of fwd was changed and the parameters of 
>>>>> the function are others... Any suggestion?
>>>>>
>>>>> Thank you very much,
>>>>> Diana
>>>>>
>>>>>
>>>>>
>>>>> -----Mensaje original-----
>>>>> De: flr-list-bounces at lists.r-forge.r-project.org en nombre de Laurie
>>>>> Enviado el: jue 25/04/2013 16:32
>>>>> Para: flr-list at flr-project.org
>>>>> Asunto: Re: [FLR-list] Function fwd
>>>>> On 25/04/13 15:06, Diana González wrote:
>>>>>> Function fwd
>>>>>>
>>>>>> Good afternoon,
>>>>>>
>>>>>> This is my first time posting, and I don´t know if I amdoingit
>>>>>> correctly...Hope so!!
>>>>>>
>>>>>> I have a problem with a change in the version of FLR. I was using
>>>>>> an old FLRin R2.8.1to make a MSE for the GHL in NAFO, via the
>>>>>> function fwd. It works perfectly to forward the population to the
>>>>>> future. But now Ichangethe version of R and theversionof FLR. The
>>>>>> version of R that I use know is the R2.14.1, but I am not sure
>>>>>> about the version of FLR. The problem isthatwhen I try to make the
>>>>>> projections via the function fwd, it says that"thefunctionfwdcan´t
>>>>>> be found". Has this function changedthe namein the newest 
>>>>>> versions of FLR?
>>>>>>
>>>>>> Thanks!!
>>>>>>
>>>>>> Diana Gonzalez
>>>>>>
>>>>>>
>>>>>>
>>>>>> _______________________________________________
>>>>>> flr-list mailing list
>>>>>> flr-list at flr-project.org
>>>>>> https://lists.r-forge.r-project.org/cgi-bin/mailman/listinfo/flr-li
>>>>>> s
>>>>>> t
>>>>> "fwd" is still called "fwd".
>>>>>
>>>>> Have you loaded FLash?
>>>>>
>>>>> Laurie
>>>>>
>>>>>
>>>>> _______________________________________________
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>>>>> t
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-- 
Ernesto Jardim<ernesto.jardim at jrc.ec.europa.eu>
Fisheries Scientist
FISHREG – Scientific Support to Fisheries
IPSC Maritime Affairs Unit
EC Joint Research Center
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