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<div class="moz-cite-prefix">Hi,<br>
<br>
That can be done already, the range name we use for age is "max"
and "min" so we can use it directly for lengths.<br>
<br>
Not so sure about using different bin's size. Methods would need
to check each bin size ...<br>
<br>
One doubt, when using different bin's size aren't you getting
close to the age structure ? kind of slicing ?<br>
<br>
Best<br>
<br>
EJ<br>
<br>
On 05/22/2013 03:38 PM, Santiago Cerviño wrote:<br>
</div>
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<p class="MsoNormal"><font face="Arial" size="2" color="navy"><span
style="font-size:10.0pt;font-family:Arial;color:navy"
lang="EN-GB">Length based models
usually group length classes for different causes.
Sometimes you do not have
the whole information; sometimes you need to simplify your
model; you might need
to make big groups for larger fish and small ones for
medium size fish, etc. I
think len bins should be user defined without constraints.
It is also important
to have the whole information (lower length and upper
length) for each bin somewhere.
This information will be needed. <o:p></o:p></span></font></p>
<p class="MsoNormal"><font face="Arial" size="2" color="navy"><span
style="font-size:10.0pt;font-family:Arial;color:navy"
lang="EN-GB"><o:p> </o:p></span></font></p>
<p class="MsoNormal"><font face="Arial" size="2" color="navy"><span
style="font-size:10.0pt;font-family:Arial;color:navy"
lang="EN-GB">Could work this idea that
keeps consistency with FLR age names using only one
number? For instance 5, 12,
20, 30 that means 5-12, 12-20, 20-30, 30-??. We would only
need that maximum length
is defined somewhere to know the size of the last bin
(minage, maxage slots
used for minlen maxlen).<o:p></o:p></span></font></p>
<p class="MsoNormal"><font face="Arial" size="2" color="navy"><span
style="font-size:10.0pt;font-family:Arial;color:navy"
lang="EN-GB"><o:p> </o:p></span></font></p>
<p class="MsoNormal"><font face="Arial" size="2" color="navy"><span
style="font-size:10.0pt;font-family:Arial;color:navy"
lang="EN-GB">Santi<o:p></o:p></span></font></p>
<p class="MsoNormal"><font face="Arial" size="2" color="navy"><span
style="font-size:10.0pt;font-family:Arial;color:navy"
lang="EN-GB"><o:p> </o:p></span></font></p>
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<p class="MsoNormal"><b><font face="Tahoma" size="2"
color="black"><span
style="font-size:10.0pt;font-family:Tahoma;color:windowtext;font-weight:bold">De:</span></font></b><font
face="Tahoma" size="2" color="black"><span
style="font-size:10.0pt;font-family:Tahoma;
color:windowtext">
<a class="moz-txt-link-abbreviated" href="mailto:flr-list-bounces@lists.r-forge.r-project.org">flr-list-bounces@lists.r-forge.r-project.org</a>
[<a class="moz-txt-link-freetext" href="mailto:flr-list-bounces@lists.r-forge.r-project.org">mailto:flr-list-bounces@lists.r-forge.r-project.org</a>]
<b><span style="font-weight:bold">En nombre de </span></b>Ernesto<br>
<b><span style="font-weight:bold">Enviado el:</span></b>
22 May 2013 13:55<br>
<b><span style="font-weight:bold">Para:</span></b>
<a class="moz-txt-link-abbreviated" href="mailto:flr-list@r-forge.wu-wien.ac.at">flr-list@r-forge.wu-wien.ac.at</a><br>
<b><span style="font-weight:bold">Asunto:</span></b>
Re: [FLR-list] size</span></font><font color="black"><span
style="color:windowtext"><o:p></o:p></span></font></p>
</div>
<p class="MsoNormal"><font face="Times New Roman" size="3"
color="black"><span style="font-size:12.0pt"><o:p> </o:p></span></font></p>
<div>
<p class="MsoNormal"><font face="Times New Roman" size="3"
color="black"><span style="font-size:12.0pt">It won't
work in several situations and IMO trying to
find a solution for all doesn't work. We need to find
a solution that works and
implement methods for the others. We may try to be
consistent with
"age" and use [10,11) represented by "10" in the
length
names.<br>
<br>
Best<br>
<br>
EJ<br>
<br>
On 05/22/2013 02:43 PM, Laurie Kell wrote:<o:p></o:p></span></font></p>
</div>
<blockquote style="margin-top:5.0pt;margin-bottom:5.0pt"
cite="mid:CAAJ=99mdaLm-+q7t7f9CspzLJsY7_7Zw1ankc8KXftwVq1sMpA@mail.gmail.com"
type="cite">
<div>
<div>
<p class="MsoNormal" style="margin-bottom:12.0pt"><font
face="Times New Roman" size="3" color="black"><span
style="font-size:12.0pt">but wont work with age
slicing which is based on > & <=. <o:p></o:p></span></font></p>
</div>
<p class="MsoNormal"><font face="Times New Roman" size="3"
color="black"><span style="font-size:12.0pt">Laurie<o:p></o:p></span></font></p>
</div>
<div>
<p class="MsoNormal" style="margin-bottom:12.0pt"><font
face="Times New Roman" size="3" color="black"><span
style="font-size:12.0pt"><o:p> </o:p></span></font></p>
<div>
<p class="MsoNormal"><font face="Times New Roman"
size="3" color="black"><span
style="font-size:12.0pt">On Wed, May 22, 2013 at
2:41 PM, Ernesto <<a
href="mailto:ernesto.jardim@jrc.ec.europa.eu"
target="_blank" moz-do-not-send="true">ernesto.jardim@jrc.ec.europa.eu</a>>
wrote:<o:p></o:p></span></font></p>
<div text="#000000" bgcolor="#FFFFFF">
<div>
<p class="MsoNormal"><font face="Times New Roman"
size="3" color="black"><span
style="font-size:12.0pt">Hi,<br>
<br>
Yes, that is a problem that we need to sort
out. I'm considering using
midpoints. It has the advantage of being easy
to coerce into numeric. In most
cases that's what one needs for computations.
Using boundaries will require
other(s) operation(s) to get midpoints.<br>
<br>
Best<br>
<br>
EJ <o:p></o:p></span></font></p>
<div>
<div>
<p class="MsoNormal"><font face="Times New
Roman" size="3" color="black"><span
style="font-size:12.0pt"><br>
<br>
On 05/22/2013 02:23 PM, Laurie Kell wrote:<o:p></o:p></span></font></p>
</div>
</div>
</div>
<div>
<div>
<blockquote
style="margin-top:5.0pt;margin-bottom:5.0pt"
type="cite">
<div>
<div>
<div>
<div>
<p class="MsoNormal"
style="margin-bottom:12.0pt"><font
face="Times New Roman" size="3"
color="black"><span
style="font-size:12.0pt">There is
an issue, boring
but may be important to agree on
now, i.e. labeling of length bins.<o:p></o:p></span></font></p>
</div>
<p class="MsoNormal"
style="margin-bottom:12.0pt"><font
face="Times New Roman" size="3"
color="black"><span
style="font-size:12.0pt">What does a
length bin
mean, i.e. if the "quant" dim
represents length? and the values
are
5, 10, ...?<o:p></o:p></span></font></p>
</div>
<p class="MsoNormal"
style="margin-bottom:12.0pt"><font
face="Times New Roman" size="3"
color="black"><span
style="font-size:12.0pt">In the
mixdist package
these are the righthand boundaries
i.e. they represent (0,5] and (5,10].
But if
they are the lefthand boundaries then
they represent (5,10] and (10,INF]. Or
they could be midpoints. One option
would be to explicitly label the bins
with
the boundaries and then have methods
for going backwards and forwards
between
parametric and non-parametric methods.
Or to have an attribute that tracks
the
properties.<o:p></o:p></span></font></p>
</div>
<div>
<p class="MsoNormal"><font face="Times New
Roman" size="3" color="black"><span
style="font-size:12.0pt">Otherwise I
can see a lot of time being wasted in
stock assessments. well more than
normal.<o:p></o:p></span></font></p>
</div>
<p class="MsoNormal"><font face="Times New
Roman" size="3" color="black"><span
style="font-size:12.0pt">Laurie <o:p></o:p></span></font></p>
</div>
<div>
<p class="MsoNormal"
style="margin-bottom:12.0pt"><font
face="Times New Roman" size="3"
color="black"><span
style="font-size:12.0pt"><o:p> </o:p></span></font></p>
<div>
<p class="MsoNormal"><font face="Times New
Roman" size="3" color="black"><span
style="font-size:12.0pt">On Wed, May
22, 2013 at 1:07 PM, Ernesto <<a
href="mailto:ernesto.jardim@jrc.ec.europa.eu"
target="_blank"
moz-do-not-send="true">ernesto.jardim@jrc.ec.europa.eu</a>>
wrote:<o:p></o:p></span></font></p>
<div>
<p class="MsoNormal"><font face="Times New
Roman" size="3" color="black"><span
style="font-size:12.0pt">On
05/22/2013 12:02 PM, Ernesto wrote:<o:p></o:p></span></font></p>
<p class="MsoNormal"><font face="Times New
Roman" size="3" color="black"><span
style="font-size:12.0pt">On
05/22/2013 11:34 AM, Sarah Kraak
wrote:<o:p></o:p></span></font></p>
<p class="MsoNormal"><font face="Times New
Roman" size="3" color="black"><span
style="font-size:12.0pt">Hi
FLR-guys,<br>
<br>
As you know I am not an active FLR
user, but last year I showed some
interest
in whether you have size-based stuff
in FLR (see attached email). In the
meanwhile Coilin Minto and myself
have been working on something (also
attached
- note this is a draft of the idea;
at the moment we are working on the
code to
get the final graphs out) which we
are coding in R but which
could/should
eventually been done in FLR. Perhaps
you are interested.<br>
<br>
Cheers,<br>
Sarah<o:p></o:p></span></font></p>
<p class="MsoNormal"><font face="Times New
Roman" size="3" color="black"><span
style="font-size:12.0pt"><br>
Hi,<br>
<br>
Following Laurie's suggestion I've
started a git repository for length<br>
methods in FLRhttps://<a
href="http://github.com/ejardim/FLMethLen"
target="_blank"
moz-do-not-send="true">github.com/ejardim/FLMethLen</a><br>
<br>
Maybe our first task should be o
write down what we're doing with
length<br>
data. Laurie's working on ALKs, so I
guess you're interested in<br>
converting length frequencies to
ages for stock assessment !? We
(a4a)<br>
are working on OMs and how to
generate them from length based data
so<br>
that uncertainty on the growth model
can be included in the MSE. Sarah<br>
and Colin Minto are working on
selectivity. What else ?<br>
<br>
Best<br>
<br>
EJ<o:p></o:p></span></font></p>
</div>
<p class="MsoNormal"><font face="Times New
Roman" size="3" color="black"><span
style="font-size:12.0pt">Hi,<br>
<br>
I've updated the readme to reflect the
latest messages. <o:p></o:p></span></font></p>
<div>
<div>
<p class="MsoNormal"><font face="Times
New Roman" size="3" color="black"><span
style="font-size:12.0pt"><br>
<br>
EJ<br>
<br>
-- <br>
Ernesto Jardim<<a
href="mailto:ernesto.jardim@jrc.ec.europa.eu"
target="_blank"
moz-do-not-send="true">ernesto.jardim@jrc.ec.europa.eu</a>><br>
Fisheries Scientist<br>
FISHREG – Scientific Support to
Fisheries<br>
IPSC Maritime Affairs Unit<br>
EC Joint Research Center<br>
TP 051, Via Enrico Fermi 2749<br>
I-21027 Ispra (VA), Italy<br>
Office : <a
href="tel:%2B39%200332%20785311"
target="_blank"
moz-do-not-send="true"
value="+390332785311">+39 0332
785311</a><br>
Fax: <a
href="tel:%2B39%200332%20789658"
target="_blank"
moz-do-not-send="true"
value="+390332789658">+39 0332
789658</a><br>
<a
href="https://fishreg.jrc.ec.europa.eu/"
target="_blank"
moz-do-not-send="true">https://fishreg.jrc.ec.europa.eu/</a><br>
<br>
<br>
_______________________________________________<br>
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<p class="MsoNormal"><font face="Times New
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style="font-size:12.0pt"><br>
<br>
<o:p></o:p></span></font></p>
<fieldset></fieldset>
<pre><font face="Courier New" size="2" color="black"><span style="font-size:10.0pt">_______________________________________________<o:p></o:p></span></font></pre>
<pre><font face="Courier New" size="2" color="black"><span style="font-size:10.0pt">flr-list mailing list<o:p></o:p></span></font></pre>
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<pre><font face="Courier New" size="2" color="black"><span style="font-size:10.0pt"><a href="https://lists.r-forge.r-project.org/cgi-bin/mailman/listinfo/flr-list" target="_blank" moz-do-not-send="true">https://lists.r-forge.r-project.org/cgi-bin/mailman/listinfo/flr-list</a><o:p></o:p></span></font></pre>
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<br>
<o:p></o:p></span></font></p>
<pre><font face="Courier New" size="2" color="black"><span style="font-size:10.0pt">-- <o:p></o:p></span></font></pre>
<pre><font face="Courier New" size="2" color="black"><span style="font-size:10.0pt">Ernesto Jardim<a href="mailto:ernesto.jardim@jrc.ec.europa.eu" target="_blank" moz-do-not-send="true"><ernesto.jardim@jrc.ec.europa.eu></a><o:p></o:p></span></font></pre>
<pre><font face="Courier New" size="2" color="black"><span style="font-size:10.0pt">Fisheries Scientist<o:p></o:p></span></font></pre>
<pre><font face="Courier New" size="2" color="black"><span style="font-size:10.0pt">FISHREG – Scientific Support to Fisheries<o:p></o:p></span></font></pre>
<pre><font face="Courier New" size="2" color="black"><span style="font-size:10.0pt">IPSC Maritime Affairs Unit<o:p></o:p></span></font></pre>
<pre><font face="Courier New" size="2" color="black"><span style="font-size:10.0pt">EC Joint Research Center<o:p></o:p></span></font></pre>
<pre><font face="Courier New" size="2" color="black"><span style="font-size:10.0pt">TP 051, Via Enrico Fermi 2749<o:p></o:p></span></font></pre>
<pre><font face="Courier New" size="2" color="black"><span style="font-size:10.0pt">I-21027 Ispra (VA), Italy<o:p></o:p></span></font></pre>
<pre><font face="Courier New" size="2" color="black"><span style="font-size:10.0pt">Office : <a href="tel:%2B39%200332%20785311" target="_blank" moz-do-not-send="true" value="+390332785311">+39 0332 785311</a><o:p></o:p></span></font></pre>
<pre><font face="Courier New" size="2" color="black"><span style="font-size:10.0pt">Fax: <a href="tel:%2B39%200332%20789658" target="_blank" moz-do-not-send="true" value="+390332789658">+39 0332 789658</a><o:p></o:p></span></font></pre>
<pre><font face="Courier New" size="2" color="black"><span style="font-size:10.0pt"><a href="https://fishreg.jrc.ec.europa.eu/" target="_blank" moz-do-not-send="true">https://fishreg.jrc.ec.europa.eu/</a><o:p></o:p></span></font></pre>
<pre><font face="Courier New" size="2" color="black"><span style="font-size:10.0pt"><o:p> </o:p></span></font></pre>
</div>
</div>
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<p class="MsoNormal" style="margin-bottom:12.0pt"><font
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_______________________________________________<br>
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</div>
<p class="MsoNormal"><font face="Times New Roman" size="3"
color="black"><span style="font-size:12.0pt"><br>
<br>
<br>
</span></font></p>
<fieldset class="mimeAttachmentHeader"></fieldset>
<font face="Times New Roman" size="3" color="black"><o:p></o:p></font>
<pre><font face="Courier New" size="2" color="black"><span style="font-size:10.0pt">_______________________________________________<o:p></o:p></span></font></pre>
<pre><font face="Courier New" size="2" color="black"><span style="font-size:10.0pt">flr-list mailing list<o:p></o:p></span></font></pre>
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<pre><font face="Courier New" size="2" color="black"><span style="font-size:10.0pt"><a moz-do-not-send="true" href="https://lists.r-forge.r-project.org/cgi-bin/mailman/listinfo/flr-list">https://lists.r-forge.r-project.org/cgi-bin/mailman/listinfo/flr-list</a><o:p></o:p></span></font></pre>
</blockquote>
<p class="MsoNormal"><font face="Times New Roman" size="3"
color="black"><span style="font-size:12.0pt"><br>
<br>
<br>
<o:p></o:p></span></font></p>
<pre><font face="Courier New" size="2" color="black"><span style="font-size:10.0pt">-- <o:p></o:p></span></font></pre>
<pre><font face="Courier New" size="2" color="black"><span style="font-size:10.0pt">Ernesto Jardim<a moz-do-not-send="true" href="mailto:ernesto.jardim@jrc.ec.europa.eu"><ernesto.jardim@jrc.ec.europa.eu></a><o:p></o:p></span></font></pre>
<pre><font face="Courier New" size="2" color="black"><span style="font-size:10.0pt">Fisheries Scientist<o:p></o:p></span></font></pre>
<pre><font face="Courier New" size="2" color="black"><span style="font-size:10.0pt">FISHREG – Scientific Support to Fisheries<o:p></o:p></span></font></pre>
<pre><font face="Courier New" size="2" color="black"><span style="font-size:10.0pt">IPSC Maritime Affairs Unit<o:p></o:p></span></font></pre>
<pre><font face="Courier New" size="2" color="black"><span style="font-size:10.0pt">EC Joint Research Center<o:p></o:p></span></font></pre>
<pre><font face="Courier New" size="2" color="black"><span style="font-size:10.0pt">TP 051, Via Enrico Fermi 2749<o:p></o:p></span></font></pre>
<pre><font face="Courier New" size="2" color="black"><span style="font-size:10.0pt">I-21027 Ispra (VA), Italy<o:p></o:p></span></font></pre>
<pre><font face="Courier New" size="2" color="black"><span style="font-size:10.0pt">Office : +39 0332 785311<o:p></o:p></span></font></pre>
<pre><font face="Courier New" size="2" color="black"><span style="font-size:10.0pt">Fax: +39 0332 789658<o:p></o:p></span></font></pre>
<pre><font face="Courier New" size="2" color="black"><span style="font-size:10.0pt"><a moz-do-not-send="true" href="https://fishreg.jrc.ec.europa.eu/">https://fishreg.jrc.ec.europa.eu/</a><o:p></o:p></span></font></pre>
<pre><font face="Courier New" size="2" color="black"><span style="font-size:10.0pt"><o:p> </o:p></span></font></pre>
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<pre class="moz-signature" cols="72">--
Ernesto Jardim<a class="moz-txt-link-rfc2396E" href="mailto:ernesto.jardim@jrc.ec.europa.eu"><ernesto.jardim@jrc.ec.europa.eu></a>
Fisheries Scientist
FISHREG – Scientific Support to Fisheries
IPSC Maritime Affairs Unit
EC Joint Research Center
TP 051, Via Enrico Fermi 2749
I-21027 Ispra (VA), Italy
Office : +39 0332 785311
Fax: +39 0332 789658
<a class="moz-txt-link-freetext" href="https://fishreg.jrc.ec.europa.eu/">https://fishreg.jrc.ec.europa.eu/</a>
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