[FLR-list] help with bubble plot
Laurence Kell
lauriekell at gmail.com
Wed Feb 21 15:39:52 CET 2018
If you are running XSA this may be useful
http://iccat.int/Documents/CVSP/CV071_2015/n_5/CV071052083.pdf
I could also probably find the code that ran all the figures
Laurie
On 21/02/18 09:13, Alessandro Orio wrote:
>
> Thanks now it is working!
>
> Cheers,
>
> Ale
>
> *From:*flr-list-bounces at lists.r-forge.r-project.org
> [mailto:flr-list-bounces at lists.r-forge.r-project.org] *On Behalf Of
> *Iago.MOSQUEIRA at ec.europa.eu
> *Sent:* 21 February 2018 09:53
> *To:* flr-list at flr-project.org
> *Subject:* Re: [FLR-list] help with bubble plot
>
> Hi,
>
> Thanks. I have corrected readFLindicesVPA, and tested it with 3
> different files. Could you please reinstall FLCore from the repository
> and confirm it is working fine?
>
> Thanks,
>
>
> Iago
>
>
> --
> Dr Iago Mosqueira
>
> European Commission
> DG Joint Research Centre
> Directorate D - Sustainable Resources
> Unit D.02 Water and Marine Resources
>
> TP 051, Via Enrico Fermi 2749
> I-21027 Ispra (VA), Italy
>
> Phone : +39 0332 785413
>
> iago.mosqueira at ec.europa.eu <mailto:iago.mosqueira at ec.europa.eu>
>
> ------------------------------------------------------------------------
>
> *From:*flr-list-bounces at lists.r-forge.r-project.org
> <mailto:flr-list-bounces at lists.r-forge.r-project.org>
> [flr-list-bounces at lists.r-forge.r-project.org] on behalf of Alessandro
> Orio [alessandro.orio at slu.se]
> *Sent:* 21 February 2018 08:36
> *To:* flr-list at flr-project.org <mailto:flr-list at flr-project.org>
> *Subject:* Re: [FLR-list] help with bubble plot
>
> Hi,
>
> Here are two files.
>
> Cheers,
>
> Ale
>
> *From:*flr-list-bounces at lists.r-forge.r-project.org
> <mailto:flr-list-bounces at lists.r-forge.r-project.org>
> [mailto:flr-list-bounces at lists.r-forge.r-project.org] *On Behalf Of
> *Iago Mosqueira
> *Sent:* 20 February 2018 18:06
> *To:* flr-list at flr-project.org <mailto:flr-list at flr-project.org>
> *Subject:* Re: [FLR-list] help with bubble plot
>
> Weird, apologies. Could you please send me the files you are using?
>
>
> Iago
> ---
> Sent from mobile
>
>
> ---- On Tue, 20 Feb 2018 16:58:18 +0100 *alessandro.orio at slu.se
> <mailto:alessandro.orio at slu.se> *wrote ----
>
> Hi Iago,
>
> Sorry to bother you again. It seems the plots are now working but
> now readFLIndex and readFLIndices are not working anymore. I have
> tried with different tuning files. With and without NAs and I
> always get this error.
>
> Error in x at .Data[[match(i <mailto:x at .Data[[match%28i>, names(x))]]
> <- value :
>
> attempt to select less than one element in integerOneIndex
>
> Sorry,
>
> Ale
>
> *From:*flr-list-bounces at lists.r-forge.r-project.org
> <mailto:flr-list-bounces at lists.r-forge.r-project.org>
> [mailto:flr-list-bounces at lists.r-forge.r-project.org
> <mailto:flr-list-bounces at lists.r-forge.r-project.org>] *On Behalf
> Of *Iago Mosqueira
> *Sent:* 20 February 2018 15:25
> *To:* flr-list <flr-list at flr-project.org
> <mailto:flr-list at flr-project.org>>
> *Subject:* Re: [FLR-list] help with bubble plot
>
> Hi,
>
> FLCore 2.6.6 is now in the repository, and bubbles appears to work
> again. Only available in Windows for R 3.4
>
> Best,
>
> Iago
>
> ---- On Mon, 19 Feb 2018 17:23:03 +0100 *Mikaela Bergenius
> <mikaela.bergenius at slu.se <mailto:mikaela.bergenius at slu.se>>*
> wrote ----
>
> Thanks heaps!!
>
> Best, Mikaela
>
> *From:*flr-list-bounces at lists.r-forge.r-project.org
> <mailto:flr-list-bounces at lists.r-forge.r-project.org>
> [mailto:flr-list-bounces at lists.r-forge.r-project.org
> <mailto:flr-list-bounces at lists.r-forge.r-project.org>] *On
> Behalf Of *Alessandro Orio
> *Sent:* den 19 februari 2018 14:24
> *To:* flr-list at flr-project.org <mailto:flr-list at flr-project.org>
> *Subject:* Re: [FLR-list] help with bubble plot
>
> Thanks to you!!
>
> Cheers,
>
> Ale
>
> *From:*flr-list-bounces at lists.r-forge.r-project.org
> <mailto:flr-list-bounces at lists.r-forge.r-project.org>
> [mailto:flr-list-bounces at lists.r-forge.r-project.org] *On
> Behalf Of *Iago Mosqueira
> *Sent:* 19 February 2018 13:22
> *To:* flr-list <flr-list at flr-project.org
> <mailto:flr-list at flr-project.org>>
> *Subject:* Re: [FLR-list] help with bubble plot
>
> Hi,
>
> I can replicate the problem now. The code in the development
> version of FLCore does not have this problem, although I
> cannot see why the changes lead to this.
>
> I will update FLCore in the repository tomorrow to version 2.6.6.
>
> Thanks,
>
> Iago
>
> ---- On Mon, 19 Feb 2018 10:27:06 +0100 *Alessandro Orio
> <alessandro.orio at slu.se <mailto:alessandro.orio at slu.se>>*
> wrote ----
>
> Hi Iago,
>
> I’m having the same exact problem and I’m working on the
> latest version of the package and on R 3.4.
>
> This is the plot of the residuals of ple4…
>
> Best,
>
> Ale
>
> *From:*flr-list-bounces at lists.r-forge.r-project.org
> <mailto:flr-list-bounces at lists.r-forge.r-project.org>
> [mailto:flr-list-bounces at lists.r-forge.r-project.org] *On
> Behalf Of *Iago Mosqueira
> *Sent:* 17 February 2018 16:26
> *To:* flr-list <flr-list at flr-project.org
> <mailto:flr-list at flr-project.org>>
> *Subject:* Re: [FLR-list] help with bubble plot
>
> Hi,
>
> I am testing it with the index.res obtained from running
> FLXSA on ple4 and ple4.indices, which also has some NAs,
> and I am getting no error
>
> library(FLXSA)
>
> data(ple4)
>
> data(ple4.indices)
>
> res <- FLXSA(ple4, ple4.indices)
>
> bubbles(age ~ year|qname, data = index.res(res))
>
> Are you on the latest versions of the package and on R 3.4?
>
> Best,
>
> Iago
>
> ---- On Tue, 13 Feb 2018 16:36:43 +0100 *Mikaela Bergenius
> <mikaela.bergenius at slu.se
> <mailto:mikaela.bergenius at slu.se>>* wrote ----
>
> Hi,
>
> Im trying to plot the standardized residuals of my XSA
> using the function bubbles
>
> bubbles(age ~ year|qname, data = index.res(xsa.results7)).
>
> In an earlier version of R I had no problems with this
> plot. Now I get this error message in the plot:
>
> The problem is that in this newest version of FL core
> if I have NAs in some years of my index I will not get
> the plot. While before I was getting only an empty
> column in the years with NAs. Ca you please advice me
> on what to do?
>
> Thank you!
>
> Mikaela
>
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