[R-sig-eco] error message in package "FD", function dbFD ()

[Krzysztof Sakrejda]

2015-07-15 10:12 GMT-04:00 Novack-Gottshall, Philip M. <
pnovack-gottshall at ben.edu>:

> [snip]

Try the following to confirm:
> identical(row.names(x), row.names(t(a)))
>
> I'm guess this will yield "FALSE" (although they look identical in your
> output below).
>
> If FALSE, then you just need to confirm that the species names are
> actually identical (is there a space at the end of one?, or manually
> re-type to confirm, etc., etc.).
>

Or just find the culprit directly:

row.names(x)[!(row.names(x) %in% row.names(t(a)))]
row.names(t(a))[!(row.names(t(a)) %in% row.names(x))]



>
> Good luck,
> Phil
>
> On 7/15/2015 8:42 AM, Laura Riggi wrote:
> > Dear R community,
> >
> >
> >
> > I  have some trouble with the dbFD function in the FD package.
> >
> >> str(a)
> > 'data.frame':    150 obs. of  48 variables:
> >
> >> str(x)
> > 'data.frame':    48 obs. of  9 variables:
> >
> >
> >
> > ex1 <- dbFD(x,a)
> >
> > Error in dbFD(x, a) :
> >
> >   Species labels in 'x' and 'a' need to be identical and ordered
> alphabetically (or simply in the same order).
> >
> >
> >
> > I have checked multiple time the data set but this message keeps on
> appearing. The names of the species are identical in both data.frames.
> >
> >
> >
> > I was wondering if you could help me by giving me an example of an excel
> trait and species matrix table to upload for this package. Below is a
> snapshop of my data. I have also checked that there are no NA's problems
> and that there is no species abundance = 0 or no community with 0 species.
> >
> >
> >
> > Thank you for any advice!
> >
> > Best
> >
> > Laura
> >
> >
> >
> > Species table (a)
> > Agonum_assimile
> >
> > Agonum_dorsale
> >
> > Agonum_gracile
> >
> > Agonum_gracilipes
> >
> > 2
> >
> > 3
> >
> > 0
> >
> > 0
> >
> > 0
> >
> > 6
> >
> > 0
> >
> > 0
> >
> > 1
> >
> > 10
> >
> > 0
> >
> > 0
> >
> > 1
> >
> > 5
> >
> > 0
> >
> > 0
> >
> > 0
> >
> > 8
> >
> > 0
> >
> > 0
> >
> > 2
> >
> > 7
> >
> > 0
> >
> > 0
> >
> > 1
> >
> > 6
> >
> > 0
> >
> > 0
> >
> >
> >
> >
> >
> >
> > Trait table(x)
> >
> >
> > Species
> >
> > SizeCategoy
> >
> > Ecology
> >
> > Reproduction
> >
> > Diet
> >
> > Wing
> >
> > Agonum_assimile
> >
> > C
> >
> > nocturnal
> >
> > spring
> >
> > Carnivorous
> >
> > Brachypterous
> >
> > Agonum_dorsale
> >
> > B
> >
> > nocturnal
> >
> > spring
> >
> > Carnivorous
> >
> > Macropterous
> >
> > Agonum_gracile
> >
> > B
> >
> > diurnal
> >
> > spring
> >
> > Carnivorous
> >
> > Macropterous
> >
> > Agonum_gracilipes
> >
> > B
> >
> > both
> >
> > spring
> >
> > Carnivorous
> >
> > Macropterous
> >
> >
> >
> >
> >       [[alternative HTML version deleted]]
> >
> > _______________________________________________
> > R-sig-ecology mailing list
> > R-sig-ecology at r-project.org
> > https://stat.ethz.ch/mailman/listinfo/r-sig-ecology
> >
> >
>
> --
> ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>  Phil Novack-Gottshall
>  Associate Professor
>  Department of Biological Sciences
>  Benedictine University
>  5700 College Road
>  Lisle, IL 60532
>
>  pnovack-gottshall at ben.edu
>  Phone: 630-829-6514
>  Fax: 630-829-6547
>  Office: 332 Birck Hall
>  Lab: 316 Birck Hall
>  http://www1.ben.edu/faculty/pnovack-gottshall
> ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>
>
> _______________________________________________
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> R-sig-ecology at r-project.org
> https://stat.ethz.ch/mailman/listinfo/r-sig-ecology
>

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