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 -- View this message in context: http://r.789695.n4.nabble.com/error-message-in-package-FD-function-dbFD-tp4709896.html Sent from the R help mailing list archive at Nabble.com.
Thank you for making an effort, but your example is still not reproducible.
Study something like [1] for more clarity on how to communicate online. Problems
that you encounter in getting your data into R are different than problems with
the functions in base R or contributed packages, and a reproducible example
using dput to give us the data allows us to distinguish the two.
Regarding your request for an Excel example, that is unlikely to occur given
that this is an R help mailing list. There are many example data sets in base R
and contributed packages. Have you read the examples on the help page for the FD
package? Try
?FD-package
[1]
http://stackoverflow.com/questions/5963269/how-to-make-a-great-r-reproducible-example
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On July 15, 2015 6:47:22 AM PDT, lauraRIG <laura.riggi at slu.se>
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
>
>
>
>
>
>--
>View this message in context:
>http://r.789695.n4.nabble.com/error-message-in-package-FD-function-dbFD-tp4709896.html
>Sent from the R help mailing list archive at Nabble.com.
>
>______________________________________________
>R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see
>https://stat.ethz.ch/mailman/listinfo/r-help
>PLEASE do read the posting guide
>http://www.R-project.org/posting-guide.html
>and provide commented, minimal, self-contained, reproducible code.
Try doing
rownames(x) <- x["Species"]
before running dbFD. The function is probably using the row and column
names of its inputs as species names, not a certain row or column of the
data.
Bill Dunlap
TIBCO Software
wdunlap tibco.com
On Wed, Jul 15, 2015 at 6:47 AM, lauraRIG <laura.riggi at slu.se> 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
>
>
>
>
>
> --
> View this message in context:
>
http://r.789695.n4.nabble.com/error-message-in-package-FD-function-dbFD-tp4709896.html
> Sent from the R help mailing list archive at Nabble.com.
>
> ______________________________________________
> R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide
> http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.
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