Re: [MORPHMET] geiger rescale error
Hi Andrea,
The code you provided works for me and I am using R 3.2.2, geiger 2.0.6
and ape_4.0.
However, ensure that the gegier is loaded in the R environment or ensure
that other packages with the same function name do not possibly
interfere with geiger (see this post:
http://stackoverflow.com/questions/5564564/r-2-functions-with-the-same-name-in-2-different-packages).
What might happen here is that when you called rescale function, R used
rescale function from some other (loaded) packages (from different
namespaces...). Try to run the new R session and load just geiger (with
dependencies) using library (geiger) command, check the rescale function
by getAnywhere("rescale") command and if rescale is called from the
geiger () you will likely get an expected
output (without error).
There is a shorter way as well. Load geiger and just type
geiger::rescale().
Marko
On 2016-12-06 10:19, andrea cardini wrote:
Dear All,
I've just tried the rescale function in geiger on my data and got an
error message. As I have no experience with it, I tried the first
example for this function in the help: same error message (see below).
Has anyone had similar issues? Probably I made some silly mistake.
Thanks in advance for your feedback.
Cheers
Andrea
geo <- get(data(geospiza))
ltrns <- rescale(geo$phy, "lambda")
plot(ltrns(0))
title("lambda: 0.0")
Error message:
Error in rescale(as.numeric(x, range = range, domain = domain, ...)) :
(list) object cannot be coerced to type 'double'
--
Dr. Andrea Cardini
Researcher, Dipartimento di Scienze Chimiche e Geologiche, Università
di Modena e Reggio Emilia, Via Campi, 103 - 41125 Modena - Italy
tel. 0039 059 2058472
Adjunct Associate Professor, School of Anatomy, Physiology and Human
Biology, The University of Western Australia, 35 Stirling Highway,
Crawley WA 6009, Australia
E-mail address: alcard...@gmail.com, andrea.card...@unimore.it
WEBPAGE: https://sites.google.com/site/alcardini/home/main
FREE Yellow BOOK on Geometric Morphometrics:
http://www.italian-journal-of-mammalogy.it/public/journals/3/issue_241_complete_100.pdf
ESTIMATE YOUR GLOBAL FOOTPRINT:
http://www.footprintnetwork.org/en/index.php/GFN/page/calculators/
--
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Re: [MORPHMET] geiger rescale error
Hi Andrea,
I have run the code you posted without problems.
In this moment, I'm using R 3.3.2 x64 on a Windows machine.
The geiger version I tried this on is geiger_2.0.6.
You might wanna try also posting the question on the list R-sig-phylo
as a lot of people developing R packages for phylogenetic comparative
approaches are subscribers there (and that's why I'm answering to you
publicly).
Best,
Carmelo
andrea cardini ha scritto:
Dear All,
I've just tried the rescale function in geiger on my data and got an
error message. As I have no experience with it, I tried the first
example for this function in the help: same error message (see below).
Has anyone had similar issues? Probably I made some silly mistake.
Thanks in advance for your feedback.
Cheers
Andrea
geo <- get(data(geospiza))
ltrns <- rescale(geo$phy, "lambda")
plot(ltrns(0))
title("lambda: 0.0")
Error message:
Error in rescale(as.numeric(x, range = range, domain = domain, ...)) :
(list) object cannot be coerced to type 'double'
--
Dr. Andrea Cardini
Researcher, Dipartimento di Scienze Chimiche e Geologiche,
Università di Modena e Reggio Emilia, Via Campi, 103 - 41125 Modena
- Italy
tel. 0039 059 2058472
Adjunct Associate Professor, School of Anatomy, Physiology and Human
Biology, The University of Western Australia, 35 Stirling Highway,
Crawley WA 6009, Australia
E-mail address: alcard...@gmail.com, andrea.card...@unimore.it
WEBPAGE: https://sites.google.com/site/alcardini/home/main
FREE Yellow BOOK on Geometric Morphometrics:
http://www.italian-journal-of-mammalogy.it/public/journals/3/issue_241_complete_100.pdf
ESTIMATE YOUR GLOBAL FOOTPRINT:
http://www.footprintnetwork.org/en/index.php/GFN/page/calculators/
--
MORPHMET may be accessed via its webpage at http://www.morphometrics.org
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--
Carmelo Fruciano
Postdoctoral Fellow - Queensland University of Technology - Brisbane,
Australia
Honorary Fellow - University of Catania - Catania, Italy
e-mail c.fruci...@unict.it
http://www.fruciano.it/research/
--
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[MORPHMET] geiger rescale error
Dear All,
I've just tried the rescale function in geiger on my data and got an
error message. As I have no experience with it, I tried the first
example for this function in the help: same error message (see below).
Has anyone had similar issues? Probably I made some silly mistake.
Thanks in advance for your feedback.
Cheers
Andrea
geo <- get(data(geospiza))
ltrns <- rescale(geo$phy, "lambda")
plot(ltrns(0))
title("lambda: 0.0")
Error message:
Error in rescale(as.numeric(x, range = range, domain = domain, ...)) :
(list) object cannot be coerced to type 'double'
--
Dr. Andrea Cardini
Researcher, Dipartimento di Scienze Chimiche e Geologiche, Università di Modena
e Reggio Emilia, Via Campi, 103 - 41125 Modena - Italy
tel. 0039 059 2058472
Adjunct Associate Professor, School of Anatomy, Physiology and Human Biology,
The University of Western Australia, 35 Stirling Highway, Crawley WA 6009,
Australia
E-mail address: alcard...@gmail.com, andrea.card...@unimore.it
WEBPAGE: https://sites.google.com/site/alcardini/home/main
FREE Yellow BOOK on Geometric Morphometrics:
http://www.italian-journal-of-mammalogy.it/public/journals/3/issue_241_complete_100.pdf
ESTIMATE YOUR GLOBAL FOOTPRINT:
http://www.footprintnetwork.org/en/index.php/GFN/page/calculators/
--
MORPHMET may be accessed via its webpage at http://www.morphometrics.org
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