Dear Uwe
I did previously attach the script, but I include it again here in addition to current and future projections (which come from different directories).Help would very much be appreciated!
Alice
Date: Mon, 14 May 2012 04:52:04 -0700
From: ml-node+s789695n4629915h14 at n4.nabble.com
To: dr_achughes at hotmail.co.uk
Subject: Re: Overlapping area script
On 11.05.2012 11:06, achughes wrote:
I would really appreciate some help with a script which a colleague wrote
for me (attached), but I am having problems running (and have not been able
to contact my colleague).
I think you have to contact your colleague or you have to provide the
full script including the objects trhat are used within that script.
The error message told you that the object 'bat.asc' was not found.
My suggestion would be to contact a local expert if your colleague is
unavailable.
Best,
Uwe Ligges
The script is designed to compare the area of suitable habitat in binary
projections of a large number of species current and future distributions,
and create an excel file detailing the total area suitable in the present
and future scenario, in addition to the area which overlaps.
These maps are made from Maxent outputs, which have been reclassified to
give binary projections for each species and will be used to assess how
climatic change may potentially effect the total area which is suitable for
each species. However despite considerable effort I cannot get the attached
script to run. It creates an excel with the first species current and future
areas of suitable extent detailed, but "NA" for overlap, then gives error
warnings (shown below), but changes I have tried have failed to make the
script run any further (though I have generated new error messages...)
Any help or advice would be very greatly appreciated, I can also send some
example files of current and future distributions if anyone thinks they
"+ png(paste(out.dir, spp,'_overlap.png', sep=''),
width=nrow(spp.asc),height=ncol(spp.asc), units='px', res=300, pointsize=5,
bg='white') #start the plot
+ par(mar=c(0,0,0,0)+0.1) #remove any plot margins
+ image(overlap, ann=FALSE,axes=FALSE,col=cols, zlim=c(0,3)) #plot the
+ legend.gradient(legend.pnts,cols=cols,limits=c(0,3), title='overlap',
Error in nrow(spp.asc) : object 'bat.asc' not found
In addition: There were 12 warnings (use warnings() to see them)
write.csv(overlap.matrix, paste(out.dir, "all_species.csv",sep=''))