[R-pkg-devel] warning from win_build

[Roy Mendelssohn - NOAA Federal]

Hi All:

I am working on a new submission of my xtractomatic package  (the main change being the use of https).  I develop on a Mac.  When I run on the Mac:

devtools::check()

I get no errors, notes, or warnings.  However, when I run devtools::build_win(), the response I get back isL


> * checking for unstated dependencies in vignettes ... OK
> * checking package vignettes in 'inst/doc' ... OK
> * checking re-building of vignette outputs ... WARNING
> Error in re-building vignettes:
>   ...
> Quitting from lines 248-261 (Usingxtractomatic.Rmd) 
> Error: processing vignette 'Usingxtractomatic.Rmd' failed with diagnostics:
> (converted from warning) Calling 'structure(NULL, *)' is deprecated, as NULL cannot have attributes.
>   Consider 'structure(list(), *)' instead.
> Execution halted
> 

So this error is from my Vignette.  The offending lines appear to  be:

> ```{r topotagPlot, fig.align = 'center', fig.width = 6, fig.height = 4, warning = FALSE}
> require("ggplot2")
> alldata <- cbind(tagData, topo)
> alldata$lon <- alldata$lon - 360
> z <- ggplot(alldata, aes(x = lon,y = lat)) + 
>    geom_point(aes(colour = mean), size = 2.) + 
>   scale_shape_manual(values = c(19, 1))
> z + geom_polygon(data = w, aes(x = long, y = lat, group = group), fill = "grey80") + 
>   theme_bw() + 
>   scale_colour_gradient("Depth") + 
>   coord_fixed(1.3, xlim = xlim, ylim = ylim) + ggtitle("Bathymetry at marlin tag locations")
> 
> ```
> 


Now the vignette builds fine on my machine,  and  I can run it by "hand"  (as an R Notebook, executing each chunk) and it works also.  Looking at the offending code chunk,  I can honestly say I have no idea what the error message is referring to.    When I run by hand,  I have checked that both tagData and topo are properly defined.  But is that the problem,  is the error message from the  cbind?

Thanks for any help.

-Roy


**********************
"The contents of this message do not reflect any position of the U.S. Government or NOAA."
**********************
Roy Mendelssohn
Supervisory Operations Research Analyst
NOAA/NMFS
Environmental Research Division
Southwest Fisheries Science Center
***Note new street address***
110 McAllister Way
Santa Cruz, CA 95060
Phone: (831)-420-3666
Fax: (831) 420-3980
e-mail: Roy.Mendelssohn at noaa.gov www: http://www.pfeg.noaa.gov/

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