[R-sig-Geo] Error with loading rJava for spcosa [SEC=UNCLASSIFIED]

[Roger Bivand]

On Thu, 24 Nov 2016, Li Jin wrote:

> Hi All,
>
> I have been using library(spcosa) in R version 3.2.3 (2015-12-10) and all worked well, until today.
>
> The error was as below when I called:
>>  library(spcosa)
> Loading required package: rJava
> Error : .onLoad failed in loadNamespace() for 'rJava', details:
>  call: fun(libname, pkgname)
>  error: JAVA_HOME cannot be determined from the Registry
> Error: package 'rJava' could not be loaded
>
> Although rJava was installed, I reinstalled it, successfully as:
>>   install.packages("rJava")
> --- Please select a CRAN mirror for use in this session ---
> trying URL 'https://cloud.r-project.org/bin/windows/contrib/3.2/rJava_0.9-8.zip'
> Content type 'application/zip' length 765340 bytes (747 KB)
> downloaded 747 KB
>
> package 'rJava' successfully unpacked and MD5 sums checked
>
> The downloaded binary packages are in
>        C:\Users\u09672\AppData\Local\Temp\1\Rtmp2PslO0\downloaded_packages
>
> But when I called:
>> library(rJava)
> Error in get(Info[i, 1], envir = env) :
>  lazy-load database 'C:/LegacyApps/R-3.2.3/library/rJava/R/rJava.rdb' is corrupt
> In addition: Warning messages:
> 1: package 'rJava' was built under R version 3.2.5
> 2: In get(Info[i, 1], envir = env) : internal error -3 in R_decompress1
> Error: package or namespace load failed for 'rJava'
>
> When I called:
>>  library(spcosa)
> Loading required package: rJava
> Error in get(Info[i, 1], envir = env) :
>  lazy-load database 'C:/LegacyApps/R-3.2.3/library/rJava/R/rJava.rdb' is corrupt
> In addition: Warning messages:
> 1: package 'rJava' was built under R version 3.2.5
> 2: In get(Info[i, 1], envir = env) : internal error -3 in R_decompress1
> Error: package 'rJava' could not be loaded
>
> Looks like something is wrong with loading "rJava". The only thing has 
> been changed is that my PC was refreshed recently.

Three possibilities: you may need rJava built for R 3.2.3 - you are warned 
about the mis-match; the refreshing of your PC may have taken away 
something the rJava needed when it loaded; and the rJava Windows binary 
may be corrupted on your mirror - try a different mirror.

Try replacing R 3.2.3 with the current R 3.3.2, and update all your 
packages (all Windows binary packages for R < 3.3 were built using an 
older compiler, all for R >= 3.3 with a newer compiler, and they are not 
mutually compatible if they include compiled code.

Roger

>
> Any suggestions to how to fix this loading problem? Thanks!
>
>
>> sessionInfo()
> R version 3.2.3 (2015-12-10)
> Platform: x86_64-w64-mingw32/x64 (64-bit)
> Running under: Windows 7 x64 (build 7601) Service Pack 1
>
> locale:
> [1] LC_COLLATE=English_Australia.1252  LC_CTYPE=English_Australia.1252
> [3] LC_MONETARY=English_Australia.1252 LC_NUMERIC=C
> [5] LC_TIME=English_Australia.1252
>
> attached base packages:
> [1] stats     graphics  grDevices utils     datasets  methods   base
>
> other attached packages:
> [1] raster_2.5-8 sp_1.2-3
>
> loaded via a namespace (and not attached):
> [1] tools_3.2.3     Rcpp_0.12.7     grid_3.2.3      lattice_0.20-34
>>
>
> Please note this error persists for:  R version 3.3.1 (2016-06-21)
>
> Kind regards,
> Jin
>
> Jin Li, PhD | Spatial Modeller / Computational Statistician
> National Earth and Marine Observations | Environmental Geoscience Division
> t:  +61 2 6249 9899
>
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-- 
Roger Bivand
Department of Economics, Norwegian School of Economics,
Helleveien 30, N-5045 Bergen, Norway.
voice: +47 55 95 93 55; fax +47 55 95 91 00
e-mail: Roger.Bivand at nhh.no
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