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

[Li Jin]

Thank you very much, Roger! The suggestions are very helpful.
Best wishes,
Jin

-----Original Message-----
From: Roger Bivand [mailto:Roger.Bivand at nhh.no] 
Sent: Friday, 25 November 2016 7:24 PM
To: Li Jin
Cc: r-sig-geo at r-project.org
Subject: Re: [R-sig-Geo] Error with loading rJava for spcosa [SEC=UNCLASSIFIED]

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.
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