[Bioc-devel] Failed to locate any version of JAGS version 4

[Hervé Pagès]

Hmm.. so a new version of rjags (4-11) got published on CRAN on Sept 24:

   https://cran.r-project.org/package=rjags

and for some reason they modified the code they use in their onLoad() 
hook to find JAGS on Windows. They were using in rjags 4-10:

     readRegistry("SOFTWARE\\JAGS", hive="HLM", maxdepth=2, view="32-bit")


which was working fine on our Windows server riesling1 (and AFAIK also 
on the CRAN Windows build machine), but in rjags 4-11 they use:

     readRegistry("SOFTWARE\\JAGS", hive="HLM", maxdepth=2, view="64-bit")



which fails on riesling1 with:

     Error in readRegistry("SOFTWARE\\JAGS", hive = "HLM", maxdepth = 2, 
view = "64-bit") :

       Registry key 'SOFTWARE\JAGS' not found


I've reinstalled JAGS-4.3.0 on riesling1 but that doesn't change anything.

Unfortunately this breaks all packages that depend on rjags:

   - https://bioconductor.org/checkResults/3.14/bioc-LATEST/CNVrd2/
   - https://bioconductor.org/checkResults/3.14/bioc-LATEST/HiLDA/
   - https://bioconductor.org/checkResults/3.14/bioc-LATEST/infercnv/
   - https://bioconductor.org/checkResults/3.14/bioc-LATEST/MADSEQ/

Help appreciated.

BTW your package HiLDA is one of them so I wonder why rjags is not 
listed in the Imports field.

Best,
H.


On 11/10/2021 21:24, Zhi Yang wrote:
> Hello everyone,
> 
> I encountered a problem with two of my Bioconductor packages built on the
> windows server for the next release. Specifically, it couldn't locate any
> version of JAGS version 4. Has anyone experienced the same issue with
> importing or depending on rjags? Thank you!
> 
> ** using staged installation
> ** libs
> "C:/rtools40/mingw32/bin/"g++ -std=gnu++11
> -I"D:/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG
> -I'D:/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include'
> -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2
> -mstackrealign  -c EMalgorithm.cpp -o EMalgorithm.o
> "C:/rtools40/mingw32/bin/"g++ -std=gnu++11
> -I"D:/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG
> -I'D:/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include'
> -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2
> -mstackrealign  -c RcppExports.cpp -o RcppExports.o
> "C:/rtools40/mingw32/bin/"g++ -std=gnu++11
> -I"D:/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG
> -I'D:/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include'
> -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2
> -mstackrealign  -c checkBoundary.cpp -o checkBoundary.o
> "C:/rtools40/mingw32/bin/"g++ -std=gnu++11
> -I"D:/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG
> -I'D:/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include'
> -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2
> -mstackrealign  -c convertFromToVector.cpp -o convertFromToVector.o
> C:/rtools40/mingw32/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o
> HiLDA.dll tmp.def EMalgorithm.o RcppExports.o checkBoundary.o
> convertFromToVector.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib
> -LD:/biocbuild/bbs-3.14-bioc/R/bin/i386 -lR
> installing to D:/biocbuild/bbs-3.14-bioc/meat/HiLDA.buildbin-libdir/00LOCK-HiLDA/00new/HiLDA/libs/i386
> ** R
> ** inst
> ** byte-compile and prepare package for lazy loading
> Error: .onLoad failed in loadNamespace() for 'rjags', details:
>    call: fun(libname, pkgname)
>    error: Failed to locate any version of JAGS version 4
> 
> The rjags package is just an interface to the JAGS library
> Make sure you have installed JAGS-4.x.y.exe (for any x >=0, y>=0)
> fromhttp://www.sourceforge.net/projects/mcmc-jags/files
> Execution halted
> ERROR: lazy loading failed for package 'HiLDA'
> * removing 'D:/biocbuild/bbs-3.14-bioc/meat/HiLDA.buildbin-libdir/HiLDA'
> 
> 
> Regards,
> Zhi Yang
> 
> 	[[alternative HTML version deleted]]
> 
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-- 
Hervé Pagès

Bioconductor Core Team
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