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List:       bioc-devel
Subject:    Re: [Bioc-devel] JAGS 4.X.Y not installed on Windows (tokay1)
From:       Hervé Pagès <hpages () fredhutch ! org>
Date:       2016-09-23 16:20:48
Message-ID: 7c56fd46-6e92-b176-f9af-cad96bf084bd () fredhutch ! org
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Hi Yu,

On 09/23/2016 06:57 AM, Yu Kong wrote:
> Hi Hervé,
>
> Thank you so much for help. My package uses JAGS thru the rjags package.

Good. Thanks for clarifying. So can you please remove the 
SystemRequirements line from the DESCRIPTION file of your
package?

I just installed JAGS on tokay1.

Cheers,
H.

>
> Thanks,
> Yu
>
> On Fri, Sep 23, 2016 at 2:59 AM, Hervé Pagès <hpages@fredhutch.org
> <mailto:hpages@fredhutch.org>> wrote:
>
>     Hi Yu,
>
>     On 09/22/2016 02:15 PM, Yu Kong wrote:
>
>         Dear BioConductor community,
>
>         My package (MADSEQ) passed the build on Linux (*malbec1*) and
>         Mac (*morelia*)
>         build servers. However it fails on Windows (tokay1) server for
>         multiple
>         days. Our package is a Bayesian model depends on JAGS sampler.
>         The error
>         message said
>
>         "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) from
>         http://www.sourceforge.net/projects/mcmc-jags/files
>         <http://www.sourceforge.net/projects/mcmc-jags/files>"
>
>         Any help or suggestions would be really appreciated!
>
>
>     I will install JAGS on tokay1 today after the builds finish.
>
>     Just to clarify: your package depends on CRAN package rjags, which
>     requires JAGS. But does your package *directly* depend on JAGS i.e.
>     does it make calls to JAGS directly? Or does it use JAGS only thru
>     the rjags package? The difference is subtle but important. If the
>     latter, then you shouldn't have
>
>       SystemRequirements: JAGS(>=4.2.0)http://mcmc-jags.sourceforge.net/
>     <http://mcmc-jags.sourceforge.net/>
>
>     in your DESCRIPTION file. It's the responsibility of the rjags package
>     to specify this system requirement, which it does with the following
>     line:
>
>       SystemRequirements: JAGS 4.x.y
>
>     Cheers,
>     H.
>
>
>         Thanks,
>         Yu
>
>         http://bioconductor.org/checkResults/devel/bioc-LATEST/MADSEQ/tokay1-buildsrc.html
>         <http://bioconductor.org/checkResults/devel/bioc-LATEST/MADSEQ/tokay1-buildsrc.html>
>         http://bioconductor.org/packages/3.4/bioc/html/MADSEQ.html
>         <http://bioconductor.org/packages/3.4/bioc/html/MADSEQ.html>
>
>                 [[alternative HTML version deleted]]
>
>         _______________________________________________
>         Bioc-devel@r-project.org <mailto:Bioc-devel@r-project.org>
>         mailing list
>         https://stat.ethz.ch/mailman/listinfo/bioc-devel
>         <https://stat.ethz.ch/mailman/listinfo/bioc-devel>
>
>
>     --
>     Hervé Pagès
>
>     Program in Computational Biology
>     Division of Public Health Sciences
>     Fred Hutchinson Cancer Research Center
>     1100 Fairview Ave. N, M1-B514
>     P.O. Box 19024
>     Seattle, WA 98109-1024
>
>     E-mail: hpages@fredhutch.org <mailto:hpages@fredhutch.org>
>     Phone:  (206) 667-5791 <tel:%28206%29%20667-5791>
>     Fax:    (206) 667-1319 <tel:%28206%29%20667-1319>
>
>

-- 
Hervé Pagès

Program in Computational Biology
Division of Public Health Sciences
Fred Hutchinson Cancer Research Center
1100 Fairview Ave. N, M1-B514
P.O. Box 19024
Seattle, WA 98109-1024

E-mail: hpages@fredhutch.org
Phone:  (206) 667-5791
Fax:    (206) 667-1319

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