[Bioc-devel] Package DMCHMM is not installed

[Shepherd, Lori]

Bioconductor has a release version and a devel version.  Releases happen twice a year (The next occurring at the end of October).  All new packages accepted will remain in the devel version of Bioconductor until the next schedule release.  The package for that time, will only be available on the devel version of Bioconductor. See http://bioconductor.org/developers/how-to/useDevel/ .  Upon the next release, it will then be available in both release and devel.

The link you provided is for Bioconductor release 3.5 only:
http://bioconductor.org/packages/release/BiocViews.html#___Software

The package is included in the devel BiocViews for Bioconductor 3.6:

http://bioconductor.org/packages/devel/BiocViews.html#___Software




Lori Shepherd

Bioconductor Core Team

Roswell Park Cancer Institute

Department of Biostatistics & Bioinformatics

Elm & Carlton Streets

Buffalo, New York 14263

________________________________
From: Bioc-devel <bioc-devel-bounces at r-project.org> on behalf of Farhad Shokoohi <shokoohi at icloud.com>
Sent: Tuesday, September 12, 2017 9:01:52 AM
To: Leonardo Collado Torres
Cc: Bioc-devel
Subject: Re: [Bioc-devel] Package DMCHMM is not installed

Thanks but that didn’t clarify why users should install the dev version.
Why the package is not on the page
http://bioconductor.org/packages/release/BiocViews.html#___Software
Sorry this is first time I submitted a package to bioconductor and I am not so familiar with instructions.


> On Sep 11, 2017, at 11:31 PM, Leonardo Collado Torres <lcollado at jhu.edu> wrote:
>
> It's only available on bioc-devel, not bioc-release. See
> http://bioconductor.org/packages/devel/bioc/html/DMCHMM.html and
> http://bioconductor.org/developers/how-to/useDevel/
>
> On Mon, Sep 11, 2017 at 7:17 PM, Farhad Shokoohi <shokoohi at icloud.com> wrote:
>> Hello,
>>
>> I tried to install my package on a machine and it gives the following warning which does not make sense.
>>
>>> source("https://bioconductor.org/biocLite.R")
>> Bioconductor version 3.5 (BiocInstaller 1.26.1), ?biocLite for help
>>> biocLite("DMCHMM")
>> BioC_mirror: https://bioconductor.org
>> Using Bioconductor 3.5 (BiocInstaller 1.26.1), R 3.4.1 (2017-06-30).
>> Installing package(s) ‘DMCHMM’
>> Old packages: 'limma'
>> Update all/some/none? [a/s/n]:
>> n
>> Warning message:
>> package ‘DMCHMM’ is not available (for R version 3.4.1)
>>>
>>
>>
>> ———
>> Farhad Shokoohi
>> Assistant Professor
>> Department of Mathematics & Statistics
>> Concordia University
>> S-LB 915-1, J.W. McConnell Building,
>> 1455 De Maisonneuve W.,
>> Montreal, Quebec, Canada, H3G 1M8
>> Office: (514) 848-2424 ext. 4017
>> Fax: (514) 848-2831
>> shokoohi at icloud.com
>>
>>
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>>
>> _______________________________________________
>> Bioc-devel at r-project.org mailing list
>> https://stat.ethz.ch/mailman/listinfo/bioc-devel


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