[Bioc-devel] Need some help to submit a R package.

Martin Morgan martin.morgan at roswellpark.org
Thu Apr 26 11:02:17 CEST 2018


Wait for the reviewer to comment further on your package.

On 04/26/2018 02:20 AM, Pijush Das wrote:
> Dear Sir,
> 
> 
> I have found that my package sigFeature had passed all the built test 
> without errors or warnings
> on all platforms.
> What should I do next ?
> 
> 
> 
> 
> 
> regards
> Pijush
> 
> 
> 
> 
> 
> 
> 
> 
> 
> 
> 
> 
> On Tue, Apr 24, 2018 at 10:56 PM, Shepherd, Lori 
> <Lori.Shepherd at roswellpark.org <mailto:Lori.Shepherd at roswellpark.org>> 
> wrote:
> 
>     It doesn't look like the webhook was ever initialized
> 
> 
>     Please follow the instructions here:
> 
>     https://github.com/Bioconductor/Contributions/blob/master/CONTRIBUTING.md#adding-a-web-hook
>     <https://github.com/Bioconductor/Contributions/blob/master/CONTRIBUTING.md#adding-a-web-hook>
> 
>     After the webhook is set up you will need to do another version bump
>     to trigger the build -  Please post further correspondence regarding
>     your package submission on the open github issue
> 
> 
>     https://github.com/Bioconductor/Contributions/issues/713
>     <https://github.com/Bioconductor/Contributions/issues/713>
> 
> 
>     Lori Shepherd
> 
>     Bioconductor Core Team
> 
>     Roswell Park Cancer Institute
> 
>     Department of Biostatistics & Bioinformatics
> 
>     Elm & Carlton Streets
> 
>     Buffalo, New York 14263
> 
>     ------------------------------------------------------------------------
>     *From:* Pijush Das <topijush at gmail.com <mailto:topijush at gmail.com>>
>     *Sent:* Tuesday, April 24, 2018 11:33:14 AM
>     *To:* Shepherd, Lori
>     *Cc:* Morgan, Martin; bioc-devel at r-project.org
>     <mailto:bioc-devel at r-project.org>
> 
>     *Subject:* Re: [Bioc-devel] Need some help to submit a R package.
>     Dear sir,
> 
> 
>     I have uploaded the sigFeature package ( Version: 0.99.1) in the
>     existing git repository and did a version bump. The link is given below.
>     https://github.com/pijush1285/sigFeature
>     <https://github.com/pijush1285/sigFeature>
>       But still now I am not getting any response.
>     Is there required to add the web hook again ?
> 
>     Thank you
> 
>     regards
>     Pijush
> 
> 
> 
>     On Tue, Apr 24, 2018 at 5:34 PM, Shepherd, Lori
>     <Lori.Shepherd at roswellpark.org
>     <mailto:Lori.Shepherd at roswellpark.org>> wrote:
> 
>         We like to keep track of the changes and have the reviews in one
>         place.   If possible it would be better to replace the contents
>         of existing git repository and do a version bump.
> 
> 
>         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
>         <mailto:bioc-devel-bounces at r-project.org>> on behalf of Pijush
>         Das <topijush at gmail.com <mailto:topijush at gmail.com>>
>         *Sent:* Tuesday, April 24, 2018 7:43:04 AM
>         *To:* Morgan, Martin
>         *Cc:* bioc-devel at r-project.org <mailto:bioc-devel at r-project.org>
>         *Subject:* Re: [Bioc-devel] Need some help to submit a R package.
>         Dear Sir,
> 
>         I have solved most of the issues raised by the reviewers.
>         There were significant amount of changes in the original code.
>         So should we submit our package (sigFeature) as a new submission
>         or replace the contents of existing git repository with version
>         increment.
> 
> 
>         regards
>         Pijush
> 
> 
>         On Mon, Apr 16, 2018 at 5:01 PM, Martin Morgan <
>         martin.morgan at roswellpark.org
>         <mailto:martin.morgan at roswellpark.org>> wrote:
> 
>         > If you are still having problems understanding warnings, it is probably
>         > better to use the github issue -- it may take some time to get an answer,
>         > because the reviewers have many responsibilities.
>         >
>         > It looks like your 'webhook' is not correct, and that you are not changing
>         > the version of your package (from 0.99.0 to 0.99.1, 0.99.2, ...) when you
>         > wish to generate another build report. @grimbough indicated in the github
>         > issue how to address these problems.
>         >
>         > Martin
>         >
>         >
>         > On 04/16/2018 03:58 AM, Pijush Das wrote:
>         >
>         >> Dear  Ruqian,
>         >>
>         >>
>         >> Yes sir, I have opened the build report which is a link to an HTML page
>         >> with details.
>         >> But I unable to understand why the WARNING massages are showing.
>         >>
>         >> Three days before the other reviewers had made some comments and asked me
>         >> to address
>         >> those issues and also told me to solve the NOTEs produced by BioCheck.
>         >>
>         >> Presently I am working on the sigFeature package to address those issues.
>         >> I shall communicate soon after solving those issues.
>         >>
>         >>
>         >> Thank you
>         >>
>         >>
>         >> Regards
>         >> Pijush
>         >>
>         >>
>         >>
>         >> On Mon, Apr 16, 2018 at 4:06 AM, Ruqian Lyu <
>         >> ruqianl at student.unimelb.edu.au
>         <mailto:ruqianl at student.unimelb.edu.au>>
>         >> wrote:
>         >>
>         >> Hi Pijush,
>         >>>
>         >>> Did you open the build report which is a link to an HTML page with
>         >>> details
>         >>> of the warning?
>         >>>
>         >>>
>         >>> Regards,
>         >>> Ruqian
>         >>>
>         >>>
>         >>>
>         >>> On Fri, Apr 13, 2018 at 4:54 PM, Pijush Das <topijush at gmail.com <mailto:topijush at gmail.com>> wrote:
>         >>>
>         >>> Dear Sir,
>         >>>>
>         >>>>
>         >>>> I have submitted an R package named "sigFeature" in Github and also
>         >>>> Bioconductor 9 days before.
>         >>>> The reviewers only said that there is some WARNING problem in the
>         >>>> package
>         >>>> in different platform.
>         >>>>
>         >>>> But after that they are not communicating any thing regarding the
>         >>>> package.
>         >>>> I have checked the package
>         >>>> windows and Ubuntu it is working fine.
>         >>>>
>         >>>> I unable to understand what actually the problem is ?
>         >>>> And the reviewers are not communicating about the problem. Though I am
>         >>>> getting lots of email from bioc-devel dealing with others package
>         >>>> problem .
>         >>>>
>         >>>> Please suggest me what should I do now ?
>         >>>>
>         >>>>
>         >>>>
>         >>>>
>         >>>> Thank you
>         >>>>
>         >>>>
>         >>>>
>         >>>> Regards
>         >>>> Pijush
>         >>>>
>         >>>>
>         >>>>
>         >>>>
>         >>>> On Mon, Apr 2, 2018 at 4:26 PM, Turaga, Nitesh <
>         >>>> Nitesh.Turaga at roswellpark.org
>         <mailto:Nitesh.Turaga at roswellpark.org>> wrote:
>         >>>>
>         >>>> Hi,
>         >>>>>
>         >>>>> Please read through this documentation.
>         >>>>>
>         >>>>> http://bioconductor.org/developers/package-submission/
>         <http://bioconductor.org/developers/package-submission/>
>         >>>>>
>         >>>>>
>         >>>>> Nitesh
>         >>>>>
>         >>>>> On Apr 2, 2018, at 2:00 AM, Pijush Das <topijush at gmail.com <mailto:topijush at gmail.com>> wrote:
>         >>>>>>
>         >>>>>> Dear Sir,
>         >>>>>>
>         >>>>>>
>         >>>>>>
>         >>>>>> I have developed an R package. I want to submit this package in
>         >>>>>> Bioconductor.
>         >>>>>> Please help me to submit the R package.
>         >>>>>>
>         >>>>>>
>         >>>>>>
>         >>>>>>
>         >>>>>>
>         >>>>>>
>         >>>>>>
>         >>>>>>
>         >>>>>>
>         >>>>>> regards
>         >>>>>> Pijush Das
>         >>>>>>
>         >>>>>>        [[alternative HTML version deleted]]
>         >>>>>>
>         >>>>>> _______________________________________________
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