[Bioc-devel] Need some help to submit a R package.
Martin Morgan
martin.morgan at roswellpark.org
Tue May 1 12:07:35 CEST 2018
The status of your package is unchanged from before; wait for the
reviewer to comment further on your package. Martin
On 05/01/2018 01:30 AM, Pijush Das wrote:
> Dear Sir,
>
>
>
> Please inform me the current status of the package named "sigFeature".
> The package link is given below.
> https://github.com/Bioconductor/Contributions/issues/713
>
>
>
> Thank you
>
>
>
> regards
> Pijush
>
>
>
>
>
> On Fri, Apr 27, 2018 at 7:00 PM, Pijush Das <topijush at gmail.com
> <mailto:topijush at gmail.com>> wrote:
>
>
> Now it is opening. It may be some kind of problem is there with the
> internet connection.
>
>
>
> On Fri, Apr 27, 2018 at 6:56 PM, Shepherd, Lori
> <Lori.Shepherd at roswellpark.org
> <mailto:Lori.Shepherd at roswellpark.org>> wrote:
>
> I am still able to open the link:
>
> https://github.com/Bioconductor/Contributions/issues/713
> <https://github.com/Bioconductor/Contributions/issues/713>
>
>
> Perhaps there is some firewall or ani-virus program you are
> running that is blocking access?
>
>
> When you try to go to the link, what message is displayed?
>
>
> 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
> Shepherd, Lori <Lori.Shepherd at RoswellPark.org>
> *Sent:* Friday, April 27, 2018 8:18:23 AM
> *To:* Pijush Das; 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.
> I am able to open this link. Perhaps it was an intermittent
> internet connection issue? Are you able to open the link now?
>
>
> 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: Friday, April 27, 2018 7:06:07 AM
> To: Morgan, Martin
> Cc: Shepherd, Lori; 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 found some problem in github link given below:
> https://github.com/Bioconductor/Contributions/issues/713
> <https://github.com/Bioconductor/Contributions/issues/713>
> The link is not opening. Is there any problem in github repository?
> Please check it.
>
>
> Thank you
>
>
> regards
> Pijush
>
>
>
>
>
>
>
> On Thu, Apr 26, 2018 at 2:32 PM, Martin Morgan
> <martin.morgan at roswellpark.org
> <mailto:martin.morgan at roswellpark.org><mailto:martin.morgan at roswellpark.org
> <mailto:martin.morgan at roswellpark.org>>> wrote:
> 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><mailto:Lori.Shepherd at roswellpark.org
> <mailto:Lori.Shepherd at roswellpark.org>>
> <mailto:Lori.Shepherd at roswellpark.org<mailto:Lori.Shepherd at roswellpark.org
> <mailto:Lori.Shepherd at roswellpark.org%3Cmailto: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>
>
> <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>
> <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><mailto:topijush at gmail.com
> <mailto:topijush at gmail.com>>
> <mailto:topijush at gmail.com<mailto:topijush at gmail.com
> <mailto:topijush at gmail.com%3Cmailto: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><mailto:bioc-devel at r-project.org <mailto:bioc-devel at r-project.org>>
>
> <mailto:bioc-devel at r-project.org<mailto:bioc-devel at r-project.org
> <mailto:bioc-devel at r-project.org%3Cmailto: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>
> <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><mailto:Lori.Shepherd at roswellpark.org
> <mailto:Lori.Shepherd at roswellpark.org>>
>
> <mailto:Lori.Shepherd at roswellpark.org<mailto:Lori.Shepherd at roswellpark.org
> <mailto:Lori.Shepherd at roswellpark.org%3Cmailto: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><mailto:bioc-devel-bounces at r-project.org
> <mailto:bioc-devel-bounces at r-project.org>>
>
> <mailto:bioc-devel-bounces at r-project.org<mailto:bioc-devel-bounces at r-project.org
> <mailto:bioc-devel-bounces at r-project.org%3Cmailto:bioc-devel-bounces at r-project.org>>>>
> on behalf of Pijush
> Das <topijush at gmail.com
> <mailto:topijush at gmail.com><mailto:topijush at gmail.com
> <mailto:topijush at gmail.com>>
> <mailto:topijush at gmail.com<mailto:topijush at gmail.com
> <mailto:topijush at gmail.com%3Cmailto: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><mailto:bioc-devel at r-project.org <mailto:bioc-devel at r-project.org>>
> <mailto:bioc-devel at r-project.org<mailto:bioc-devel at r-project.org
> <mailto:bioc-devel at r-project.org%3Cmailto: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><mailto:martin.morgan at roswellpark.org
> <mailto:martin.morgan at roswellpark.org>>
>
> <mailto:martin.morgan at roswellpark.org<mailto:martin.morgan at roswellpark.org
> <mailto:martin.morgan at roswellpark.org%3Cmailto: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><mailto:ruqianl at student.unimelb.edu.au
> <mailto:ruqianl at student.unimelb.edu.au>>
>
> <mailto:ruqianl at student.unimelb.edu.au<mailto:ruqianl at student.unimelb.edu.au
> <mailto:ruqianl at student.unimelb.edu.au%3Cmailto: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><mailto:topijush at gmail.com
> <mailto:topijush at gmail.com>>
> <mailto:topijush at gmail.com<mailto:topijush at gmail.com
> <mailto:topijush at gmail.com%3Cmailto: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><mailto:Nitesh.Turaga at roswellpark.org
> <mailto:Nitesh.Turaga at roswellpark.org>>
>
> <mailto:Nitesh.Turaga at roswellpark.org<mailto:Nitesh.Turaga at roswellpark.org
> <mailto:Nitesh.Turaga at roswellpark.org%3Cmailto:Nitesh.Turaga at roswellpark.org>>>>
> wrote:
> >>>>
> >>>> Hi,
> >>>>>
> >>>>> Please read through this documentation.
> >>>>>
> >>>>>
> http://bioconductor.org/developers/package-submission/
> <http://bioconductor.org/developers/package-submission/>
> <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><mailto:topijush at gmail.com
> <mailto:topijush at gmail.com>>
> <mailto:topijush at gmail.com<mailto:topijush at gmail.com
> <mailto:topijush at gmail.com%3Cmailto: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]]
> >>>>>>
> >>>>>> _______________________________________________
> >>>>>> Bioc-devel at r-project.org
> <mailto:Bioc-devel at r-project.org><mailto:Bioc-devel at r-project.org <mailto:Bioc-devel at r-project.org>>
> <mailto:Bioc-devel at r-project.org<mailto:Bioc-devel at r-project.org
> <mailto:Bioc-devel at r-project.org%3Cmailto:Bioc-devel at r-project.org>>>
> mailing list
> >>>>>> https://stat.ethz.ch/mailman/listinfo/bioc-devel
> <https://stat.ethz.ch/mailman/listinfo/bioc-devel>
> <https://stat.ethz.ch/mailman/listinfo/bioc-devel
> <https://stat.ethz.ch/mailman/listinfo/bioc-devel>>
> >>>>>>
> >>>>>
> >>>>>
> >>>>>
> >>>>> This email message may contain legally privileged
> and/or confidential
> >>>>> information. If you are not the intended
> recipient(s), or the employee
> >>>>>
> >>>> or
> >>>>
> >>>>> agent responsible for the delivery of this
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> >>>> [[alternative HTML version deleted]]
> >>>>
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> >>>> Bioc-devel at r-project.org
> <mailto:Bioc-devel at r-project.org><mailto:Bioc-devel at r-project.org <mailto:Bioc-devel at r-project.org>>
> <mailto:Bioc-devel at r-project.org<mailto:Bioc-devel at r-project.org
> <mailto:Bioc-devel at r-project.org%3Cmailto:Bioc-devel at r-project.org>>>
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> <https://stat.ethz.ch/mailman/listinfo/bioc-devel
> <https://stat.ethz.ch/mailman/listinfo/bioc-devel>>
> >>>>
> >>>>
> >>>
> >>>
> >> [[alternative HTML version deleted]]
> >>
> >> _______________________________________________
> >> Bioc-devel at r-project.org
> <mailto:Bioc-devel at r-project.org><mailto:Bioc-devel at r-project.org <mailto:Bioc-devel at r-project.org>>
> <mailto:Bioc-devel at r-project.org<mailto:Bioc-devel at r-project.org
> <mailto:Bioc-devel at r-project.org%3Cmailto:Bioc-devel at r-project.org>>>
> mailing list
> >> https://stat.ethz.ch/mailman/listinfo/bioc-devel
> <https://stat.ethz.ch/mailman/listinfo/bioc-devel>
> <https://stat.ethz.ch/mailman/listinfo/bioc-devel
> <https://stat.ethz.ch/mailman/listinfo/bioc-devel>>
> >>
> >>
> >
> > This email message may contain legally privileged
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> > agent responsible for the delivery of this message to
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> [[alternative HTML version deleted]]
>
> _______________________________________________
> Bioc-devel at r-project.org
> <mailto:Bioc-devel at r-project.org><mailto:Bioc-devel at r-project.org <mailto:Bioc-devel at r-project.org>>
> <mailto:Bioc-devel at r-project.org<mailto:Bioc-devel at r-project.org
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