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DNAcycP2 #3715

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jipingw opened this issue Jan 24, 2025 · 9 comments
Open

DNAcycP2 #3715

jipingw opened this issue Jan 24, 2025 · 9 comments
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OK pre-review on bioconductor git and access to on demand build but not assigned reviewer until build report clean

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@jipingw
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jipingw commented Jan 24, 2025

https://github.com/jipingw/DNAcycP2
@bioc-issue-bot
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Hi @jipingw

Thanks for submitting your package. We are taking a quick
look at it and you will hear back from us soon.

The DESCRIPTION file for this package is:

Package: DNAcycP2
Title: DNA Cyclizability Prediction
Version: 0.99.0
Authors@R: 
    person("Brody", "Kendall", 
        email = "[email protected]", 
        role = c("aut"))
    person("Keren", "Li",
        email = "[email protected]",
        role = c("aut"))
    person("Ji-Ping", "Wang", 
        email = "[email protected]", 
        role = c("aut", "cre"))
Description: This package performs prediction of intrinsic cyclizability of of every 50-bp subsequence in a DNA sequence.
Imports:
  basilisk,
  reticulate
License: Artistic-2.0
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.2
StagedInstall: no
BinaryFiles: inst/python/irlstm/saved_model.pb, inst/python/irlstm_smooth/saved_model.pb
biocViews: NeuralNetwork, StructuralPrediction
VignetteBuilder: knitr
Suggests: knitr, rmarkdown
LazyData: false
URL:
BugReports:

@bioc-issue-bot bioc-issue-bot added the 1. awaiting moderation submitted and waiting clearance to access resources label Jan 24, 2025
@lshep
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lshep commented Feb 4, 2025

It looks at the time of submission our submission template was down... could you please confirm the following by editing each check box to '[x]'

  • I understand that by submitting my package to Bioconductor,
    the package source and all review commentary are visible to the
    general public.

  • I have read the Bioconductor Package Submission
    instructions. My package is consistent with the Bioconductor
    Package Guidelines.

  • I understand Bioconductor Package Naming Policy and acknowledge
    Bioconductor may retain use of package name.

  • I understand that a minimum requirement for package acceptance
    is to pass R CMD check and R CMD BiocCheck with no ERROR or WARNINGS.
    Passing these checks does not result in automatic acceptance. The
    package will then undergo a formal review and recommendations for
    acceptance regarding other Bioconductor standards will be addressed.

  • My package addresses statistical or bioinformatic issues related
    to the analysis and comprehension of high throughput genomic data.

  • I am committed to the long-term maintenance of my package. This
    includes monitoring the support site for issues that users may
    have, subscribing to the bioc-devel mailing list to stay aware
    of developments in the Bioconductor community, responding promptly
    to requests for updates from the Core team in response to changes in
    R or underlying software.

  • I understand it is my responsibility to maintain a valid, active
    email in the DESCRIPTION of my package. This email should allow emails
    from [email protected] and [email protected] to allow
    automatic notifications from the Bioconductor team concerning my package.

  • I am familiar with the Bioconductor code of conduct and
    agree to abide by it.

I am familiar with the essential aspects of Bioconductor software
management, including:

  • The 'devel' branch for new packages and features.
  • The stable 'release' branch, made available every six
    months, for bug fixes.
  • Bioconductor version control using Git
    (optionally via GitHub).

For questions/help about the submission process, including questions about
the output of the automatic reports generated by the SPB (Single Package
Builder), please use the #package-submission channel of our Community Slack.
Follow the link on the home page of the Bioconductor website to sign up.

@lshep lshep added the pre-check passed pre-review performed and ready to be added to git label Feb 4, 2025
@jipingw
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jipingw commented Feb 4, 2025 via email

@bioc-issue-bot
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Your package has been added to git.bioconductor.org to continue the
pre-review process. A build report will be posted shortly. Please
fix any ERROR and WARNING in the build report before a reviewer is
assigned or provide a justification on why you feel the ERROR or
WARNING should be granted an exception.

IMPORTANT: Please read this documentation for setting
up remotes to push to git.bioconductor.org. All changes should be
pushed to git.bioconductor.org moving forward. It is required to push a
version bump to git.bioconductor.org to trigger a new build report.

Bioconductor utilized your github ssh-keys for git.bioconductor.org
access. To manage keys and future access you may want to active your
Bioconductor Git Credentials Account

@bioc-issue-bot bioc-issue-bot added pre-review on bioconductor git and access to on demand build but not assigned reviewer until build report clean and removed 1. awaiting moderation submitted and waiting clearance to access resources pre-check passed pre-review performed and ready to be added to git labels Feb 4, 2025
@bioc-issue-bot
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Dear Package contributor,

This is the automated single package builder at bioconductor.org.

Your package has been built on the Bioconductor Single Package Builder.

On one or more platforms, the build results were: "ERROR".
This may mean there is a problem with the package that you need to fix.
Or it may mean that there is a problem with the build system itself.

Please see the build report for more details.

The following are build products from R CMD build on the Single Package Builder:
Linux (Ubuntu 24.04.1 LTS): DNAcycP2_0.99.0.tar.gz

Links above active for 21 days.

Remember: if you submitted your package after July 7th, 2020,
when making changes to your repository push to
[email protected]:packages/DNAcycP2 to trigger a new build.
A quick tutorial for setting up remotes and pushing to upstream can be found here.

@bioc-issue-bot
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Received a valid push on git.bioconductor.org; starting a build for commit id: f72ba87a183048ef62bf9e0672c1d858ddc5994f

@bioc-issue-bot
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Dear Package contributor,

This is the automated single package builder at bioconductor.org.

Your package has been built on the Bioconductor Single Package Builder.

On one or more platforms, the build results were: "ERROR".
This may mean there is a problem with the package that you need to fix.
Or it may mean that there is a problem with the build system itself.

Please see the build report for more details.

The following are build products from R CMD build on the Single Package Builder:
Linux (Ubuntu 24.04.1 LTS): DNAcycP2_0.99.1.tar.gz

Links above active for 21 days.

Remember: if you submitted your package after July 7th, 2020,
when making changes to your repository push to
[email protected]:packages/DNAcycP2 to trigger a new build.
A quick tutorial for setting up remotes and pushing to upstream can be found here.

@bioc-issue-bot
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Received a valid push on git.bioconductor.org; starting a build for commit id: e3ef45d3149d9e09ab7aecaab89a9359da71911c

@bioc-issue-bot
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Dear Package contributor,

This is the automated single package builder at bioconductor.org.

Your package has been built on the Bioconductor Single Package Builder.

Congratulations! The package built without errors or warnings
on all platforms.

Please see the build report for more details.

The following are build products from R CMD build on the Single Package Builder:
Linux (Ubuntu 24.04.1 LTS): DNAcycP2_0.99.2.tar.gz

Links above active for 21 days.

Remember: if you submitted your package after July 7th, 2020,
when making changes to your repository push to
[email protected]:packages/DNAcycP2 to trigger a new build.
A quick tutorial for setting up remotes and pushing to upstream can be found here.

@bioc-issue-bot bioc-issue-bot added OK and removed ERROR labels Feb 5, 2025
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@bioc-issue-bot @lshep @jipingw