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beachmat.tiledb #3651

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LTLA opened this issue Nov 8, 2024 · 4 comments
Open
10 tasks done

beachmat.tiledb #3651

LTLA opened this issue Nov 8, 2024 · 4 comments
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2. review in progress assign a reviewer and a more thorough review of package code and documentation taking place WARNINGS

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@LTLA
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LTLA commented Nov 8, 2024

Update the following URL to point to the GitHub repository of
the package you wish to submit to Bioconductor

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.

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    instructions. My package is consistent with the Bioconductor
    Package Guidelines.

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    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
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@bioc-issue-bot
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Hi @LTLA

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: beachmat.tiledb
Version: 0.99.0
Date: 2024-11-07
Title: beachmat bindings for TileDB-backed matrices
Description: 
    Extends beachmat to initialize tatami matrices from TileDB-backed arrays.
    This allows C++ code in downstream packages to directly call the TileDB C/C++ library to access array data,
    without the need for block processing via DelayedArray.
    Developers only need to import this package to automatically extend the capabilities of beachmat::initializeCpp to TileDBArray instances.
Authors@R: person("Aaron", "Lun", role = c("aut", "cre"), email = "[email protected]")
Imports: 
    methods,
    beachmat,
    tiledb,
    TileDBArray,
    DelayedArray,
    Rcpp
Suggests: 
    testthat,
    BiocStyle,
    knitr,
    rmarkdown,
    Matrix
LinkingTo: 
    Rcpp, 
    assorthead,
    beachmat
biocViews:
    DataRepresentation,
    DataImport,
    Infrastructure
License: GPL-3
NeedsCompilation: yes
VignetteBuilder: knitr
SystemRequirements: C++17
RoxygenNote: 7.3.2
Encoding: UTF-8

@bioc-issue-bot bioc-issue-bot added the 1. awaiting moderation submitted and waiting clearance to access resources label Nov 8, 2024
@lshep lshep added the pre-check passed pre-review performed and ready to be added to git label Nov 25, 2024
@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 Nov 25, 2024
@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: "WARNINGS".
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): beachmat.tiledb_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/beachmat.tiledb to trigger a new build.
A quick tutorial for setting up remotes and pushing to upstream can be found here.

@lshep lshep added 2. review in progress assign a reviewer and a more thorough review of package code and documentation taking place and removed pre-review on bioconductor git and access to on demand build but not assigned reviewer until build report clean labels Nov 27, 2024
@bioc-issue-bot
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A reviewer has been assigned to your package for an indepth review.
Please respond accordingly to any further comments from the reviewer.

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