marouenbg commented 3 years ago

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

Repository: https://github.com/netZoo/netZooR

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bioc-issue-bot commented 2 years ago

Received a valid push on git.bioconductor.org; starting a build for commit id: 28bb93f00b70ea90c202ed485aa76b491333d15d

bioc-issue-bot commented 2 years ago

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

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Received a valid push on git.bioconductor.org; starting a build for commit id: a45443d98129019d59cfa07f939d969df5a64f69

bioc-issue-bot commented 2 years ago

Dear Package contributor,

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

Your package has been built on Linux, Mac, and Windows.

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.

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

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Received a valid push on git.bioconductor.org; starting a build for commit id: 3ff30e7dc7135884116ca1ba6cc2c532a141ba72

bioc-issue-bot commented 2 years ago

Dear Package contributor,

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Your package has been built on Linux, Mac, and Windows.

On one or more platforms, the build results were: "TIMEOUT, ERROR, 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.

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Received a valid push on git.bioconductor.org; starting a build for commit id: 61969fa235c3e60388caff381a64bfd627cea1b2

bioc-issue-bot commented 2 years ago

Dear Package contributor,

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

Your package has been built on Linux, Mac, and Windows.

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. This link will be active for 21 days.

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

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Received a valid push on git.bioconductor.org; starting a build for commit id: edd74d72862dc34a599efe1dac616a692f986df6

bioc-issue-bot commented 2 years ago

Dear Package contributor,

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Your package has been built on Linux, Mac, and Windows.

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.

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bioc-issue-bot commented 2 years ago

Dear Package contributor,

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

Your package has been built on Linux, Mac, and Windows.

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.

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bioc-issue-bot commented 2 years ago

Dear Package contributor,

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

Your package has been built on Linux, Mac, and Windows.

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.

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bioc-issue-bot commented 2 years ago

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Received a valid push on git.bioconductor.org; starting a build for commit id: e10bac555e606c3ed20e7e883e9c878118fe91e0

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Dear Package contributor,

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

Your package has been built on Linux, Mac, and Windows.

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

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Received a valid push on git.bioconductor.org; starting a build for commit id: 141e4095b27445a263ddec06f4a67d196b5f0645

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Received a valid push on git.bioconductor.org; starting a build for commit id: 8df7dcbdf89a26e406da982825d41d45de3d9f68

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Your package has been built on Linux, Mac, and Windows.

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Received a valid push on git.bioconductor.org; starting a build for commit id: d79192d14368d561d8bbcd2173f5953f81370410

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marouenbg commented 2 years ago

Hi @Kayla-Morrell , Thank you so much for the thorough review, I addressed all of the points you raised, please let me know if there is anything else to do. Marouen

Kayla-Morrell commented 2 years ago

@marouenbg - Thank you for making the necessary changes. I have looked everything over and there are just a few things that need to be addressed before I can accept the package. Please see the requirements below and comment back here when the changes are ready for re-review.

Vignette

[ ] REQUIRED: The installation section should demonstrate to the user how to install and download the package from Bioconductor. The code should look like the following and include eval = FALSE.

if(!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("netZooR")

[ ] REQUIRED: The last section of the vignette should be 'Session Information' and should include sessionInfo().

Man pages

[ ] REQUIRED: Add runnable examples to the following man pages which document exported objects: createPandaStyle.Rd visPandaInCytoscape.Rd

Best, Kayla

bioc-issue-bot commented 2 years ago

Received a valid push on git.bioconductor.org; starting a build for commit id: 4b6f1d390e857e5e73e43931950eda6a46340aa8

bioc-issue-bot commented 2 years ago

Dear Package contributor,

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

Your package has been built on Linux, Mac, and Windows.

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Please see the build report for more details. This link will be active for 21 days.

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

bioc-issue-bot commented 2 years ago

Received a valid push on git.bioconductor.org; starting a build for commit id: b30d000138bc4a002b5ad40e79da8e3f7f20e67f

bioc-issue-bot commented 2 years ago

Dear Package contributor,

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

Your package has been built on Linux, Mac, and Windows.

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. This link will be active for 21 days.

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

bioc-issue-bot commented 2 years ago

Received a valid push on git.bioconductor.org; starting a build for commit id: 8a0e615e03d40b6156f70e6da1a569e887c860af

bioc-issue-bot commented 2 years ago

Dear Package contributor,

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

Your package has been built on Linux, Mac, and Windows.

On one or more platforms, the build results were: "WARNINGS, 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. This link will be active for 21 days.

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

bioc-issue-bot commented 2 years ago

Received a valid push on git.bioconductor.org; starting a build for commit id: 94a6e689c4d35b6725329c4e9a82e323f06fe475

bioc-issue-bot commented 2 years ago

Dear Package contributor,

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

Your package has been built on Linux, Mac, and Windows.

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. This link will be active for 21 days.

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

bioc-issue-bot commented 2 years ago

Received a valid push on git.bioconductor.org; starting a build for commit id: 44caa68ef872d04e53eae2897e66942c7e2000f6

bioc-issue-bot commented 2 years ago

Dear Package contributor,

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

Your package has been built on Linux, Mac, and Windows.

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. This link will be active for 21 days.

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

marouenbg commented 2 years ago

Hi @Kayla-Morrell ,

Thank you for taking the time to review the package! I keep getting this error on the server, however, everything works fine locally.

Thank you

BiocCheckGitClone('netZooR')

===============================

tar: Unrecognized archive format

lshep commented 2 years ago

There was a miscommunication on our end and merida1 should no longer be included in the build reports. This can be ignored and we are removing the builder this morning.

bioc-issue-bot commented 2 years ago

Received a valid push on git.bioconductor.org; starting a build for commit id: 2baf915fbf02fc8ebe0d539c8bad34b696eadf97

bioc-issue-bot commented 2 years ago

Dear Package contributor,

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

Your package has been built on Linux, Mac, and Windows.

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

Please see the build report for more details. This link will be active for 21 days.

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

marouenbg commented 2 years ago

Thank you @lshep . Hi @Kayla-Morrell , I finished addressing the remaining comments, expect the last one. I added examples in createPandaStyle.Rd and visPandaInCytoscape.Rd using \donttest{} because they call a GUI.

Thank you

Kayla-Morrell commented 2 years ago

@marouenbg - Thank you for making those changes. I'm more than happy to accept that package now.

Best, Kayla

bioc-issue-bot commented 2 years ago

Your package has been accepted. It will be added to the Bioconductor nightly builds.

Thank you for contributing to Bioconductor!

Reviewers for Bioconductor packages are volunteers from the Bioconductor community. If you are interested in becoming a Bioconductor package reviewer, please see Reviewers Expectations.

marouenbg commented 2 years ago

Thank you so much @lshep and @Kayla-Morrell for your help making netZooR a better package !

lshep commented 2 years ago

The master branch of your GitHub repository has been added to Bioconductor's git repository.

To use the git.bioconductor.org repository, we need an 'ssh' key to associate with your github user name. If your GitHub account already has ssh public keys (https://github.com/marouenbg.keys is not empty), then no further steps are required. Otherwise, do the following:

See further instructions at

https://bioconductor.org/developers/how-to/git/

for working with this repository. See especially

https://bioconductor.org/developers/how-to/git/new-package-workflow/ https://bioconductor.org/developers/how-to/git/sync-existing-repositories/

to keep your GitHub and Bioconductor repositories in sync.

Your package will be included in the next nigthly 'devel' build (check-out from git at about 6 pm Eastern; build completion around 2pm Eastern the next day) at

https://bioconductor.org/checkResults/

(Builds sometimes fail, so ensure that the date stamps on the main landing page are consistent with the addition of your package). Once the package builds successfully, you package will be available for download in the 'Devel' version of Bioconductor using BiocManager::install("netZooR"). The package 'landing page' will be created at

https://bioconductor.org/packages/netZooR

If you have any questions, please contact the bioc-devel mailing list (https://stat.ethz.ch/mailman/listinfo/bioc-devel); this issue will not be monitored further.

marouenbg commented 2 years ago

Hi @lshep,

@violafanfani and I are trying to deploy netZooR in conda but Bioconductor page says it is compatible with R4.2 which has not been released yet https://bioconductor.org/packages/devel/bioc/html/netZooR.html Would you have any suggestion for this?

Thank you,

Bioconductor / Contributions

netZooR #2238

Vignette

Man pages