samexplorer RNA-seq depth analysis

[shaileshtripathi]

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[bioc-issue-bot]

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[bioc-issue-bot]

Dear Package contributor,

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[bioc-issue-bot]

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: "skipped, 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.

Please see the following build report for more details:

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[shaileshtripathi]

Hi Martin,

I have made required changes in the "SamExploreR" package in order to compile it on bioconductor's server perfectly. Although it is not able to compile on windows server because of its dependency on Rsubread. I would like to suppress its compilation for winodws as it is done for Rsubread package. Other than that it seems fine to me for review.

Looking forward to your reply.

Best, Shailesh

On Thu, Oct 6, 2016 at 11:41 AM, Martin Morgan notifications@github.com wrote:

Reopened #62 https://github.com/Bioconductor/Contributions/issues/62.

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[shaileshtripathi]

Hi Martin,

I have made required changes in the "SamExploreR" package in order to compile it on bioconductor's server perfectly. Although it is not able to compile on windows server because of its dependency on Rsubread. I would like to suppress its compilation for winodws as it is done for Rsubread package. Other than that it seems fine to me for review.

Looking forward to your reply.

Best, Shailesh

On Thu, Oct 6, 2016 at 11:41 AM, Martin Morgan notifications@github.com wrote:

Reopened #62 https://github.com/Bioconductor/Contributions/issues/62.

— You are receiving this because you were mentioned. Reply to this email directly, view it on GitHub https://github.com/Bioconductor/Contributions/issues/62#event-814560960, or mute the thread https://github.com/notifications/unsubscribe-auth/ATkbzPSSBuF-_B8oehol55bF_3B2qFI3ks5qxNBEgaJpZM4JO7QV .

[mtmorgan]

Please address the WARNING messages on non-Windows platforms.

[bioc-issue-bot]

Received a valid push; starting a build. Commits are:

7053427 ver update

[bioc-issue-bot]

Dear Package contributor,

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Dear Package contributor,

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Dear Package contributor,

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

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e79b8f4 ver update3

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Dear Package contributor,

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

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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: "WARNINGS, skipped, 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]

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: "skipped, 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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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: "WARNINGS, skipped, 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]

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: "WARNINGS, skipped, 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]

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: "skipped, 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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[bioc-issue-bot]

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, skipped, 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]

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: "skipped, 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.

Please see the following build report for more details:

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[bioc-issue-bot]

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: "skipped, 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 following build report for more details:

http://bioconductor.org/spb_reports/samExploreR_buildreport_20161017173602.html

[shaileshtripathi]

Hi Martin,

The samExploreR seems working fine on bioconductor for submission. Only thing is that it is not able to compile for windows because of its dependency on Rsubread, how can it be suppressed for windows.

Looking forward for the review of samExploreR soon.

Best, Shailesh

On Thu, Oct 6, 2016 at 11:40 AM, Martin Morgan notifications@github.com wrote:

I asked for clarification on the status of your package on August 23, and when you did not respond declined the package on September 7. I take it you would now like your package to be considered for review. I will re-open the issue, and will proceed with a review when the remaining warnings and errors are addressed; see the most recent build report.

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[mtmorgan]

One easily fixed problems remains before the review will start

* checking R code for possible problems ... NOTE
.gg_color_hue: no visible global function definition for hcl
exploreRep: no visible global function definition for aov
exploreRob: no visible global function definition for aov
plotsamExplorer: no visible binding for global variable f
plotsamExplorer: no visible binding for global variable value
plotsamExplorer: no visible binding for global variable group
plotsamExplorer: no visible global function definition for runif
Undefined global functions or variables:
  aov f group hcl runif value
Consider adding
  importFrom("grDevices", "hcl")
  importFrom("stats", "aov", "runif")
to your NAMESPACE file.

[bioc-issue-bot]

Received a valid push; starting a build. Commits are:

6499fcf ver update12

[bioc-issue-bot]

Dear Package contributor,

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