[Bioc-devel] EXTERNAL: Build errors when running examples that call circlize

[Giulia Pais]

Thanks, I got in contact with the developer of circlize, I’ll temporarily resort to \dontrun until the problem is fixed.
Best, Giulia

From: Bioc-devel <bioc-devel-bounces using r-project.org> on behalf of Marcel Ramos <marcel.ramosperez using roswellpark.org>
Date: Tuesday, August 3, 2021 at 15:50
To: bioc-devel using r-project.org <bioc-devel using r-project.org>
Subject: Re: [Bioc-devel] EXTERNAL: Build errors when running examples that call circlize
Hi Giulia,

It seems that the issue is further down the callstack, likely in circlize.
To reproduce, you can enable _R_CHECK_LENGTH_1_* from
https://bioconductor.org/checkResults/devel/bioc-LATEST/Renviron.bioc

You might have to open an issue at https://github.com/jokergoo/circlize


Note. FWIW write temporary files using tempfile() rather than getwd().

Best regards,

Marcel

On 8/3/21 4:10 AM, Giulia Pais wrote:
> Hope somebody can help with this.
> I�ve implemented a function in the package I�m developing that uses circlize. The function simply draws a basic circos plot with genomic densities, nothing fancy. Even if in my local dev environment I have no build issues, the build fails on all platforms when running the example in the documentation of such function, here are the details of the error http://bioconductor.org/checkResults/devel/bioc-LATEST/ISAnalytics/merida1-checksrc.html
>
> I have no clue how to fix this issue other than declare the example not runnable, does anybody have suggestions on this?
>
> Also, I noticed that sometimes Windows builds fail due to some tests that need to write temporary files on disk, should I skip such tests on Windows?
> Thank you
> Giulia Pais
>
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>
>
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---
Marcel Ramos
Bioconductor Core Team
Roswell Park Comprehensive Cancer Center
Dept. of Biostatistics & Bioinformatics
Elm St. & Carlton St.
Buffalo, New York 14263



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