[Bioc-devel] Error on BiocCheckGitClone and Windows build

[Oluwafemi OLUSOJI]

Hello Lori,

Thank you for your insight. I figured out it pays to expressly state that
those files not be tracked and committed.

I have re-submitted for a new build but I am not getting any notification
on the issues page as written out on the Bioconductor website. Is there a
reason for this?

Regards,
Daniel

Op ma 1 mrt. 2021 om 19:51 schreef Kern, Lori <Lori.Shepherd using roswellpark.org
>:

> Please feel free to also comment directly on your issue for your reviewer
> to assist.
>
> The packages not being available on windows is likely on our end and you
> can ignore for now.
>
> System files should not be git tracked. They should be remove using git
> remove and then committed up.
> git rm <file>
> git commit -a
>
> Cheers,
>
>
> Lori Shepherd
>
> Bioconductor Core Team
>
> Roswell Park Comprehensive Cancer Center
>
> Department of Biostatistics & Bioinformatics
>
> Elm & Carlton Streets
>
> Buffalo, New York 14263
> ------------------------------
> *From:* Bioc-devel <bioc-devel-bounces using r-project.org> on behalf of
> Oluwafemi OLUSOJI <oluwafemi.olusoji using uhasselt.be>
> *Sent:* Monday, March 1, 2021 12:12 PM
> *To:* bioc-devel using r-project.org <bioc-devel using r-project.org>
> *Subject:* [Bioc-devel] Error on BiocCheckGitClone and Windows build
>
> Dear All,
>
> I recently submitted a package to Bioconductor and got this error message
> as part of the reply email. I am not sure what to do about it.
>
> The two files are git tracked,  but they are also named in .Rbuildignore so
> I felt they should have been avoided. This is my first experience with
> Bioconductor so any help would be appreciated.
>
> Furthermore, there are errors related to dependencies on the windows build.
> Should I worry about these?
>
> Regards,
> Olusoji Oluwafemi Daniel
>
> ###### Error Related to Windows test build ####
>
> ===============================
>
>  R CMD BUILD
>
> ===============================
>
> * checking for file 'cyanoFilter/DESCRIPTION' ... OK
> * preparing 'cyanoFilter':
> * checking DESCRIPTION meta-information ... OK
> * installing the package to build vignettes
>       -----------------------------------
> ERROR: dependencies 'flowCore', 'flowDensity' are not available for
> package 'cyanoFilter'
> * removing
> 'C:/Users/pkgbuild/AppData/Local/Temp/Rtmp0gaTHW/Rinst8fd05a8549f/cyanoFilter'
>       -----------------------------------
> ERROR: package installation failed
>
>
> ####### Error related to git tracked files #####
>
> This is BiocCheckGitClone version 1.27.2. BiocCheckGitClone is a work
> in progress. Output and severity of issues may change.
> * Checking valid files...
>     * ERROR: System Files found that should not be git tracked:
>         .Renviron
>         cyanoFilter.Rproj
> * Checking DESCRIPTION...
> * Checking if DESCRIPTION is well formatted...
> * Checking for valid maintainer...
> * Checking CITATION...
>
>         [[alternative HTML version deleted]]
>
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