[Bioc-devel] external dependencies
Dear Lori, Thanks a lot for the clarification. I will incorporate os checks in my unit tests and examples. Thanks, Anna On 2 October 2017 at 12:30, Shepherd, Lori <Lori.Shepherd at roswellpark.org> wrote:
You can still submit to bioconductor despite this limitation. You could also do a os check in the examples and tests that fail on windows and make a comment that this is the case. If the program is not meant to run in windows there is options to handle that as well and the review assigned to you can assist you with this. If you feel the package is otherwise ready to submit to Bioconductor for review I would proceed. https://github.com/Bioconductor/Contributions Lori Shepherd Bioconductor Core Team Roswell Park Cancer Institute Department of Biostatistics & Bioinformatics Elm & Carlton Streets Buffalo, New York 14263 ------------------------------ *From:* Bioc-devel <bioc-devel-bounces at r-project.org> on behalf of Anna Gogleva <gogleva.a.a at gmail.com> *Sent:* Monday, October 2, 2017 5:36:57 AM *To:* bioc-devel at r-project.org *Subject:* [Bioc-devel] external dependencies Dear Bioconductor Team, I have written a package and was planning to submit it to Bioconductor one day. The package provides a set of wrapper functions around several existing command line tools to construct scalable and reproducible pipelines for secretome prediction. The package requires several external system dependencies to be installed in order to work (listed in the SystemRequirements filed). I have a top-level README describing in detail how to install the required dependencies and a shell script to automate this process. The thing is, some of the external dependencies were not designed to work on Windows - causing certain unit tests and examples to fail during the automatic R CMD check on Windows. I have run R CMD check on Mac and Linux and the package passes without errors, warnings or notes. It also satisfies the remaining requirements from the recommended package checklist. What would be the best way to proceed? Would it be still ok to submit the package though it is not fully functional on Windows due to unavailability of certain external dependencies? Thank you for your advice, Anna Gogleva [[alternative HTML version deleted]]
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