[Bioc-devel] Incorrect warning about failing package built

[Jennifer Wokaty]

Hi Johannes,

Looking at R CMD Check on devel, it looks like you're missing a `library(ReactomeGSA)` in reanalysing-public-data.Rmd, which is why it doesn't find the function `get_public_species()`. We only build the vignettes on the Linux builders, which this error is only caught there.

Regarding the error kunpeng2, we could ask its maintainer to install ReactomeGSA.data, which appears to be missing. If this happens again, you can reach out to Martin on the Bioc Community Slack channel #arm-linux. He's very active and responsive.

Lastly, regarding the notification that happened on the 2024/01/08, it's possible that it failed due to an issue with another package at that time which has since been resolved.


Jennifer Wokaty (they/them)

Waldron Lab at CUNY SPH
Bioconductor Core Team
________________________________
From: Bioc-devel <bioc-devel-bounces using r-project.org> on behalf of Johannes Griss <johannes.griss using meduniwien.ac.at>
Sent: Thursday, February 1, 2024 3:18 PM
To: bioc-devel using r-project.org <bioc-devel using r-project.org>
Subject: [Bioc-devel] Incorrect warning about failing package built

* This email originates from a sender outside of CUNY. Verify the sender before replying or clicking on links and attachments. *

Hello,

I just received a second warning the our package ReactomeGSA is failing
in both release and devel on all platforms.

Quickly checking the respective reports shows that this is not the case:

https://nam02.safelinks.protection.outlook.com/?url=https%3A%2F%2Furldefense.com%2Fv3%2F__https%3A%2F%2Fbioconductor.org%2FcheckResults%2Frelease%2Fbioc-LATEST%2FReactomeGSA%2F__%3B!!PxiZbSOawA!M-1zUaRSf4H_CKYUyhpGNOS9X3o9oI8ig_h2rck5yvFPc1mC4nbUNsLfyxRJNMbhmsAGjnS4E9GoK_LE2uqmKM0fkPMpu89nUSA0e-zXx6o%24&data=05%7C02%7Cjennifer.wokaty%40sph.cuny.edu%7C0e7c021440214cf1ba5708dc2362f85a%7C6f60f0b35f064e099715989dba8cc7d8%7C0%7C0%7C638424155200958363%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C0%7C%7C%7C&sdata=tbYEx3lk0V%2BBLNUdbLHtclDpeGm9sq5W7Tv9lK%2BnNx8%3D&reserved=0<https://urldefense.com/v3/__https://bioconductor.org/checkResults/release/bioc-LATEST/ReactomeGSA/__;!!PxiZbSOawA!M-1zUaRSf4H_CKYUyhpGNOS9X3o9oI8ig_h2rck5yvFPc1mC4nbUNsLfyxRJNMbhmsAGjnS4E9GoK_LE2uqmKM0fkPMpu89nUSA0e-zXx6o$>
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On release we have no errors or warnings at all, on devel, everything is
fine in two instances while the others seem to have issues that we will
look into.

Is there anything I can do to fix that?

Kind regards,
Johannes

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