[Bioc-devel] Incorrect warning about failing package built
Hi, Thanks a lot for the quick reply! Vignette is already fixed and committed. Kind regards, Johannes
On 01.02.24 22:24, Martin Grigorov wrote:
Hi,
On Thu, 1 Feb 2024 at 23:05, Jennifer Wokaty
<Jennifer.Wokaty at sph.cuny.edu <mailto:Jennifer.Wokaty at sph.cuny.edu>> wrote:
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.
I will take a look early next week!
Martin
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 at r-project.org
<mailto:bioc-devel-bounces at r-project.org>> on behalf of Johannes
Griss <johannes.griss at meduniwien.ac.at
<mailto:johannes.griss at meduniwien.ac.at>>
Sent: Thursday, February 1, 2024 3:18 PM
To: bioc-devel at r-project.org <mailto:bioc-devel at r-project.org>
<bioc-devel at r-project.org <mailto:bioc-devel at r-project.org>>
Subject: [Bioc-devel] Incorrect warning about failing package built
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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://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$ <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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