[Bioc-devel] FW: [EXTERNAL] SRAdb problems reported in the Multiple platform build/check report for BioC 3.21

[Zhu, Jack (NIH/NCI) [E]]

Hi,

I have been trying to fix the following error from the SRAdb building process at Bioconductor servers:

* installing to library ‘/home/biocbuild/bbs-3.21-bioc/R/site-library’
* installing *source* package ‘SRAdb’ ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
Error: object ‘gunzip’ is not exported by 'namespace:GEOquery'
Execution halted
ERROR: lazy loading failed for package ‘SRAdb’
* removing ‘/home/biocbuild/bbs-3.21-bioc/R/site-library/SRAdb’

Can you give me some suggestions?

Best,

Jack Zhu



From: BBS-noreply using bioconductor.org <BBS-noreply using bioconductor.org>
Date: Tuesday, November 26, 2024 at 12:02 PM
To: Zhu, Jack (NIH/NCI) [E] <zhujack using mail.nih.gov>
Subject: [EXTERNAL] SRAdb problems reported in the Multiple platform build/check report for BioC 3.21
[This is an automatically generated email. Please don't reply.]

Hi SRAdb maintainer,

According to the Multiple platform build/check report for BioC 3.21,
the SRAdb package has the following problem(s):

  o ERROR for 'R CMD INSTALL' on nebbiolo1. See the details here:
      https://gcc02.safelinks.protection.outlook.com/?url=https%3A%2F%2Fbioconductor.org%2FcheckResults%2F3.21%2Fbioc-LATEST%2FSRAdb%2Fnebbiolo1-install.html&data=05%7C02%7Czhujack%40mail.nih.gov%7C2d8e4de407b541632f3008dd0e3c23e1%7C14b77578977342d58507251ca2dc2b06%7C0%7C0%7C638682373642122376%7CUnknown%7CTWFpbGZsb3d8eyJFbXB0eU1hcGkiOnRydWUsIlYiOiIwLjAuMDAwMCIsIlAiOiJXaW4zMiIsIkFOIjoiTWFpbCIsIldUIjoyfQ%3D%3D%7C0%7C%7C%7C&sdata=6jBmvRWGUP3G3XsOPOJ3SXbiz09ymPILk1uPRX5W39w%3D&reserved=0<https://bioconductor.org/checkResults/3.21/bioc-LATEST/SRAdb/nebbiolo1-install.html>

  o ERROR for 'R CMD build' on nebbiolo1. See the details here:
      https://gcc02.safelinks.protection.outlook.com/?url=https%3A%2F%2Fbioconductor.org%2FcheckResults%2F3.21%2Fbioc-LATEST%2FSRAdb%2Fnebbiolo1-buildsrc.html&data=05%7C02%7Czhujack%40mail.nih.gov%7C2d8e4de407b541632f3008dd0e3c23e1%7C14b77578977342d58507251ca2dc2b06%7C0%7C0%7C638682373642139544%7CUnknown%7CTWFpbGZsb3d8eyJFbXB0eU1hcGkiOnRydWUsIlYiOiIwLjAuMDAwMCIsIlAiOiJXaW4zMiIsIkFOIjoiTWFpbCIsIldUIjoyfQ%3D%3D%7C0%7C%7C%7C&sdata=Mwh4DMRbOTqOZX9YwoUMC5ecabklRF0eyC3iFiFeq58%3D&reserved=0<https://bioconductor.org/checkResults/3.21/bioc-LATEST/SRAdb/nebbiolo1-buildsrc.html>

Please take the time to address this by committing and pushing
changes to your package at git.bioconductor.org

Notes:

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