[Bioc-devel] Fwd: SpliceWiz problems reported in the Multiple platform build/check report for BioC 3.19

Mon Jul 1 16:28:44 CEST 2024

I went on the builders to investigate and there is no such cache at that location.  It seems like the cache is either not being created at all or is not being created where you think it is.

Lori Shepherd - Kern

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 Alex Wong via Bioc-devel <bioc-devel using r-project.org>
Sent: Friday, June 28, 2024 9:27 PM
To: bioc-devel using r-project.org <bioc-devel using r-project.org>
Subject: [Bioc-devel] Fwd: SpliceWiz problems reported in the Multiple platform build/check report for BioC 3.19

Hi there,

I am getting errors in the SpliceWiz build on BIoc 3.19. However I cannot
reproduce this issue on our local server using the bioconductor docker.

The vignette failure appears to be due to a section of code that fetches a
cached data file using BiocFileCache. The data files are downloaded on
first use, and then recalled from cache on subsequent uses.

Given the code has failed on a step that reads a cached file (it throws an
error on bioconductor servers, but cannot be reproduced locally), I highly
suspect the issue is with corrupt cached files on the bioc servers

Could the administrators manually remove the SpliceWiz cache to see whether
this is the issue? The SpliceWiz cache is located in
tools::R_user_dir(package = "SpliceWiz", which = "cache")

Thanks in advance,

Alex

---------- Forwarded message ---------
From: <BBS-noreply using bioconductor.org>
Date: Sat, 29 Jun 2024 at 09:00
Subject: SpliceWiz problems reported in the Multiple platform build/check
report for BioC 3.19
To: <a.wong using centenary.org.au>

[This is an automatically generated email. Please don't reply.]

Hi SpliceWiz maintainer,

According to the Multiple platform build/check report for BioC 3.19,
the SpliceWiz package has the following problem(s):

  o ERROR for 'R CMD build' on nebbiolo1. See the details here:

https://secure-web.cisco.com/1e8lcf3mAVvr-IJ2EkKaQD4b_mU7GnHCzu3_VG4r9l29HL6xPa-bkdx1Kqu4IflM7BcILp7sRXBgMPQM6KE-S4pMU9KWKp72N2xgGFaeOfO4TMhjlxNXXS_WTcCcorVsCSSne6HUnG2-C9i9mHjZFXuGNQFng7XXoQtcGYzc47cLOYuMhaPKKlZW7KvtM94utUMK5enxPi0Ae0Y4HBXBnN5CztoOZJVNDuhT5jAZxUrG86VskDXCcTdlpEyW2Jbpy7wfiicV11PvuhRGuz4gov3uolZgxGcHmSwpMrCHg-INBqK3jnyudSfksE3myEPLm/https%3A%2F%2Fbioconductor.org%2FcheckResults%2F3.19%2Fbioc-LATEST%2FSpliceWiz%2Fnebbiolo1-buildsrc.html

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

Notes:

  * This was the status of your package at the time this email was sent to
you.
    Given that the online report is updated daily (in normal conditions) you
    could see something different when you visit the URL(s) above,
especially if
    you do so several days after you received this email.

  * It is possible that the problems reported in this report are false
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For immediate notification of package build status, please
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Thanks for contributing to the Bioconductor project!

--

*Alex Wong BSc(Med)/MBBS FRACP FRCPA PhD*
Research Officer, Gene and Stem Cell Therapy Program, Centenary Institute

--
 <https://secure-web.cisco.com/16sRcXFPv0s6hsbmEC6Nv9JsGdxMRTi2XTSSXTAK8g24XkXXULfMHtzvNX8aDZeBiEHI6NtUZEwATfqUumr0IjwsmXrRBWmTBseh8EsAa8igU6r9LZlcdCe9CQArva9opPnMOPXIK_CoviLa5Ar2_tDvUiMxDzWhLIEclP-FAcVVjIillisB4xKGFUsj1Wr204him0CswMYNy0D4tBFKGB3Va-b6KaXYqRgBMHKCbiiKVi0ammqO7qF6MuvaS9p5kR4ieA2CEHl3JmiBEMesPmkoG2eJtHskFp4vmsArtg5V7IWOcY3C3EfKZkLfOOUB5/https%3A%2F%2Fwww.centenary.org.au>

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