[Bioc-devel] Build error in nebbiolo1 for package BgeeCall
I redownloaded the resource that was causing the error ah_resources[["AH50453"]] It should resolve on the next build. 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 at r-project.org> on behalf of Julien Wollbrett <julien.wollbrett at unil.ch>
Sent: Monday, August 5, 2024 7:45 AM
To: bioc-devel at r-project.org <bioc-devel at r-project.org>
Subject: [Bioc-devel] Build error in nebbiolo1 for package BgeeCall
Sent: Monday, August 5, 2024 7:45 AM
To: bioc-devel at r-project.org <bioc-devel at r-project.org>
Subject: [Bioc-devel] Build error in nebbiolo1 for package BgeeCall
Hello,
I am the maintainer of the BgeeCall package. There is an issue in the build of the package on nebbiolo1 since at least the last Bioconductor release.
The error comes from the vignette when I try to load data from the AnnotationHub package. I am not able to reproduce the error locally. Do you have any idea what the problem could be?
block of code that produce the error:
library(AnnotationHub)
library(rtracklayer)
ah <- AnnotationHub()
ah_resources <- query(ah, c("Ensembl", "Caenorhabditis elegans", "84"))
annotation_object <- ah_resources[["AH50789"]]
# remove MtDNA not tag as C. elegans genome
annotation_object <- dropSeqlevels(annotation_object, "MtDNA", "coarse")
transcriptome_object <- import.2bit(ah_resources[["AH50453"]])
The error message is :
Quitting from lines 94-102 [unnamed-chunk-4] (bgeecall-manual.Rmd)
Error: processing vignette 'bgeecall-manual.Rmd' failed with diagnostics:
UCSC library operation failed
Best Regards,
Julien Wollbrett
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