Hi, I can confirm it did clean up – thanks for your help!
Cheers Matteo Tiberti Danish Cancer Institute Strandboulevarden 49 DK-2100 Copenhagen Telephone: +45 35 25 73 07 – a part of the Danish Cancer Society [An image showing the Danish Cancer Society's name and logo called the bow in red font. Displayed in red]<https://www.cancer.dk/?utm_source=email&utm_medium=medarbejderemail&utm_campaign=medarbejderemail&utm_content=cancerdk> www.cancer.dk<https://www.cancer.dk/international/> | Our privacy policy<https://www.cancer.dk/om-os/privatlivspolitik/> From: Kern, Lori <lori.sheph...@roswellpark.org> Date: Monday, 11 March 2024 at 17.16 To: bioc-devel@r-project.org <bioc-devel@r-project.org>, Matteo Tiberti <tibe...@cancer.dk> Subject: Re: AnnotationHub corrupted cache on nebbiolo1 I noticed that as well and just did the necessary steps to clean the cache. I expect this to clean up 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-boun...@r-project.org> on behalf of Matteo Tiberti via Bioc-devel <bioc-devel@r-project.org> Sent: Monday, March 11, 2024 12:11 PM To: bioc-devel@r-project.org <bioc-devel@r-project.org> Subject: [Bioc-devel] AnnotationHub corrupted cache on nebbiolo1 Dear BioC developers, We are getting a strange test fail for our Moonlight2R package when tests are run on nebbiolo1 (Linux) only: ERROR Running the tests in ‘tests/testthat.R’ failed. Last 13 lines of output: Error: Corrupt Cache: index file See AnnotationHub's TroubleshootingTheHubs vignette section on corrupt cache cache: /home/biocbuild/.cache/R/AnnotationHub filename: annotationhub.index.rds Backtrace: ▆ 1. └─Moonlight2R::DMA(...) at test-DMA.R:14:1 2. └─Moonlight2R::LiftMAF(Infile = mut_only, Current_Build = "GRCh38") 3. └─AnnotationHub::AnnotationHub() 4. └─AnnotationHub::.Hub(...) 5. └─AnnotationHub:::.db_create_index(hub) This doesn’t happen to us when testing locally, so we were wondering if there’s any problem on the builder or is it anything we can fix ourselves? Many thanks Matteo Tiberti Danish Cancer Institute Strandboulevarden 49 DK-2100 Copenhagen Telephone: +45 35 25 73 07 – a part of the Danish Cancer Society [An image showing the Danish Cancer Society's name and logo called the bow in red font. 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