[Bioc-devel] Fw: MultiAssayExperiment not found in docker devel image

Shepherd, Lori Lor|@Shepherd @end|ng |rom Ro@we||P@rk@org
Mon Aug 3 17:03:20 CEST 2020

Marcel or Nitesh?  This was sent to the issue bot.

Lori Shepherd

Bioconductor Core Team

Roswell Park Comprehensive Cancer Center

Department of Biostatistics & Bioinformatics

Elm & Carlton Streets

Buffalo, New York 14263

From: Joseph Gerrein <gerrein.joseph using gene.com>
Sent: Tuesday, July 28, 2020 11:03 AM
To: bioc-issue-bot using bioconductor.org <bioc-issue-bot using bioconductor.org>
Cc: Jerry (Zhijun) Tang <jtang using gene.com>; Lala Motlhabi <motlhabl using gene.com>
Subject: MultiAssayExperiment not found in docker devel image

Dear bioconductor team,

Hello! I would like to use MultiAssayExperiment in a preloaded bioconductor Docker container that does not require any package installations.  I loaded the docker devel image and also the Docker release 3_11 image (from https://hub.docker.com/r/bioconductor/bioconductor_docker/tags<https://secure-web.cisco.com/1CBV0e1ECW2oH221MZYDrB6ZGZnORfj8i0E9oO6_S0_SuOZu0RxuZrxoZW9vYhbr2tTlHVmXyKmcJ2WgF1J7h4raEyxj58wLe_inCrFX8GSAHS5ffkFppkFmgSUCPTs5LcxpjWSv_mte_V7N06JxxOoJUv5Pud1y9hdtxZESlOdfd1B_VXICfy1Q3I8_82FpVSfJui4CzuCYP49JynqpFLfB01cW6zEwv4Eog3D95hVXysXypD8GZJ4oxWykkGJ-9HtsYnLf01P6EtvTPcNaOur8hADTTJdvz6vJFIi0GES24GSiGjpYgIjRkYOsVcHQPTDx_94vh0mCcsOoa4zQ6EQ/https%3A%2F%2Fhub.docker.com%2Fr%2Fbioconductor%2Fbioconductor_docker%2Ftags>) into Docker desktop on my Windows machine. I wanted to use the MultiAssayExperiment and also SummarizedExperiment, but when I tried to load them using the library function they were not found. Are these docker images preloaded with MultiAssayExperiment?  Do you have any Docker images preloaded with MultiAssayExperiment that are well maintained and/or supported?

I loaded the docker image from the MultiAssayExperiment's/TCGA bioconductor 2020 workshop and I was able to load MultiAssayExperiment using the library function � https://hub.docker.com/r/mr148/multiassayworkshop<https://secure-web.cisco.com/13jSFAuYhSC2URJ4K7zjh4ouo3I63T-6Hw8z5s-Wr2qDEf5SxOaf6kXJP4pWIKe0noQlGgA_GF6LSHHKyxFSt_LM1tgF5_GxjeTCvWXAEtKc2CjiWbaWTzsGBmRYcDqguPf6o52KE_BuYnnGxWJ9_c0WMKjztdEXwZJvZU_cQqn1moo8yPoLpvkf3LXpcDYETRkPKUo6bEpeo3dXxR4sBarXMsI3Rbm9TP30eQM9M2XzFV6-eLG_otc5kS0QZA-wNooTaDtQMDLIouLRkIF1YUHDVDdO9S4MOMaIqNVd-cOLYzpSykcoMr4an7S0DWjLiXoRdO8b1AaEz5PxkLiApiw/https%3A%2F%2Fhub.docker.com%2Fr%2Fmr148%2Fmultiassayworkshop> - Is this container reliable and good to use in general for working with SummarizedExperiment and MultiAssayExperiment in bioconductor?



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