[Bioc-devel] Reference ExperimentHub package in statistical package
In the review process, that is why we ask to submit related packages under the same issue. They will be installed in the same location and available for testing before being added to the official Bioconductor repositories (once officially added available through BiocManager::install) You can use the github link for testing on your machine, But put the data package as an appropriate Import/Suggests (or Depends) in the DESCRIPTION/NAMESPACE before submitting to Bioconductor issue review. Cheers, Lori Shepherd 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 Murphy, Alan E <a.murphy at imperial.ac.uk>
Sent: Tuesday, February 23, 2021 8:42 AM
To: bioc-devel at r-project.org <bioc-devel at r-project.org>
Subject: [Bioc-devel] Reference ExperimentHub package in statistical package
Sent: Tuesday, February 23, 2021 8:42 AM
To: bioc-devel at r-project.org <bioc-devel at r-project.org>
Subject: [Bioc-devel] Reference ExperimentHub package in statistical package
Hi, I have submitted an ExperimentHub package ewceData to Bioconductor's Github for consideration here<https://secure-web.cisco.com/1UiX2YuztUVWUNVK0ym1BedqiDd81hYT0MWhD3sDFwbSDeWBfceE9dWu-etH6ZOMHPk1jW7Q17klFgksgEvGQSRHWRaYepITW-mlplfa3FItmoxXmOIThBy2_y_FCxbGrk6u5Mhl-Q_zA4rLPsZEVsSiEiLBF1s74fR_QcpClLEttSeOb9b5gH7j3PBDRQBey5i-g8Q0B5_eJV90rUOK3-93GA6D2X49oFEr_IK67L9-jWp2YjWHHmYyoA0gsD0H7NFmOrHGcOFn6MaKwNv2IMOgNJVdTFwqghfjSsjscdzftdaGiZpDgzeW6IRL4uDmc/https%3A%2F%2Fgithub.com%2FBioconductor%2FContributions%2Fissues%2F1904>. I am next going to append a link to my statistical package repository once the status is updated to 'review in progress'. I am following the guide here: https://secure-web.cisco.com/1Rto12LHxuVZvUgkhdKrWIgiMxvd6I2XOm9uhiO68XXYS8eRGc7o4InpcMM0B3oIGTHQx-zcyRfhxZhiDRjU-OW8mXl-QDHu0NHlkKXnPRjW1wI4Loeq6Hw5t8ysh4dWe9W6zNDnR7oWhlbIaEUT5DoeMfM04_s-hdiDgBfpV6hGEvNDJ66Zaflc1-ujRJdQ682wTnp16bm6uiGILMpQXriqc83KAiByrV2Cw9IO86lnlzKHrM5HUJ2tbMBTzWJLlswkFytJWh88C8b44R-m0OhEU7ONeJLaUeYJfeGobjJeEnakXKJusVr457r0MDlEl/https%3A%2F%2Fgithub.com%2FBioconductor%2FContributions%23submitting-related-packages In the meantime, I want to ensure that the statistical package doesn't fail any checks based on the use of the ExperimentHub package ewceData. However, I don't know how to reference ewceData for use in my statistical package? I need the data from ewceData for both the vignette but also in some functions. I am running the devel version of Bioconductor (BiocVersion 3.13) and as such thought ewceData would be available there but the following fails: BiocManager::install("ewceData") What is the best practice way to do this? I could install reference the Github repository for ewceData in my statistical package but I imagine this would cause many issues down the line? Kind regards, Alan. Alan Murphy Bioinformatician Neurogenomics lab UK Dementia Research Institute Imperial College London [[alternative HTML version deleted]] _______________________________________________ Bioc-devel at r-project.org mailing list https://secure-web.cisco.com/1lLipFTJaIM4HcNhlQ9YIoQ7782RZspjwam5EGELT26kzOYwESLTfUNXoW5hyIjZX5W9q607U7E7as8Iyn2khfQeOfPxHPNEZT_ad_SKYr6YFDTjK-VWxjfud2vD8aGnVHk1ZFOYFEdpm9hvssKeMRGqWzveBYgOWfFi11CGULxyDWHyGjppJANsDt4g60admYPhpPwBBC9IteBfweuCBdE3xaZpnHBZhJaHNq0KGCE28kV6v8ZV2vkNvRyTxRjOkIrdxXuXyXbd78q-M1Wlq9tSJsJgqyHp__t0BY_WGT1nK3XgXZgr3yxqKhPQhq8t-/https%3A%2F%2Fstat.ethz.ch%2Fmailman%2Flistinfo%2Fbioc-devel This email message may contain legally privileged and/or confidential information. If you are not the intended recipient(s), or the employee or agent responsible for the delivery of this message to the intended recipient(s), you are hereby notified that any disclosure, copying, distribution, or use of this email message is prohibited. If you have received this message in error, please notify the sender immediately by e-mail and delete this email message from your computer. Thank you.