Hi, ?biocLite" will stay deprecated for R version 3.5.2. Please note that the issue is not with ?biocLite" but with ?mmnet". ?mmnet? has been deprecated for R-3.5.z and is defunct for R-3.6.z. There are other workaround solutions to this, where you may install the package from the tarball (https://www.bioconductor.org/packages/3.5/bioc/src/contrib/mmnet_1.13.0.tar.gz) using, R CMD INSTALL mmnet_1.13.0 This way, you can have the latest release version of R and have all packages up-to date except for ?mmnet?. But I think this question is better served answered in Bioc-devel. So I am forwarding the email. Best, Nitesh
On Dec 26, 2018, at 8:26 AM, osama ali <bioosama at aucegypt.edu> wrote: Dear Support Team Can I ask to have "biocLite" package not deprecated in R version 3.5.2 since I would like to use "mmnet" package in my metagenomic analysis in R by accessing my account in Mg-RAST server. I am not an experienced user but I get the following warning each time I call "biocLite()": "Warning messages: 1: 'biocLite' is deprecated. Use 'BiocManager::install' instead." I appreciate your kind support to solve this problem. Thank you very much Osama Osama S. Ali, MSc. Technical Operations Manager Biology Department, The American University in Cairo. AUC Avenue, P.O. Box 74 New Cairo 11835, Egypt. tel.: 20.2.2615.2914 fax: 20.2.2795.7565 www.aucegypt.edu
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