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diff --git a/doc/README.org b/doc/README.org index 375a5d20..d9730948 100644 --- a/doc/README.org +++ b/doc/README.org @@ -3,6 +3,7 @@ * Table of Contents :TOC: - [[#introduction][Introduction]] - [[#binary-deployment-wip][Binary deployment (WIP)]] + - [[#install-genenetwork-server][Install genenetwork server]] - [[#run-mysql-server][Run MySQL server]] - [[#start-the-gn2-server][Start the GN2 server]] - [[#source-deployment-and-other-information-on-reproducibility][Source deployment and other information on reproducibility]] @@ -16,7 +17,27 @@ explain the GeneNetwork deployment system which is based on GNU Guix * Binary deployment (WIP) GN can be deployed either as a binary tarball or as a GNU Guix -package. +package. First install GNU Guix following the instructions of the +[[https://www.gnu.org/software/guix/manual/html_node/Binary-Installation.html#Binary-Installation][binary installation]] using a tar ball from [[https://www.gnu.org/software/guix/download/][here]] and, update guix with a +'guix pull' and make guix visible in the path. More information +exists also in my [[https://github.com/pjotrp/guix-notes/blob/master/INSTALL.org][guix-notes]]. + +With guix running you should be able to install python, for example. + +: guix package -i python2 + +This will make python appear in $HOME/.guix-profile/bin/python. Suggested +environment settings can be seen with + +: guix package --search-paths + +** Install genenetwork server + +Fetch the nar file and install it after adding the key with, for +example + +: cat signing-key.pub |.guix-profile/bin/guix archive --authorize +: guix archive --import < guix_gn2-2.0-9e9475053.nar ** Run MySQL server |