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authorLei Yan2016-02-25 16:42:15 +0000
committerLei Yan2016-02-25 16:42:15 +0000
commite55f38a72d47fbdf5f652a08e8da1db78f1dcdb5 (patch)
tree68161b76858cf72f7a7b5576de6384042e214d8e /doc/GUIX-Reproducible-from-source.org
parent7263c52a7d903a2dbdd5d05411821ec960961b4d (diff)
parentece60a2d25ed71980121ac1c1854c3ab3514f453 (diff)
downloadgenenetwork2-e55f38a72d47fbdf5f652a08e8da1db78f1dcdb5.tar.gz
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+#+TITLE: Installing GeneNetwork services with GNU Guix
+
+* Table of Contents :TOC:
+ - [[#introduction][Introduction]]
+ - [[#binary-deployment][Binary deployment]]
+ - [[#from-source-deployment][From source deployment]]
+
+* Introduction
+
+Large system deployments tend to get very complex. In this document we
+explain the GeneNetwork deployment system which is based on GNU Guix
+(see Pjotr's [[https://github.com/pjotrp/guix-notes/blob/master/README.md][Guix-notes]]).
+
+* Binary deployment
+
+NYA (will go to README)
+
+* From source deployment
+
+GNU Guix allows for [[https://github.com/pjotrp/guix-notes/blob/master/REPRODUCIBLE.org][reproducible deployment]] based on a checked out
+Guix repository - use gn-stable for that:
+
+#+begin_src sh :lang bash
+mkdir genenetwork
+cd genenetwork
+git checkout https://github.com/genenetwork/guix.git gn-stable-guix
+git checkout https://github.com/genenetwork/guix-bioinformatics.git
+#+end_src
+
+Next build guix (and run) following the instructions in [[https://github.com/pjotrp/guix-notes/blob/master/INSTALL.org#building-gnu-guix-from-source-using-guix][guix-notes]].
+
+Once that is done we can add the guix-bioinformatics path with
+
+: env GUIX_PACKAGE_PATH=../guix-bioinformatics ./pre-inst-env guix package -A slurm
+