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authorpjotrp2016-02-08 11:22:45 +0100
committerpjotrp2016-02-08 11:22:45 +0100
commit7705462a70d17f65bf34a158ea76f100b56582c8 (patch)
tree321577538181f3679435611ea2f76b3d640b372e
parentcb484b136f8d2115361d90a96a7da2472d2ef621 (diff)
downloadgenenetwork2-7705462a70d17f65bf34a158ea76f100b56582c8.tar.gz
Guix: installation notes
-rw-r--r--doc/GUIX-Reproducible-from-source.org35
-rw-r--r--doc/README.org28
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diff --git a/doc/GUIX-Reproducible-from-source.org b/doc/GUIX-Reproducible-from-source.org
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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
+
diff --git a/doc/README.org b/doc/README.org
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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
+
+* 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