diff options
| -rw-r--r-- | .guix-channel | 20 | ||||
| -rw-r--r-- | .guix/modules/genenetwork2.scm | 45 | ||||
| -rw-r--r-- | README.md | 17 | ||||
| l---------[-rw-r--r--] | guix.scm | 25 |
4 files changed, 83 insertions, 24 deletions
diff --git a/.guix-channel b/.guix-channel new file mode 100644 index 00000000..6baeee2f --- /dev/null +++ b/.guix-channel @@ -0,0 +1,20 @@ +;; This file lets us present this repo as a Guix channel. + +(channel + (version 0) + (directory ".guix/modules") + (url "https://github.com/genenetwork/genenetwork2.git") ;the primary URL + (dependencies + (channel + (name guix-bioinformatics) + (url "https://gitlab.com/genenetwork/guix-bioinformatics.git")) + ;; This shouldn't be needed, it should be pulled in by guix-bioinformatics. + (channel + (name guix-past) + (url "https://gitlab.inria.fr/guix-hpc/guix-past") + (introduction + (channel-introduction + (version 0) + (commit "0c119db2ea86a389769f4d2b9c6f5c41c027e336") + (signer + "3CE4 6455 8A84 FDC6 9DB4 0CFB 090B 1199 3D9A EBB5")))))) diff --git a/.guix/modules/genenetwork2.scm b/.guix/modules/genenetwork2.scm new file mode 100644 index 00000000..46814c37 --- /dev/null +++ b/.guix/modules/genenetwork2.scm @@ -0,0 +1,45 @@ +;; Make sure you have the +;; https://git.genenetwork.org/guix-bioinformatics/guix-bioinformatics +;; channel set up. +;; +;; To drop into a development environment, run +;; +;; guix shell -Df guix.scm +;; +;; To get a development environment in a container, run +;; +;; guix shell -C -Df guix.scm + +(define-module (genenetwork2)) +(use-modules (gn packages genenetwork) + (guix gexp) + (guix utils) + (guix git-download) + (guix packages) + (ice-9 popen) + (ice-9 rdelim)) + +(define %source-dir + (string-append (current-source-directory) + "/../..")) + +;; This isn't kept up-to-date. +(define %version + (call-with-input-file (string-append %source-dir "/VERSION") + (lambda (port) + (read-line port)))) + +(define (%version package) + (or (version-major+minor+point (package-version package)) + (version-major+minor (package-version package)))) + +(define-public genenetwork2-head + (package + (inherit genenetwork2) + (version (string-append (%version genenetwork2) "-HEAD")) + (source (local-file %source-dir "genenetwork2-checkout" + #:recursive? #t + #:select? (or (git-predicate %source-dir) + (const #t)))))) + +genenetwork2-head @@ -26,6 +26,23 @@ git and sending us pull requests. For development GN2 has a room on matrix. Ask us for an invitation. +## Installing development snapshots with Guix + +The Genenetwork repository can be used as a Guix “channel”. To do that, change +~/.config/guix/channels.scm along these lines: + + (append (list (channel + (name 'genenetwork2) + (url "https://github.com/genenetwork/genenetwork2.git"))) + %default-channels) + + Once that is done, run ‘guix pull’. This will give you additional ‘genenetwork2’ + packages with higher version numbers: + + guix package -A genenetwork2 + + You can then install it with ‘guix install genenetwork2’ or similar. + ## License The GeneNetwork2 source code is released under the Affero General @@ -1,24 +1 @@ -;; Make sure you have the -;; https://git.genenetwork.org/guix-bioinformatics/guix-bioinformatics -;; channel set up. -;; -;; To drop into a development environment, run -;; -;; guix shell -Df guix.scm -;; -;; To get a development environment in a container, run -;; -;; guix shell -C -Df guix.scm - -(use-modules (gn packages genenetwork) - (guix gexp) - (guix git-download) - (guix packages)) - -(define %source-dir (dirname (current-filename))) - -(package - (inherit genenetwork2) - (source (local-file %source-dir "genenetwork2-checkout" - #:recursive? #t - #:select? (git-predicate %source-dir)))) +.guix/modules/genenetwork2.scm
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