diff options
Diffstat (limited to 'guix.scm')
| -rw-r--r-- | guix.scm | 28 |
1 files changed, 20 insertions, 8 deletions
@@ -17,6 +17,17 @@ ;;; You should have received a copy of the GNU General Public License ;;; along with genenetwork3. If not, see https://www.gnu.org/licenses/. +;; To use this file to build HEAD of gemma: +;; +;; env GUIX_PACKAGE_PATH=~/guix-bioinformatics/ guix build -f guix.scm +;; +;; After checking out the git repo +;; cd ~ ; git clone https://git.genenetwork.org/guix-bioinformatics/guix-bioinformatics +;; +;; To get a development container (e.g., run in emacs shell). +;; +;; env GUIX_PACKAGE_PATH=~/guix-bioinformatics/ guix environment -C -l guix.scm + (use-modules (srfi srfi-1) (srfi srfi-26) @@ -27,10 +38,12 @@ (gn packages python) (gnu packages base) (gnu packages check) + (gnu packages graph) (gnu packages cran) (gnu packages databases) (gnu packages statistics) (gnu packages bioconductor) + (gn packages golang) (gnu packages python) (gnu packages python-check) (gnu packages python-crypto) @@ -70,8 +83,9 @@ #:recursive? #t #:select? git-file?)) (propagated-inputs `(("coreutils" ,coreutils) - ("diffutils" ,diffutils) + ("csvdiff" ,go-github-com-aswinkarthik-csvdiff) ("gemma-wrapper" ,gemma-wrapper) + ("gunicorn" ,gunicorn) ("python" ,python-wrapper) ("python-bcrypt" ,python-bcrypt) ("python-flask" ,python-flask) @@ -84,15 +98,13 @@ ("python-redis" ,python-redis) ("python-requests" ,python-requests) ("python-scipy" ,python-scipy) - ("python-sqlalchemy-stubs" ,python-sqlalchemy-stubs) - ("r" ,r) - ("r-qtl" ,r-qtl) + ("python-sqlalchemy-stubs" + ,python-sqlalchemy-stubs) ("r-optparse" ,r-optparse) + ("r-qtl" ,r-qtl) ("r-stringi" ,r-stringi) - ("r-stringr" ,r-stringr) - ("r-testthat" ,r-testthat) - ("r-wgcna" ,r-wgcna) - )) + ("python-plotly" ,python-plotly) + ("python-pandas" ,python-pandas))) (build-system python-build-system) (home-page "https://github.com/genenetwork/genenetwork3") (synopsis "GeneNetwork3 API for data science and machine learning.") |