1 files changed, 20 insertions, 8 deletions
diff --git a/guix.scm b/guix.scm
index f20d62a..729d089 100644
--- a/guix.scm
+++ b/guix.scm
@@ -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.")