From 04c25fe599e568499769f67f43f7af6c2ab3298b Mon Sep 17 00:00:00 2001
From: Pjotr Prins
Date: Thu, 5 Sep 2019 03:48:35 -0500
Subject: Reaper

---
 gn/packages/genenetwork.scm | 44 +++-----------------------------------------
 1 file changed, 3 insertions(+), 41 deletions(-)

(limited to 'gn/packages')

diff --git a/gn/packages/genenetwork.scm b/gn/packages/genenetwork.scm
index 5f18c69..501b300 100644
--- a/gn/packages/genenetwork.scm
+++ b/gn/packages/genenetwork.scm
@@ -114,10 +114,10 @@
     (license license:agpl3+))))
 
 (define-public python2-qtlreaper
-  (let ((commit "dd9c7fb2a9d5fa40b4054e1bcb7c57905d98d5f8"))
+  (let ((commit "442c217b90393380a8634ff8636b44992f5c53dd"))
   (package
     (name "python2-qtlreaper")
-    (version (string-append "1.1-gn2-" (string-take commit 7) ))
+    (version (string-append "1.11-gn2-" (string-take commit 7) ))
     (source (origin
              (method git-fetch)
              (uri (git-reference
@@ -127,7 +127,7 @@
              (file-name (string-append name "-" (string-take commit 7)))
              (sha256
               (base32
-               "1ldcvyk8y8w6f4ci04hzx85sknd5a3h424p5bfi4fz32sm2p7fja"))))
+               "1rrbm1ap2zzyjxmrs9aa1d18sgiba5dhj1fmkl7wmab06jv3j1hm"))))
     (build-system python-build-system)
     (arguments
      `(#:python ,python-2
@@ -181,44 +181,6 @@ bootstrap resampling to estimate the confidence region for the
 location of a putative QTL.")
     (license license:gpl2+))))
 
-(define-public python-qtlreaper
-  (let ((commit "dd9c7fb2a9d5fa40b4054e1bcb7c57905d98d5f8"))
-  (package
-    (name "python-qtlreaper")
-    (version (string-append "1.1-gn2-" (string-take commit 7) ))
-    (source (origin
-             (method git-fetch)
-             (uri (git-reference
-                   ;; (url "https://github.com/genenetwork/genenetwork2.git")
-                   (url "https://github.com/pjotrp/QTLreaper.git")
-                   (commit commit)))
-             (file-name (string-append name "-" (string-take commit 7)))
-             (sha256
-              (base32
-               "1ldcvyk8y8w6f4ci04hzx85sknd5a3h424p5bfi4fz32sm2p7fja"))))
-    (build-system python-build-system)
-    (arguments
-     `(#:phases
-       (modify-phases %standard-phases
-         (add-after
-          'unpack 'fix-tests
-          (lambda* (#:key inputs #:allow-other-keys)
-            (substitute* '("./test/example1.py" "./test/example2.py")
-              (("/usr/bin/python") (which "python3"))))))
-       #:tests? #f))   ; no 'setup.py test' really!
-    (home-page "http://qtlreaper.sourceforge.net/")
-    (synopsis "Scan expression data for QTLs")
-    (description
-     "Batch-oriented version of WebQTL. It requires, as input,
-expression data from members of a set of recombinant inbred lines and
-genotype information for the same lines.  It searches for an
-association between each expression trait and all genotypes and
-evaluates that association by a permutation test.  For the permutation
-test, it performs only as many permutations as are necessary to define
-the empirical P-value to a reasonable precision. It also performs
-bootstrap resampling to estimate the confidence region for the
-location of a putative QTL.")
-    (license license:gpl2+))))
 
 (define-public rust-qtlreaper
   (let ((commit "2e7fed6d45b0b602d80fa2a55835f96ef1cba9e3")
-- 
cgit v1.2.3