From 4a177f3666b4bc3936a1d6e94f888feddcaa3d31 Mon Sep 17 00:00:00 2001
From: Arun Isaac
Date: Mon, 11 Mar 2024 19:07:08 +0000
Subject: gn: Add python-cwltool.

* gn/packages/cwl.scm (python-cwltool): New variable.
---
 gn/packages/cwl.scm | 15 ++++++++++++++-
 1 file changed, 14 insertions(+), 1 deletion(-)

diff --git a/gn/packages/cwl.scm b/gn/packages/cwl.scm
index a327187..96dad02 100644
--- a/gn/packages/cwl.scm
+++ b/gn/packages/cwl.scm
@@ -4,7 +4,8 @@
   #:use-module (guix packages)
   #:use-module (guix build-system python)
   #:use-module (gnu packages)
-  #:use-module (gnu packages bioinformatics))
+  #:use-module (gnu packages bioinformatics)
+  #:use-module (gnu packages node)
 
 
 (define-public cwl-runner
@@ -28,3 +29,15 @@
      "Common workflow language alternate entry point to allow cwl-runner 
 script as an implementation-agnostic script interpreter.") 
      (license license:asl2.0)))
+
+;; python-toil tightly integrates with cwltool using it as a library. So,
+;; create a library version of cwltool where inputs become propagated inputs.
+(define-public python-cwltool
+  (package
+    (inherit cwltool)
+    (name "python-cwltool")
+    (inputs
+     (list node))
+    (propagated-inputs
+     (modify-inputs (package-inputs cwltool)
+       (delete "node")))))
-- 
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