From: Arun Isaac <arunisaac@systemreboot.net>
To: 52091@debbugs.gnu.org
Cc: Arun Isaac <arunisaac@systemreboot.net>
Subject: [bug#52091] [PATCH v2 1/1] gnu: Add ccwl.
Date: Mon, 29 Nov 2021 21:18:27 +0530 [thread overview]
Message-ID: <20211129154827.18303-2-arunisaac@systemreboot.net> (raw)
In-Reply-To: <20211129154827.18303-1-arunisaac@systemreboot.net>
* gnu/packages/bioinformatics.scm (ccwl): New variable.
---
gnu/packages/bioinformatics.scm | 53 +++++++++++++++++++++++++++++++++
1 file changed, 53 insertions(+)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 67335daead..364fbad2cf 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -142,6 +142,7 @@ (define-module (gnu packages bioinformatics)
#:use-module (gnu packages ruby)
#:use-module (gnu packages serialization)
#:use-module (gnu packages shells)
+ #:use-module (gnu packages skribilo)
#:use-module (gnu packages sphinx)
#:use-module (gnu packages sqlite)
#:use-module (gnu packages statistics)
@@ -15886,3 +15887,55 @@ (define-public r-cytonorm
control samples and applying quantile normalization on all markers of
interest.")
(license license:gpl2+))))
+
+(define-public ccwl
+ (package
+ (name "ccwl")
+ (version "0.2.0")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (string-append "https://ccwl.systemreboot.net/releases/ccwl-"
+ version ".tar.lz"))
+ (sha256
+ (base32
+ "1ar8rfz3zrksgygrv67zv77y8gfvvz54zcs546jn6j28y20basla"))))
+ (build-system gnu-build-system)
+ (arguments
+ `(#:make-flags '("GUILE_AUTO_COMPILE=0") ; to prevent guild warnings
+ #:modules (((guix build guile-build-system)
+ #:select (target-guile-effective-version))
+ ,@%gnu-build-system-modules)
+ #:imported-modules ((guix build guile-build-system)
+ ,@%gnu-build-system-modules)
+ #:phases
+ (modify-phases %standard-phases
+ (add-after 'install 'wrap
+ (lambda* (#:key inputs outputs #:allow-other-keys)
+ (let ((out (assoc-ref outputs "out"))
+ (effective-version (target-guile-effective-version)))
+ (wrap-program (string-append out "/bin/ccwl")
+ `("GUILE_LOAD_PATH" prefix
+ (,(string-append out "/share/guile/site/" effective-version)
+ ,(getenv "GUILE_LOAD_PATH")))
+ `("GUILE_LOAD_COMPILED_PATH" prefix
+ (,(string-append out "/lib/guile/" effective-version "/site-ccache")
+ ,(getenv "GUILE_LOAD_COMPILED_PATH"))))))))))
+ (inputs
+ `(("guile" ,guile-3.0)
+ ("guile-libyaml" ,guile-libyaml)))
+ (native-inputs
+ `(("pkg-config" ,pkg-config)
+ ("lzip" ,lzip)
+ ;; To build documentation
+ ("cwltool" ,cwltool)
+ ("graphviz" ,graphviz)
+ ("skribilo" ,skribilo)))
+ (home-page "https://ccwl.systemreboot.net")
+ (synopsis "Concise common workflow language")
+ (description "The @acronym{ccwl, Concise Common Workflow Language} is a
+concise syntax to express CWL workflows. ccwl is a compiler to generate CWL
+workflows from concise descriptions in ccwl. It is implemented as an
+@acronym{EDSL, Embedded Domain Specific Language} in the Scheme programming
+language.")
+ (license license:gpl3+)))
--
2.34.0
next prev parent reply other threads:[~2021-11-29 15:49 UTC|newest]
Thread overview: 5+ messages / expand[flat|nested] mbox.gz Atom feed top
2021-11-25 5:46 [bug#52091] [PATCH] gnu: Add ccwl Arun Isaac
2021-11-29 15:48 ` [bug#52091] [PATCH v2 0/1] " Arun Isaac
2021-11-29 15:48 ` Arun Isaac [this message]
2021-12-09 15:30 ` [bug#52091] [PATCH] gnu: " Ludovic Courtès
2021-12-10 10:07 ` bug#52091: " Arun Isaac
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