* [bug#75920] [PATCH] gnu: Add ravanan.
@ 2025-01-29 0:57 Arun Isaac
2025-02-03 20:33 ` Sharlatan Hellseher
0 siblings, 1 reply; 4+ messages in thread
From: Arun Isaac @ 2025-01-29 0:57 UTC (permalink / raw)
To: 75920; +Cc: Arun Isaac
* gnu/packages/bioinformatics.scm (ravanan): New variable.
Change-Id: Ib93ea64a3a0313be167dd1cd2f036c72f1c0f138
---
gnu/packages/bioinformatics.scm | 60 +++++++++++++++++++++++++++++++++
1 file changed, 60 insertions(+)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 317c15817e8..a08f04e932a 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -103,6 +103,7 @@ (define-module (gnu packages bioinformatics)
#:use-module (gnu packages golang-compression)
#:use-module (gnu packages golang-xyz)
#:use-module (gnu packages glib)
+ #:use-module (gnu packages gnupg)
#:use-module (gnu packages graph)
#:use-module (gnu packages graphics)
#:use-module (gnu packages graphviz)
@@ -134,6 +135,7 @@ (define-module (gnu packages bioinformatics)
#:use-module (gnu packages node)
#:use-module (gnu packages ocaml)
#:use-module (gnu packages pcre)
+ #:use-module (gnu packages package-management)
#:use-module (gnu packages parallel)
#:use-module (gnu packages pdf)
#:use-module (gnu packages perl)
@@ -6586,6 +6588,64 @@ (define-public cwltool
CWL descriptions.")
(license license:asl2.0)))
+(define-public ravanan
+ (package
+ (name "ravanan")
+ (version "0.1.0")
+ (source (origin
+ (method url-fetch)
+ (uri (string-append
+ "https://github.com/arunisaac/ravanan/releases/download/v"
+ version "/ravanan-" version ".tar.lz"))
+ (sha256
+ (base32
+ "163r3iyqfdwd3bizm36axfsvnppqwqd6zxl2vwf7sq0lcgl2zx5p"))))
+ (arguments
+ (list #:make-flags
+ #~(list (string-append "prefix=" #$output)
+ (string-append "NODE=" (search-input-file %build-inputs "bin/node")))
+ #:modules `(((guix build guile-build-system)
+ #:select (target-guile-effective-version))
+ ,@%default-gnu-imported-modules)
+ #:phases
+ (with-imported-modules `((guix build guile-build-system)
+ ,@%default-gnu-imported-modules)
+ #~(modify-phases %standard-phases
+ (delete 'configure)
+ (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/ravanan")
+ `("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
+ (list bash-minimal
+ node
+ guile-3.0
+ guile-filesystem
+ guile-gcrypt
+ guile-json-4
+ guile-libyaml
+ guix))
+ (native-inputs
+ (list lzip))
+ (build-system gnu-build-system)
+ (home-page "https://github.com/arunisaac/ravanan")
+ (synopsis "High-reproducibility CWL runner powered by Guix")
+ (description "ravanan is a @acronym{CWL, Common Workflow Language}
+implementation that is powered by GNU Guix and provides strong reproducibility
+guarantees. ravanan provides strong caching of intermediate results so the
+same step of a workflow is never run twice. ravanan captures logs from every
+step of the workflow for easy tracing back in case of job failures. ravanan
+currently runs on single machines and on slurm via its API.")
+ (license license:gpl3+)))
+
(define-public python-dendropy
(package
(name "python-dendropy")
base-commit: e90bd12f49e08f4d30007e80eaf5649ef98b5517
--
2.47.1
^ permalink raw reply related [flat|nested] 4+ messages in thread
* [bug#75920] [PATCH] gnu: Add ravanan.
2025-01-29 0:57 [bug#75920] [PATCH] gnu: Add ravanan Arun Isaac
@ 2025-02-03 20:33 ` Sharlatan Hellseher
2025-02-03 21:43 ` bug#75920: " jgart via Guix-patches via
0 siblings, 1 reply; 4+ messages in thread
From: Sharlatan Hellseher @ 2025-02-03 20:33 UTC (permalink / raw)
To: 75920; +Cc: poptsov.artyom
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Hi Arun,
Patch visually looks ok for me.
I CC Guile user to verify some other build formating otions.
For some reason we have no guile team ^.-
--
Oleg
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^ permalink raw reply [flat|nested] 4+ messages in thread
* bug#75920: [PATCH] gnu: Add ravanan.
2025-02-03 20:33 ` Sharlatan Hellseher
@ 2025-02-03 21:43 ` jgart via Guix-patches via
2025-02-09 11:59 ` [bug#75920] " Arun Isaac
0 siblings, 1 reply; 4+ messages in thread
From: jgart via Guix-patches via @ 2025-02-03 21:43 UTC (permalink / raw)
To: 75920-done; +Cc: Arun Isaac, Sharlatan Hellseher
> I CC Guile user to verify some other build formating otions.
>
> For some reason we have no guile team ^.-
Hi Oleg,
Oops I missed your message. This patch is already applied.
Arun,
Feel free to open a new ticket if you need to add more build formatting
option suggestions.
--
all the best,
jgart
^ permalink raw reply [flat|nested] 4+ messages in thread
* [bug#75920] [PATCH] gnu: Add ravanan.
2025-02-03 21:43 ` bug#75920: " jgart via Guix-patches via
@ 2025-02-09 11:59 ` Arun Isaac
0 siblings, 0 replies; 4+ messages in thread
From: Arun Isaac @ 2025-02-09 11:59 UTC (permalink / raw)
To: jgart, 75920-done; +Cc: Sharlatan Hellseher
Thank you both!
^ permalink raw reply [flat|nested] 4+ messages in thread
end of thread, other threads:[~2025-02-09 12:01 UTC | newest]
Thread overview: 4+ messages (download: mbox.gz follow: Atom feed
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2025-01-29 0:57 [bug#75920] [PATCH] gnu: Add ravanan Arun Isaac
2025-02-03 20:33 ` Sharlatan Hellseher
2025-02-03 21:43 ` bug#75920: " jgart via Guix-patches via
2025-02-09 11:59 ` [bug#75920] " Arun Isaac
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