GNU bug report logs - #63974
[PATCH] gnu: Add python-mofax.

Previous Next

To add a comment to this bug, you must first unarchive it, by sending
a message to control AT debbugs.gnu.org, with unarchive 63974 in the body.
You can then email your comments to 63974 AT debbugs.gnu.org in the normal way.

Toggle the display of automated, internal messages from the tracker.

Message #5 received at submit <at> debbugs.gnu.org (full text, mbox):

From: Navid Afkhami <navid.afkhami <at> mdc-berlin.de>
To: <guix-patches <at> gnu.org>
Cc: Navid Afkhami <navid.afkhami <at> mdc-berlin.de>
Subject: [PATCH] gnu: Add python-mofax.
Date: Fri, 9 Jun 2023 16:05:57 +0200

* gnu/packages/bioinformatics.scm (python-mofax): New variable.
---
 gnu/packages/bioinformatics.scm | 40 +++++++++++++++++++++++++++++++++
 1 file changed, 40 insertions(+)

diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 9ce28596c2..1caea80f86 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -3312,6 +3312,46 @@ (define-public python-bx-python
 multiple sequence alignments.")
     (license license:expat)))
 
+(define-public python-mofax
+  (let ((commit "4d96f8f0a5d5251847353656f523684d66c3c47a")
+        (revision "0"))
+    (package
+      (name "python-mofax")
+      (version (git-version "0.4.0" revision commit))
+      (source (origin
+                (method git-fetch)
+                (uri (git-reference
+                      (url "https://github.com/bioFAM/mofax")
+                      (commit commit)))
+                (file-name (git-file-name name version))
+                (sha256
+                 (base32
+                  "1lwrw0qyvvnyiqz1l20dhcf7dxidb80cqgvk78czvdgba87yxzqx"))
+                (modules '((guix build utils)))
+                (snippet '(substitute* "pyproject.toml"
+                            (("^#.*")
+                             "")))))
+      (build-system pyproject-build-system)
+      (arguments
+       (list
+        ;; This test is failing due to a bug. The bug has been reported to the developers. See https://github.com/bioFAM/mofax/issues/12 for more info.
+        #:test-flags '(list "-k" "not test_get_methods")))
+      (propagated-inputs (list python-h5py
+                               python-matplotlib
+                               python-pandas
+                               python-poetry-core
+                               python-scipy
+                               python-seaborn))
+      (native-inputs (list python-numpy python-pytest))
+      (home-page "https://github.com/bioFAM/mofax")
+      (synopsis
+       "Motif activity finder for transcription factor motif analysis")
+      (description
+       "MoFax is a Python package for transcription factor motif analysis.
+It provides convenience functions to load and visualize factor
+models trained with MOFA+ in Python.")
+      (license license:expat))))
+
 (define-public python-pyega3
   (package
     (name "python-pyega3")

base-commit: e8f9fb3e03ea8fee0e13f13706a6b16414f74a7b
-- 
2.34.1

Message #10 received at 63974-done <at> debbugs.gnu.org (full text, mbox):

From: Ricardo Wurmus <rekado <at> elephly.net>
To: 63974-done <at> debbugs.gnu.org
Subject: [PATCH] gnu: Add python-mofax.
Date: Fri, 09 Jun 2023 17:10:37 +0200

Pushed with minor changes.  Thanks!

-- 
Ricardo

Previous Next

GNU bug tracking system
Copyright (C) 1999 Darren O. Benham, 1997,2003 nCipher Corporation Ltd, 1994-97 Ian Jackson.