From a4ad0a46efcea17390e0f6e3a9568597dab7af80 Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Sun, 5 May 2024 12:02:03 +0200
Subject: [PATCH] gnu: python-graphtools: Fix tests.

* gnu/packages/graph.scm (python-graphtools)[arguments]: Add 'patch-tests
phase.

Change-Id: I5ffb4321ddd7e33e812bcb1cf67cee069b07b5f8
---
 gnu/packages/graph.scm | 9 +++++++++
 1 file changed, 9 insertions(+)

diff --git a/gnu/packages/graph.scm b/gnu/packages/graph.scm
index 8be720215e..115fe20b52 100644
--- a/gnu/packages/graph.scm
+++ b/gnu/packages/graph.scm
@@ -447,6 +447,15 @@ large networks.")
      (list
       #:phases
       '(modify-phases %standard-phases
+         (add-after 'unpack 'patch-tests
+           (lambda _
+             ;; The warning message has changed in numpy.
+             (substitute* "test/test_data.py"
+               (("\"A sparse matrix was passed, but.*array.\",")
+                "\"Sparse data was passed, but dense data is required. Use '.toarray()' to convert to a dense numpy array.\",")
+               ;; anndata prints a warning that causes the test to fail.
+               (("import warnings" m)
+                (string-append m "\nwarnings.filterwarnings(\"ignore\")")))))
          (replace 'check
            (lambda* (#:key tests? #:allow-other-keys)
              (when tests?