From f54cddf750d3b3700aab7837c019457c2371c9ec Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Mon, 10 Nov 2025 18:38:43 +0100
Subject: [PATCH] gnu: r-msnbase: Fix tests that failed because of libxml2.

* gnu/packages/bioconductor.scm (r-msnbase)[arguments]: Fix tests
by adding 'ensure-libxml2-works phase.

Change-Id: I555f19d5bc749cdd458af4b55a2a5a2e89c7d190
---
 gnu/packages/bioconductor.scm | 7 +++++++
 1 file changed, 7 insertions(+)

diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index b492a50a42ec022ff99f5454e5b2adf66bc88432..0d6bc9bc7d63361477fec0d83d53323f0302d4b2 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -11657,6 +11657,13 @@ containers.")
       '(modify-phases %standard-phases
          (add-after 'unpack 'set-HOME
            (lambda _ (setenv "HOME" "/tmp")))
+         ;; For unknown reasons, the libxml2 features are misreported without
+         ;; this call prior to running BiocGenerics:::testPackage("mzR").
+         (add-after 'unpack 'ensure-libxml2-works
+           (lambda _
+             (substitute* "tests/testthat.R"
+               (("library\\(\"MSnbase\"\\)" m)
+                (string-append "XML::libxmlFeatures()\n" m)))))
          (add-after 'unpack 'delete-bad-tests
            (lambda _
              ;; Needs r-prolocdata