Your message dated Sat, 10 Jan 2026 11:52:34 +0000
with message-id <[email protected]>
and subject line Released with 13.3
has caused the Debian Bug report #1115192,
regarding trixie-pu: package r-bioc-beachmat/2.22.0+ds-3~deb13u1
to be marked as done.
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If this is not the case it is now your responsibility to reopen the
Bug report if necessary, and/or fix the problem forthwith.
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--
1115192: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1115192
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Package: release.debian.org
Severity: normal
Tags: trixie
X-Debbugs-Cc: [email protected], [email protected],
[email protected]
Control: affects -1 + src:r-bioc-beachmat
User: [email protected]
Usertags: pu
Hello,
I am sorry that we could not fix for #1111758 on time for Trixie. As we
can not migrate 2.22.0+ds-3 from Testing for the next point release, how
about an upload with the following debdiff?
[ Checklist ]
[x] *all* changes are documented in the d/changelog
[x] I reviewed all changes and I approve them
[x] attach debdiff against the package in (old)stable
[x] the issue is verified as fixed in unstable
[ Changes ]
index 068fccb..16ee884 100644
--- a/debian/changelog
+++ b/debian/changelog
@@ -1,3 +1,13 @@
+r-bioc-beachmat (2.22.0+ds-3~deb13u1) trixie; urgency=medium
+
+ * Team upload.
+
+ [ Michael R. Crusoe ]
+ * Patch up part of a test that depends on the "beachmat.hdf5" R
+ package, which is not yet in Debian. Closes: #1111758
+
+ -- Charles Plessy <[email protected]> Sun, 14 Sep 2025 16:38:29 +0900
+
r-bioc-beachmat (2.22.0+ds-2) unstable; urgency=medium
* Team upload.
diff --git a/debian/patches/series b/debian/patches/series
new file mode 100644
index 0000000..6183596
--- /dev/null
+++ b/debian/patches/series
@@ -0,0 +1 @@
+skip-missing-beachmat.hdf5
diff --git a/debian/patches/skip-missing-beachmat.hdf5
b/debian/patches/skip-missing-beachmat.hdf5
new file mode 100644
index 0000000..6dd66d2
--- /dev/null
+++ b/debian/patches/skip-missing-beachmat.hdf5
@@ -0,0 +1,15 @@
+Author: Michael R. Crusoe <[email protected]>
+Description: skip part of a test that depends on the unpackaged beachmat.hdf5
+Forwarded: not-needed
+--- r-bioc-beachmat.orig/tests/testthat/test-initializeCpp-other.R
++++ r-bioc-beachmat/tests/testthat/test-initializeCpp-other.R
+@@ -150,9 +150,6 @@
+
+ ptr <- initializeCpp(mat2)
+ am_i_ok(mat, ptr)
+-
+- # Package is automatically loaded to expose the specialized methods.
+- expect_true(isNamespaceLoaded("beachmat.hdf5"))
+ })
+
+ test_that("initialization works correctly with an unknown DelayedArray", {
Have a nice day,
Charles
--
Charles Plessy Nagahama, Yomitan, Okinawa, Japan
Debian Med packaging team http://www.debian.org/devel/debian-med
Tooting from work, https://fediscience.org/@charles_plessy
Tooting from home, https://framapiaf.org/@charles_plessy
--- End Message ---
--- Begin Message ---
Package: release.debian.org\nVersion: 13.3\n\nThis update has been released as
part of Debian 13.3.
--- End Message ---
