Source: genometools
Version: 1.6.5+ds-2
Severity: serious
Tags: patch pending
Justification: library ABI skew on upgrade
User: debian-...@lists.debian.org
Usertags: time-t
Dear maintainer,
As part of the 64-bit time_t transition required to support 32-bit
architectures in 2038 and beyond
(https://wiki.debian.org/ReleaseGoals/64bit-time), we have identified
genometools as a source package shipping runtime libraries whose ABI
either is affected by the change in size of time_t, or could not be
analyzed via abi-compliance-checker (and therefore to be on the safe
side we assume is affected).
To ensure that inconsistent combinations of libraries with their
reverse-dependencies are never installed together, it is necessary to
have a library transition, which is most easily done by renaming the
runtime library package.
Since turning on 64-bit time_t is being handled centrally through a change
to the default dpkg-buildflags (https://bugs.debian.org/1037136), it is
important that libraries affected by this ABI change all be uploaded close
together in time. Therefore I have prepared a 0-day NMU for genometools
which will initially be uploaded to experimental if possible, then to
unstable after packages have cleared binary NEW.
Please find the patch for this NMU attached.
If you have any concerns about this patch, please reach out ASAP. Although
this package will be uploaded to experimental immediately, there will be a
period of several days before we begin uploads to unstable; so if information
becomes available that your package should not be included in the transition,
there is time for us to amend the planned uploads.
-- System Information:
Debian Release: trixie/sid
APT prefers unstable
APT policy: (500, 'unstable')
Architecture: amd64 (x86_64)
Kernel: Linux 6.5.0-14-generic (SMP w/8 CPU threads; PREEMPT)
Kernel taint flags: TAINT_PROPRIETARY_MODULE, TAINT_OOT_MODULE
Locale: LANG=en_US.UTF-8, LC_CTYPE=en_US.UTF-8 (charmap=UTF-8), LANGUAGE not set
Shell: /bin/sh linked to /usr/bin/dash
Init: systemd (via /run/systemd/system)
diff -Nru genometools-1.6.5+ds/debian/changelog
genometools-1.6.5+ds/debian/changelog
--- genometools-1.6.5+ds/debian/changelog 2023-10-25 22:08:09.000000000
+0000
+++ genometools-1.6.5+ds/debian/changelog 2024-01-31 09:07:55.000000000
+0000
@@ -1,3 +1,10 @@
+genometools (1.6.5+ds-2.1) experimental; urgency=medium
+
+ * Non-maintainer upload.
+ * Rename libraries for 64-bit time_t transition.
+
+ -- Lukas Märdian <sl...@debian.org> Wed, 31 Jan 2024 09:07:55 +0000
+
genometools (1.6.5+ds-2) unstable; urgency=medium
* Facilitate building twice from the same source directory.
diff -Nru genometools-1.6.5+ds/debian/control
genometools-1.6.5+ds/debian/control
--- genometools-1.6.5+ds/debian/control 2023-09-19 21:22:02.000000000 +0000
+++ genometools-1.6.5+ds/debian/control 2024-01-31 09:07:55.000000000 +0000
@@ -70,7 +70,10 @@
transformations, style files, etc. required to use the GenomeTools
executable and/or library.
-Package: libgenometools0
+Package: libgenometools0t64
+Provides: ${t64:Provides}
+Replaces: libgenometools0
+Breaks: libgenometools0 (<< ${source:Version})
Architecture: any
Section: libs
Depends: ${shlibs:Depends},
@@ -91,7 +94,7 @@
Section: libdevel
Depends: ${shlibs:Depends},
${misc:Depends},
- libgenometools0 (= ${binary:Version})
+ libgenometools0t64 (= ${binary:Version})
Description: development files for GenomeTools
This package contains the GenomeTools static library and necessary
header files.
@@ -118,7 +121,7 @@
Depends: ${shlibs:Depends},
${misc:Depends},
${python3:Depends},
- libgenometools0
+ libgenometools0t64
Description: Python3 bindings for genometools
Partial Python3 bindings for the GenomeTools library. Besides basic
bioinformatics data structures, the library contains components for sequence
diff -Nru genometools-1.6.5+ds/debian/libgenometools0.install
genometools-1.6.5+ds/debian/libgenometools0.install
--- genometools-1.6.5+ds/debian/libgenometools0.install 2023-09-19
21:22:02.000000000 +0000
+++ genometools-1.6.5+ds/debian/libgenometools0.install 1970-01-01
00:00:00.000000000 +0000
@@ -1 +0,0 @@
-lib/libgenometools.so.0 usr/lib
diff -Nru genometools-1.6.5+ds/debian/libgenometools0t64.install
genometools-1.6.5+ds/debian/libgenometools0t64.install
--- genometools-1.6.5+ds/debian/libgenometools0t64.install 1970-01-01
00:00:00.000000000 +0000
+++ genometools-1.6.5+ds/debian/libgenometools0t64.install 2023-09-19
21:22:02.000000000 +0000
@@ -0,0 +1 @@
+lib/libgenometools.so.0 usr/lib
diff -Nru genometools-1.6.5+ds/debian/libgenometools0t64.lintian-overrides
genometools-1.6.5+ds/debian/libgenometools0t64.lintian-overrides
--- genometools-1.6.5+ds/debian/libgenometools0t64.lintian-overrides
1970-01-01 00:00:00.000000000 +0000
+++ genometools-1.6.5+ds/debian/libgenometools0t64.lintian-overrides
2024-01-31 09:07:55.000000000 +0000
@@ -0,0 +1 @@
+libgenometools0t64: package-name-doesnt-match-sonames libgenometools0
