Source: libbigwig Version: 0.4.7+dfsg-3 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 libbigwig 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 libbigwig 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'), (500, 'testing'), (1, 'experimental') Architecture: amd64 (x86_64) Kernel: Linux 6.5.0-14-generic (SMP w/12 CPU threads; PREEMPT) Kernel taint flags: TAINT_PROPRIETARY_MODULE, TAINT_OOT_MODULE Locale: LANG=C, LC_CTYPE=C.UTF-8 (charmap=UTF-8), LANGUAGE not set Shell: /bin/sh linked to /usr/bin/dash Init: systemd (via /run/systemd/system)
diff -Nru libbigwig-0.4.7+dfsg/debian/changelog libbigwig-0.4.7+dfsg/debian/changelog --- libbigwig-0.4.7+dfsg/debian/changelog 2022-09-10 07:33:51.000000000 +0000 +++ libbigwig-0.4.7+dfsg/debian/changelog 2024-01-31 19:51:21.000000000 +0000 @@ -1,3 +1,10 @@ +libbigwig (0.4.7+dfsg-3.1) experimental; urgency=medium + + * Non-maintainer upload. + * Rename libraries for 64-bit time_t transition. + + -- Steve Langasek <vor...@debian.org> Wed, 31 Jan 2024 19:51:21 +0000 + libbigwig (0.4.7+dfsg-3) unstable; urgency=medium * Team upload. diff -Nru libbigwig-0.4.7+dfsg/debian/control libbigwig-0.4.7+dfsg/debian/control --- libbigwig-0.4.7+dfsg/debian/control 2022-08-29 16:56:21.000000000 +0000 +++ libbigwig-0.4.7+dfsg/debian/control 2024-01-31 19:51:21.000000000 +0000 @@ -14,7 +14,10 @@ Homepage: https://github.com/dpryan79/libBigWig/ Rules-Requires-Root: no -Package: libbigwig0 +Package: libbigwig0t64 +Provides: ${t64:Provides} +Replaces: libbigwig0 +Breaks: libbigwig0 (<< ${source:Version}) Architecture: any Section: libs Multi-Arch: same @@ -31,7 +34,7 @@ Architecture: any Multi-Arch: same Section: libdevel -Depends: libbigwig0 (= ${binary:Version}), +Depends: libbigwig0t64 (= ${binary:Version}), ${misc:Depends} Description: C library for handling bigWig files - header files This package provides the files needed to develop with the libBigWig diff -Nru libbigwig-0.4.7+dfsg/debian/libbigwig0.symbols libbigwig-0.4.7+dfsg/debian/libbigwig0.symbols --- libbigwig-0.4.7+dfsg/debian/libbigwig0.symbols 2022-08-29 16:52:07.000000000 +0000 +++ libbigwig-0.4.7+dfsg/debian/libbigwig0.symbols 1970-01-01 00:00:00.000000000 +0000 @@ -1,66 +0,0 @@ -libBigWig.so.0 libbigwig0 #MINVER# - GLOBAL_DEFAULTBUFFERSIZE@Base 0.4.6 - addIntervalValue@Base 0.4.6 - bbDestroyOverlappingEntries@Base 0.4.6 - bbGetOverlappingEntries@Base 0.4.6 - bbGetOverlappingEntriesCore@Base 0.4.6 - bbGetSQL@Base 0.4.6 - bbIsBigBed@Base 0.4.6 - bbOpen@Base 0.4.6 - bbOverlappingEntriesIterator@Base 0.4.6 - bwAddIntervalSpanSteps@Base 0.4.6 - bwAddIntervalSpans@Base 0.4.6 - bwAddIntervals@Base 0.4.6 - bwAppendIntervalSpanSteps@Base 0.4.6 - bwAppendIntervalSpans@Base 0.4.6 - bwAppendIntervals@Base 0.4.6 - bwCleanup@Base 0.4.6 - bwClose@Base 0.4.6 - bwCreateChromList@Base 0.4.6 - bwCreateHdr@Base 0.4.6 - bwDestroyIndex@Base 0.4.6 - bwDestroyIndexNode@Base 0.4.6 - bwDestroyOverlappingIntervals@Base 0.4.6 - bwFillBuffer@Base 0.4.6 - bwFillDataHdr@Base 0.4.6 - bwFinalize@Base 0.4.6 - bwGetOverlappingIntervals@Base 0.4.6 - bwGetOverlappingIntervalsCore@Base 0.4.6 - bwGetTid@Base 0.4.6 - bwGetValues@Base 0.4.6 - bwInit@Base 0.4.6 - bwIsBigWig@Base 0.4.6 - bwIteratorDestroy@Base 0.4.6 - bwIteratorNext@Base 0.4.6 - bwOpen@Base 0.4.6 - bwOverlappingIntervalsIterator@Base 0.4.6 - bwRead@Base 0.4.6 - bwReadIndex@Base 0.4.6 - bwSetPos@Base 0.4.6 - bwStats@Base 0.4.6 - bwStatsFromFull@Base 0.4.6 - bwStrdup@Base 0.4.7 - bwTell@Base 0.4.6 - bwWriteHdr@Base 0.4.6 - constructZoomLevels@Base 0.4.6 - destroyBWOverlapBlock@Base 0.4.6 - destroyVals_t@Base 0.4.6 - getContentLength@Base 0.4.6 - getScalar@Base 0.4.6 - makeZoomLevels@Base 0.4.6 - nextPos@Base 0.4.6 - overlapsInterval@Base 0.4.6 - updateInterval@Base 0.4.6 - urlClose@Base 0.4.6 - urlFetchData@Base 0.4.6 - urlOpen@Base 0.4.6 - urlRead@Base 0.4.6 - urlSeek@Base 0.4.6 - url_fread@Base 0.4.6 - walkRTreeNodes@Base 0.4.6 - writeIndex@Base 0.4.6 - writeIndexOffsets@Base 0.4.6 - writeIndexTree@Base 0.4.6 - writeIndexTreeNode@Base 0.4.6 - writeSummary@Base 0.4.6 - writeZoomLevels@Base 0.4.6 diff -Nru libbigwig-0.4.7+dfsg/debian/libbigwig0t64.lintian-overrides libbigwig-0.4.7+dfsg/debian/libbigwig0t64.lintian-overrides --- libbigwig-0.4.7+dfsg/debian/libbigwig0t64.lintian-overrides 1970-01-01 00:00:00.000000000 +0000 +++ libbigwig-0.4.7+dfsg/debian/libbigwig0t64.lintian-overrides 2024-01-31 19:51:21.000000000 +0000 @@ -0,0 +1 @@ +libbigwig0t64: package-name-doesnt-match-sonames libbigwig0 diff -Nru libbigwig-0.4.7+dfsg/debian/libbigwig0t64.symbols libbigwig-0.4.7+dfsg/debian/libbigwig0t64.symbols --- libbigwig-0.4.7+dfsg/debian/libbigwig0t64.symbols 1970-01-01 00:00:00.000000000 +0000 +++ libbigwig-0.4.7+dfsg/debian/libbigwig0t64.symbols 2024-01-31 19:51:21.000000000 +0000 @@ -0,0 +1,66 @@ +libBigWig.so.0 libbigwig0t64 #MINVER# + GLOBAL_DEFAULTBUFFERSIZE@Base 0.4.6 + addIntervalValue@Base 0.4.6 + bbDestroyOverlappingEntries@Base 0.4.6 + bbGetOverlappingEntries@Base 0.4.6 + bbGetOverlappingEntriesCore@Base 0.4.6 + bbGetSQL@Base 0.4.6 + bbIsBigBed@Base 0.4.6 + bbOpen@Base 0.4.6 + bbOverlappingEntriesIterator@Base 0.4.6 + bwAddIntervalSpanSteps@Base 0.4.6 + bwAddIntervalSpans@Base 0.4.6 + bwAddIntervals@Base 0.4.6 + bwAppendIntervalSpanSteps@Base 0.4.6 + bwAppendIntervalSpans@Base 0.4.6 + bwAppendIntervals@Base 0.4.6 + bwCleanup@Base 0.4.6 + bwClose@Base 0.4.6 + bwCreateChromList@Base 0.4.6 + bwCreateHdr@Base 0.4.6 + bwDestroyIndex@Base 0.4.6 + bwDestroyIndexNode@Base 0.4.6 + bwDestroyOverlappingIntervals@Base 0.4.6 + bwFillBuffer@Base 0.4.6 + bwFillDataHdr@Base 0.4.6 + bwFinalize@Base 0.4.6 + bwGetOverlappingIntervals@Base 0.4.6 + bwGetOverlappingIntervalsCore@Base 0.4.6 + bwGetTid@Base 0.4.6 + bwGetValues@Base 0.4.6 + bwInit@Base 0.4.6 + bwIsBigWig@Base 0.4.6 + bwIteratorDestroy@Base 0.4.6 + bwIteratorNext@Base 0.4.6 + bwOpen@Base 0.4.6 + bwOverlappingIntervalsIterator@Base 0.4.6 + bwRead@Base 0.4.6 + bwReadIndex@Base 0.4.6 + bwSetPos@Base 0.4.6 + bwStats@Base 0.4.6 + bwStatsFromFull@Base 0.4.6 + bwStrdup@Base 0.4.7 + bwTell@Base 0.4.6 + bwWriteHdr@Base 0.4.6 + constructZoomLevels@Base 0.4.6 + destroyBWOverlapBlock@Base 0.4.6 + destroyVals_t@Base 0.4.6 + getContentLength@Base 0.4.6 + getScalar@Base 0.4.6 + makeZoomLevels@Base 0.4.6 + nextPos@Base 0.4.6 + overlapsInterval@Base 0.4.6 + updateInterval@Base 0.4.6 + urlClose@Base 0.4.6 + urlFetchData@Base 0.4.6 + urlOpen@Base 0.4.6 + urlRead@Base 0.4.6 + urlSeek@Base 0.4.6 + url_fread@Base 0.4.6 + walkRTreeNodes@Base 0.4.6 + writeIndex@Base 0.4.6 + writeIndexOffsets@Base 0.4.6 + writeIndexTree@Base 0.4.6 + writeIndexTreeNode@Base 0.4.6 + writeSummary@Base 0.4.6 + writeZoomLevels@Base 0.4.6
