Your message dated Tue, 15 Dec 2020 21:03:44 +0000
with message-id <[email protected]>
and subject line Bug#977435: fixed in bowtie2 2.4.2-2
has caused the Debian Bug report #977435,
regarding bowtie2: reproducible builds: Embeds timestamp in build
to be marked as done.
This means that you claim that the problem has been dealt with.
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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--
977435: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=977435
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Source: bowtie2
Severity: normal
Tags: patch
User: [email protected]
Usertags: timestamps
X-Debbugs-Cc: [email protected]
The debugging symbols embed the build time:
https://tests.reproducible-builds.org/debian/rb-pkg/bullseye/amd64/diffoscope-results/bowtie2.html
./usr/lib/debug/.dwz/x86_64-linux-gnu/bowtie2.debug
501 ··[··2df6]··BUILD_TIME·"Thu·Dec·10·16:47:13·UTC·2020"
504 ··[··2f02]··BUILD_TIME·"Thu·Jan·13·00:06:51·UTC·2022"
The attached patch fixes this by adjusting the Makefile to have date to
produce a consistent timestamp using SOURCE_DATE_EPOCH.
Thanks for maintaining bowtie2!
live well,
vagrant
From abf1a60be6d2bf1b2d86cc66a001f1d233e3d2da Mon Sep 17 00:00:00 2001
From: Vagrant Cascadian <[email protected]>
Date: Tue, 15 Dec 2020 03:41:17 +0000
Subject: [PATCH 1/2] debian/patches: Patch Makefile to use SOURCE_DATE_EPOCH.
---
debian/patches/series | 1 +
.../patches/use-source-date-epoch-in-Makefile | 18 ++++++++++++++++++
2 files changed, 19 insertions(+)
create mode 100644 debian/patches/use-source-date-epoch-in-Makefile
diff --git a/debian/patches/series b/debian/patches/series
index e11a345..d85c587 100644
--- a/debian/patches/series
+++ b/debian/patches/series
@@ -8,3 +8,4 @@ silence_tbb_deprecation_warning.patch
simde
correct_64bit_test
no_sanity
+use-source-date-epoch-in-Makefile
diff --git a/debian/patches/use-source-date-epoch-in-Makefile b/debian/patches/use-source-date-epoch-in-Makefile
new file mode 100644
index 0000000..a37f05c
--- /dev/null
+++ b/debian/patches/use-source-date-epoch-in-Makefile
@@ -0,0 +1,18 @@
+From: Vagrant Cascadian <[email protected]>
+Subject: Patch Makefile to set date for BUILD_TIME using SOURCE_DATE_EPOCH.
+
+https://reproducible-builds.org/docs/source-date-epoch/
+
+Index: bowtie2/Makefile
+===================================================================
+--- bowtie2.orig/Makefile
++++ bowtie2/Makefile
+@@ -279,7 +279,7 @@ both-debug: bowtie2-align-s-debug bowtie
+ DEFS := -fno-strict-aliasing \
+ -DBOWTIE2_VERSION="\"`cat BOWTIE2_VERSION`\"" \
+ -DBUILD_HOST="\"$${HOSTNAME:-`hostname`}\"" \
+- -DBUILD_TIME="\"`date -u`\"" \
++ -DBUILD_TIME="\"`LC_ALL=C date -u -d@$(SOURCE_DATE_EPOCH)`\"" \
+ -DCOMPILER_VERSION="\"`$(CXX) -v 2>&1 | tail -1`\"" \
+ $(FILE_FLAGS) \
+ $(PREF_DEF) \
--
2.29.2
signature.asc
Description: PGP signature
--- End Message ---
--- Begin Message ---
Source: bowtie2
Source-Version: 2.4.2-2
Done: Andreas Tille <[email protected]>
We believe that the bug you reported is fixed in the latest version of
bowtie2, which is due to be installed in the Debian FTP archive.
A summary of the changes between this version and the previous one is
attached.
Thank you for reporting the bug, which will now be closed. If you
have further comments please address them to [email protected],
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Andreas Tille <[email protected]> (supplier of updated bowtie2 package)
(This message was generated automatically at their request; if you
believe that there is a problem with it please contact the archive
administrators by mailing [email protected])
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA512
Format: 1.8
Date: Tue, 15 Dec 2020 21:07:56 +0100
Source: bowtie2
Architecture: source
Version: 2.4.2-2
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team
<[email protected]>
Changed-By: Andreas Tille <[email protected]>
Closes: 977435 977436
Changes:
bowtie2 (2.4.2-2) unstable; urgency=medium
.
[ Vagrant Cascadian ]
* Patch Makefile to set date for BUILD_TIME using SOURCE_DATE_EPOCH.
Closes: #977435
* Force same hostname to enable reproducible builds
Closes: #977436
.
[ Andreas Tille ]
* Standards-Version: 4.5.1 (routine-update)
* debhelper-compat 13 (routine-update)
* use binaries installed to debian/tmp
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