Your message dated Tue, 10 Apr 2018 19:56:57 +0000
with message-id <e1f5znx-000f4s...@fasolo.debian.org>
and subject line Bug#894473: fixed in prodigal 1:2.6.3-4
has caused the Debian Bug report #894473,
regarding prodigal FTBFS on armel/armhf: Build killed with signal TERM after
150 minutes of inactivity
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.
(NB: If you are a system administrator and have no idea what this
message is talking about, this may indicate a serious mail system
misconfiguration somewhere. Please contact ow...@bugs.debian.org
immediately.)
--
894473: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=894473
Debian Bug Tracking System
Contact ow...@bugs.debian.org with problems
--- Begin Message ---
Source: prodigal
Version: 1:2.6.3-1
Severity: serious
Tags: buster sid patch
https://buildd.debian.org/status/package.php?p=prodigal&suite=sid
...
E: Build killed with signal TERM after 150 minutes of inactivity
On armhf gcc needs 6.5 hours (sic) to compile training.c
This can be workarounded with the attached patch plus the
following debian/rules change:
--- debian/rules.old 2018-03-27 16:19:52.842571587 +0000
+++ debian/rules 2018-03-27 16:21:55.221340424 +0000
@@ -3,6 +3,15 @@
# Uncomment this to turn on verbose mode.
#export DH_VERBOSE=1
+include /usr/share/dpkg/architecture.mk
+
+ifneq (,$(filter $(DEB_HOST_ARCH), armel armhf))
+ export DEB_CFLAGS_MAINT_APPEND = -O1
+else
+ export DEB_CFLAGS_MAINT_APPEND = -O3
+endif
+
+
CFLAGS=$(shell dpkg-buildflags --get CFLAGS)
LDFLAGS=$(shell dpkg-buildflags --get LDFLAGS)
CFLAGS+=$(HARDENING_CFLAGS)
Description: Stop overwriting the optimization with -O3
Author: Adrian Bunk <b...@debian.org>
--- prodigal-2.6.3.orig/Makefile
+++ prodigal-2.6.3/Makefile
@@ -21,7 +21,7 @@
SHELL = /bin/sh
CC = gcc
-CFLAGS += -pedantic -Wall -O3
+CFLAGS += -pedantic -Wall
LFLAGS = -lm $(LDFLAGS)
TARGET = prodigal
--- End Message ---
--- Begin Message ---
Source: prodigal
Source-Version: 1:2.6.3-4
We believe that the bug you reported is fixed in the latest version of
prodigal, 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 894...@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Andreas Tille <ti...@debian.org> (supplier of updated prodigal 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 ftpmas...@ftp-master.debian.org)
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA256
Format: 1.8
Date: Tue, 10 Apr 2018 14:58:10 +0200
Source: prodigal
Binary: prodigal
Architecture: source
Version: 1:2.6.3-4
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Andreas Tille <ti...@debian.org>
Description:
prodigal - Microbial (bacterial and archaeal) gene finding program
Closes: 894473
Changes:
prodigal (1:2.6.3-4) unstable; urgency=medium
.
* Finalise the fix proposed by Adrian Bunk
Closes: #894473
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