[med-svn] [Git][med-team/hmmer2][master] 8 commits: Drop -fcf-protection=full option in autoplgtest which works on
Andreas Tille (@tille)
gitlab at salsa.debian.org
Thu Apr 11 10:03:47 BST 2024
Andreas Tille pushed to branch master at Debian Med / hmmer2
Commits:
ff44b993 by Andreas Tille at 2024-04-11T09:45:59+02:00
Drop -fcf-protection=full option in autoplgtest which works on
amd64+i386 only and makes the test fail on other architectures
- - - - -
ee776514 by Andreas Tille at 2024-04-11T09:46:51+02:00
Drop emeritus Laszlo Kajan from Uploaders (thanks for all your work Laszlo)
- - - - -
a1303ac0 by Andreas Tille at 2024-04-11T09:47:09+02:00
routine-update: Standards-Version: 4.7.0
- - - - -
c7c60079 by Andreas Tille at 2024-04-11T07:47:18+00:00
Use secure URI in Homepage field.
Changes-By: lintian-brush
Fixes: lintian: homepage-field-uses-insecure-uri
See-also: https://lintian.debian.org/tags/homepage-field-uses-insecure-uri.html
- - - - -
6aab3aeb by Andreas Tille at 2024-04-11T07:47:18+00:00
Remove patch hardening.patch that is missing from debian/patches/series.
Changes-By: lintian-brush
Fixes: lintian: patch-file-present-but-not-mentioned-in-series
See-also: https://lintian.debian.org/tags/patch-file-present-but-not-mentioned-in-series.html
- - - - -
efee82e9 by Andreas Tille at 2024-04-11T09:54:39+02:00
Argh, really fix the fcf-protection option issue
- - - - -
ad18b424 by Andreas Tille at 2024-04-11T09:58:54+02:00
DEP3 + Forwarded: No
- - - - -
c38bfd6f by Andreas Tille at 2024-04-11T10:00:24+02:00
Upload to unstable
- - - - -
9 changed files:
- debian/changelog
- debian/control
- debian/patches/add-runstatedir-option.patch
- debian/patches/build_libhmmer.a_with-fPIC.patch
- debian/patches/fixup-implicit-function-declaration.patch
- − debian/patches/hardening.patch
- debian/patches/spelling.patch
- debian/patches/use_debian_packaged_biosquid.patch
- debian/tests/Makefile.test
Changes:
=====================================
debian/changelog
=====================================
@@ -1,3 +1,16 @@
+hmmer2 (2.3.2+dfsg-12) unstable; urgency=medium
+
+ * Drop -fcf-protection=full option in autoplgtest which works on
+ amd64+i386 only and makes the test fail on other architectures
+ * Drop emeritus Laszlo Kajan from Uploaders (thanks for all your
+ work Laszlo)
+ * Standards-Version: 4.7.0 (routine-update)
+ * Use secure URI in Homepage field.
+ * Remove patch hardening.patch that is missing from debian/patches/series.
+ * DEP3 + Forwarded: No
+
+ -- Andreas Tille <tille at debian.org> Thu, 11 Apr 2024 09:59:24 +0200
+
hmmer2 (2.3.2+dfsg-11) unstable; urgency=medium
* Team Upload.
=====================================
debian/control
=====================================
@@ -1,7 +1,6 @@
Source: hmmer2
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
-Uploaders: Andreas Tille <tille at debian.org>,
- Laszlo Kajan <lkajan at debian.org>
+Uploaders: Andreas Tille <tille at debian.org>
Section: science
Priority: optional
Build-Depends: debhelper-compat (= 13),
@@ -10,10 +9,10 @@ Build-Depends: debhelper-compat (= 13),
pkgconf,
dh-exec,
rename
-Standards-Version: 4.6.1
+Standards-Version: 4.7.0
Vcs-Browser: https://salsa.debian.org/med-team/hmmer2
Vcs-Git: https://salsa.debian.org/med-team/hmmer2.git
-Homepage: http://hmmer.janelia.org/
+Homepage: https://hmmer.janelia.org/
Rules-Requires-Root: no
Package: hmmer2
=====================================
debian/patches/add-runstatedir-option.patch
=====================================
@@ -1,6 +1,8 @@
Author: Nilesh Patra <npatra974 at gmail.com>
Description: Add "runstatedir" option adopted by dh-compat 11 and above
Last-Changed: September 9, 2020
+Forwarded: No (orphaned upstream)
+
--- a/configure
+++ b/configure
@@ -273,7 +273,7 @@
=====================================
debian/patches/build_libhmmer.a_with-fPIC.patch
=====================================
@@ -2,6 +2,7 @@ Author: Andreas Tille <tille at debian.org>
Last-Update: Wed, 19 Apr 2017 09:09:41 +0200
Description: Linking with other projects requires -fPIC which
is sneaked in by this patch.
+Forwarded: No (orphaned upstream)
--- a/src/Makefile.in
+++ b/src/Makefile.in
=====================================
debian/patches/fixup-implicit-function-declaration.patch
=====================================
@@ -1,3 +1,8 @@
+Description: Add missing function declarations
+Author: Nilesh Patra
+Last-Update: 2024-03-25 13:08:20 +0530
+Forwarded: No (orphaned upstream)
+
--- a/src/funcs.h
+++ b/src/funcs.h
@@ -171,6 +171,9 @@
=====================================
debian/patches/hardening.patch deleted
=====================================
@@ -1,28 +0,0 @@
-Author: Andreas Tille <tille at debian.org>
-Last-Update: Fri, 11 Jan 2019 15:43:07 +0100
-Description: Propagate hardening options
-
---- a/Makefile
-+++ b/Makefile
-@@ -12,8 +12,8 @@ export MANDIR = ${prefix}/share/man
- export PROGSUFFIX = 2
- export MANSUFFIX = 1
-
--export CFLAGS = -pipe -Wall -Wextra -fPIC -O3
--export LIBS = -lm -pthread
-+export CFLAGS += -pipe -Wall -Wextra -fPIC -O3
-+export LIBS = -lm -pthread
-
- # The program lists below for HMMER are not necessarily
- # a complete manifest. They are the list of stable programs that the
---- a/src/Makefile
-+++ b/src/Makefile
-@@ -45,7 +45,7 @@ HDRS = config.h\
- all: $(PROGS)
-
- ${PROGS}: %: %.o ${OBJS}
-- ${CC} ${CFLAGS} ${MYLIBDIR} -o $@ $@.o ${OBJS} ${MYLIBS} ${PTHREAD_LIBS} ${LIBS}
-+ ${CC} ${CFLAGS} ${MYLIBDIR} -o $@ $@.o ${OBJS} ${MYLIBS} ${PTHREAD_LIBS} ${LIBS} $(LDFLAGS)
-
-
- #################################################################
=====================================
debian/patches/spelling.patch
=====================================
@@ -1,6 +1,7 @@
Description: Fix spelling in manpage
Author: Andreas Tille <tille at debian.org>
Last-Update: Tue, 17 Jan 2017 17:19:44 +0100
+Forwarded: No (orphaned upstream)
--- a/documentation/man/hmmbuild.man
+++ b/documentation/man/hmmbuild.man
=====================================
debian/patches/use_debian_packaged_biosquid.patch
=====================================
@@ -2,6 +2,7 @@ Author: Andreas Tille <tille at debian.org>
Last-Update: Tue, 11 Apr 2017 17:24:13 +0200
Description: Link against Debian packaged libsquid and remove
duplicated functions from there
+Forwarded: No (orphaned upstream)
--- a/src/Makefile.in
+++ b/src/Makefile.in
=====================================
debian/tests/Makefile.test
=====================================
@@ -12,7 +12,7 @@
###########
CC = gcc
-CFLAGS = -g -O2 -ffile-prefix-map=.=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection
+CFLAGS = -g -O2 -ffile-prefix-map=.=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security
CPPFLAGS = -Wdate-time -D_FORTIFY_SOURCE=2
LDFLAGS = -Wl,-z,relro -Wl,-z,now
DEFS = -DHAVE_CONFIG_H
View it on GitLab: https://salsa.debian.org/med-team/hmmer2/-/compare/74ad532194c54726b0b8172471d551fc5c8a5f03...c38bfd6ff71c86608c332b61773557f4ed649cf8
--
View it on GitLab: https://salsa.debian.org/med-team/hmmer2/-/compare/74ad532194c54726b0b8172471d551fc5c8a5f03...c38bfd6ff71c86608c332b61773557f4ed649cf8
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