Sascha Steinbiss pushed to branch master at Debian Med / aegean
Commits: 571c68cb by Sascha Steinbiss at 2018-07-04T18:22:30+02:00 update email address and changelog - - - - - f16eafe1 by Sascha Steinbiss at 2018-07-04T18:22:55+02:00 use debhelper 11 - - - - - b432e5b1 by Sascha Steinbiss at 2018-07-04T18:23:09+02:00 use secure d/copyright format link - - - - - c609348e by Sascha Steinbiss at 2018-07-04T18:23:21+02:00 bump Standards-Version - - - - - 77766c7e by Sascha Steinbiss at 2018-07-04T18:24:42+02:00 update Vcs-* for Salsa - - - - - f31b2b9c by Sascha Steinbiss at 2018-07-04T18:26:18+02:00 extra -> optional - - - - - 28983008 by Sascha Steinbiss at 2018-07-04T18:26:43+02:00 remove unnecessary Testsuite field - - - - - b6cba234 by Sascha Steinbiss at 2018-07-04T18:27:58+02:00 drop unused patches - - - - - 8c355ad9 by Sascha Steinbiss at 2018-07-04T18:28:41+02:00 drop -dbg package - - - - - 625c92c9 by Sascha Steinbiss at 2018-07-04T18:29:38+02:00 fix naming of lintian override - - - - - 2b2906a3 by Sascha Steinbiss at 2018-07-04T18:30:49+02:00 remove mention of -dbg package - - - - - 10 changed files: - debian/changelog - debian/compat - debian/control - debian/copyright - − debian/patches/add_version - − debian/patches/remove_jquery - − debian/patches/remove_mootools - − debian/patches/sort_source_files - debian/rules - debian/source.lintian-overrides Changes: ===================================== debian/changelog ===================================== --- a/debian/changelog +++ b/debian/changelog @@ -1,3 +1,25 @@ +aegean (0.15.2+dfsg-2) unstable; urgency=medium + + [ Andreas Tille ] + * Fix and adjust upstream metadata. + + [ Steffen Moeller ] + * Fix EDAM annotations. + + [ Sascha Steinbiss ] + * Update Uploader email address. + * Use debhelper 11. + * Use secure d/copyright format link. + * Bump Standards-Version. + * Update Vcs-* fields with Salsa addresses. + * Replace priority extra with optional. + * Remove unnecessary Testsuite field. + * Drop unused patch files. + * Drop -dbg package. + * Fix naming of lintian override. + + -- Sascha Steinbiss <[email protected]> Wed, 04 Jul 2018 18:20:29 +0200 + aegean (0.15.2+dfsg-1) unstable; urgency=medium * New upstream version. ===================================== debian/compat ===================================== --- a/debian/compat +++ b/debian/compat @@ -1 +1 @@ -9 +11 ===================================== debian/control ===================================== --- a/debian/control +++ b/debian/control @@ -1,17 +1,16 @@ Source: aegean Maintainer: Debian Med Packaging Team <[email protected]> -Uploaders: Sascha Steinbiss <[email protected]> +Uploaders: Sascha Steinbiss <[email protected]> Section: science Priority: optional -Build-Depends: debhelper (>= 9), +Build-Depends: debhelper (>= 11), libcairo2-dev, libgenometools0-dev, python, git -Standards-Version: 3.9.7 -Testsuite: autopkgtest -Vcs-Browser: https://anonscm.debian.org/cgit/debian-med/aegean.git -Vcs-Git: https://anonscm.debian.org/git/debian-med/aegean.git +Standards-Version: 4.1.4 +Vcs-Browser: https://salsa.debian.org/med-team/aegean +Vcs-Git: https://salsa.debian.org/med-team/aegean.git Homepage: http://standage.github.io/AEGeAn Package: aegean @@ -27,15 +26,3 @@ Description: integrated genome analysis toolkit Annotations. The toolkit includes a variety of analysis programs, e.g. for comparing distinct sets of gene structure annotations (ParsEval), computation of gene loci (LocusPocus) and more. - -Package: aegean-dbg -Architecture: amd64 arm64 armel armhf i386 mipsel powerpc ppc64el s390x hurd-i386 kfreebsd-amd64 kfreebsd-i386 ppc64 x32 -Section: debug -Priority: extra -Depends: ${shlibs:Depends}, - ${misc:Depends}, - aegean (= ${binary:Version}) -Description: integrated genome analysis toolkit, with debug symbols - This package contains debug information stripped from AEGeAn. - You may decide to install it to help identifying issues, typically - to help communication with upstream developers. ===================================== debian/copyright ===================================== --- a/debian/copyright +++ b/debian/copyright @@ -1,4 +1,4 @@ -Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/ +Format: https://www.debian.org/doc/packaging-manuals/copyright-format/1.0/ Upstream-Name: aegean Source: http://aegean.readthedocs.org/en/v0.10.2/license.html Files-Excluded: data/share/vendor/jquery.js data/misc/amel-ogs-vs-ncbi-parseval-html/vendor/jquery.js data/share/vendor/jquery.dataTables.js data/misc/amel-ogs-vs-ncbi-parseval-html/vendor/jquery.dataTables.js data/share/vendor/mootools-core-1.3.2-full-nocompat-yc.js data/misc/amel-ogs-vs-ncbi-parseval-html/vendor/mootools-core-1.3.2-full-nocompat-yc.js data/share/vendor/mootools-more-1.3.2.1.js data/misc/amel-ogs-vs-ncbi-parseval-html/vendor/mootools-more-1.3.2.1.js ===================================== debian/patches/add_version deleted ===================================== --- a/debian/patches/add_version +++ /dev/null @@ -1,60 +0,0 @@ -Description: Add_version ---- a/Makefile -+++ b/Makefile -@@ -99,47 +99,47 @@ - $(AGN_OBJS): obj/%.o : src/core/%.c inc/core/%.h inc/core/AgnVersion.h - @- mkdir -p obj - @ echo "[compile $*]" -- @ $(CC) $(CFLAGS) $(INCS) -c -o $@ $< -+ @ $(CC) $(CPPFLAGS) $(CFLAGS) $(INCS) -c -o $@ $< - - $(PE_EXE): src/ParsEval/parseval.c src/ParsEval/pe_options.c src/ParsEval/pe_utils.c src/ParsEval/pe_options.h src/ParsEval/pe_utils.h $(AGN_OBJS) - @ mkdir -p bin - @ echo "[compile ParsEval]" -- @ $(CC) $(CFLAGS) $(INCS) -I src/ParsEval -o $@ $(AGN_OBJS) src/ParsEval/parseval.c src/ParsEval/pe_options.c src/ParsEval/pe_utils.c $(LDFLAGS) -+ @ $(CC) $(CPPFLAGS) $(CFLAGS) $(INCS) -I src/ParsEval -o $@ $(AGN_OBJS) src/ParsEval/parseval.c src/ParsEval/pe_options.c src/ParsEval/pe_utils.c $(LDFLAGS) - - $(CN_EXE): src/canon-gff3.c $(AGN_OBJS) - @ mkdir -p bin - @ echo "[compile CanonGFF3]" -- @ $(CC) $(CFLAGS) $(INCS) -o $@ $(AGN_OBJS) src/canon-gff3.c $(LDFLAGS) -+ @ $(CC) $(CPPFLAGS) $(CFLAGS) $(INCS) -o $@ $(AGN_OBJS) src/canon-gff3.c $(LDFLAGS) - - $(LP_EXE): src/locuspocus.c $(AGN_OBJS) - @ mkdir -p bin - @ echo "[compile LocusPocus]" -- @ $(CC) $(CFLAGS) $(INCS) -o $@ $(AGN_OBJS) src/locuspocus.c $(LDFLAGS) -+ @ $(CC) $(CPPFLAGS) $(CFLAGS) $(INCS) -o $@ $(AGN_OBJS) src/locuspocus.c $(LDFLAGS) - - $(GV_EXE): src/gaeval.c $(AGN_OBJS) - @ mkdir -p bin - @ echo "[compile GAEVAL]" -- @ $(CC) $(CFLAGS) $(INCS) -o $@ $(AGN_OBJS) src/gaeval.c $(LDFLAGS) -+ @ $(CC) $(CPPFLAGS) $(CFLAGS) $(INCS) -o $@ $(AGN_OBJS) src/gaeval.c $(LDFLAGS) - - $(XT_EXE): src/xtractore.c $(AGN_OBJS) - @ mkdir -p bin - @ echo "[compile Xtractore]" -- @ $(CC) $(CFLAGS) $(INCS) -o $@ $(AGN_OBJS) src/xtractore.c $(LDFLAGS) -+ @ $(CC) $(CPPFLAGS) $(CFLAGS) $(INCS) -o $@ $(AGN_OBJS) src/xtractore.c $(LDFLAGS) - - $(RP_EXE): src/pmrna.c $(AGN_OBJS) - @ mkdir -p bin - @ echo "[compile $@]" -- @ $(CC) $(CFLAGS) $(INCS) -o $@ $(AGN_OBJS) src/pmrna.c $(LDFLAGS) -+ @ $(CC) $(CPPFLAGS) $(CFLAGS) $(INCS) -o $@ $(AGN_OBJS) src/pmrna.c $(LDFLAGS) - - $(TD_EXE): src/tidygff3.c $(AGN_OBJS) - @ mkdir -p bin - @ echo "[compile $@]" -- @ $(CC) $(CFLAGS) $(INCS) -o $@ $(AGN_OBJS) src/tidygff3.c $(LDFLAGS) -+ @ $(CC) $(CPPFLAGS) $(CFLAGS) $(INCS) -o $@ $(AGN_OBJS) src/tidygff3.c $(LDFLAGS) - - $(UT_EXE): test/unittests.c $(AGN_OBJS) - @ mkdir -p bin - @ echo "[compile unit tests]" -- @ $(CC) $(CFLAGS) $(INCS) -o $@ $(AGN_OBJS) test/unittests.c $(LDFLAGS) -+ @ $(CC) $(CPPFLAGS) $(CFLAGS) $(INCS) -o $@ $(AGN_OBJS) test/unittests.c $(LDFLAGS) - - libaegean.a: $(AGN_OBJS) - @ echo "[create libaegean]" ===================================== debian/patches/remove_jquery deleted ===================================== The diff for this file was not included because it is too large. ===================================== debian/patches/remove_mootools deleted ===================================== The diff for this file was not included because it is too large. ===================================== debian/patches/sort_source_files deleted ===================================== --- a/debian/patches/sort_source_files +++ /dev/null @@ -1,12 +0,0 @@ -Description: Sort_source_files ---- a/Makefile -+++ b/Makefile -@@ -21,7 +21,7 @@ - #----- Source, header, and object files -----# - - # AEGeAn core class and module files --AGN_SRCS=$(wildcard src/core/Agn*.c) -+AGN_SRCS=$(sort $(wildcard src/core/Agn*.c)) - AGN_OBJS=$(patsubst src/core/%.c,obj/%.o,$(AGN_SRCS)) - AGN_HDRS=$(patsubst src/core%.c,inc/core/%.h,$(AGN_SRCS)) - ===================================== debian/rules ===================================== --- a/debian/rules +++ b/debian/rules @@ -28,9 +28,6 @@ override_dh_auto_test: override_dh_auto_install: dh_auto_install -- 64bit=$(64BIT) prefix=$(DESTDIR) -override_dh_strip: - dh_strip --dbg-package=aegean-dbg - override_dh_installdocs: cp $(CURDIR)/README.md $(CURDIR)/README dh_installdocs ===================================== debian/source.lintian-overrides ===================================== --- a/debian/source.lintian-overrides +++ b/debian/source.lintian-overrides @@ -1,2 +1,2 @@ # Upstream does not provide signed tarballs. -aegean source: debian-watch-may-check-gpg-signature +aegean source: debian-watch-does-not-check-gpg-signature View it on GitLab: https://salsa.debian.org/med-team/aegean/compare/b59c9b6d33e35f8dafcd35112c597968ef9cb08f...2b2906a3739e17ddcaada6c5478a1797ee1bd2c2 -- View it on GitLab: https://salsa.debian.org/med-team/aegean/compare/b59c9b6d33e35f8dafcd35112c597968ef9cb08f...2b2906a3739e17ddcaada6c5478a1797ee1bd2c2 You're receiving this email because of your account on salsa.debian.org.
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