Andreas Tille pushed to branch master at Debian Med / bedtools
Commits: b1a58cf0 by Andreas Tille at 2025-12-24T14:48:27+01:00 d/watch: version=5 - - - - - 39756efd by Andreas Tille at 2025-12-24T14:57:47+01:00 Fix FTBFS with GNUMAKEFLAGS=--shuffle=random Closes: #1104751, #1105730 - - - - - 63346fed by Andreas Tille at 2025-12-24T14:58:12+01:00 Standards-Version: 4.7.3 (routine-update) - - - - - 102cd0b5 by Andreas Tille at 2025-12-24T14:58:16+01:00 Remove Priority field to comply with Debian Policy 4.7.3 (routine- update) - - - - - 5 changed files: - debian/changelog - debian/control - + debian/patches/make_shuffle_random.patch - debian/patches/series - debian/watch Changes: ===================================== debian/changelog ===================================== @@ -1,3 +1,17 @@ +bedtools (2.31.1+dfsg-3) UNRELEASED; urgency=medium + + [ Andreas Tille ] + * d/watch: version=5 + * Standards-Version: 4.7.3 (routine-update) + * Remove Priority field to comply with Debian Policy 4.7.3 (routine- + update) + + [ Lucas Nussbaum ] + * Fix FTBFS with GNUMAKEFLAGS=--shuffle=random + Closes: #1104751, #1105730 + + -- Andreas Tille <[email protected]> Wed, 24 Dec 2025 14:47:50 +0100 + bedtools (2.31.1+dfsg-2) unstable; urgency=medium * d/clean: new: remove test/getfasta/t.fa.gz.gzi. (Closes: #1043957) ===================================== debian/control ===================================== @@ -4,13 +4,12 @@ Uploaders: Charles Plessy <[email protected]>, Andreas Tille <[email protected]>, Étienne Mollier <[email protected]> Section: science -Priority: optional Build-Depends: debhelper-compat (= 13), python3:any, zlib1g-dev, libbz2-dev, liblzma-dev -Standards-Version: 4.6.2 +Standards-Version: 4.7.3 Vcs-Browser: https://salsa.debian.org/med-team/bedtools Vcs-Git: https://salsa.debian.org/med-team/bedtools.git Homepage: https://github.com/arq5x/bedtools2 ===================================== debian/patches/make_shuffle_random.patch ===================================== @@ -0,0 +1,16 @@ +Author: Lucas Nussbaum <[email protected]> +Description: Fix FTBFS with GNUMAKEFLAGS=--shuffle=random +Bug-Debian: https://bugs.debian.org/1104751 +Last-Update: 2025-05-05 + +--- a/Makefile ++++ b/Makefile +@@ -177,6 +177,8 @@ include $(HTSDIR)/htslib.mk + # but ignores the directory's timestamp, which changes every time a .o file is written. + $(BUILT_OBJECTS): | $(OBJ_DIR) + ++$(BUILT_OBJECTS): autoversion ++ + $(BIN_DIR)/bedtools: autoversion $(BUILT_OBJECTS) $(HTSDIR)/libhts.a | $(BIN_DIR) + @echo "- Building main bedtools binary." + $(CCPREFIX) $(CC_WRAPPER) $(CXX) $(ALL_LDFLAGS) -o $(BIN_DIR)/bedtools $(BUILT_OBJECTS) $(HTSDIR)/libhts.a $(ALL_LIBS) ===================================== debian/patches/series ===================================== @@ -8,3 +8,4 @@ remove_barski_binding_site.png.patch hardening htsutil no_ulimit.patch +make_shuffle_random.patch ===================================== debian/watch ===================================== @@ -1,4 +1,7 @@ -version=4 -opts="repacksuffix=+dfsg,dversionmangle=auto,repack,compression=xz" \ - https://github.com/arq5x/bedtools2/tags \ - (?:.*?/)?v?(\d[\d.]*)\.tar\.gz +Version: 5 + +Template: Github +Owner: arq5x +Project: bedtools2 +Dversion-Mangle: auto +Repack-Suffix: +dfsg View it on GitLab: https://salsa.debian.org/med-team/bedtools/-/compare/06c9b5e40b39283ea82f3e671b31c13658a94c9c...102cd0b57161f9d773eee33f9d3ef20c9a0cb235 -- View it on GitLab: https://salsa.debian.org/med-team/bedtools/-/compare/06c9b5e40b39283ea82f3e671b31c13658a94c9c...102cd0b57161f9d773eee33f9d3ef20c9a0cb235 You're receiving this email because of your account on salsa.debian.org.
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