Your message dated Sun, 11 Mar 2018 17:34:17 +0000 with message-id <e1ev4rr-000e4x...@fasolo.debian.org> and subject line Bug#892630: fixed in blasr 5.3+0-2 has caused the Debian Bug report #892630, regarding blasr: Please support HDF5 1.10.1 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.) -- 892630: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=892630 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
--- Begin Message ---Source: blasr Version: 5.3+0-1 Severity: normal Tags: patch -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Hi, Please find attached a patch to support HDF5 1.10.1 currently in experimental. Thanks in advance, _g. - -- System Information: Distributor ID: PureOS Description: PureOS GNU/Linux 8 Release: 8 Codename: green Architecture: x86_64 Kernel: Linux 4.14.0-3-amd64 (SMP w/4 CPU cores) Locale: LANG=fr_FR.UTF-8, LC_CTYPE=fr_FR.UTF-8 (charmap=UTF-8), LANGUAGE=fr_FR.UTF-8 (charmap=UTF-8) Shell: /bin/sh linked to /bin/dash Init: systemd (via /run/systemd/system) LSM: AppArmor: enabled Versions of packages blasr depends on: ii libc6 2.26-6 ii libgcc1 1:7.2.0-14 ii libhdf5-100 1.10.0-patch1+docs-4 pn libhdf5-cpp-100 <none> pn libhts2 <none> pn libpbbam <none> pn libpbseq <none> ii libstdc++6 7.2.0-14 ii zlib1g 1:1.2.8.dfsg-5 blasr recommends no packages. blasr suggests no packages. -----BEGIN PGP SIGNATURE----- iQEzBAEBCgAdFiEEoJObzArDE05WtIyR7+hsbH/+z4MFAlqlTT0ACgkQ7+hsbH/+ z4OC0Af/QS/iakwI7G7m+MhzCgTn/IH5KK0YXAM7G8Nqd7t0GXeT9tShvINmFzN8 q1r30dZJlDF+72HUitaJz04sNuTnjGEsJlPzBbBn2uxh8cBWeLR9N3arjYBa5YSZ /jNfOJFQFhfUMkBuobjRRKioc6d91n3uaewQ1bWVF6oS/osFEGGIjiSEzze5sIyy CitNq5N/p5ZGGVXA4S4w5faAIl79oCzOLXl4/BDxzkX4cRZQDT30DoEwRYuch1EY KRAwuWHPowNORsBXeymiqci7ep0z+3mJtrj/SzNUtUsQVGVlLQcZj0aNjqY+waMg LspGvTSD/gBZaH1Fnv2cvHWQN8PICA== =k8wg -----END PGP SIGNATURE-----diff -Nru blasr-5.3+0/debian/changelog blasr-5.3+0/debian/changelog --- blasr-5.3+0/debian/changelog 2016-12-24 02:50:11.000000000 +0100 +++ blasr-5.3+0/debian/changelog 2018-03-09 14:44:37.000000000 +0100 @@ -1,3 +1,10 @@ +blasr (5.3+0-1.1) UNRELEASED; urgency=medium + + * Non-maintainer upload. + * Support for HDF5 1.10.1 + + -- Gilles Filippini <p...@debian.org> Fri, 09 Mar 2018 14:44:37 +0100 + blasr (5.3+0-1) unstable; urgency=medium * Imported Upstream version 5.3+0 (corresponds to smrtanalysis-4.0.0 tag) diff -Nru blasr-5.3+0/debian/rules blasr-5.3+0/debian/rules --- blasr-5.3+0/debian/rules 2016-12-20 11:01:23.000000000 +0100 +++ blasr-5.3+0/debian/rules 2018-03-09 14:44:24.000000000 +0100 @@ -20,6 +20,12 @@ export LIBPBIHDF_INC=$(PBDATA_ROOT_DIR)/hdf export LIBPBIHDF_LIB=/usr/lib/$(DEB_HOST_MULTIARCH) +# Needed for HDF5 1.10.1 support +HDF5_VERSION := $(shell grep 'HDF5 Version' $(HDF5_LIB)/libhdf5.settings | awk '{print $$3}') +ifeq (yes,$(shell dpkg --compare-versions $(HDF5_VERSION) '>=' 1.10.1 && echo yes)) +export DEB_CXXFLAGS_MAINT_APPEND=-DHAVE_HDF5_1_10_1 +endif + # CPPFLAGS apparently aren't exported for bam2bax/bax2bam export DEB_CXXFLAGS_MAINT_PREPEND = $(CPPFLAGS) -I$(PBDATA_ROOT_DIR)
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--- Begin Message ---Source: blasr Source-Version: 5.3+0-2 We believe that the bug you reported is fixed in the latest version of blasr, 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 892...@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 blasr 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: Sun, 11 Mar 2018 18:02:22 +0100 Source: blasr Binary: blasr Architecture: source Version: 5.3+0-2 Distribution: unstable Urgency: low Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Andreas Tille <ti...@debian.org> Description: blasr - mapping single-molecule sequencing reads Closes: 892630 Changes: blasr (5.3+0-2) unstable; urgency=low . * Team upload . [ Steffen Moeller ] * debian/upstream/metadata: Added references to OMICtools and RRID . [ Afif Elghraoui ] * Add README.source . [ Gilles Filippini ] * Support for HDF5 1.10.1 Closes: #892630 . [ Andreas Tille ] * d/control: - more cme-ish sequence of entries - Standards-Version: 4.1.3 * debhelper 11 Checksums-Sha1: 34c7679df257ebdcd9f8e11f5ffbcfe3254245aa 2028 blasr_5.3+0-2.dsc 7bb0d249d7b378013169b9e0bb1cb6a4af493f39 13448 blasr_5.3+0-2.debian.tar.xz c6f303f38d85af3efdf665dfdb765711908f812b 14274 blasr_5.3+0-2_source.buildinfo Checksums-Sha256: e8f59ecd0ba76b8ee4af32c6f8ff7048320361b9fea1102c2f0efcb791cd101f 2028 blasr_5.3+0-2.dsc a028ca5fcbd0d0a4fcd1beea5d6a1aa11bfc5e6c4a2cbf63c3232a20d9369a65 13448 blasr_5.3+0-2.debian.tar.xz 8df2625302690f24d23a683a7bc019a1c0c8938984f3b0b2d907838ce3273357 14274 blasr_5.3+0-2_source.buildinfo Files: 6a523d7f32aeec34a1c9c57124beeaf8 2028 science optional blasr_5.3+0-2.dsc 65876c8f61a5774e91c72cfe59af9290 13448 science optional blasr_5.3+0-2.debian.tar.xz 98c6eeae80265e9e5d8e5bbe18e9ae6b 14274 science optional blasr_5.3+0-2_source.buildinfo -----BEGIN PGP SIGNATURE----- iQJCBAEBCAAsFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAlqlYwcOHHRpbGxlYUBy a2kuZGUACgkQV4oElNHGRtEXdBAAkS3Q57jwtR9xuzgnSBX3Q4QQHvtveJfQfqTj wC+/zpy7DLQz7r/yYDJwa1e3mOzoMhMkBWvJL2Q0nQ96hqTsopWapFqFZnwMim7Y 43yp2bhnPr/C1kzC7BAF6X4OdK88hG6P8xkHONQwQk/D+QKJovmSD6y8z3lHlE0L SfNWl1mn++ngENsq6cJFAP3+cHuPwO1lOjKUpARQh//aQ1eTwjWejyzkpf3soYmf cytZ8V+5MHHnhDUe739kScc3x1d5xesvXEVn8p04gRVjnuymWDXT9jHKnf/cm5ab KJyAtoRsPKiJFfwUfG4slgb1kRNo0iCLfrUyRxOK36MapiYve/IUf8gXzvp285ys CM14uJvfZeUjk2pb1qMQ0dOCk0lhD1CBKlbmauKYYc7S6IEw3wsPBOIvuTrx+ZCd DrbRfG6hBKNWsUcwVncUN4fTK/LM4UV0Ph2kSO7EJOf/ZiAQxhKKzox8BgeJ8qt/ f0LEg8aq92RZzVCpqB1/ENJwMTRrjPUm3RjfSFTb0GaDbOdlXfP7i4DLB7S7Xl39 njSdG3ogO4BDJImhv5XKGK+9diu5x1KmZNyIah2sKZKH1beI1x18n2TRJy6b4f6H gAOwqOZcj8e6mRdaZgQWsOIgnP0f4q4vVeWt9SXZ1yHT1MFj7esA7QBN2RJg0ZaD 4RbhD0E= =NLG2 -----END PGP SIGNATURE-----
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