Michael R. Crusoe pushed to branch master at Debian Med / staden-io-lib
Commits: 2372e63d by Michael R. Crusoe at 2020-07-19T17:00:21+02:00 Install io_lib_config.h to /usr/include/io_lib/ - - - - - 916ee0d9 by Michael R. Crusoe at 2020-07-19T17:02:53+02:00 Add new symbols to debian/libstaden-read14.symbols - - - - - fdf2507e by Michael R. Crusoe at 2020-07-19T17:24:47+02:00 forward patches - - - - - fa0aad23 by Michael R. Crusoe at 2020-07-19T17:26:04+02:00 release 1.14.13-3 - - - - - 6 changed files: - debian/changelog - debian/libstaden-read14.symbols - debian/patches/fix_fseeko.patch - debian/patches/pathmax.patch - debian/patches/spelling - debian/rules Changes: ===================================== debian/changelog ===================================== @@ -1,3 +1,10 @@ +staden-io-lib (1.14.13-3) unstable; urgency=medium + + * Install io_lib_config.h to /usr/include/io_lib/ + * Add new symbols to debian/libstaden-read14.symbols + + -- Michael R. Crusoe <[email protected]> Sun, 19 Jul 2020 17:25:41 +0200 + staden-io-lib (1.14.13-2) unstable; urgency=medium * Don't run dh_missing in for arch independent builds. ===================================== debian/libstaden-read14.symbols ===================================== @@ -57,6 +57,7 @@ libstaden-read.so.14 libstaden-read14 #MINVER# bam_aux_iter@Base 1.14.12 bam_aux_iter_full@Base 1.14.12 bam_aux_size_vec@Base 1.14.12 + bam_aux_skip@Base 1.14.13 bam_close@Base 1.14.12 bam_construct_seq@Base 1.14.12 bam_copy@Base 1.14.12 @@ -130,6 +131,15 @@ libstaden-read.so.14 libstaden-read14 #MINVER# cram_codec_decoder2encoder@Base 1.14.12 cram_codec_to_id@Base 1.14.12 cram_compress_block@Base 1.14.12 + cram_const_decode_byte@Base 1.14.13 + cram_const_decode_free@Base 1.14.13 + cram_const_decode_init@Base 1.14.13 + cram_const_decode_int@Base 1.14.13 + cram_const_decode_long@Base 1.14.13 + cram_const_decode_size@Base 1.14.13 + cram_const_encode@Base 1.14.13 + cram_const_encode_init@Base 1.14.13 + cram_const_encode_store@Base 1.14.13 cram_content_type2str@Base 1.14.12 cram_deallocate_encoder@Base 1.14.12 cram_decode_TD@Base 1.14.12 @@ -145,6 +155,7 @@ libstaden-read.so.14 libstaden-read14 #MINVER# cram_encode_compression_header@Base 1.14.12 cram_encode_container@Base 1.14.12 cram_encode_slice_header@Base 1.14.12 + cram_encoder_get_fd@Base 1.14.13 cram_encoder_init@Base 1.14.12 cram_encoding2str@Base 1.14.12 cram_enque_compression_block@Base 1.14.12 @@ -256,6 +267,22 @@ libstaden-read.so.14 libstaden-read14 #MINVER# cram_subexp_decode_init@Base 1.14.12 cram_uncompress_block@Base 1.14.12 cram_update_curr_slice@Base 1.14.12 + cram_varint_decode_free@Base 1.14.13 + cram_varint_decode_init@Base 1.14.13 + cram_varint_decode_int@Base 1.14.13 + cram_varint_decode_long@Base 1.14.13 + cram_varint_decode_sint@Base 1.14.13 + cram_varint_decode_size@Base 1.14.13 + cram_varint_decode_slong@Base 1.14.13 + cram_varint_encode_free@Base 1.14.13 + cram_varint_encode_init@Base 1.14.13 + cram_varint_encode_int@Base 1.14.13 + cram_varint_encode_long@Base 1.14.13 + cram_varint_encode_sint@Base 1.14.13 + cram_varint_encode_slong@Base 1.14.13 + cram_varint_encode_store@Base 1.14.13 + cram_varint_get_block@Base 1.14.13 + cram_write_SAM_hdr@Base 1.14.12 cram_write_SAM_hdr@Base 1.14.12 cram_write_block@Base 1.14.12 cram_write_container@Base 1.14.12 ===================================== debian/patches/fix_fseeko.patch ===================================== @@ -3,6 +3,7 @@ Author: James Bonfield <[email protected]>, Last-Update: Thu, 7 Dec 2017 18:09:16 +0000 Bug-Debian: https://bugs.debian.org/876840 Origin: Upstream +Forwarded: not-needed Description: Attempt to fix FTBFS on non-i386 32bit for fseeko() --- staden-io-lib.orig/io_lib/bgzip.c ===================================== debian/patches/pathmax.patch ===================================== @@ -1,6 +1,7 @@ Author: Thorsten Alteholz <[email protected]> Description: define PATH_MAX in case it is not available this is needed to compile on hurd_i386 +Forwarded: https://github.com/jkbonfield/io_lib/pull/33 --- staden-io-lib.orig/io_lib/cram_index.c +++ staden-io-lib/io_lib/cram_index.c @@ -76,6 +76,14 @@ ===================================== debian/patches/spelling ===================================== @@ -1,5 +1,6 @@ -From: Michael R. Crusoe <[email protected]> -Subject: Spelling: independant→independent +From: Michael R. Crusoe <[email protected]> +Subject: Spelling fixes courtesy of Lintian +Forwarded: https://github.com/jkbonfield/io_lib/pull/32 --- staden-io-lib.orig/io_lib/mach-io.c +++ staden-io-lib/io_lib/mach-io.c @@ -81,7 +81,7 @@ ===================================== debian/rules ===================================== @@ -32,7 +32,8 @@ override_dh_install-arch: --movedev "debian/tmp/usr/include" usr \ --override s/libhtscodecs2-dev/libhtscodecs-dev/ \ debian/tmp/usr/lib/*/$(libpkg).so - # + mkdir -p $(devpkg)/usr/include/io_lib/ + cp $(CURDIR)/io_lib_config.h $(devpkg)/usr/include/io_lib/ # make sure io_lib-config --libs will not return -pie (see #825461) find debian/*/usr/bin -name io_lib-config -exec sed -i -e 's/ *-fPIE//' -e 's/ *-pie//' \{\} \; View it on GitLab: https://salsa.debian.org/med-team/staden-io-lib/-/compare/496d0052f47cd81fc296de2a7f45e41316360d0d...fa0aad23ca50419383469ed5e4b8bbc3c4aed25d -- View it on GitLab: https://salsa.debian.org/med-team/staden-io-lib/-/compare/496d0052f47cd81fc296de2a7f45e41316360d0d...fa0aad23ca50419383469ed5e4b8bbc3c4aed25d You're receiving this email because of your account on salsa.debian.org.
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