On Thu, Oct 26, 2017 at 12:12:05PM -0700, Diane Trout wrote: > libhts2 introduced an ABI change which broke python-pysam, and a new > version of python-pysam needed to be released to update to the new ABI.
FTR, this is what changed between the symbols of the version 1.4.1-5 and 1.5-1: --- 1.4.1-5 +++ dpkg-gensymbolsIEaASY @@ -178,6 +178,7 @@ bgzf_flush_try@Base 1.4.1 bgzf_getc@Base 1.4.1 bgzf_getline@Base 1.4.1 + bgzf_hfile@Base 1.5 bgzf_hopen@Base 1.4.1 bgzf_index_add_block@Base 1.4.1 bgzf_index_build_init@Base 1.4.1 @@ -395,7 +396,7 @@ file_size@Base 1.4.1 find_file_url@Base 1.4.1 find_path@Base 1.4.1 - flen@Base 1.4.1 +#MISSING: 1.5# flen@Base 1.4.1 grp_create_key@Base 1.4.1 hclose@Base 1.4.1 hclose_abruptly@Base 1.4.1 @@ -411,6 +412,7 @@ hfile_plugin_init_libcurl@Base 1.4.1 hfile_plugin_init_net@Base 1.4.1 hfile_plugin_init_s3@Base 1.4.1 + hfile_set_blksize@Base 1.5 hflush@Base 1.4.1 hgetc2@Base 1.4.1 hgetdelim@Base 1.4.1 @@ -436,6 +438,7 @@ hts_format_file_extension@Base 1.4.1 hts_get_bgzfp@Base 1.4.1 hts_get_format@Base 1.4.1 + hts_get_log_level@Base 1.5 hts_getline@Base 1.4.1 hts_hopen@Base 1.4.1 hts_idx_destroy@Base 1.4.1 @@ -460,6 +463,7 @@ hts_json_fskip_value@Base 1.4.1 hts_json_snext@Base 1.4.1 hts_json_sskip_value@Base 1.4.1 + hts_log@Base 1.5 hts_md5_destroy@Base 1.4.1 hts_md5_final@Base 1.4.1 hts_md5_hex@Base 1.4.1 @@ -480,6 +484,7 @@ hts_realloc_or_die@Base 1.4.1 hts_set_cache_size@Base 1.4.1 hts_set_fai_filename@Base 1.4.1 + hts_set_log_level@Base 1.5 hts_set_opt@Base 1.4.1 hts_set_thread_pool@Base 1.4.1 hts_set_threads@Base 1.4.1 @@ -588,7 +593,7 @@ mfgets@Base 1.4.1 mfmmap@Base 1.4.1 mfopen@Base 1.4.1 - mfprintf@Base 1.4.1 +#MISSING: 1.5# mfprintf@Base 1.4.1 mfread@Base 1.4.1 mfrecreate@Base 1.4.1 mfreopen@Base 1.4.1 @@ -704,13 +709,13 @@ vcf_read@Base 1.4.1 vcf_write@Base 1.4.1 vcf_write_line@Base 1.4.1 - vflen@Base 1.4.1 - zfclose@Base 1.4.1 - zfeof@Base 1.4.1 - zfgets@Base 1.4.1 - zfopen@Base 1.4.1 - zfpeek@Base 1.4.1 - zfputs@Base 1.4.1 - zfseeko@Base 1.4.1 - zftello@Base 1.4.1 +#MISSING: 1.5# vflen@Base 1.4.1 +#MISSING: 1.5# zfclose@Base 1.4.1 +#MISSING: 1.5# zfeof@Base 1.4.1 +#MISSING: 1.5# zfgets@Base 1.4.1 +#MISSING: 1.5# zfopen@Base 1.4.1 +#MISSING: 1.5# zfpeek@Base 1.4.1 +#MISSING: 1.5# zfputs@Base 1.4.1 +#MISSING: 1.5# zfseeko@Base 1.4.1 +#MISSING: 1.5# zftello@Base 1.4.1 zlib_mem_inflate@Base 1.4.1 > libhts2 probably needs a proper symbols file to make it easier to see > when the ABI is changing. https://wiki.debian.org/UsingSymbolsFiles > > Mattia Rizzolo, also suggests other methods of dealing with managing ABI > changes. In pysam's case, it is looking for hts_log, if you had properly checked the symbols of your package before uploading you should have at least tweaked the dh_shlibdeps invocation to force a version, or introduced a .symbols file (very recommended for a case like hstlib where the symbols seems to be simple). But then, the ABI is broken, so just nicest symbols handling is not enough for your case, you need > Such as bumping soname, changing the package name and use Conflicts, or > adding versioned Breaks against broken packages -- regards, Mattia Rizzolo GPG Key: 66AE 2B4A FCCF 3F52 DA18 4D18 4B04 3FCD B944 4540 .''`. more about me: https://mapreri.org : :' : Launchpad user: https://launchpad.net/~mapreri `. `'` Debian QA page: https://qa.debian.org/developer.php?login=mattia `-
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