[Debian-med-packaging] Bug#1062344: htslib: diff for 64-bit time_t transition, for htslib 1.19
Étienne Mollier
emollier at debian.org
Tue Feb 20 19:36:30 GMT 2024
Hi Graham,
I migrated htslib 1.19 to unstable in the past weekend (and in
turn it migrated to testing this morning). The experimental
distribution being now available, I am preparing an upload with
your changes for the migration to the 64-bit time_t. You will
find the new debdiff in attachment; normally there should be no
surprises here, but just in case.
In hope this helps,
--
.''`. Étienne Mollier <emollier at debian.org>
: :' : pgp: 8f91 b227 c7d6 f2b1 948c 8236 793c f67e 8f0d 11da
`. `' sent from /dev/pts/1, please excuse my verbosity
`- on air: Crippled Black Phoenix - Bonefire
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diff -Nru htslib-1.19+ds/debian/changelog htslib-1.19+ds/debian/changelog
--- htslib-1.19+ds/debian/changelog 2024-02-17 11:42:52.000000000 +0100
+++ htslib-1.19+ds/debian/changelog 2024-02-20 19:55:09.000000000 +0100
@@ -1,3 +1,13 @@
+htslib (1.19+ds-1+exp1) experimental; urgency=medium
+
+ * Rename libraries for 64-bit time_t transition.
+ This change was initially proposed as NMU, but it didn't make it to
+ experimental due to a conflicting version already present at the time
+ of the upload. See also #1062344.
+ Thanks to Graham Inggs for the initial version and work on 64-bit time_t
+
+ -- Étienne Mollier <emollier at debian.org> Tue, 20 Feb 2024 19:55:09 +0100
+
htslib (1.19+ds-1) unstable; urgency=medium
* Migrate htslib 1.19 from experimental to unstable.
diff -Nru htslib-1.19+ds/debian/control htslib-1.19+ds/debian/control
--- htslib-1.19+ds/debian/control 2023-12-15 17:43:46.000000000 +0100
+++ htslib-1.19+ds/debian/control 2024-02-20 19:55:09.000000000 +0100
@@ -21,18 +21,20 @@
Homepage: https://github.com/samtools/htslib
Rules-Requires-Root: no
-Package: libhts3
+Package: libhts3t64
+Provides: ${t64:Provides}
Architecture: any
Multi-Arch: same
Section: libs
Depends: ${misc:Depends},
${shlibs:Depends}
Pre-Depends: ${misc:Pre-Depends}
-Breaks: libtabixpp (<< 1.0.0-5~),
+Breaks: libhts3 (<< ${source:Version}),
+ libtabixpp (<< 1.0.0-5~),
libhts-dev (<< 1.13~),
samtools (<< 1.17~),
ivar (<< 1.3.1~)
-Replaces: libhts-dev (<< 1.13~)
+Replaces: libhts3, libhts-dev (<< 1.13~)
Description: C library for high-throughput sequencing data formats
HTSlib is an implementation of a unified C library for accessing common file
formats, such as SAM (Sequence Alignment/Map), CRAM and VCF (Variant Call
@@ -48,7 +50,7 @@
Architecture: any
Multi-Arch: same
Section: libdevel
-Depends: libhts3 (= ${binary:Version}),
+Depends: libhts3t64 (= ${binary:Version}),
libcurl4-gnutls-dev,
libdeflate-dev,
liblzma-dev,
diff -Nru htslib-1.19+ds/debian/libhts3.install htslib-1.19+ds/debian/libhts3.install
--- htslib-1.19+ds/debian/libhts3.install 2022-10-19 16:55:31.000000000 +0200
+++ htslib-1.19+ds/debian/libhts3.install 1970-01-01 01:00:00.000000000 +0100
@@ -1,3 +0,0 @@
-usr/lib/${DEB_HOST_MULTIARCH}/libhts.so.* usr/lib/${DEB_HOST_MULTIARCH}
-usr/lib/${DEB_HOST_MULTIARCH}/htslib usr/lib/${DEB_HOST_MULTIARCH}
-usr/share/man/man5/* usr/share/man/man5
diff -Nru htslib-1.19+ds/debian/libhts3.manpages htslib-1.19+ds/debian/libhts3.manpages
--- htslib-1.19+ds/debian/libhts3.manpages 2022-07-03 09:14:15.000000000 +0200
+++ htslib-1.19+ds/debian/libhts3.manpages 1970-01-01 01:00:00.000000000 +0100
@@ -1 +0,0 @@
-htslib-s3-plugin.7
diff -Nru htslib-1.19+ds/debian/libhts3.symbols htslib-1.19+ds/debian/libhts3.symbols
--- htslib-1.19+ds/debian/libhts3.symbols 2023-12-15 22:15:41.000000000 +0100
+++ htslib-1.19+ds/debian/libhts3.symbols 1970-01-01 01:00:00.000000000 +0100
@@ -1,929 +0,0 @@
-libhts.so.3 libhts3 #MINVER#
-* Build-Depends-Package: libhts-dev
- HTSLIB_1.0 at HTSLIB_1.0 1.17
- HTSLIB_1.10 at HTSLIB_1.10 1.17
- HTSLIB_1.11 at HTSLIB_1.11 1.17
- HTSLIB_1.12 at HTSLIB_1.12 1.17
- HTSLIB_1.13 at HTSLIB_1.13 1.17
- HTSLIB_1.14 at HTSLIB_1.14 1.17
- HTSLIB_1.15 at HTSLIB_1.15 1.17
- HTSLIB_1.16 at HTSLIB_1.16 1.17
- HTSLIB_1.17 at HTSLIB_1.17 1.17
- HTSLIB_1.18 at HTSLIB_1.18 1.18
- HTSLIB_1.1 at HTSLIB_1.1 1.17
- HTSLIB_1.2.1 at HTSLIB_1.2.1 1.17
- HTSLIB_1.3 at HTSLIB_1.3 1.17
- HTSLIB_1.4 at HTSLIB_1.4 1.17
- HTSLIB_1.5 at HTSLIB_1.5 1.17
- HTSLIB_1.6 at HTSLIB_1.6 1.17
- HTSLIB_1.7 at HTSLIB_1.7 1.17
- HTSLIB_1.9 at HTSLIB_1.9 1.17
- bam_aux2A at HTSLIB_1.0 1.17
- bam_aux2Z at HTSLIB_1.0 1.17
- bam_aux2f at HTSLIB_1.0 1.17
- bam_aux2i at HTSLIB_1.0 1.17
- bam_auxB2f at HTSLIB_1.4 1.17
- bam_auxB2i at HTSLIB_1.4 1.17
- bam_auxB_len at HTSLIB_1.4 1.17
- bam_aux_append at HTSLIB_1.0 1.17
- bam_aux_del at HTSLIB_1.0 1.17
- bam_aux_first at HTSLIB_1.17 1.17
- bam_aux_get at HTSLIB_1.0 1.17
- bam_aux_next at HTSLIB_1.17 1.17
- bam_aux_remove at HTSLIB_1.17 1.17
- bam_aux_update_array at HTSLIB_1.9 1.17
- bam_aux_update_float at HTSLIB_1.9 1.17
- bam_aux_update_int at HTSLIB_1.9 1.17
- bam_aux_update_str at HTSLIB_1.4 1.17
- bam_cigar2qlen at HTSLIB_1.0 1.17
- bam_cigar2rlen at HTSLIB_1.0 1.17
- bam_cigar_table at HTSLIB_1.10 1.17
- bam_copy1 at HTSLIB_1.0 1.17
- bam_destroy1 at HTSLIB_1.0 1.17
- bam_dup1 at HTSLIB_1.0 1.17
- bam_endpos at HTSLIB_1.0 1.17
- bam_flag2str at HTSLIB_1.0 1.17
- bam_hdr_read at HTSLIB_1.0 1.17
- bam_hdr_write at HTSLIB_1.0 1.17
- bam_index_build at Base 1.16
- bam_init1 at HTSLIB_1.0 1.17
- bam_mods_at_next_pos at HTSLIB_1.14 1.17
- bam_mods_at_qpos at HTSLIB_1.14 1.17
- bam_mods_query_type at HTSLIB_1.16 1.17
- bam_mods_queryi at HTSLIB_1.18 1.18
- bam_mods_recorded at HTSLIB_1.16 1.17
- bam_mplp64_auto at HTSLIB_1.10 1.17
- bam_mplp_auto at HTSLIB_1.0 1.17
- bam_mplp_constructor at HTSLIB_1.4 1.17
- bam_mplp_destroy at HTSLIB_1.0 1.17
- bam_mplp_destructor at HTSLIB_1.4 1.17
- bam_mplp_init at HTSLIB_1.0 1.17
- bam_mplp_init_overlaps at HTSLIB_1.0 1.17
- bam_mplp_reset at HTSLIB_1.4 1.17
- bam_mplp_set_maxcnt at HTSLIB_1.0 1.17
- bam_next_basemod at HTSLIB_1.14 1.17
- bam_parse_basemod2 at HTSLIB_1.18 1.18
- bam_parse_basemod at HTSLIB_1.14 1.17
- bam_parse_cigar at HTSLIB_1.12 1.17
- bam_plp64_auto at HTSLIB_1.10 1.17
- bam_plp64_next at HTSLIB_1.10 1.17
- bam_plp_auto at HTSLIB_1.0 1.17
- bam_plp_constructor at HTSLIB_1.4 1.17
- bam_plp_destroy at HTSLIB_1.0 1.17
- bam_plp_destructor at HTSLIB_1.4 1.17
- bam_plp_init at HTSLIB_1.0 1.17
- bam_plp_init_overlaps at Base 1.16
- bam_plp_insertion at HTSLIB_1.10 1.17
- bam_plp_insertion_mod at HTSLIB_1.14 1.17
- bam_plp_next at HTSLIB_1.0 1.17
- bam_plp_push at HTSLIB_1.0 1.17
- bam_plp_reset at HTSLIB_1.0 1.17
- bam_plp_set_maxcnt at HTSLIB_1.0 1.17
- bam_read1 at HTSLIB_1.0 1.17
- bam_set1 at HTSLIB_1.12 1.17
- bam_set_qname at HTSLIB_1.10 1.17
- bam_str2flag at HTSLIB_1.0 1.17
- bam_write1 at HTSLIB_1.0 1.17
- bcf_add_filter at HTSLIB_1.0 1.17
- bcf_add_id at HTSLIB_1.3 1.17
- bcf_calc_ac at HTSLIB_1.0 1.17
- bcf_clear at HTSLIB_1.0 1.17
- bcf_copy at HTSLIB_1.2.1 1.17
- bcf_destroy at HTSLIB_1.0 1.17
- bcf_dup at HTSLIB_1.0 1.17
- bcf_empty at HTSLIB_1.3 1.17
- bcf_enc_vchar at HTSLIB_1.0 1.17
- bcf_enc_vfloat at HTSLIB_1.0 1.17
- bcf_enc_vint at HTSLIB_1.0 1.17
- bcf_float_missing at HTSLIB_1.0 1.17
- bcf_float_vector_end at HTSLIB_1.0 1.17
- bcf_fmt_array at HTSLIB_1.0 1.17
- bcf_fmt_sized_array at HTSLIB_1.0 1.17
- bcf_get_fmt at HTSLIB_1.0 1.17
- bcf_get_fmt_id at HTSLIB_1.1 1.17
- bcf_get_format_string at HTSLIB_1.0 1.17
- bcf_get_format_values at HTSLIB_1.0 1.17
- bcf_get_info at HTSLIB_1.0 1.17
- bcf_get_info_id at HTSLIB_1.1 1.17
- bcf_get_info_values at HTSLIB_1.0 1.17
- bcf_get_variant_type at HTSLIB_1.0 1.17
- bcf_get_variant_types at HTSLIB_1.0 1.17
- bcf_gt_type at HTSLIB_1.0 1.17
- bcf_has_filter at HTSLIB_1.0 1.17
- bcf_has_variant_type at HTSLIB_1.16 1.17
- bcf_has_variant_types at HTSLIB_1.16 1.17
- bcf_hdr_add_hrec at HTSLIB_1.0 1.17
- bcf_hdr_add_sample at HTSLIB_1.0 1.17
- bcf_hdr_append at HTSLIB_1.0 1.17
- bcf_hdr_check_sanity at Base 1.16
- bcf_hdr_combine at HTSLIB_1.0 1.17
- bcf_hdr_destroy at HTSLIB_1.0 1.17
- bcf_hdr_dup at HTSLIB_1.0 1.17
- bcf_hdr_fmt_text at HTSLIB_1.0 1.17
- bcf_hdr_format at HTSLIB_1.4 1.17
- bcf_hdr_get_hrec at HTSLIB_1.0 1.17
- bcf_hdr_get_version at HTSLIB_1.0 1.17
- bcf_hdr_id2int at HTSLIB_1.0 1.17
- bcf_hdr_init at HTSLIB_1.0 1.17
- bcf_hdr_merge at HTSLIB_1.3 1.17
- bcf_hdr_parse at HTSLIB_1.0 1.17
- bcf_hdr_parse_line at HTSLIB_1.0 1.17
- bcf_hdr_parse_sample_line at Base 1.16
- bcf_hdr_printf at HTSLIB_1.0 1.17
- bcf_hdr_read at HTSLIB_1.0 1.17
- bcf_hdr_remove at HTSLIB_1.0 1.17
- bcf_hdr_seqnames at HTSLIB_1.0 1.17
- bcf_hdr_set at HTSLIB_1.0 1.17
- bcf_hdr_set_samples at HTSLIB_1.0 1.17
- bcf_hdr_set_version at HTSLIB_1.0 1.17
- bcf_hdr_subset at HTSLIB_1.0 1.17
- bcf_hdr_sync at HTSLIB_1.0 1.17
- bcf_hdr_update_hrec at Base 1.17
- bcf_hdr_write at HTSLIB_1.0 1.17
- bcf_header_debug at Base 1.16
- bcf_hrec_add_key at HTSLIB_1.0 1.17
- bcf_hrec_debug at Base 1.16
- bcf_hrec_destroy at HTSLIB_1.0 1.17
- bcf_hrec_dup at HTSLIB_1.0 1.17
- bcf_hrec_find_key at HTSLIB_1.0 1.17
- bcf_hrec_format at HTSLIB_1.0 1.17
- bcf_hrec_set_val at HTSLIB_1.0 1.17
- bcf_idx_init at HTSLIB_1.10 1.17
- bcf_idx_save at HTSLIB_1.10 1.17
- bcf_index at Base 1.16
- bcf_index_build2 at HTSLIB_1.3 1.17
- bcf_index_build3 at HTSLIB_1.4 1.17
- bcf_index_build at HTSLIB_1.0 1.17
- bcf_index_load2 at HTSLIB_1.3 1.17
- bcf_index_load3 at HTSLIB_1.10 1.17
- bcf_init at HTSLIB_1.0 1.17
- bcf_is_snp at HTSLIB_1.0 1.17
- bcf_read at HTSLIB_1.0 1.17
- bcf_readrec at HTSLIB_1.0 1.17
- bcf_remove_allele_set at HTSLIB_1.3 1.17
- bcf_remove_alleles at HTSLIB_1.0 1.17
- bcf_remove_filter at HTSLIB_1.0 1.17
- bcf_sr_add_reader at HTSLIB_1.0 1.17
- bcf_sr_destroy at HTSLIB_1.0 1.17
- bcf_sr_destroy_threads at HTSLIB_1.4 1.17
- bcf_sr_init at HTSLIB_1.0 1.17
- bcf_sr_next_line at HTSLIB_1.0 1.17
- bcf_sr_regions_destroy at HTSLIB_1.0 1.17
- bcf_sr_regions_flush at HTSLIB_1.0 1.17
- bcf_sr_regions_init at HTSLIB_1.0 1.17
- bcf_sr_regions_next at HTSLIB_1.0 1.17
- bcf_sr_regions_overlap at HTSLIB_1.0 1.17
- bcf_sr_regions_seek at HTSLIB_1.0 1.17
- bcf_sr_remove_reader at HTSLIB_1.0 1.17
- bcf_sr_seek at HTSLIB_1.0 1.17
- bcf_sr_set_opt at HTSLIB_1.4 1.17
- bcf_sr_set_regions at HTSLIB_1.0 1.17
- bcf_sr_set_samples at HTSLIB_1.0 1.17
- bcf_sr_set_targets at HTSLIB_1.0 1.17
- bcf_sr_set_threads at HTSLIB_1.4 1.17
- bcf_sr_sort_add_active at Base 1.16
- bcf_sr_sort_destroy at Base 1.16
- bcf_sr_sort_init at Base 1.16
- bcf_sr_sort_next at Base 1.16
- bcf_sr_sort_remove_reader at Base 1.16
- bcf_sr_sort_reset at Base 1.16
- bcf_sr_sort_set_active at Base 1.16
- bcf_sr_strerror at HTSLIB_1.2.1 1.17
- bcf_strerror at HTSLIB_1.17 1.17
- bcf_subset at HTSLIB_1.0 1.17
- bcf_subset_format at HTSLIB_1.0 1.17
- bcf_sweep_bwd at HTSLIB_1.0 1.17
- bcf_sweep_destroy at HTSLIB_1.0 1.17
- bcf_sweep_fwd at HTSLIB_1.0 1.17
- bcf_sweep_hdr at HTSLIB_1.0 1.17
- bcf_sweep_init at HTSLIB_1.0 1.17
- bcf_translate at HTSLIB_1.0 1.17
- bcf_trim_alleles at HTSLIB_1.0 1.17
- bcf_type_shift at HTSLIB_1.0 1.17
- bcf_unpack at HTSLIB_1.0 1.17
- bcf_update_alleles at HTSLIB_1.0 1.17
- bcf_update_alleles_str at HTSLIB_1.0 1.17
- bcf_update_filter at HTSLIB_1.0 1.17
- bcf_update_format at HTSLIB_1.0 1.17
- bcf_update_format_string at HTSLIB_1.0 1.17
- bcf_update_id at HTSLIB_1.0 1.17
- bcf_update_info at HTSLIB_1.0 1.17
- bcf_variant_length at HTSLIB_1.16 1.17
- bcf_write at HTSLIB_1.0 1.17
- bgzf_block_write at HTSLIB_1.4 1.17
- bgzf_check_EOF at HTSLIB_1.0 1.17
- bgzf_close at HTSLIB_1.0 1.17
- bgzf_compress at HTSLIB_1.3 1.17
- bgzf_compression at HTSLIB_1.4 1.17
- bgzf_dopen at HTSLIB_1.0 1.17
- bgzf_flush at HTSLIB_1.0 1.17
- bgzf_flush_try at HTSLIB_1.0 1.17
- bgzf_getc at HTSLIB_1.0 1.17
- bgzf_getline at HTSLIB_1.0 1.17
- bgzf_hfile at Base 1.16
- bgzf_hopen at HTSLIB_1.0 1.17
- bgzf_idx_push at Base 1.16
- bgzf_index_add_block at Base 1.16
- bgzf_index_build_init at HTSLIB_1.0 1.17
- bgzf_index_destroy at Base 1.16
- bgzf_index_dump at HTSLIB_1.0 1.17
- bgzf_index_dump_hfile at HTSLIB_1.4 1.17
- bgzf_index_load at HTSLIB_1.0 1.17
- bgzf_index_load_hfile at HTSLIB_1.4 1.17
- bgzf_is_bgzf at HTSLIB_1.0 1.17
- bgzf_mt at HTSLIB_1.0 1.17
- bgzf_mt_read_block at Base 1.16
- bgzf_open at HTSLIB_1.0 1.17
- bgzf_peek at HTSLIB_1.10 1.17
- bgzf_raw_read at HTSLIB_1.0 1.17
- bgzf_raw_write at HTSLIB_1.0 1.17
- bgzf_read at HTSLIB_1.0 1.17
- bgzf_read_block at HTSLIB_1.0 1.17
- bgzf_seek at HTSLIB_1.0 1.17
- bgzf_set_cache_size at HTSLIB_1.0 1.17
- bgzf_thread_pool at HTSLIB_1.4 1.17
- bgzf_useek at HTSLIB_1.0 1.17
- bgzf_utell at HTSLIB_1.0 1.17
- bgzf_write at HTSLIB_1.0 1.17
- close_plugin at Base 1.16
- cram_beta_decode_char at Base 1.16
- cram_beta_decode_free at Base 1.16
- cram_beta_decode_init at Base 1.16
- cram_beta_decode_int at Base 1.16
- cram_beta_decode_long at Base 1.16
- cram_beta_describe at Base 1.17
- cram_beta_encode_char at Base 1.16
- cram_beta_encode_free at Base 1.16
- cram_beta_encode_init at Base 1.16
- cram_beta_encode_int at Base 1.16
- cram_beta_encode_long at Base 1.16
- cram_beta_encode_store at Base 1.16
- cram_block_append at HTSLIB_1.3 1.17
- cram_block_compression_hdr_decoder2encoder at Base 1.16
- cram_block_compression_hdr_set_rg at Base 1.16
- cram_block_get_comp_size at HTSLIB_1.3 1.17
- cram_block_get_content_id at HTSLIB_1.3 1.17
- cram_block_get_content_type at HTSLIB_1.3 1.17
- cram_block_get_crc32 at HTSLIB_1.3 1.17
- cram_block_get_data at HTSLIB_1.3 1.17
- cram_block_get_method at HTSLIB_1.17 1.17
- cram_block_get_offset at HTSLIB_1.3 1.17
- cram_block_get_size at Base 1.16
- cram_block_get_uncomp_size at HTSLIB_1.3 1.17
- cram_block_method2str at Base 1.16
- cram_block_set_comp_size at HTSLIB_1.3 1.17
- cram_block_set_content_id at HTSLIB_1.3 1.17
- cram_block_set_crc32 at HTSLIB_1.3 1.17
- cram_block_set_data at HTSLIB_1.3 1.17
- cram_block_set_offset at HTSLIB_1.3 1.17
- cram_block_set_size at Base 1.16
- cram_block_set_uncomp_size at HTSLIB_1.3 1.17
- cram_block_size at HTSLIB_1.3 1.17
- cram_block_update_size at HTSLIB_1.3 1.17
- cram_byte_array_len_decode at Base 1.16
- cram_byte_array_len_decode_free at Base 1.16
- cram_byte_array_len_decode_init at Base 1.16
- cram_byte_array_len_describe at Base 1.17
- cram_byte_array_len_encode at Base 1.16
- cram_byte_array_len_encode_free at Base 1.16
- cram_byte_array_len_encode_init at Base 1.16
- cram_byte_array_len_encode_store at Base 1.16
- cram_byte_array_stop_decode_block at Base 1.16
- cram_byte_array_stop_decode_free at Base 1.16
- cram_byte_array_stop_decode_init at Base 1.16
- cram_byte_array_stop_describe at Base 1.17
- cram_byte_array_stop_encode at Base 1.16
- cram_byte_array_stop_encode_free at Base 1.16
- cram_byte_array_stop_encode_init at Base 1.16
- cram_byte_array_stop_encode_store at Base 1.16
- cram_check_EOF at HTSLIB_1.4 1.17
- cram_cid2ds_free at HTSLIB_1.17 1.17
- cram_cid2ds_query at HTSLIB_1.17 1.17
- cram_close at HTSLIB_1.0 1.17
- cram_codec_decoder2encoder at Base 1.16
- cram_codec_describe at HTSLIB_1.17 1.17
- cram_codec_get_content_ids at HTSLIB_1.17 1.17
- cram_codec_to_id at Base 1.16
- cram_compress_block2 at Base 1.16
- cram_compress_block at HTSLIB_1.0 1.17
- cram_const_decode_byte at Base 1.16
- cram_const_decode_free at Base 1.16
- cram_const_decode_init at Base 1.16
- cram_const_decode_int at Base 1.16
- cram_const_decode_long at Base 1.16
- cram_const_decode_size at Base 1.16
- cram_const_describe at Base 1.17
- cram_const_encode at Base 1.16
- cram_const_encode_init at Base 1.16
- cram_const_encode_store at Base 1.16
- cram_container_get_landmarks at HTSLIB_1.3 1.17
- cram_container_get_length at HTSLIB_1.3 1.17
- cram_container_get_num_bases at HTSLIB_1.17 1.17
- cram_container_get_num_blocks at HTSLIB_1.3 1.17
- cram_container_get_num_records at HTSLIB_1.17 1.17
- cram_container_is_empty at HTSLIB_1.3 1.17
- cram_container_set_landmarks at HTSLIB_1.3 1.17
- cram_container_set_length at HTSLIB_1.3 1.17
- cram_container_set_num_blocks at HTSLIB_1.3 1.17
- cram_container_size at HTSLIB_1.3 1.17
- cram_content_type2str at Base 1.16
- cram_copy_slice at HTSLIB_1.3 1.17
- cram_decode_TD at Base 1.16
- cram_decode_compression_header at HTSLIB_1.17 1.17
- cram_decode_estimate_sizes at Base 1.16
- cram_decode_slice at Base 1.16
- cram_decode_slice_header at HTSLIB_1.16 1.17
- cram_decode_slice_mt at Base 1.16
- cram_decode_slice_thread at Base 1.16
- cram_decoder_init at Base 1.16
- cram_dependent_data_series at Base 1.16
- cram_describe_encodings at HTSLIB_1.17 1.17
- cram_dopen at HTSLIB_1.0 1.17
- cram_drain_rqueue at Base 1.16
- cram_encode_compression_header at Base 1.16
- cram_encode_container at Base 1.16
- cram_encode_slice_header at Base 1.16
- cram_encoder_init at Base 1.16
- cram_encoding2str at Base 1.16
- cram_eof at HTSLIB_1.0 1.17
- cram_expand_method at HTSLIB_1.17 1.17
- cram_external_decode_char at Base 1.16
- cram_external_decode_free at Base 1.16
- cram_external_decode_init at Base 1.16
- cram_external_decode_int at Base 1.16
- cram_external_decode_long at Base 1.16
- cram_external_decode_size at Base 1.16
- cram_external_describe at Base 1.17
- cram_external_encode_char at Base 1.16
- cram_external_encode_free at Base 1.16
- cram_external_encode_init at Base 1.16
- cram_external_encode_int at Base 1.16
- cram_external_encode_long at Base 1.16
- cram_external_encode_sint at Base 1.16
- cram_external_encode_slong at Base 1.16
- cram_external_encode_store at Base 1.16
- cram_external_get_block at Base 1.16
- cram_fd_get_fp at HTSLIB_1.3 1.17
- cram_fd_get_header at HTSLIB_1.3 1.17
- cram_fd_get_version at HTSLIB_1.3 1.17
- cram_fd_set_fp at HTSLIB_1.3 1.17
- cram_fd_set_header at HTSLIB_1.3 1.17
- cram_fd_set_version at HTSLIB_1.3 1.17
- cram_flush at HTSLIB_1.0 1.17
- cram_flush_container at Base 1.16
- cram_flush_container_mt at Base 1.16
- cram_flush_thread at Base 1.16
- cram_free_block at HTSLIB_1.0 1.17
- cram_free_compression_header at HTSLIB_1.17 1.17
- cram_free_container at HTSLIB_1.0 1.17
- cram_free_file_def at Base 1.16
- cram_free_slice at Base 1.16
- cram_free_slice_header at HTSLIB_1.16 1.17
- cram_gamma_decode at Base 1.16
- cram_gamma_decode_free at Base 1.16
- cram_gamma_decode_init at Base 1.16
- cram_gamma_describe at Base 1.17
- cram_get_bam_seq at Base 1.16
- cram_get_ref at Base 1.16
- cram_get_refs at HTSLIB_1.4 1.17
- cram_get_seq at Base 1.16
- cram_huffman_decode_char0 at Base 1.16
- cram_huffman_decode_char at Base 1.16
- cram_huffman_decode_free at Base 1.16
- cram_huffman_decode_init at Base 1.16
- cram_huffman_decode_int0 at Base 1.16
- cram_huffman_decode_int at Base 1.16
- cram_huffman_decode_long0 at Base 1.16
- cram_huffman_decode_long at Base 1.16
- cram_huffman_decode_null at Base 1.16
- cram_huffman_describe at Base 1.17
- cram_huffman_encode_char0 at Base 1.16
- cram_huffman_encode_char at Base 1.16
- cram_huffman_encode_free at Base 1.16
- cram_huffman_encode_init at Base 1.16
- cram_huffman_encode_int0 at Base 1.16
- cram_huffman_encode_int at Base 1.16
- cram_huffman_encode_long0 at Base 1.16
- cram_huffman_encode_long at Base 1.16
- cram_huffman_encode_store at Base 1.16
- cram_index_build at Base 1.16
- cram_index_free at Base 1.16
- cram_index_last at Base 1.16
- cram_index_load at Base 1.16
- cram_index_query at Base 1.16
- cram_index_query_last at Base 1.16
- cram_index_slice at Base 1.16
- cram_load_reference at Base 1.16
- cram_major_vers at HTSLIB_1.3 1.17
- cram_minor_vers at HTSLIB_1.3 1.17
- cram_new_block at HTSLIB_1.0 1.17
- cram_new_compression_header at Base 1.16
- cram_new_container at HTSLIB_1.0 1.17
- cram_new_metrics at Base 1.16
- cram_new_slice at Base 1.16
- cram_open at HTSLIB_1.0 1.17
- cram_put_bam_seq at Base 1.16
- cram_read_SAM_hdr at Base 1.16
- cram_read_block at HTSLIB_1.0 1.17
- cram_read_container at HTSLIB_1.0 1.17
- cram_read_file_def at Base 1.16
- cram_read_slice at Base 1.16
- cram_ref_decr at Base 1.16
- cram_ref_incr at Base 1.16
- cram_ref_load at Base 1.16
- cram_seek at HTSLIB_1.0 1.17
- cram_seek_to_refpos at Base 1.16
- cram_set_header2 at Base 1.16
- cram_set_header at HTSLIB_1.0 1.17
- cram_set_option at HTSLIB_1.0 1.17
- cram_set_voption at HTSLIB_1.0 1.17
- cram_slice_hdr_get_coords at HTSLIB_1.16 1.17
- cram_slice_hdr_get_embed_ref_id at HTSLIB_1.16 1.17
- cram_slice_hdr_get_num_blocks at HTSLIB_1.16 1.17
- cram_stats_add at Base 1.16
- cram_stats_create at Base 1.16
- cram_stats_del at Base 1.16
- cram_stats_encoding at Base 1.16
- cram_stats_free at Base 1.16
- cram_store_container at HTSLIB_1.3 1.17
- cram_subexp_decode at Base 1.16
- cram_subexp_decode_free at Base 1.16
- cram_subexp_decode_init at Base 1.16
- cram_subexp_describe at Base 1.17
- cram_to_bam at Base 1.16
- cram_transcode_rg at HTSLIB_1.3 1.17
- cram_uncompress_block at HTSLIB_1.0 1.17
- cram_update_cid2ds_map at HTSLIB_1.17 1.17
- cram_update_curr_slice at Base 1.16
- cram_varint_decode_free at Base 1.16
- cram_varint_decode_init at Base 1.16
- cram_varint_decode_int at Base 1.16
- cram_varint_decode_long at Base 1.16
- cram_varint_decode_sint at Base 1.16
- cram_varint_decode_size at Base 1.16
- cram_varint_decode_slong at Base 1.16
- cram_varint_describe at Base 1.17
- cram_varint_encode_free at Base 1.16
- cram_varint_encode_init at Base 1.16
- cram_varint_encode_int at Base 1.16
- cram_varint_encode_long at Base 1.16
- cram_varint_encode_sint at Base 1.16
- cram_varint_encode_slong at Base 1.16
- cram_varint_encode_store at Base 1.16
- cram_varint_get_block at Base 1.16
- cram_write_SAM_hdr at Base 1.16
- cram_write_block at HTSLIB_1.0 1.17
- cram_write_container at HTSLIB_1.0 1.17
- cram_write_eof_block at Base 1.16
- cram_write_file_def at Base 1.16
- cram_xdelta_decode_block at Base 1.16
- cram_xdelta_decode_char at Base 1.16
- cram_xdelta_decode_free at Base 1.16
- cram_xdelta_decode_init at Base 1.16
- cram_xdelta_decode_int at Base 1.16
- cram_xdelta_decode_long at Base 1.16
- cram_xdelta_decode_size at Base 1.16
- cram_xdelta_encode_char at Base 1.16
- cram_xdelta_encode_flush at Base 1.16
- cram_xdelta_encode_free at Base 1.16
- cram_xdelta_encode_init at Base 1.16
- cram_xdelta_encode_int at Base 1.16
- cram_xdelta_encode_long at Base 1.16
- cram_xdelta_encode_store at Base 1.16
- cram_xdelta_get_block at Base 1.16
- cram_xpack_decode_char at Base 1.16
- cram_xpack_decode_free at Base 1.16
- cram_xpack_decode_init at Base 1.16
- cram_xpack_decode_int at Base 1.16
- cram_xpack_decode_long at Base 1.16
- cram_xpack_decode_size at Base 1.16
- cram_xpack_encode_char at Base 1.16
- cram_xpack_encode_flush at Base 1.16
- cram_xpack_encode_free at Base 1.16
- cram_xpack_encode_init at Base 1.16
- cram_xpack_encode_int at Base 1.16
- cram_xpack_encode_long at Base 1.16
- cram_xpack_encode_store at Base 1.16
- cram_xpack_get_block at Base 1.16
- cram_xrle_decode_char at Base 1.16
- cram_xrle_decode_free at Base 1.16
- cram_xrle_decode_init at Base 1.16
- cram_xrle_decode_int at Base 1.16
- cram_xrle_decode_long at Base 1.16
- cram_xrle_decode_size at Base 1.16
- cram_xrle_encode_char at Base 1.16
- cram_xrle_encode_flush at Base 1.16
- cram_xrle_encode_free at Base 1.16
- cram_xrle_encode_init at Base 1.16
- cram_xrle_encode_int at Base 1.16
- cram_xrle_encode_long at Base 1.16
- cram_xrle_encode_store at Base 1.16
- cram_xrle_get_block at Base 1.16
- errmod_cal at HTSLIB_1.4 1.17
- errmod_destroy at HTSLIB_1.4 1.17
- errmod_init at HTSLIB_1.4 1.17
- fai_adjust_region at HTSLIB_1.17 1.17
- fai_build3 at HTSLIB_1.4 1.17
- fai_build at HTSLIB_1.0 1.17
- fai_destroy at HTSLIB_1.0 1.17
- fai_fetch64 at HTSLIB_1.10 1.17
- fai_fetch at HTSLIB_1.0 1.17
- fai_fetchqual64 at HTSLIB_1.10 1.17
- fai_fetchqual at HTSLIB_1.9 1.17
- fai_line_length at HTSLIB_1.17 1.17
- fai_load3 at HTSLIB_1.4 1.17
- fai_load3_format at HTSLIB_1.9 1.17
- fai_load at HTSLIB_1.0 1.17
- fai_load_format at HTSLIB_1.9 1.17
- fai_parse_region at HTSLIB_1.10 1.17
- fai_path at HTSLIB_1.11 1.17
- fai_set_cache_size at HTSLIB_1.10 1.17
- fai_thread_pool at HTSLIB_1.18 1.18
- faidx_fetch_nseq at HTSLIB_1.0 1.17
- faidx_fetch_qual64 at HTSLIB_1.10 1.17
- faidx_fetch_qual at HTSLIB_1.9 1.17
- faidx_fetch_seq64 at HTSLIB_1.10 1.17
- faidx_fetch_seq at HTSLIB_1.0 1.17
- faidx_has_seq at HTSLIB_1.0 1.17
- faidx_iseq at HTSLIB_1.1 1.17
- faidx_nseq at HTSLIB_1.1 1.17
- faidx_seq_len64 at HTSLIB_1.17 1.17
- faidx_seq_len at HTSLIB_1.1 1.17
- fastq_format1 at Base 1.16
- fastq_state_destroy at Base 1.16
- fastq_state_set at Base 1.16
- find_file_url at Base 1.16
- find_path at Base 1.16
- haddextension at HTSLIB_1.10 1.17
- hclose at HTSLIB_1.0 1.17
- hclose_abruptly at HTSLIB_1.0 1.17
- hdopen at HTSLIB_1.0 1.17
- hfile_add_scheme_handler at HTSLIB_1.3 1.17
- hfile_always_local at HTSLIB_1.3 1.17
- hfile_always_remote at HTSLIB_1.3 1.17
- hfile_destroy at HTSLIB_1.0 1.17
- hfile_has_plugin at HTSLIB_1.12 1.17
- hfile_init at HTSLIB_1.0 1.17
- hfile_init_fixed at Base 1.16
- hfile_list_plugins at HTSLIB_1.12 1.17
- hfile_list_schemes at HTSLIB_1.12 1.17
- hfile_mem_get_buffer at HTSLIB_1.7 1.17
- hfile_mem_steal_buffer at HTSLIB_1.7 1.17
- hfile_oflags at HTSLIB_1.0 1.17
- hfile_plugin_init_crypt4gh_needed at Base 1.16
- hfile_plugin_init_mem at Base 1.16
- hfile_set_blksize at HTSLIB_1.5 1.17
- hfile_shutdown at Base 1.16
- hflush at HTSLIB_1.0 1.17
- hgetc2 at HTSLIB_1.0 1.17
- hgetdelim at HTSLIB_1.4 1.17
- hgets at HTSLIB_1.4 1.17
- hisremote at HTSLIB_1.2.1 1.17
- hopen at HTSLIB_1.0 1.17
- hopen_htsget_redirect at Base 1.16
- hpeek at HTSLIB_1.0 1.17
- hputc2 at HTSLIB_1.0 1.17
- hputs2 at HTSLIB_1.0 1.17
- hread2 at HTSLIB_1.0 1.17
- hrec_add_idx at HTSLIB_1.0 1.17
- hseek at HTSLIB_1.0 1.17
- hts_base64_decoded_length at Base 1.16
- hts_base_mod_state_alloc at HTSLIB_1.14 1.17
- hts_base_mod_state_free at HTSLIB_1.14 1.17
- hts_check_EOF at HTSLIB_1.4 1.17
- hts_close at HTSLIB_1.0 1.17
- hts_decode_base64 at Base 1.16
- hts_decode_percent at Base 1.16
- hts_detect_format2 at HTSLIB_1.15 1.17
- hts_detect_format at HTSLIB_1.2.1 1.17
- hts_drand48 at HTSLIB_1.6 1.17
- hts_erand48 at HTSLIB_1.6 1.17
- hts_feature_string at HTSLIB_1.12 1.17
- hts_features at HTSLIB_1.12 1.17
- hts_file_type at HTSLIB_1.0 1.17
- hts_filter_eval2 at HTSLIB_1.16 1.17
- hts_filter_eval at HTSLIB_1.12 1.17
- hts_filter_free at HTSLIB_1.12 1.17
- hts_filter_init at HTSLIB_1.12 1.17
- hts_flush at HTSLIB_1.14 1.17
- hts_format_description at HTSLIB_1.2.1 1.17
- hts_format_file_extension at HTSLIB_1.3 1.17
- hts_free at HTSLIB_1.10 1.17
- hts_get_bgzfp at HTSLIB_1.0 1.17
- hts_get_format at HTSLIB_1.2.1 1.17
- hts_get_log_level at HTSLIB_1.5 1.17
- hts_getline at HTSLIB_1.0 1.17
- hts_hopen at HTSLIB_1.2.1 1.17
- hts_idx_amend_last at Base 1.16
- hts_idx_check_local at Base 1.16
- hts_idx_check_range at Base 1.16
- hts_idx_destroy at HTSLIB_1.0 1.17
- hts_idx_finish at HTSLIB_1.0 1.17
- hts_idx_fmt at HTSLIB_1.10 1.17
- hts_idx_get_meta at HTSLIB_1.0 1.17
- hts_idx_get_n_no_coor at HTSLIB_1.0 1.17
- hts_idx_get_stat at HTSLIB_1.0 1.17
- hts_idx_getfn at Base 1.16
- hts_idx_init at HTSLIB_1.0 1.17
- hts_idx_load2 at HTSLIB_1.3 1.17
- hts_idx_load3 at HTSLIB_1.10 1.17
- hts_idx_load at HTSLIB_1.0 1.17
- hts_idx_locatefn at Base 1.16
- hts_idx_nseq at HTSLIB_1.13 1.17
- hts_idx_push at HTSLIB_1.0 1.17
- hts_idx_save at HTSLIB_1.0 1.17
- hts_idx_save_as at HTSLIB_1.3 1.17
- hts_idx_seqnames at HTSLIB_1.0 1.17
- hts_idx_set_meta at HTSLIB_1.0 1.17
- hts_idx_tbi_name at HTSLIB_1.10 1.17
- hts_itr_destroy at HTSLIB_1.0 1.17
- hts_itr_multi_bam at HTSLIB_1.7 1.17
- hts_itr_multi_cram at HTSLIB_1.7 1.17
- hts_itr_multi_next at HTSLIB_1.7 1.17
- hts_itr_next at HTSLIB_1.0 1.17
- hts_itr_off at Base 1.16
- hts_itr_query at HTSLIB_1.0 1.17
- hts_itr_querys at HTSLIB_1.0 1.17
- hts_itr_regions at HTSLIB_1.7 1.17
- hts_json_alloc_token at HTSLIB_1.7 1.17
- hts_json_fnext at HTSLIB_1.4 1.17
- hts_json_free_token at HTSLIB_1.7 1.17
- hts_json_fskip_value at HTSLIB_1.4 1.17
- hts_json_snext at HTSLIB_1.4 1.17
- hts_json_sskip_value at HTSLIB_1.4 1.17
- hts_json_token_str at HTSLIB_1.7 1.17
- hts_json_token_type at HTSLIB_1.7 1.17
- hts_lib_shutdown at HTSLIB_1.11 1.17
- hts_log at HTSLIB_1.5 1.17
- hts_lrand48 at HTSLIB_1.6 1.17
- hts_md5_destroy at HTSLIB_1.3 1.17
- hts_md5_final at HTSLIB_1.3 1.17
- hts_md5_hex at HTSLIB_1.3 1.17
- hts_md5_init at HTSLIB_1.3 1.17
- hts_md5_reset at HTSLIB_1.3 1.17
- hts_md5_update at HTSLIB_1.3 1.17
- hts_open at HTSLIB_1.0 1.17
- hts_open_format at HTSLIB_1.3 1.17
- hts_open_tmpfile at Base 1.16
- hts_opt_add at HTSLIB_1.3 1.17
- hts_opt_apply at HTSLIB_1.3 1.17
- hts_opt_free at HTSLIB_1.3 1.17
- hts_parse_decimal at HTSLIB_1.3 1.17
- hts_parse_format at HTSLIB_1.3 1.17
- hts_parse_opt_list at HTSLIB_1.3 1.17
- hts_parse_reg64 at HTSLIB_1.10 1.17
- hts_parse_reg at HTSLIB_1.0 1.17
- hts_parse_region at HTSLIB_1.10 1.17
- hts_path_itr_next at Base 1.16
- hts_path_itr_setup at Base 1.16
- hts_plugin_path at Base 1.16
- hts_readlines at HTSLIB_1.0 1.17
- hts_readlist at HTSLIB_1.0 1.17
- hts_realloc_or_die at HTSLIB_1.4 1.17
- hts_reglist_create at HTSLIB_1.10 1.17
- hts_reglist_free at HTSLIB_1.7 1.17
- hts_resize_array_ at HTSLIB_1.10 1.17
- hts_set_cache_size at HTSLIB_1.4 1.17
- hts_set_fai_filename at HTSLIB_1.0 1.17
- hts_set_filter_expression at HTSLIB_1.12 1.17
- hts_set_log_level at HTSLIB_1.5 1.17
- hts_set_opt at HTSLIB_1.2.1 1.17
- hts_set_thread_pool at HTSLIB_1.4 1.17
- hts_set_threads at HTSLIB_1.0 1.17
- hts_srand48 at HTSLIB_1.6 1.17
- hts_strprint at Base 1.16
- hts_test_feature at HTSLIB_1.12 1.17
- hts_tpool_delete_result at HTSLIB_1.4 1.17
- hts_tpool_destroy at HTSLIB_1.4 1.17
- hts_tpool_dispatch2 at HTSLIB_1.4 1.17
- hts_tpool_dispatch3 at HTSLIB_1.10 1.17
- hts_tpool_dispatch at HTSLIB_1.4 1.17
- hts_tpool_init at HTSLIB_1.4 1.17
- hts_tpool_kill at HTSLIB_1.4 1.17
- hts_tpool_next_result at HTSLIB_1.4 1.17
- hts_tpool_next_result_wait at HTSLIB_1.4 1.17
- hts_tpool_process_attach at HTSLIB_1.4 1.17
- hts_tpool_process_destroy at HTSLIB_1.4 1.17
- hts_tpool_process_detach at HTSLIB_1.4 1.17
- hts_tpool_process_empty at HTSLIB_1.4 1.17
- hts_tpool_process_flush at HTSLIB_1.4 1.17
- hts_tpool_process_init at HTSLIB_1.4 1.17
- hts_tpool_process_is_shutdown at HTSLIB_1.11 1.17
- hts_tpool_process_len at HTSLIB_1.4 1.17
- hts_tpool_process_qsize at HTSLIB_1.4 1.17
- hts_tpool_process_ref_decr at HTSLIB_1.4 1.17
- hts_tpool_process_ref_incr at HTSLIB_1.4 1.17
- hts_tpool_process_reset at HTSLIB_1.4 1.17
- hts_tpool_process_shutdown at HTSLIB_1.4 1.17
- hts_tpool_process_sz at HTSLIB_1.4 1.17
- hts_tpool_result_data at HTSLIB_1.4 1.17
- hts_tpool_size at HTSLIB_1.4 1.17
- hts_tpool_wake_dispatch at HTSLIB_1.4 1.17
- hts_useek at Base 1.16
- hts_utell at Base 1.16
- hts_verbose at HTSLIB_1.0 1.17
- hts_version at HTSLIB_1.0 1.17
- hwrite2 at HTSLIB_1.0 1.17
- int32_get_blk at Base 1.16
- int32_put_blk at HTSLIB_1.3 1.17
- itf8_bytes at Base 1.16
- itf8_decode at Base 1.16
- itf8_decode_crc at Base 1.16
- itf8_encode at Base 1.16
- itf8_put_blk at Base 1.16
- kf_betai at HTSLIB_1.0 1.17
- kf_erfc at HTSLIB_1.0 1.17
- kf_gammap at HTSLIB_1.0 1.17
- kf_gammaq at HTSLIB_1.0 1.17
- kf_lgamma at HTSLIB_1.0 1.17
- kgetline2 at HTSLIB_1.10 1.17
- kgetline at HTSLIB_1.3 1.17
- kh_clear_s2i at Base 1.16
- kh_del_s2i at Base 1.16
- kh_destroy_s2i at Base 1.16
- kh_get_s2i at Base 1.16
- kh_init_s2i at Base 1.16
- kh_put_s2i at Base 1.16
- kh_resize_s2i at Base 1.16
- kmemmem at HTSLIB_1.0 1.17
- knet_close at HTSLIB_1.0 1.17
- knet_dopen at HTSLIB_1.0 1.17
- knet_open at HTSLIB_1.0 1.17
- knet_read at HTSLIB_1.0 1.17
- knet_seek at HTSLIB_1.0 1.17
- kputd at HTSLIB_1.4 1.17
- ksplit_core at HTSLIB_1.0 1.17
- ksprintf at HTSLIB_1.0 1.17
- kstrnstr at HTSLIB_1.0 1.17
- kstrstr at HTSLIB_1.0 1.17
- kstrtok at HTSLIB_1.0 1.17
- kt_fisher_exact at HTSLIB_1.0 1.17
- kvsprintf at HTSLIB_1.0 1.17
- load_plugin at Base 1.16
- ltf8_bytes at Base 1.16
- ltf8_decode at Base 1.16
- ltf8_decode_crc at Base 1.16
- ltf8_put_blk at Base 1.16
- mfascii at Base 1.16
- mfclose at Base 1.16
- mfcreate at Base 1.16
- mfcreate_from at Base 1.16
- mfdestroy at Base 1.16
- mfdetach at Base 1.16
- mfeof at Base 1.16
- mfflush at Base 1.16
- mfgetc at Base 1.16
- mfgets at Base 1.16
- mfmmap at Base 1.16
- mfopen at Base 1.16
- mfread at Base 1.16
- mfrecreate at Base 1.16
- mfreopen at Base 1.16
- mfseek at Base 1.16
- mfsteal at Base 1.16
- mftell at Base 1.16
- mftruncate at Base 1.16
- mfwrite at Base 1.16
- mrewind at Base 1.16
- mstderr at Base 1.16
- mstdin at Base 1.16
- mstdout at Base 1.16
- mungetc at Base 1.16
- open_path_mfile at Base 1.16
- plugin_func at Base 1.16
- plugin_sym at Base 1.16
- pool_alloc at Base 1.16
- pool_create at Base 1.16
- pool_destroy at Base 1.16
- pool_free at Base 1.16
- probaln_glocal at HTSLIB_1.4 1.17
- refs2id at Base 1.16
- refs_free at Base 1.16
- regidx_destroy at HTSLIB_1.2.1 1.17
- regidx_init at HTSLIB_1.2.1 1.17
- regidx_init_string at HTSLIB_1.10 1.17
- regidx_insert at HTSLIB_1.2.1 1.17
- regidx_insert_list at HTSLIB_1.10 1.17
- regidx_nregs at HTSLIB_1.2.1 1.17
- regidx_overlap at HTSLIB_1.2.1 1.17
- regidx_parse_bed at HTSLIB_1.2.1 1.17
- regidx_parse_reg at HTSLIB_1.10 1.17
- regidx_parse_tab at HTSLIB_1.2.1 1.17
- regidx_parse_vcf at HTSLIB_1.10 1.17
- regidx_push at HTSLIB_1.10 1.17
- regidx_seq_names at HTSLIB_1.2.1 1.17
- regidx_seq_nregs at HTSLIB_1.2.1 1.17
- regitr_copy at HTSLIB_1.10 1.17
- regitr_destroy at HTSLIB_1.10 1.17
- regitr_init at HTSLIB_1.10 1.17
- regitr_loop at HTSLIB_1.10 1.17
- regitr_overlap at HTSLIB_1.10 1.17
- regitr_reset at HTSLIB_1.10 1.17
- reset_metrics at Base 1.16
- sam_cap_mapq at HTSLIB_1.4 1.17
- sam_format1 at HTSLIB_1.0 1.17
- sam_hdr_add_line at HTSLIB_1.10 1.17
- sam_hdr_add_lines at HTSLIB_1.0 1.17
- sam_hdr_add_pg at HTSLIB_1.10 1.17
- sam_hdr_change_HD at HTSLIB_1.7 1.17
- sam_hdr_count_lines at HTSLIB_1.10 1.17
- sam_hdr_destroy at HTSLIB_1.10 1.17
- sam_hdr_dup at HTSLIB_1.0 1.17
- sam_hdr_dup_sdict at Base 1.16
- sam_hdr_fill_hrecs at Base 1.16
- sam_hdr_find_line_id at HTSLIB_1.10 1.17
- sam_hdr_find_line_pos at HTSLIB_1.10 1.17
- sam_hdr_find_tag_id at HTSLIB_1.10 1.17
- sam_hdr_find_tag_pos at HTSLIB_1.10 1.17
- sam_hdr_incr_ref at HTSLIB_1.0 1.17
- sam_hdr_init at HTSLIB_1.10 1.17
- sam_hdr_length at HTSLIB_1.0 1.17
- sam_hdr_line_index at HTSLIB_1.10 1.17
- sam_hdr_line_name at HTSLIB_1.10 1.17
- sam_hdr_name2tid at HTSLIB_1.10 1.17
- sam_hdr_nref at HTSLIB_1.10 1.17
- sam_hdr_parse at HTSLIB_1.0 1.17
- sam_hdr_pg_id at HTSLIB_1.10 1.17
- sam_hdr_read at HTSLIB_1.0 1.17
- sam_hdr_rebuild at Base 1.16
- sam_hdr_remove_except at HTSLIB_1.10 1.17
- sam_hdr_remove_line_id at HTSLIB_1.10 1.17
- sam_hdr_remove_line_pos at HTSLIB_1.10 1.17
- sam_hdr_remove_lines at HTSLIB_1.10 1.17
- sam_hdr_remove_tag_id at HTSLIB_1.10 1.17
- sam_hdr_str at HTSLIB_1.0 1.17
- sam_hdr_tid2len at HTSLIB_1.10 1.17
- sam_hdr_tid2name at HTSLIB_1.10 1.17
- sam_hdr_update_line at HTSLIB_1.10 1.17
- sam_hdr_update_target_arrays at Base 1.16
- sam_hdr_write at HTSLIB_1.0 1.17
- sam_hrecs_find_key at Base 1.16
- sam_hrecs_find_rg at Base 1.16
- sam_hrecs_find_type_id at Base 1.16
- sam_hrecs_free at Base 1.16
- sam_hrecs_group_order at Base 1.16
- sam_hrecs_new at Base 1.16
- sam_hrecs_rebuild_text at Base 1.16
- sam_hrecs_remove_key at Base 1.16
- sam_hrecs_sort_order at Base 1.16
- sam_idx_init at HTSLIB_1.10 1.17
- sam_idx_save at HTSLIB_1.10 1.17
- sam_index_build2 at HTSLIB_1.3 1.17
- sam_index_build3 at HTSLIB_1.4 1.17
- sam_index_build at HTSLIB_1.3 1.17
- sam_index_load2 at HTSLIB_1.3 1.17
- sam_index_load3 at HTSLIB_1.10 1.17
- sam_index_load at HTSLIB_1.0 1.17
- sam_itr_queryi at HTSLIB_1.0 1.17
- sam_itr_querys at HTSLIB_1.0 1.17
- sam_itr_regarray at HTSLIB_1.10 1.17
- sam_itr_regions at HTSLIB_1.7 1.17
- sam_open_mode at HTSLIB_1.0 1.17
- sam_open_mode_opts at HTSLIB_1.3 1.17
- sam_parse1 at HTSLIB_1.0 1.17
- sam_parse_cigar at HTSLIB_1.12 1.17
- sam_parse_region at HTSLIB_1.10 1.17
- sam_passes_filter at HTSLIB_1.12 1.17
- sam_prob_realn at HTSLIB_1.4 1.17
- sam_read1 at HTSLIB_1.0 1.17
- sam_realloc_bam_data at Base 1.16
- sam_set_thread_pool at Base 1.16
- sam_set_threads at Base 1.16
- sam_state_destroy at Base 1.16
- sam_write1 at HTSLIB_1.0 1.17
- seq_nt16_int at HTSLIB_1.2.1 1.17
- seq_nt16_str at HTSLIB_1.0 1.17
- seq_nt16_table at HTSLIB_1.0 1.17
- string_alloc at Base 1.16
- string_dup at Base 1.16
- string_ndup at Base 1.16
- string_pool_create at Base 1.16
- string_pool_destroy at Base 1.16
- stringify_argv at HTSLIB_1.0 1.17
- tbx_conf_bed at HTSLIB_1.0 1.17
- tbx_conf_gff at HTSLIB_1.0 1.17
- tbx_conf_psltbl at HTSLIB_1.0 1.17
- tbx_conf_sam at HTSLIB_1.0 1.17
- tbx_conf_vcf at HTSLIB_1.0 1.17
- tbx_destroy at HTSLIB_1.0 1.17
- tbx_index at HTSLIB_1.0 1.17
- tbx_index_build2 at HTSLIB_1.3 1.17
- tbx_index_build3 at HTSLIB_1.4 1.17
- tbx_index_build at HTSLIB_1.0 1.17
- tbx_index_load2 at HTSLIB_1.3 1.17
- tbx_index_load3 at HTSLIB_1.10 1.17
- tbx_index_load at HTSLIB_1.0 1.17
- tbx_name2id at HTSLIB_1.0 1.17
- tbx_parse1 at Base 1.16
- tbx_readrec at HTSLIB_1.0 1.17
- tbx_seqnames at HTSLIB_1.0 1.17
- tokenise_search_path at Base 1.16
- vcf_format at HTSLIB_1.0 1.17
- vcf_hdr_read at HTSLIB_1.0 1.17
- vcf_hdr_write at HTSLIB_1.0 1.17
- vcf_open_mode at HTSLIB_1.11 1.17
- vcf_parse at HTSLIB_1.0 1.17
- vcf_read at HTSLIB_1.0 1.17
- vcf_write at HTSLIB_1.0 1.17
- vcf_write_line at HTSLIB_1.0 1.17
- zlib_mem_inflate at Base 1.16
diff -Nru htslib-1.19+ds/debian/libhts3t64.install htslib-1.19+ds/debian/libhts3t64.install
--- htslib-1.19+ds/debian/libhts3t64.install 1970-01-01 01:00:00.000000000 +0100
+++ htslib-1.19+ds/debian/libhts3t64.install 2024-02-20 19:45:13.000000000 +0100
@@ -0,0 +1,3 @@
+usr/lib/${DEB_HOST_MULTIARCH}/libhts.so.* usr/lib/${DEB_HOST_MULTIARCH}
+usr/lib/${DEB_HOST_MULTIARCH}/htslib usr/lib/${DEB_HOST_MULTIARCH}
+usr/share/man/man5/* usr/share/man/man5
diff -Nru htslib-1.19+ds/debian/libhts3t64.lintian-overrides htslib-1.19+ds/debian/libhts3t64.lintian-overrides
--- htslib-1.19+ds/debian/libhts3t64.lintian-overrides 1970-01-01 01:00:00.000000000 +0100
+++ htslib-1.19+ds/debian/libhts3t64.lintian-overrides 2024-02-20 19:55:09.000000000 +0100
@@ -0,0 +1 @@
+libhts3t64: package-name-doesnt-match-sonames libhts3
diff -Nru htslib-1.19+ds/debian/libhts3t64.manpages htslib-1.19+ds/debian/libhts3t64.manpages
--- htslib-1.19+ds/debian/libhts3t64.manpages 1970-01-01 01:00:00.000000000 +0100
+++ htslib-1.19+ds/debian/libhts3t64.manpages 2024-02-20 19:48:27.000000000 +0100
@@ -0,0 +1 @@
+htslib-s3-plugin.7
diff -Nru htslib-1.19+ds/debian/libhts3t64.symbols htslib-1.19+ds/debian/libhts3t64.symbols
--- htslib-1.19+ds/debian/libhts3t64.symbols 1970-01-01 01:00:00.000000000 +0100
+++ htslib-1.19+ds/debian/libhts3t64.symbols 2024-02-20 19:55:09.000000000 +0100
@@ -0,0 +1,929 @@
+libhts.so.3 libhts3t64 #MINVER#
+* Build-Depends-Package: libhts-dev
+ HTSLIB_1.0 at HTSLIB_1.0 1.17
+ HTSLIB_1.10 at HTSLIB_1.10 1.17
+ HTSLIB_1.11 at HTSLIB_1.11 1.17
+ HTSLIB_1.12 at HTSLIB_1.12 1.17
+ HTSLIB_1.13 at HTSLIB_1.13 1.17
+ HTSLIB_1.14 at HTSLIB_1.14 1.17
+ HTSLIB_1.15 at HTSLIB_1.15 1.17
+ HTSLIB_1.16 at HTSLIB_1.16 1.17
+ HTSLIB_1.17 at HTSLIB_1.17 1.17
+ HTSLIB_1.18 at HTSLIB_1.18 1.18
+ HTSLIB_1.1 at HTSLIB_1.1 1.17
+ HTSLIB_1.2.1 at HTSLIB_1.2.1 1.17
+ HTSLIB_1.3 at HTSLIB_1.3 1.17
+ HTSLIB_1.4 at HTSLIB_1.4 1.17
+ HTSLIB_1.5 at HTSLIB_1.5 1.17
+ HTSLIB_1.6 at HTSLIB_1.6 1.17
+ HTSLIB_1.7 at HTSLIB_1.7 1.17
+ HTSLIB_1.9 at HTSLIB_1.9 1.17
+ bam_aux2A at HTSLIB_1.0 1.17
+ bam_aux2Z at HTSLIB_1.0 1.17
+ bam_aux2f at HTSLIB_1.0 1.17
+ bam_aux2i at HTSLIB_1.0 1.17
+ bam_auxB2f at HTSLIB_1.4 1.17
+ bam_auxB2i at HTSLIB_1.4 1.17
+ bam_auxB_len at HTSLIB_1.4 1.17
+ bam_aux_append at HTSLIB_1.0 1.17
+ bam_aux_del at HTSLIB_1.0 1.17
+ bam_aux_first at HTSLIB_1.17 1.17
+ bam_aux_get at HTSLIB_1.0 1.17
+ bam_aux_next at HTSLIB_1.17 1.17
+ bam_aux_remove at HTSLIB_1.17 1.17
+ bam_aux_update_array at HTSLIB_1.9 1.17
+ bam_aux_update_float at HTSLIB_1.9 1.17
+ bam_aux_update_int at HTSLIB_1.9 1.17
+ bam_aux_update_str at HTSLIB_1.4 1.17
+ bam_cigar2qlen at HTSLIB_1.0 1.17
+ bam_cigar2rlen at HTSLIB_1.0 1.17
+ bam_cigar_table at HTSLIB_1.10 1.17
+ bam_copy1 at HTSLIB_1.0 1.17
+ bam_destroy1 at HTSLIB_1.0 1.17
+ bam_dup1 at HTSLIB_1.0 1.17
+ bam_endpos at HTSLIB_1.0 1.17
+ bam_flag2str at HTSLIB_1.0 1.17
+ bam_hdr_read at HTSLIB_1.0 1.17
+ bam_hdr_write at HTSLIB_1.0 1.17
+ bam_index_build at Base 1.16
+ bam_init1 at HTSLIB_1.0 1.17
+ bam_mods_at_next_pos at HTSLIB_1.14 1.17
+ bam_mods_at_qpos at HTSLIB_1.14 1.17
+ bam_mods_query_type at HTSLIB_1.16 1.17
+ bam_mods_queryi at HTSLIB_1.18 1.18
+ bam_mods_recorded at HTSLIB_1.16 1.17
+ bam_mplp64_auto at HTSLIB_1.10 1.17
+ bam_mplp_auto at HTSLIB_1.0 1.17
+ bam_mplp_constructor at HTSLIB_1.4 1.17
+ bam_mplp_destroy at HTSLIB_1.0 1.17
+ bam_mplp_destructor at HTSLIB_1.4 1.17
+ bam_mplp_init at HTSLIB_1.0 1.17
+ bam_mplp_init_overlaps at HTSLIB_1.0 1.17
+ bam_mplp_reset at HTSLIB_1.4 1.17
+ bam_mplp_set_maxcnt at HTSLIB_1.0 1.17
+ bam_next_basemod at HTSLIB_1.14 1.17
+ bam_parse_basemod2 at HTSLIB_1.18 1.18
+ bam_parse_basemod at HTSLIB_1.14 1.17
+ bam_parse_cigar at HTSLIB_1.12 1.17
+ bam_plp64_auto at HTSLIB_1.10 1.17
+ bam_plp64_next at HTSLIB_1.10 1.17
+ bam_plp_auto at HTSLIB_1.0 1.17
+ bam_plp_constructor at HTSLIB_1.4 1.17
+ bam_plp_destroy at HTSLIB_1.0 1.17
+ bam_plp_destructor at HTSLIB_1.4 1.17
+ bam_plp_init at HTSLIB_1.0 1.17
+ bam_plp_init_overlaps at Base 1.16
+ bam_plp_insertion at HTSLIB_1.10 1.17
+ bam_plp_insertion_mod at HTSLIB_1.14 1.17
+ bam_plp_next at HTSLIB_1.0 1.17
+ bam_plp_push at HTSLIB_1.0 1.17
+ bam_plp_reset at HTSLIB_1.0 1.17
+ bam_plp_set_maxcnt at HTSLIB_1.0 1.17
+ bam_read1 at HTSLIB_1.0 1.17
+ bam_set1 at HTSLIB_1.12 1.17
+ bam_set_qname at HTSLIB_1.10 1.17
+ bam_str2flag at HTSLIB_1.0 1.17
+ bam_write1 at HTSLIB_1.0 1.17
+ bcf_add_filter at HTSLIB_1.0 1.17
+ bcf_add_id at HTSLIB_1.3 1.17
+ bcf_calc_ac at HTSLIB_1.0 1.17
+ bcf_clear at HTSLIB_1.0 1.17
+ bcf_copy at HTSLIB_1.2.1 1.17
+ bcf_destroy at HTSLIB_1.0 1.17
+ bcf_dup at HTSLIB_1.0 1.17
+ bcf_empty at HTSLIB_1.3 1.17
+ bcf_enc_vchar at HTSLIB_1.0 1.17
+ bcf_enc_vfloat at HTSLIB_1.0 1.17
+ bcf_enc_vint at HTSLIB_1.0 1.17
+ bcf_float_missing at HTSLIB_1.0 1.17
+ bcf_float_vector_end at HTSLIB_1.0 1.17
+ bcf_fmt_array at HTSLIB_1.0 1.17
+ bcf_fmt_sized_array at HTSLIB_1.0 1.17
+ bcf_get_fmt at HTSLIB_1.0 1.17
+ bcf_get_fmt_id at HTSLIB_1.1 1.17
+ bcf_get_format_string at HTSLIB_1.0 1.17
+ bcf_get_format_values at HTSLIB_1.0 1.17
+ bcf_get_info at HTSLIB_1.0 1.17
+ bcf_get_info_id at HTSLIB_1.1 1.17
+ bcf_get_info_values at HTSLIB_1.0 1.17
+ bcf_get_variant_type at HTSLIB_1.0 1.17
+ bcf_get_variant_types at HTSLIB_1.0 1.17
+ bcf_gt_type at HTSLIB_1.0 1.17
+ bcf_has_filter at HTSLIB_1.0 1.17
+ bcf_has_variant_type at HTSLIB_1.16 1.17
+ bcf_has_variant_types at HTSLIB_1.16 1.17
+ bcf_hdr_add_hrec at HTSLIB_1.0 1.17
+ bcf_hdr_add_sample at HTSLIB_1.0 1.17
+ bcf_hdr_append at HTSLIB_1.0 1.17
+ bcf_hdr_check_sanity at Base 1.16
+ bcf_hdr_combine at HTSLIB_1.0 1.17
+ bcf_hdr_destroy at HTSLIB_1.0 1.17
+ bcf_hdr_dup at HTSLIB_1.0 1.17
+ bcf_hdr_fmt_text at HTSLIB_1.0 1.17
+ bcf_hdr_format at HTSLIB_1.4 1.17
+ bcf_hdr_get_hrec at HTSLIB_1.0 1.17
+ bcf_hdr_get_version at HTSLIB_1.0 1.17
+ bcf_hdr_id2int at HTSLIB_1.0 1.17
+ bcf_hdr_init at HTSLIB_1.0 1.17
+ bcf_hdr_merge at HTSLIB_1.3 1.17
+ bcf_hdr_parse at HTSLIB_1.0 1.17
+ bcf_hdr_parse_line at HTSLIB_1.0 1.17
+ bcf_hdr_parse_sample_line at Base 1.16
+ bcf_hdr_printf at HTSLIB_1.0 1.17
+ bcf_hdr_read at HTSLIB_1.0 1.17
+ bcf_hdr_remove at HTSLIB_1.0 1.17
+ bcf_hdr_seqnames at HTSLIB_1.0 1.17
+ bcf_hdr_set at HTSLIB_1.0 1.17
+ bcf_hdr_set_samples at HTSLIB_1.0 1.17
+ bcf_hdr_set_version at HTSLIB_1.0 1.17
+ bcf_hdr_subset at HTSLIB_1.0 1.17
+ bcf_hdr_sync at HTSLIB_1.0 1.17
+ bcf_hdr_update_hrec at Base 1.17
+ bcf_hdr_write at HTSLIB_1.0 1.17
+ bcf_header_debug at Base 1.16
+ bcf_hrec_add_key at HTSLIB_1.0 1.17
+ bcf_hrec_debug at Base 1.16
+ bcf_hrec_destroy at HTSLIB_1.0 1.17
+ bcf_hrec_dup at HTSLIB_1.0 1.17
+ bcf_hrec_find_key at HTSLIB_1.0 1.17
+ bcf_hrec_format at HTSLIB_1.0 1.17
+ bcf_hrec_set_val at HTSLIB_1.0 1.17
+ bcf_idx_init at HTSLIB_1.10 1.17
+ bcf_idx_save at HTSLIB_1.10 1.17
+ bcf_index at Base 1.16
+ bcf_index_build2 at HTSLIB_1.3 1.17
+ bcf_index_build3 at HTSLIB_1.4 1.17
+ bcf_index_build at HTSLIB_1.0 1.17
+ bcf_index_load2 at HTSLIB_1.3 1.17
+ bcf_index_load3 at HTSLIB_1.10 1.17
+ bcf_init at HTSLIB_1.0 1.17
+ bcf_is_snp at HTSLIB_1.0 1.17
+ bcf_read at HTSLIB_1.0 1.17
+ bcf_readrec at HTSLIB_1.0 1.17
+ bcf_remove_allele_set at HTSLIB_1.3 1.17
+ bcf_remove_alleles at HTSLIB_1.0 1.17
+ bcf_remove_filter at HTSLIB_1.0 1.17
+ bcf_sr_add_reader at HTSLIB_1.0 1.17
+ bcf_sr_destroy at HTSLIB_1.0 1.17
+ bcf_sr_destroy_threads at HTSLIB_1.4 1.17
+ bcf_sr_init at HTSLIB_1.0 1.17
+ bcf_sr_next_line at HTSLIB_1.0 1.17
+ bcf_sr_regions_destroy at HTSLIB_1.0 1.17
+ bcf_sr_regions_flush at HTSLIB_1.0 1.17
+ bcf_sr_regions_init at HTSLIB_1.0 1.17
+ bcf_sr_regions_next at HTSLIB_1.0 1.17
+ bcf_sr_regions_overlap at HTSLIB_1.0 1.17
+ bcf_sr_regions_seek at HTSLIB_1.0 1.17
+ bcf_sr_remove_reader at HTSLIB_1.0 1.17
+ bcf_sr_seek at HTSLIB_1.0 1.17
+ bcf_sr_set_opt at HTSLIB_1.4 1.17
+ bcf_sr_set_regions at HTSLIB_1.0 1.17
+ bcf_sr_set_samples at HTSLIB_1.0 1.17
+ bcf_sr_set_targets at HTSLIB_1.0 1.17
+ bcf_sr_set_threads at HTSLIB_1.4 1.17
+ bcf_sr_sort_add_active at Base 1.16
+ bcf_sr_sort_destroy at Base 1.16
+ bcf_sr_sort_init at Base 1.16
+ bcf_sr_sort_next at Base 1.16
+ bcf_sr_sort_remove_reader at Base 1.16
+ bcf_sr_sort_reset at Base 1.16
+ bcf_sr_sort_set_active at Base 1.16
+ bcf_sr_strerror at HTSLIB_1.2.1 1.17
+ bcf_strerror at HTSLIB_1.17 1.17
+ bcf_subset at HTSLIB_1.0 1.17
+ bcf_subset_format at HTSLIB_1.0 1.17
+ bcf_sweep_bwd at HTSLIB_1.0 1.17
+ bcf_sweep_destroy at HTSLIB_1.0 1.17
+ bcf_sweep_fwd at HTSLIB_1.0 1.17
+ bcf_sweep_hdr at HTSLIB_1.0 1.17
+ bcf_sweep_init at HTSLIB_1.0 1.17
+ bcf_translate at HTSLIB_1.0 1.17
+ bcf_trim_alleles at HTSLIB_1.0 1.17
+ bcf_type_shift at HTSLIB_1.0 1.17
+ bcf_unpack at HTSLIB_1.0 1.17
+ bcf_update_alleles at HTSLIB_1.0 1.17
+ bcf_update_alleles_str at HTSLIB_1.0 1.17
+ bcf_update_filter at HTSLIB_1.0 1.17
+ bcf_update_format at HTSLIB_1.0 1.17
+ bcf_update_format_string at HTSLIB_1.0 1.17
+ bcf_update_id at HTSLIB_1.0 1.17
+ bcf_update_info at HTSLIB_1.0 1.17
+ bcf_variant_length at HTSLIB_1.16 1.17
+ bcf_write at HTSLIB_1.0 1.17
+ bgzf_block_write at HTSLIB_1.4 1.17
+ bgzf_check_EOF at HTSLIB_1.0 1.17
+ bgzf_close at HTSLIB_1.0 1.17
+ bgzf_compress at HTSLIB_1.3 1.17
+ bgzf_compression at HTSLIB_1.4 1.17
+ bgzf_dopen at HTSLIB_1.0 1.17
+ bgzf_flush at HTSLIB_1.0 1.17
+ bgzf_flush_try at HTSLIB_1.0 1.17
+ bgzf_getc at HTSLIB_1.0 1.17
+ bgzf_getline at HTSLIB_1.0 1.17
+ bgzf_hfile at Base 1.16
+ bgzf_hopen at HTSLIB_1.0 1.17
+ bgzf_idx_push at Base 1.16
+ bgzf_index_add_block at Base 1.16
+ bgzf_index_build_init at HTSLIB_1.0 1.17
+ bgzf_index_destroy at Base 1.16
+ bgzf_index_dump at HTSLIB_1.0 1.17
+ bgzf_index_dump_hfile at HTSLIB_1.4 1.17
+ bgzf_index_load at HTSLIB_1.0 1.17
+ bgzf_index_load_hfile at HTSLIB_1.4 1.17
+ bgzf_is_bgzf at HTSLIB_1.0 1.17
+ bgzf_mt at HTSLIB_1.0 1.17
+ bgzf_mt_read_block at Base 1.16
+ bgzf_open at HTSLIB_1.0 1.17
+ bgzf_peek at HTSLIB_1.10 1.17
+ bgzf_raw_read at HTSLIB_1.0 1.17
+ bgzf_raw_write at HTSLIB_1.0 1.17
+ bgzf_read at HTSLIB_1.0 1.17
+ bgzf_read_block at HTSLIB_1.0 1.17
+ bgzf_seek at HTSLIB_1.0 1.17
+ bgzf_set_cache_size at HTSLIB_1.0 1.17
+ bgzf_thread_pool at HTSLIB_1.4 1.17
+ bgzf_useek at HTSLIB_1.0 1.17
+ bgzf_utell at HTSLIB_1.0 1.17
+ bgzf_write at HTSLIB_1.0 1.17
+ close_plugin at Base 1.16
+ cram_beta_decode_char at Base 1.16
+ cram_beta_decode_free at Base 1.16
+ cram_beta_decode_init at Base 1.16
+ cram_beta_decode_int at Base 1.16
+ cram_beta_decode_long at Base 1.16
+ cram_beta_describe at Base 1.17
+ cram_beta_encode_char at Base 1.16
+ cram_beta_encode_free at Base 1.16
+ cram_beta_encode_init at Base 1.16
+ cram_beta_encode_int at Base 1.16
+ cram_beta_encode_long at Base 1.16
+ cram_beta_encode_store at Base 1.16
+ cram_block_append at HTSLIB_1.3 1.17
+ cram_block_compression_hdr_decoder2encoder at Base 1.16
+ cram_block_compression_hdr_set_rg at Base 1.16
+ cram_block_get_comp_size at HTSLIB_1.3 1.17
+ cram_block_get_content_id at HTSLIB_1.3 1.17
+ cram_block_get_content_type at HTSLIB_1.3 1.17
+ cram_block_get_crc32 at HTSLIB_1.3 1.17
+ cram_block_get_data at HTSLIB_1.3 1.17
+ cram_block_get_method at HTSLIB_1.17 1.17
+ cram_block_get_offset at HTSLIB_1.3 1.17
+ cram_block_get_size at Base 1.16
+ cram_block_get_uncomp_size at HTSLIB_1.3 1.17
+ cram_block_method2str at Base 1.16
+ cram_block_set_comp_size at HTSLIB_1.3 1.17
+ cram_block_set_content_id at HTSLIB_1.3 1.17
+ cram_block_set_crc32 at HTSLIB_1.3 1.17
+ cram_block_set_data at HTSLIB_1.3 1.17
+ cram_block_set_offset at HTSLIB_1.3 1.17
+ cram_block_set_size at Base 1.16
+ cram_block_set_uncomp_size at HTSLIB_1.3 1.17
+ cram_block_size at HTSLIB_1.3 1.17
+ cram_block_update_size at HTSLIB_1.3 1.17
+ cram_byte_array_len_decode at Base 1.16
+ cram_byte_array_len_decode_free at Base 1.16
+ cram_byte_array_len_decode_init at Base 1.16
+ cram_byte_array_len_describe at Base 1.17
+ cram_byte_array_len_encode at Base 1.16
+ cram_byte_array_len_encode_free at Base 1.16
+ cram_byte_array_len_encode_init at Base 1.16
+ cram_byte_array_len_encode_store at Base 1.16
+ cram_byte_array_stop_decode_block at Base 1.16
+ cram_byte_array_stop_decode_free at Base 1.16
+ cram_byte_array_stop_decode_init at Base 1.16
+ cram_byte_array_stop_describe at Base 1.17
+ cram_byte_array_stop_encode at Base 1.16
+ cram_byte_array_stop_encode_free at Base 1.16
+ cram_byte_array_stop_encode_init at Base 1.16
+ cram_byte_array_stop_encode_store at Base 1.16
+ cram_check_EOF at HTSLIB_1.4 1.17
+ cram_cid2ds_free at HTSLIB_1.17 1.17
+ cram_cid2ds_query at HTSLIB_1.17 1.17
+ cram_close at HTSLIB_1.0 1.17
+ cram_codec_decoder2encoder at Base 1.16
+ cram_codec_describe at HTSLIB_1.17 1.17
+ cram_codec_get_content_ids at HTSLIB_1.17 1.17
+ cram_codec_to_id at Base 1.16
+ cram_compress_block2 at Base 1.16
+ cram_compress_block at HTSLIB_1.0 1.17
+ cram_const_decode_byte at Base 1.16
+ cram_const_decode_free at Base 1.16
+ cram_const_decode_init at Base 1.16
+ cram_const_decode_int at Base 1.16
+ cram_const_decode_long at Base 1.16
+ cram_const_decode_size at Base 1.16
+ cram_const_describe at Base 1.17
+ cram_const_encode at Base 1.16
+ cram_const_encode_init at Base 1.16
+ cram_const_encode_store at Base 1.16
+ cram_container_get_landmarks at HTSLIB_1.3 1.17
+ cram_container_get_length at HTSLIB_1.3 1.17
+ cram_container_get_num_bases at HTSLIB_1.17 1.17
+ cram_container_get_num_blocks at HTSLIB_1.3 1.17
+ cram_container_get_num_records at HTSLIB_1.17 1.17
+ cram_container_is_empty at HTSLIB_1.3 1.17
+ cram_container_set_landmarks at HTSLIB_1.3 1.17
+ cram_container_set_length at HTSLIB_1.3 1.17
+ cram_container_set_num_blocks at HTSLIB_1.3 1.17
+ cram_container_size at HTSLIB_1.3 1.17
+ cram_content_type2str at Base 1.16
+ cram_copy_slice at HTSLIB_1.3 1.17
+ cram_decode_TD at Base 1.16
+ cram_decode_compression_header at HTSLIB_1.17 1.17
+ cram_decode_estimate_sizes at Base 1.16
+ cram_decode_slice at Base 1.16
+ cram_decode_slice_header at HTSLIB_1.16 1.17
+ cram_decode_slice_mt at Base 1.16
+ cram_decode_slice_thread at Base 1.16
+ cram_decoder_init at Base 1.16
+ cram_dependent_data_series at Base 1.16
+ cram_describe_encodings at HTSLIB_1.17 1.17
+ cram_dopen at HTSLIB_1.0 1.17
+ cram_drain_rqueue at Base 1.16
+ cram_encode_compression_header at Base 1.16
+ cram_encode_container at Base 1.16
+ cram_encode_slice_header at Base 1.16
+ cram_encoder_init at Base 1.16
+ cram_encoding2str at Base 1.16
+ cram_eof at HTSLIB_1.0 1.17
+ cram_expand_method at HTSLIB_1.17 1.17
+ cram_external_decode_char at Base 1.16
+ cram_external_decode_free at Base 1.16
+ cram_external_decode_init at Base 1.16
+ cram_external_decode_int at Base 1.16
+ cram_external_decode_long at Base 1.16
+ cram_external_decode_size at Base 1.16
+ cram_external_describe at Base 1.17
+ cram_external_encode_char at Base 1.16
+ cram_external_encode_free at Base 1.16
+ cram_external_encode_init at Base 1.16
+ cram_external_encode_int at Base 1.16
+ cram_external_encode_long at Base 1.16
+ cram_external_encode_sint at Base 1.16
+ cram_external_encode_slong at Base 1.16
+ cram_external_encode_store at Base 1.16
+ cram_external_get_block at Base 1.16
+ cram_fd_get_fp at HTSLIB_1.3 1.17
+ cram_fd_get_header at HTSLIB_1.3 1.17
+ cram_fd_get_version at HTSLIB_1.3 1.17
+ cram_fd_set_fp at HTSLIB_1.3 1.17
+ cram_fd_set_header at HTSLIB_1.3 1.17
+ cram_fd_set_version at HTSLIB_1.3 1.17
+ cram_flush at HTSLIB_1.0 1.17
+ cram_flush_container at Base 1.16
+ cram_flush_container_mt at Base 1.16
+ cram_flush_thread at Base 1.16
+ cram_free_block at HTSLIB_1.0 1.17
+ cram_free_compression_header at HTSLIB_1.17 1.17
+ cram_free_container at HTSLIB_1.0 1.17
+ cram_free_file_def at Base 1.16
+ cram_free_slice at Base 1.16
+ cram_free_slice_header at HTSLIB_1.16 1.17
+ cram_gamma_decode at Base 1.16
+ cram_gamma_decode_free at Base 1.16
+ cram_gamma_decode_init at Base 1.16
+ cram_gamma_describe at Base 1.17
+ cram_get_bam_seq at Base 1.16
+ cram_get_ref at Base 1.16
+ cram_get_refs at HTSLIB_1.4 1.17
+ cram_get_seq at Base 1.16
+ cram_huffman_decode_char0 at Base 1.16
+ cram_huffman_decode_char at Base 1.16
+ cram_huffman_decode_free at Base 1.16
+ cram_huffman_decode_init at Base 1.16
+ cram_huffman_decode_int0 at Base 1.16
+ cram_huffman_decode_int at Base 1.16
+ cram_huffman_decode_long0 at Base 1.16
+ cram_huffman_decode_long at Base 1.16
+ cram_huffman_decode_null at Base 1.16
+ cram_huffman_describe at Base 1.17
+ cram_huffman_encode_char0 at Base 1.16
+ cram_huffman_encode_char at Base 1.16
+ cram_huffman_encode_free at Base 1.16
+ cram_huffman_encode_init at Base 1.16
+ cram_huffman_encode_int0 at Base 1.16
+ cram_huffman_encode_int at Base 1.16
+ cram_huffman_encode_long0 at Base 1.16
+ cram_huffman_encode_long at Base 1.16
+ cram_huffman_encode_store at Base 1.16
+ cram_index_build at Base 1.16
+ cram_index_free at Base 1.16
+ cram_index_last at Base 1.16
+ cram_index_load at Base 1.16
+ cram_index_query at Base 1.16
+ cram_index_query_last at Base 1.16
+ cram_index_slice at Base 1.16
+ cram_load_reference at Base 1.16
+ cram_major_vers at HTSLIB_1.3 1.17
+ cram_minor_vers at HTSLIB_1.3 1.17
+ cram_new_block at HTSLIB_1.0 1.17
+ cram_new_compression_header at Base 1.16
+ cram_new_container at HTSLIB_1.0 1.17
+ cram_new_metrics at Base 1.16
+ cram_new_slice at Base 1.16
+ cram_open at HTSLIB_1.0 1.17
+ cram_put_bam_seq at Base 1.16
+ cram_read_SAM_hdr at Base 1.16
+ cram_read_block at HTSLIB_1.0 1.17
+ cram_read_container at HTSLIB_1.0 1.17
+ cram_read_file_def at Base 1.16
+ cram_read_slice at Base 1.16
+ cram_ref_decr at Base 1.16
+ cram_ref_incr at Base 1.16
+ cram_ref_load at Base 1.16
+ cram_seek at HTSLIB_1.0 1.17
+ cram_seek_to_refpos at Base 1.16
+ cram_set_header2 at Base 1.16
+ cram_set_header at HTSLIB_1.0 1.17
+ cram_set_option at HTSLIB_1.0 1.17
+ cram_set_voption at HTSLIB_1.0 1.17
+ cram_slice_hdr_get_coords at HTSLIB_1.16 1.17
+ cram_slice_hdr_get_embed_ref_id at HTSLIB_1.16 1.17
+ cram_slice_hdr_get_num_blocks at HTSLIB_1.16 1.17
+ cram_stats_add at Base 1.16
+ cram_stats_create at Base 1.16
+ cram_stats_del at Base 1.16
+ cram_stats_encoding at Base 1.16
+ cram_stats_free at Base 1.16
+ cram_store_container at HTSLIB_1.3 1.17
+ cram_subexp_decode at Base 1.16
+ cram_subexp_decode_free at Base 1.16
+ cram_subexp_decode_init at Base 1.16
+ cram_subexp_describe at Base 1.17
+ cram_to_bam at Base 1.16
+ cram_transcode_rg at HTSLIB_1.3 1.17
+ cram_uncompress_block at HTSLIB_1.0 1.17
+ cram_update_cid2ds_map at HTSLIB_1.17 1.17
+ cram_update_curr_slice at Base 1.16
+ cram_varint_decode_free at Base 1.16
+ cram_varint_decode_init at Base 1.16
+ cram_varint_decode_int at Base 1.16
+ cram_varint_decode_long at Base 1.16
+ cram_varint_decode_sint at Base 1.16
+ cram_varint_decode_size at Base 1.16
+ cram_varint_decode_slong at Base 1.16
+ cram_varint_describe at Base 1.17
+ cram_varint_encode_free at Base 1.16
+ cram_varint_encode_init at Base 1.16
+ cram_varint_encode_int at Base 1.16
+ cram_varint_encode_long at Base 1.16
+ cram_varint_encode_sint at Base 1.16
+ cram_varint_encode_slong at Base 1.16
+ cram_varint_encode_store at Base 1.16
+ cram_varint_get_block at Base 1.16
+ cram_write_SAM_hdr at Base 1.16
+ cram_write_block at HTSLIB_1.0 1.17
+ cram_write_container at HTSLIB_1.0 1.17
+ cram_write_eof_block at Base 1.16
+ cram_write_file_def at Base 1.16
+ cram_xdelta_decode_block at Base 1.16
+ cram_xdelta_decode_char at Base 1.16
+ cram_xdelta_decode_free at Base 1.16
+ cram_xdelta_decode_init at Base 1.16
+ cram_xdelta_decode_int at Base 1.16
+ cram_xdelta_decode_long at Base 1.16
+ cram_xdelta_decode_size at Base 1.16
+ cram_xdelta_encode_char at Base 1.16
+ cram_xdelta_encode_flush at Base 1.16
+ cram_xdelta_encode_free at Base 1.16
+ cram_xdelta_encode_init at Base 1.16
+ cram_xdelta_encode_int at Base 1.16
+ cram_xdelta_encode_long at Base 1.16
+ cram_xdelta_encode_store at Base 1.16
+ cram_xdelta_get_block at Base 1.16
+ cram_xpack_decode_char at Base 1.16
+ cram_xpack_decode_free at Base 1.16
+ cram_xpack_decode_init at Base 1.16
+ cram_xpack_decode_int at Base 1.16
+ cram_xpack_decode_long at Base 1.16
+ cram_xpack_decode_size at Base 1.16
+ cram_xpack_encode_char at Base 1.16
+ cram_xpack_encode_flush at Base 1.16
+ cram_xpack_encode_free at Base 1.16
+ cram_xpack_encode_init at Base 1.16
+ cram_xpack_encode_int at Base 1.16
+ cram_xpack_encode_long at Base 1.16
+ cram_xpack_encode_store at Base 1.16
+ cram_xpack_get_block at Base 1.16
+ cram_xrle_decode_char at Base 1.16
+ cram_xrle_decode_free at Base 1.16
+ cram_xrle_decode_init at Base 1.16
+ cram_xrle_decode_int at Base 1.16
+ cram_xrle_decode_long at Base 1.16
+ cram_xrle_decode_size at Base 1.16
+ cram_xrle_encode_char at Base 1.16
+ cram_xrle_encode_flush at Base 1.16
+ cram_xrle_encode_free at Base 1.16
+ cram_xrle_encode_init at Base 1.16
+ cram_xrle_encode_int at Base 1.16
+ cram_xrle_encode_long at Base 1.16
+ cram_xrle_encode_store at Base 1.16
+ cram_xrle_get_block at Base 1.16
+ errmod_cal at HTSLIB_1.4 1.17
+ errmod_destroy at HTSLIB_1.4 1.17
+ errmod_init at HTSLIB_1.4 1.17
+ fai_adjust_region at HTSLIB_1.17 1.17
+ fai_build3 at HTSLIB_1.4 1.17
+ fai_build at HTSLIB_1.0 1.17
+ fai_destroy at HTSLIB_1.0 1.17
+ fai_fetch64 at HTSLIB_1.10 1.17
+ fai_fetch at HTSLIB_1.0 1.17
+ fai_fetchqual64 at HTSLIB_1.10 1.17
+ fai_fetchqual at HTSLIB_1.9 1.17
+ fai_line_length at HTSLIB_1.17 1.17
+ fai_load3 at HTSLIB_1.4 1.17
+ fai_load3_format at HTSLIB_1.9 1.17
+ fai_load at HTSLIB_1.0 1.17
+ fai_load_format at HTSLIB_1.9 1.17
+ fai_parse_region at HTSLIB_1.10 1.17
+ fai_path at HTSLIB_1.11 1.17
+ fai_set_cache_size at HTSLIB_1.10 1.17
+ fai_thread_pool at HTSLIB_1.18 1.18
+ faidx_fetch_nseq at HTSLIB_1.0 1.17
+ faidx_fetch_qual64 at HTSLIB_1.10 1.17
+ faidx_fetch_qual at HTSLIB_1.9 1.17
+ faidx_fetch_seq64 at HTSLIB_1.10 1.17
+ faidx_fetch_seq at HTSLIB_1.0 1.17
+ faidx_has_seq at HTSLIB_1.0 1.17
+ faidx_iseq at HTSLIB_1.1 1.17
+ faidx_nseq at HTSLIB_1.1 1.17
+ faidx_seq_len64 at HTSLIB_1.17 1.17
+ faidx_seq_len at HTSLIB_1.1 1.17
+ fastq_format1 at Base 1.16
+ fastq_state_destroy at Base 1.16
+ fastq_state_set at Base 1.16
+ find_file_url at Base 1.16
+ find_path at Base 1.16
+ haddextension at HTSLIB_1.10 1.17
+ hclose at HTSLIB_1.0 1.17
+ hclose_abruptly at HTSLIB_1.0 1.17
+ hdopen at HTSLIB_1.0 1.17
+ hfile_add_scheme_handler at HTSLIB_1.3 1.17
+ hfile_always_local at HTSLIB_1.3 1.17
+ hfile_always_remote at HTSLIB_1.3 1.17
+ hfile_destroy at HTSLIB_1.0 1.17
+ hfile_has_plugin at HTSLIB_1.12 1.17
+ hfile_init at HTSLIB_1.0 1.17
+ hfile_init_fixed at Base 1.16
+ hfile_list_plugins at HTSLIB_1.12 1.17
+ hfile_list_schemes at HTSLIB_1.12 1.17
+ hfile_mem_get_buffer at HTSLIB_1.7 1.17
+ hfile_mem_steal_buffer at HTSLIB_1.7 1.17
+ hfile_oflags at HTSLIB_1.0 1.17
+ hfile_plugin_init_crypt4gh_needed at Base 1.16
+ hfile_plugin_init_mem at Base 1.16
+ hfile_set_blksize at HTSLIB_1.5 1.17
+ hfile_shutdown at Base 1.16
+ hflush at HTSLIB_1.0 1.17
+ hgetc2 at HTSLIB_1.0 1.17
+ hgetdelim at HTSLIB_1.4 1.17
+ hgets at HTSLIB_1.4 1.17
+ hisremote at HTSLIB_1.2.1 1.17
+ hopen at HTSLIB_1.0 1.17
+ hopen_htsget_redirect at Base 1.16
+ hpeek at HTSLIB_1.0 1.17
+ hputc2 at HTSLIB_1.0 1.17
+ hputs2 at HTSLIB_1.0 1.17
+ hread2 at HTSLIB_1.0 1.17
+ hrec_add_idx at HTSLIB_1.0 1.17
+ hseek at HTSLIB_1.0 1.17
+ hts_base64_decoded_length at Base 1.16
+ hts_base_mod_state_alloc at HTSLIB_1.14 1.17
+ hts_base_mod_state_free at HTSLIB_1.14 1.17
+ hts_check_EOF at HTSLIB_1.4 1.17
+ hts_close at HTSLIB_1.0 1.17
+ hts_decode_base64 at Base 1.16
+ hts_decode_percent at Base 1.16
+ hts_detect_format2 at HTSLIB_1.15 1.17
+ hts_detect_format at HTSLIB_1.2.1 1.17
+ hts_drand48 at HTSLIB_1.6 1.17
+ hts_erand48 at HTSLIB_1.6 1.17
+ hts_feature_string at HTSLIB_1.12 1.17
+ hts_features at HTSLIB_1.12 1.17
+ hts_file_type at HTSLIB_1.0 1.17
+ hts_filter_eval2 at HTSLIB_1.16 1.17
+ hts_filter_eval at HTSLIB_1.12 1.17
+ hts_filter_free at HTSLIB_1.12 1.17
+ hts_filter_init at HTSLIB_1.12 1.17
+ hts_flush at HTSLIB_1.14 1.17
+ hts_format_description at HTSLIB_1.2.1 1.17
+ hts_format_file_extension at HTSLIB_1.3 1.17
+ hts_free at HTSLIB_1.10 1.17
+ hts_get_bgzfp at HTSLIB_1.0 1.17
+ hts_get_format at HTSLIB_1.2.1 1.17
+ hts_get_log_level at HTSLIB_1.5 1.17
+ hts_getline at HTSLIB_1.0 1.17
+ hts_hopen at HTSLIB_1.2.1 1.17
+ hts_idx_amend_last at Base 1.16
+ hts_idx_check_local at Base 1.16
+ hts_idx_check_range at Base 1.16
+ hts_idx_destroy at HTSLIB_1.0 1.17
+ hts_idx_finish at HTSLIB_1.0 1.17
+ hts_idx_fmt at HTSLIB_1.10 1.17
+ hts_idx_get_meta at HTSLIB_1.0 1.17
+ hts_idx_get_n_no_coor at HTSLIB_1.0 1.17
+ hts_idx_get_stat at HTSLIB_1.0 1.17
+ hts_idx_getfn at Base 1.16
+ hts_idx_init at HTSLIB_1.0 1.17
+ hts_idx_load2 at HTSLIB_1.3 1.17
+ hts_idx_load3 at HTSLIB_1.10 1.17
+ hts_idx_load at HTSLIB_1.0 1.17
+ hts_idx_locatefn at Base 1.16
+ hts_idx_nseq at HTSLIB_1.13 1.17
+ hts_idx_push at HTSLIB_1.0 1.17
+ hts_idx_save at HTSLIB_1.0 1.17
+ hts_idx_save_as at HTSLIB_1.3 1.17
+ hts_idx_seqnames at HTSLIB_1.0 1.17
+ hts_idx_set_meta at HTSLIB_1.0 1.17
+ hts_idx_tbi_name at HTSLIB_1.10 1.17
+ hts_itr_destroy at HTSLIB_1.0 1.17
+ hts_itr_multi_bam at HTSLIB_1.7 1.17
+ hts_itr_multi_cram at HTSLIB_1.7 1.17
+ hts_itr_multi_next at HTSLIB_1.7 1.17
+ hts_itr_next at HTSLIB_1.0 1.17
+ hts_itr_off at Base 1.16
+ hts_itr_query at HTSLIB_1.0 1.17
+ hts_itr_querys at HTSLIB_1.0 1.17
+ hts_itr_regions at HTSLIB_1.7 1.17
+ hts_json_alloc_token at HTSLIB_1.7 1.17
+ hts_json_fnext at HTSLIB_1.4 1.17
+ hts_json_free_token at HTSLIB_1.7 1.17
+ hts_json_fskip_value at HTSLIB_1.4 1.17
+ hts_json_snext at HTSLIB_1.4 1.17
+ hts_json_sskip_value at HTSLIB_1.4 1.17
+ hts_json_token_str at HTSLIB_1.7 1.17
+ hts_json_token_type at HTSLIB_1.7 1.17
+ hts_lib_shutdown at HTSLIB_1.11 1.17
+ hts_log at HTSLIB_1.5 1.17
+ hts_lrand48 at HTSLIB_1.6 1.17
+ hts_md5_destroy at HTSLIB_1.3 1.17
+ hts_md5_final at HTSLIB_1.3 1.17
+ hts_md5_hex at HTSLIB_1.3 1.17
+ hts_md5_init at HTSLIB_1.3 1.17
+ hts_md5_reset at HTSLIB_1.3 1.17
+ hts_md5_update at HTSLIB_1.3 1.17
+ hts_open at HTSLIB_1.0 1.17
+ hts_open_format at HTSLIB_1.3 1.17
+ hts_open_tmpfile at Base 1.16
+ hts_opt_add at HTSLIB_1.3 1.17
+ hts_opt_apply at HTSLIB_1.3 1.17
+ hts_opt_free at HTSLIB_1.3 1.17
+ hts_parse_decimal at HTSLIB_1.3 1.17
+ hts_parse_format at HTSLIB_1.3 1.17
+ hts_parse_opt_list at HTSLIB_1.3 1.17
+ hts_parse_reg64 at HTSLIB_1.10 1.17
+ hts_parse_reg at HTSLIB_1.0 1.17
+ hts_parse_region at HTSLIB_1.10 1.17
+ hts_path_itr_next at Base 1.16
+ hts_path_itr_setup at Base 1.16
+ hts_plugin_path at Base 1.16
+ hts_readlines at HTSLIB_1.0 1.17
+ hts_readlist at HTSLIB_1.0 1.17
+ hts_realloc_or_die at HTSLIB_1.4 1.17
+ hts_reglist_create at HTSLIB_1.10 1.17
+ hts_reglist_free at HTSLIB_1.7 1.17
+ hts_resize_array_ at HTSLIB_1.10 1.17
+ hts_set_cache_size at HTSLIB_1.4 1.17
+ hts_set_fai_filename at HTSLIB_1.0 1.17
+ hts_set_filter_expression at HTSLIB_1.12 1.17
+ hts_set_log_level at HTSLIB_1.5 1.17
+ hts_set_opt at HTSLIB_1.2.1 1.17
+ hts_set_thread_pool at HTSLIB_1.4 1.17
+ hts_set_threads at HTSLIB_1.0 1.17
+ hts_srand48 at HTSLIB_1.6 1.17
+ hts_strprint at Base 1.16
+ hts_test_feature at HTSLIB_1.12 1.17
+ hts_tpool_delete_result at HTSLIB_1.4 1.17
+ hts_tpool_destroy at HTSLIB_1.4 1.17
+ hts_tpool_dispatch2 at HTSLIB_1.4 1.17
+ hts_tpool_dispatch3 at HTSLIB_1.10 1.17
+ hts_tpool_dispatch at HTSLIB_1.4 1.17
+ hts_tpool_init at HTSLIB_1.4 1.17
+ hts_tpool_kill at HTSLIB_1.4 1.17
+ hts_tpool_next_result at HTSLIB_1.4 1.17
+ hts_tpool_next_result_wait at HTSLIB_1.4 1.17
+ hts_tpool_process_attach at HTSLIB_1.4 1.17
+ hts_tpool_process_destroy at HTSLIB_1.4 1.17
+ hts_tpool_process_detach at HTSLIB_1.4 1.17
+ hts_tpool_process_empty at HTSLIB_1.4 1.17
+ hts_tpool_process_flush at HTSLIB_1.4 1.17
+ hts_tpool_process_init at HTSLIB_1.4 1.17
+ hts_tpool_process_is_shutdown at HTSLIB_1.11 1.17
+ hts_tpool_process_len at HTSLIB_1.4 1.17
+ hts_tpool_process_qsize at HTSLIB_1.4 1.17
+ hts_tpool_process_ref_decr at HTSLIB_1.4 1.17
+ hts_tpool_process_ref_incr at HTSLIB_1.4 1.17
+ hts_tpool_process_reset at HTSLIB_1.4 1.17
+ hts_tpool_process_shutdown at HTSLIB_1.4 1.17
+ hts_tpool_process_sz at HTSLIB_1.4 1.17
+ hts_tpool_result_data at HTSLIB_1.4 1.17
+ hts_tpool_size at HTSLIB_1.4 1.17
+ hts_tpool_wake_dispatch at HTSLIB_1.4 1.17
+ hts_useek at Base 1.16
+ hts_utell at Base 1.16
+ hts_verbose at HTSLIB_1.0 1.17
+ hts_version at HTSLIB_1.0 1.17
+ hwrite2 at HTSLIB_1.0 1.17
+ int32_get_blk at Base 1.16
+ int32_put_blk at HTSLIB_1.3 1.17
+ itf8_bytes at Base 1.16
+ itf8_decode at Base 1.16
+ itf8_decode_crc at Base 1.16
+ itf8_encode at Base 1.16
+ itf8_put_blk at Base 1.16
+ kf_betai at HTSLIB_1.0 1.17
+ kf_erfc at HTSLIB_1.0 1.17
+ kf_gammap at HTSLIB_1.0 1.17
+ kf_gammaq at HTSLIB_1.0 1.17
+ kf_lgamma at HTSLIB_1.0 1.17
+ kgetline2 at HTSLIB_1.10 1.17
+ kgetline at HTSLIB_1.3 1.17
+ kh_clear_s2i at Base 1.16
+ kh_del_s2i at Base 1.16
+ kh_destroy_s2i at Base 1.16
+ kh_get_s2i at Base 1.16
+ kh_init_s2i at Base 1.16
+ kh_put_s2i at Base 1.16
+ kh_resize_s2i at Base 1.16
+ kmemmem at HTSLIB_1.0 1.17
+ knet_close at HTSLIB_1.0 1.17
+ knet_dopen at HTSLIB_1.0 1.17
+ knet_open at HTSLIB_1.0 1.17
+ knet_read at HTSLIB_1.0 1.17
+ knet_seek at HTSLIB_1.0 1.17
+ kputd at HTSLIB_1.4 1.17
+ ksplit_core at HTSLIB_1.0 1.17
+ ksprintf at HTSLIB_1.0 1.17
+ kstrnstr at HTSLIB_1.0 1.17
+ kstrstr at HTSLIB_1.0 1.17
+ kstrtok at HTSLIB_1.0 1.17
+ kt_fisher_exact at HTSLIB_1.0 1.17
+ kvsprintf at HTSLIB_1.0 1.17
+ load_plugin at Base 1.16
+ ltf8_bytes at Base 1.16
+ ltf8_decode at Base 1.16
+ ltf8_decode_crc at Base 1.16
+ ltf8_put_blk at Base 1.16
+ mfascii at Base 1.16
+ mfclose at Base 1.16
+ mfcreate at Base 1.16
+ mfcreate_from at Base 1.16
+ mfdestroy at Base 1.16
+ mfdetach at Base 1.16
+ mfeof at Base 1.16
+ mfflush at Base 1.16
+ mfgetc at Base 1.16
+ mfgets at Base 1.16
+ mfmmap at Base 1.16
+ mfopen at Base 1.16
+ mfread at Base 1.16
+ mfrecreate at Base 1.16
+ mfreopen at Base 1.16
+ mfseek at Base 1.16
+ mfsteal at Base 1.16
+ mftell at Base 1.16
+ mftruncate at Base 1.16
+ mfwrite at Base 1.16
+ mrewind at Base 1.16
+ mstderr at Base 1.16
+ mstdin at Base 1.16
+ mstdout at Base 1.16
+ mungetc at Base 1.16
+ open_path_mfile at Base 1.16
+ plugin_func at Base 1.16
+ plugin_sym at Base 1.16
+ pool_alloc at Base 1.16
+ pool_create at Base 1.16
+ pool_destroy at Base 1.16
+ pool_free at Base 1.16
+ probaln_glocal at HTSLIB_1.4 1.17
+ refs2id at Base 1.16
+ refs_free at Base 1.16
+ regidx_destroy at HTSLIB_1.2.1 1.17
+ regidx_init at HTSLIB_1.2.1 1.17
+ regidx_init_string at HTSLIB_1.10 1.17
+ regidx_insert at HTSLIB_1.2.1 1.17
+ regidx_insert_list at HTSLIB_1.10 1.17
+ regidx_nregs at HTSLIB_1.2.1 1.17
+ regidx_overlap at HTSLIB_1.2.1 1.17
+ regidx_parse_bed at HTSLIB_1.2.1 1.17
+ regidx_parse_reg at HTSLIB_1.10 1.17
+ regidx_parse_tab at HTSLIB_1.2.1 1.17
+ regidx_parse_vcf at HTSLIB_1.10 1.17
+ regidx_push at HTSLIB_1.10 1.17
+ regidx_seq_names at HTSLIB_1.2.1 1.17
+ regidx_seq_nregs at HTSLIB_1.2.1 1.17
+ regitr_copy at HTSLIB_1.10 1.17
+ regitr_destroy at HTSLIB_1.10 1.17
+ regitr_init at HTSLIB_1.10 1.17
+ regitr_loop at HTSLIB_1.10 1.17
+ regitr_overlap at HTSLIB_1.10 1.17
+ regitr_reset at HTSLIB_1.10 1.17
+ reset_metrics at Base 1.16
+ sam_cap_mapq at HTSLIB_1.4 1.17
+ sam_format1 at HTSLIB_1.0 1.17
+ sam_hdr_add_line at HTSLIB_1.10 1.17
+ sam_hdr_add_lines at HTSLIB_1.0 1.17
+ sam_hdr_add_pg at HTSLIB_1.10 1.17
+ sam_hdr_change_HD at HTSLIB_1.7 1.17
+ sam_hdr_count_lines at HTSLIB_1.10 1.17
+ sam_hdr_destroy at HTSLIB_1.10 1.17
+ sam_hdr_dup at HTSLIB_1.0 1.17
+ sam_hdr_dup_sdict at Base 1.16
+ sam_hdr_fill_hrecs at Base 1.16
+ sam_hdr_find_line_id at HTSLIB_1.10 1.17
+ sam_hdr_find_line_pos at HTSLIB_1.10 1.17
+ sam_hdr_find_tag_id at HTSLIB_1.10 1.17
+ sam_hdr_find_tag_pos at HTSLIB_1.10 1.17
+ sam_hdr_incr_ref at HTSLIB_1.0 1.17
+ sam_hdr_init at HTSLIB_1.10 1.17
+ sam_hdr_length at HTSLIB_1.0 1.17
+ sam_hdr_line_index at HTSLIB_1.10 1.17
+ sam_hdr_line_name at HTSLIB_1.10 1.17
+ sam_hdr_name2tid at HTSLIB_1.10 1.17
+ sam_hdr_nref at HTSLIB_1.10 1.17
+ sam_hdr_parse at HTSLIB_1.0 1.17
+ sam_hdr_pg_id at HTSLIB_1.10 1.17
+ sam_hdr_read at HTSLIB_1.0 1.17
+ sam_hdr_rebuild at Base 1.16
+ sam_hdr_remove_except at HTSLIB_1.10 1.17
+ sam_hdr_remove_line_id at HTSLIB_1.10 1.17
+ sam_hdr_remove_line_pos at HTSLIB_1.10 1.17
+ sam_hdr_remove_lines at HTSLIB_1.10 1.17
+ sam_hdr_remove_tag_id at HTSLIB_1.10 1.17
+ sam_hdr_str at HTSLIB_1.0 1.17
+ sam_hdr_tid2len at HTSLIB_1.10 1.17
+ sam_hdr_tid2name at HTSLIB_1.10 1.17
+ sam_hdr_update_line at HTSLIB_1.10 1.17
+ sam_hdr_update_target_arrays at Base 1.16
+ sam_hdr_write at HTSLIB_1.0 1.17
+ sam_hrecs_find_key at Base 1.16
+ sam_hrecs_find_rg at Base 1.16
+ sam_hrecs_find_type_id at Base 1.16
+ sam_hrecs_free at Base 1.16
+ sam_hrecs_group_order at Base 1.16
+ sam_hrecs_new at Base 1.16
+ sam_hrecs_rebuild_text at Base 1.16
+ sam_hrecs_remove_key at Base 1.16
+ sam_hrecs_sort_order at Base 1.16
+ sam_idx_init at HTSLIB_1.10 1.17
+ sam_idx_save at HTSLIB_1.10 1.17
+ sam_index_build2 at HTSLIB_1.3 1.17
+ sam_index_build3 at HTSLIB_1.4 1.17
+ sam_index_build at HTSLIB_1.3 1.17
+ sam_index_load2 at HTSLIB_1.3 1.17
+ sam_index_load3 at HTSLIB_1.10 1.17
+ sam_index_load at HTSLIB_1.0 1.17
+ sam_itr_queryi at HTSLIB_1.0 1.17
+ sam_itr_querys at HTSLIB_1.0 1.17
+ sam_itr_regarray at HTSLIB_1.10 1.17
+ sam_itr_regions at HTSLIB_1.7 1.17
+ sam_open_mode at HTSLIB_1.0 1.17
+ sam_open_mode_opts at HTSLIB_1.3 1.17
+ sam_parse1 at HTSLIB_1.0 1.17
+ sam_parse_cigar at HTSLIB_1.12 1.17
+ sam_parse_region at HTSLIB_1.10 1.17
+ sam_passes_filter at HTSLIB_1.12 1.17
+ sam_prob_realn at HTSLIB_1.4 1.17
+ sam_read1 at HTSLIB_1.0 1.17
+ sam_realloc_bam_data at Base 1.16
+ sam_set_thread_pool at Base 1.16
+ sam_set_threads at Base 1.16
+ sam_state_destroy at Base 1.16
+ sam_write1 at HTSLIB_1.0 1.17
+ seq_nt16_int at HTSLIB_1.2.1 1.17
+ seq_nt16_str at HTSLIB_1.0 1.17
+ seq_nt16_table at HTSLIB_1.0 1.17
+ string_alloc at Base 1.16
+ string_dup at Base 1.16
+ string_ndup at Base 1.16
+ string_pool_create at Base 1.16
+ string_pool_destroy at Base 1.16
+ stringify_argv at HTSLIB_1.0 1.17
+ tbx_conf_bed at HTSLIB_1.0 1.17
+ tbx_conf_gff at HTSLIB_1.0 1.17
+ tbx_conf_psltbl at HTSLIB_1.0 1.17
+ tbx_conf_sam at HTSLIB_1.0 1.17
+ tbx_conf_vcf at HTSLIB_1.0 1.17
+ tbx_destroy at HTSLIB_1.0 1.17
+ tbx_index at HTSLIB_1.0 1.17
+ tbx_index_build2 at HTSLIB_1.3 1.17
+ tbx_index_build3 at HTSLIB_1.4 1.17
+ tbx_index_build at HTSLIB_1.0 1.17
+ tbx_index_load2 at HTSLIB_1.3 1.17
+ tbx_index_load3 at HTSLIB_1.10 1.17
+ tbx_index_load at HTSLIB_1.0 1.17
+ tbx_name2id at HTSLIB_1.0 1.17
+ tbx_parse1 at Base 1.16
+ tbx_readrec at HTSLIB_1.0 1.17
+ tbx_seqnames at HTSLIB_1.0 1.17
+ tokenise_search_path at Base 1.16
+ vcf_format at HTSLIB_1.0 1.17
+ vcf_hdr_read at HTSLIB_1.0 1.17
+ vcf_hdr_write at HTSLIB_1.0 1.17
+ vcf_open_mode at HTSLIB_1.11 1.17
+ vcf_parse at HTSLIB_1.0 1.17
+ vcf_read at HTSLIB_1.0 1.17
+ vcf_write at HTSLIB_1.0 1.17
+ vcf_write_line at HTSLIB_1.0 1.17
+ zlib_mem_inflate at Base 1.16
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