[Debian-med-packaging] Bug#1062344: htslib: NMU diff for 64-bit time_t transition
Graham Inggs
ginggs at debian.org
Thu Feb 1 05:59:58 GMT 2024
Source: htslib
Version: 1.18+ds-1
Severity: serious
Tags: patch pending
Justification: library ABI skew on upgrade
User: debian-arm at lists.debian.org
Usertags: time-t
Dear maintainer,
As part of the 64-bit time_t transition required to support 32-bit
architectures in 2038 and beyond
(https://wiki.debian.org/ReleaseGoals/64bit-time), we have identified
htslib as a source package shipping runtime libraries whose ABI
either is affected by the change in size of time_t, or could not be
analyzed via abi-compliance-checker (and therefore to be on the safe
side we assume is affected).
To ensure that inconsistent combinations of libraries with their
reverse-dependencies are never installed together, it is necessary to
have a library transition, which is most easily done by renaming the
runtime library package.
Since turning on 64-bit time_t is being handled centrally through a change
to the default dpkg-buildflags (https://bugs.debian.org/1037136), it is
important that libraries affected by this ABI change all be uploaded close
together in time. Therefore I have prepared a 0-day NMU for htslib
which will initially be uploaded to experimental if possible, then to
unstable after packages have cleared binary NEW.
Please find the patch for this NMU attached.
If you have any concerns about this patch, please reach out ASAP. Although
this package will be uploaded to experimental immediately, there will be a
period of several days before we begin uploads to unstable; so if information
becomes available that your package should not be included in the transition,
there is time for us to amend the planned uploads.
-- System Information:
Debian Release: trixie/sid
APT prefers unstable
APT policy: (500, 'unstable'), (1, 'experimental')
Architecture: amd64 (x86_64)
Kernel: Linux 6.5.0-15-generic (SMP w/8 CPU threads; PREEMPT)
Kernel taint flags: TAINT_OOT_MODULE
Locale: LANG=C, LC_CTYPE=C.UTF-8 (charmap=UTF-8), LANGUAGE not set
Shell: /bin/sh linked to /usr/bin/dash
Init: unable to detect
-------------- next part --------------
diff -Nru htslib-1.18+ds/debian/changelog htslib-1.18+ds/debian/changelog
--- htslib-1.18+ds/debian/changelog 2023-11-07 18:46:30.000000000 +0000
+++ htslib-1.18+ds/debian/changelog 2024-02-01 05:58:50.000000000 +0000
@@ -1,3 +1,10 @@
+htslib (1.18+ds-1.1) experimental; urgency=medium
+
+ * Non-maintainer upload.
+ * Rename libraries for 64-bit time_t transition.
+
+ -- Graham Inggs <ginggs at debian.org> Thu, 01 Feb 2024 05:58:50 +0000
+
htslib (1.18+ds-1) unstable; urgency=medium
* Migrate htslib 1.18 from experimental to unstable.
diff -Nru htslib-1.18+ds/debian/control htslib-1.18+ds/debian/control
--- htslib-1.18+ds/debian/control 2023-08-23 16:38:26.000000000 +0000
+++ htslib-1.18+ds/debian/control 2024-02-01 05:58:50.000000000 +0000
@@ -21,18 +21,19 @@
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 +49,7 @@
Architecture: any
Multi-Arch: same
Section: libdevel
-Depends: libhts3 (= ${binary:Version}),
+Depends: libhts3t64 (= ${binary:Version}),
libcurl4-gnutls-dev,
libdeflate-dev,
liblzma-dev,
diff -Nru htslib-1.18+ds/debian/libhts3.install htslib-1.18+ds/debian/libhts3.install
--- htslib-1.18+ds/debian/libhts3.install 2022-10-19 14:55:31.000000000 +0000
+++ htslib-1.18+ds/debian/libhts3.install 1970-01-01 00:00:00.000000000 +0000
@@ -1,3 +0,0 @@
-usr/lib/${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-1.18+ds/debian/libhts3.manpages htslib-1.18+ds/debian/libhts3.manpages
--- htslib-1.18+ds/debian/libhts3.manpages 2022-07-03 07:14:15.000000000 +0000
+++ htslib-1.18+ds/debian/libhts3.manpages 1970-01-01 00:00:00.000000000 +0000
@@ -1 +0,0 @@
-htslib-s3-plugin.7
diff -Nru htslib-1.18+ds/debian/libhts3.symbols htslib-1.18+ds/debian/libhts3.symbols
--- htslib-1.18+ds/debian/libhts3.symbols 2023-08-23 16:36:56.000000000 +0000
+++ htslib-1.18+ds/debian/libhts3.symbols 1970-01-01 00:00:00.000000000 +0000
@@ -1,930 +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_amend_last at Base 1.16
- 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-1.18+ds/debian/libhts3t64.install htslib-1.18+ds/debian/libhts3t64.install
--- htslib-1.18+ds/debian/libhts3t64.install 1970-01-01 00:00:00.000000000 +0000
+++ htslib-1.18+ds/debian/libhts3t64.install 2022-10-19 14:55:31.000000000 +0000
@@ -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-1.18+ds/debian/libhts3t64.lintian-overrides htslib-1.18+ds/debian/libhts3t64.lintian-overrides
--- htslib-1.18+ds/debian/libhts3t64.lintian-overrides 1970-01-01 00:00:00.000000000 +0000
+++ htslib-1.18+ds/debian/libhts3t64.lintian-overrides 2024-02-01 05:58:50.000000000 +0000
@@ -0,0 +1 @@
+libhts3t64: package-name-doesnt-match-sonames libhts3
diff -Nru htslib-1.18+ds/debian/libhts3t64.manpages htslib-1.18+ds/debian/libhts3t64.manpages
--- htslib-1.18+ds/debian/libhts3t64.manpages 1970-01-01 00:00:00.000000000 +0000
+++ htslib-1.18+ds/debian/libhts3t64.manpages 2022-07-03 07:14:15.000000000 +0000
@@ -0,0 +1 @@
+htslib-s3-plugin.7
diff -Nru htslib-1.18+ds/debian/libhts3t64.symbols htslib-1.18+ds/debian/libhts3t64.symbols
--- htslib-1.18+ds/debian/libhts3t64.symbols 1970-01-01 00:00:00.000000000 +0000
+++ htslib-1.18+ds/debian/libhts3t64.symbols 2024-02-01 05:58:50.000000000 +0000
@@ -0,0 +1,930 @@
+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_amend_last at Base 1.16
+ 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
More information about the Debian-med-packaging
mailing list