[med-svn] r16944 - in trunk/packages/genometools/trunk/debian: . patches
Sascha Steinbiss
sascha-guest at moszumanska.debian.org
Thu May 15 11:18:52 UTC 2014
Author: sascha-guest
Date: 2014-05-15 11:18:52 +0000 (Thu, 15 May 2014)
New Revision: 16944
Added:
trunk/packages/genometools/trunk/debian/patches/add-libtre
trunk/packages/genometools/trunk/debian/patches/fix-exports
trunk/packages/genometools/trunk/debian/patches/missing-libs
trunk/packages/genometools/trunk/debian/patches/no-xmllint
trunk/packages/genometools/trunk/debian/patches/spelling
trunk/packages/genometools/trunk/debian/patches/strip-nonpublic
Removed:
trunk/packages/genometools/trunk/debian/libgenometools0.symbols
trunk/packages/genometools/trunk/debian/man/
trunk/packages/genometools/trunk/debian/patches/add-hardening
Modified:
trunk/packages/genometools/trunk/debian/changelog
trunk/packages/genometools/trunk/debian/control
trunk/packages/genometools/trunk/debian/genometools.manpages
trunk/packages/genometools/trunk/debian/patches/adding_soname
trunk/packages/genometools/trunk/debian/patches/libbam-fix
trunk/packages/genometools/trunk/debian/patches/mips-64
trunk/packages/genometools/trunk/debian/patches/series
trunk/packages/genometools/trunk/debian/patches/split_manuals
trunk/packages/genometools/trunk/debian/rules
Log:
Adapt for new upstream 1.5.2, remove symbols file and manpages for now.
Modified: trunk/packages/genometools/trunk/debian/changelog
===================================================================
--- trunk/packages/genometools/trunk/debian/changelog 2014-05-15 10:29:08 UTC (rev 16943)
+++ trunk/packages/genometools/trunk/debian/changelog 2014-05-15 11:18:52 UTC (rev 16944)
@@ -1,3 +1,15 @@
+genometools (1.5.2-1) unstable; urgency=low
+
+ * New upstream release.
+ * Remove symbols file because private symbols are exported (next upstream
+ version will properly control exported symbols and a new symbols file
+ will be created and maintained)
+ * Remove manpages from debian directory as they are now autogenerated on
+ build
+ * Fix some missing symbols problems
+
+ -- Sascha Steinbiss <steinbiss at zbh.uni-hamburg.de> Thu, 15 May 2014 10:51:41 +0000
+
genometools (1.5.1-3) unstable; urgency=low
* debian/rules
@@ -9,10 +21,8 @@
- Move libgenometools0 package into libs section
- Switch pango deps to new package
- Add ruby builddep, required for the testsuite
- * Fix compilation on mips64/mips64el
- Closes: #747431
- -- Sascha Steinbiss <steinbiss at zbh.uni-hamburg.de> Sat, 10 May 2014 22:28:41 +0000
+ -- Sascha Steinbiss <steinbiss at zbh.uni-hamburg.de> Wed, 06 Nov 2013 14:28:41 +0100
genometools (1.5.1-2) unstable; urgency=low
Modified: trunk/packages/genometools/trunk/debian/control
===================================================================
--- trunk/packages/genometools/trunk/debian/control 2014-05-15 10:29:08 UTC (rev 16943)
+++ trunk/packages/genometools/trunk/debian/control 2014-05-15 11:18:52 UTC (rev 16944)
@@ -17,12 +17,16 @@
libsqlite3-dev,
libbam-dev,
libpango1.0-dev,
+ libtre-dev,
texlive-latex-base,
texlive-latex-extra,
texlive-fonts-extra,
latex-xcolor,
texlive-fonts-recommended,
python,
+ asciidoc,
+ libxml2-utils,
+ xsltproc,
ruby
Standards-Version: 3.9.5
Vcs-Browser: http://anonscm.debian.org/viewvc/debian-med/trunk/packages/genometools/trunk/
@@ -54,7 +58,8 @@
libncurses5,
libsqlite3-0,
libpango-1.0-0,
- libpangocairo-1.0-0
+ libpangocairo-1.0-0,
+ libtre5
Description: shared data files for GenomeTools
This package contains configuration files such as alphabet
transformations, style files, etc. required to use the GenomeTools
Modified: trunk/packages/genometools/trunk/debian/genometools.manpages
===================================================================
--- trunk/packages/genometools/trunk/debian/genometools.manpages 2014-05-15 10:29:08 UTC (rev 16943)
+++ trunk/packages/genometools/trunk/debian/genometools.manpages 2014-05-15 11:18:52 UTC (rev 16944)
@@ -1 +1 @@
-debian/man/*
+debian/tmp/usr/share/man/man1/*
Deleted: trunk/packages/genometools/trunk/debian/libgenometools0.symbols
===================================================================
--- trunk/packages/genometools/trunk/debian/libgenometools0.symbols 2014-05-15 10:29:08 UTC (rev 16943)
+++ trunk/packages/genometools/trunk/debian/libgenometools0.symbols 2014-05-15 11:18:52 UTC (rev 16944)
@@ -1,4396 +0,0 @@
-libgenometools.so.0 libgenometools0 #MINVER#
- EISIntegrityCheckResultStrings at Base 1.5.1
- __bam_get_lines at Base 1.5.1
- anno_db_gfflike_build at Base 1.5.1
- anno_db_gfflike_free at Base 1.5.1
- anno_db_gfflike_init_mysql at Base 1.5.1
- anno_db_gfflike_init_sqlite at Base 1.5.1
- assemble_cluster at Base 1.5.1
- bam_aux2A at Base 1.5.1
- bam_aux2Z at Base 1.5.1
- bam_aux2d at Base 1.5.1
- bam_aux2f at Base 1.5.1
- bam_aux2i at Base 1.5.1
- bam_aux_append at Base 1.5.1
- bam_aux_del at Base 1.5.1
- bam_aux_drop_other at Base 1.5.1
- bam_aux_get at Base 1.5.1
- bam_aux_get_core at Base 1.5.1
- bam_calend at Base 1.5.1
- bam_char2flag_table at Base 1.5.1
- bam_cigar2qlen at Base 1.5.1
- bam_destroy_header_hash at Base 1.5.1
- bam_flag2char_table at Base 1.5.1
- bam_format1 at Base 1.5.1
- bam_format1_core at Base 1.5.1
- bam_get_library at Base 1.5.1
- bam_get_tid at Base 1.5.1
- bam_header_destroy at Base 1.5.1
- bam_header_dup at Base 1.5.1
- bam_header_init at Base 1.5.1
- bam_header_read at Base 1.5.1
- bam_header_write at Base 1.5.1
- bam_init_header_hash at Base 1.5.1
- bam_is_be at Base 1.5.1
- bam_mplp_auto at Base 1.5.1
- bam_mplp_destroy at Base 1.5.1
- bam_mplp_init at Base 1.5.1
- bam_mplp_set_maxcnt at Base 1.5.1
- bam_no_B at Base 1.5.1
- bam_nt16_rev_table at Base 1.5.1
- bam_nt16_table at Base 1.5.1
- bam_parse_region at Base 1.5.1
- bam_pileup_file at Base 1.5.1
- bam_plbuf_destroy at Base 1.5.1
- bam_plbuf_init at Base 1.5.1
- bam_plbuf_push at Base 1.5.1
- bam_plbuf_reset at Base 1.5.1
- bam_plbuf_set_mask at Base 1.5.1
- bam_plp_auto at Base 1.5.1
- bam_plp_destroy at Base 1.5.1
- bam_plp_init at Base 1.5.1
- bam_plp_next at Base 1.5.1
- bam_plp_push at Base 1.5.1
- bam_plp_reset at Base 1.5.1
- bam_plp_set_mask at Base 1.5.1
- bam_plp_set_maxcnt at Base 1.5.1
- bam_read1 at Base 1.5.1
- bam_remove_B at Base 1.5.1
- bam_validate1 at Base 1.5.1
- bam_verbose at Base 1.5.1
- bam_view1 at Base 1.5.1
- bam_write1 at Base 1.5.1
- bam_write1_core at Base 1.5.1
- bgzf_check_EOF at Base 1.5.1
- bgzf_close at Base 1.5.1
- bgzf_dopen at Base 1.5.1
- bgzf_flush at Base 1.5.1
- bgzf_flush_try at Base 1.5.1
- bgzf_getc at Base 1.5.1
- bgzf_getline at Base 1.5.1
- bgzf_is_bgzf at Base 1.5.1
- bgzf_mt at Base 1.5.1
- bgzf_open at Base 1.5.1
- bgzf_read at Base 1.5.1
- bgzf_read_block at Base 1.5.1
- bgzf_seek at Base 1.5.1
- bgzf_set_cache_size at Base 1.5.1
- bgzf_write at Base 1.5.1
- calculate_drawing_range at Base 1.5.1
- download_and_open at Base 1.5.1
- dp_param_alloc at Base 1.5.1
- encdesc_hashmap_distr_get at Base 1.5.1
- encdesc_hashmap_distr_get_corrected at Base 1.5.1
- encdesc_read_header at Base 1.5.1
- encdesc_write_header at Base 1.5.1
- esa_exact_pattern_count at Base 1.5.1
- fai_build at Base 1.5.1
- fai_build_core at Base 1.5.1
- fai_destroy at Base 1.5.1
- fai_fetch at Base 1.5.1
- fai_load at Base 1.5.1
- fai_read at Base 1.5.1
- fai_save at Base 1.5.1
- faidx_fetch_nseq at Base 1.5.1
- faidx_fetch_seq at Base 1.5.1
- faidx_main at Base 1.5.1
- feature_node_get_dfs_status at Base 1.5.1
- feature_node_set_dfs_status at Base 1.5.1
- genericindex_delete at Base 1.5.1
- genericindex_get_packedindex at Base 1.5.1
- genericindex_get_totallength at Base 1.5.1
- genericindex_getencseq at Base 1.5.1
- genericindex_getsuffixarray at Base 1.5.1
- genericindex_new at Base 1.5.1
- genericmstats at Base 1.5.1
- get_current_frame at Base 1.5.1
- get_matrix_row at Base 1.5.1
- getcoreExonnodefromSA at Base 1.5.1
- getencseqkmers at Base 1.5.1
- getencseqkmers_twobitencoding at Base 1.5.1
- getencseqkmersinsertkmerwithoutspecial at Base 1.5.1
- greedyunitedist at Base 1.5.1
- gt_BWTSCRFFinished at Base 1.5.1
- gt_BWTSCRFGet at Base 1.5.1
- gt_BWTSCRFMapAdvance at Base 1.5.1
- gt_BWTSCRFReadAdvance at Base 1.5.1
- gt_BWTSeqCRAccessSubseq at Base 1.5.1
- gt_BWTSeqCRLoad at Base 1.5.1
- gt_BWTSeqGetRankSort at Base 1.5.1
- gt_BWTSeqInitLocateHandling at Base 1.5.1
- gt_BWTSeqLocateMatch at Base 1.5.1
- gt_BWTSeqMatchCount at Base 1.5.1
- gt_BWTSeqNewSASeqSrc at Base 1.5.1
- gt_BWTSeqPosHasLocateInfo at Base 1.5.1
- gt_BWTSeqVerifyIntegrity at Base 1.5.1
- gt_BwtSeqpositionextractor_extract at Base 1.5.1
- gt_Bwtseqcontextiterator_delete at Base 1.5.1
- gt_Bwtseqcontextiterator_new at Base 1.5.1
- gt_Bwtseqcontextiterator_next at Base 1.5.1
- gt_Bwtseqpositioniterator_delete at Base 1.5.1
- gt_Bwtseqpositioniterator_new at Base 1.5.1
- gt_Bwtseqpositioniterator_next at Base 1.5.1
- gt_BwtseqpositionwithoutSEPiterator_next at Base 1.5.1
- gt_EISVerifyIntegrity at Base 1.5.1
- gt_EMINumMatchesLeft at Base 1.5.1
- gt_EMINumMatchesTotal at Base 1.5.1
- gt_Enumcodeatposition_delete at Base 1.5.1
- gt_Enumcodeatposition_filledqgramcode at Base 1.5.1
- gt_Enumcodeatposition_filledqgramcodestopatmax at Base 1.5.1
- gt_Enumcodeatposition_new at Base 1.5.1
- gt_Enumcodeatposition_next at Base 1.5.1
- gt_GtArrayGtBUItvinfo_delete at Base 1.5.1
- gt_GtArrayGtBUItvinfo_delete_errfind at Base 1.5.1
- gt_GtArrayGtBUItvinfo_delete_maxpairs at Base 1.5.1
- gt_GtArrayGtBUItvinfo_delete_rdjce at Base 1.5.1
- gt_GtArrayGtBUItvinfo_delete_rdjcv at Base 1.5.1
- gt_GtArrayGtBUItvinfo_delete_shulen at Base 1.5.1
- gt_GtArrayGtBUItvinfo_delete_spmeq at Base 1.5.1
- gt_GtArrayGtBUItvinfo_delete_spmsk at Base 1.5.1
- gt_GtArrayGtBUItvinfo_delete_spmvar at Base 1.5.1
- gt_GtArrayGtBUItvinfo_new at Base 1.5.1
- gt_GtArrayGtBUItvinfo_new_errfind at Base 1.5.1
- gt_GtArrayGtBUItvinfo_new_maxpairs at Base 1.5.1
- gt_GtArrayGtBUItvinfo_new_rdjce at Base 1.5.1
- gt_GtArrayGtBUItvinfo_new_rdjcv at Base 1.5.1
- gt_GtArrayGtBUItvinfo_new_shulen at Base 1.5.1
- gt_GtArrayGtBUItvinfo_new_spmeq at Base 1.5.1
- gt_GtArrayGtBUItvinfo_new_spmsk at Base 1.5.1
- gt_GtArrayGtBUItvinfo_new_spmvar at Base 1.5.1
- gt_GtSpecialcharinfo_check at Base 1.5.1
- gt_MRAEncAddSymbolToRange at Base 1.5.1
- gt_MRAEncCopy at Base 1.5.1
- gt_MRAEncDelete at Base 1.5.1
- gt_MRAEncGTAlphaNew at Base 1.5.1
- gt_MRAEncGetSize at Base 1.5.1
- gt_MRAEncReadAndTransform at Base 1.5.1
- gt_MRAEncSecondaryMapping at Base 1.5.1
- gt_MRAEncSymbolIsInSelectedRanges at Base 1.5.1
- gt_MRAEncSymbolsRevTransform at Base 1.5.1
- gt_MRAEncSymbolsTransform at Base 1.5.1
- gt_Outlcpinfo_check_lcpvalues at Base 1.5.1
- gt_Outlcpinfo_delete at Base 1.5.1
- gt_Outlcpinfo_lcptabsum at Base 1.5.1
- gt_Outlcpinfo_lcpvalues_ref at Base 1.5.1
- gt_Outlcpinfo_maxbranchdepth at Base 1.5.1
- gt_Outlcpinfo_new at Base 1.5.1
- gt_Outlcpinfo_nonspecialsbucket at Base 1.5.1
- gt_Outlcpinfo_numoflargelcpvalues at Base 1.5.1
- gt_Outlcpinfo_numsuffixes2output_set at Base 1.5.1
- gt_Outlcpinfo_postbucket at Base 1.5.1
- gt_Outlcpinfo_prebucket at Base 1.5.1
- gt_Outlcpinfo_reinit at Base 1.5.1
- gt_Outlcpinfo_resizereservoir at Base 1.5.1
- gt_Outlcpinfo_size at Base 1.5.1
- gt_SAIBaseNewMRAEnc at Base 1.5.1
- gt_SAIGetOrigSeq at Base 1.5.1
- gt_SAIGetRot0Pos at Base 1.5.1
- gt_SAIMakeBWTReader at Base 1.5.1
- gt_SAIMakeReader at Base 1.5.1
- gt_SAIMakeSufTabReader at Base 1.5.1
- gt_SANewMRAEnc at Base 1.5.1
- gt_SASSGenericCreateReader at Base 1.5.1
- gt_SPRTGetOrigEncseq at Base 1.5.1
- gt_SRLAddPosition at Base 1.5.1
- gt_SRLAllSymbolsCountInSeqRegion at Base 1.5.1
- gt_SRLAppendNewRange at Base 1.5.1
- gt_SRLApplyRangesToSubString at Base 1.5.1
- gt_SRLCompact at Base 1.5.1
- gt_SRLFindPositionLast at Base 1.5.1
- gt_SRLFindPositionNext at Base 1.5.1
- gt_SRLInitListSearchHint at Base 1.5.1
- gt_SRLOverlapsPosition at Base 1.5.1
- gt_SRLPrintRangesInfo at Base 1.5.1
- gt_SRLReadFromStream at Base 1.5.1
- gt_SRLSaveToStream at Base 1.5.1
- gt_SRLSymbolCountInSeqRegion at Base 1.5.1
- gt_SRLSymbolsInSeqRegion at Base 1.5.1
- gt_SRLinsertNewRange at Base 1.5.1
- gt_Sequentialsuffixarrayreader_bcktab at Base 1.5.1
- gt_Sequentialsuffixarrayreader_nonspecials at Base 1.5.1
- gt_Sequentialsuffixarrayreader_prefixlength at Base 1.5.1
- gt_Sequentialsuffixarrayreader_totallength at Base 1.5.1
- gt_SfxI2SASS at Base 1.5.1
- gt_SfxIGetAlphabet at Base 1.5.1
- gt_SfxIGetEncSeq at Base 1.5.1
- gt_SfxIGetLength at Base 1.5.1
- gt_SfxIGetOrigSeq at Base 1.5.1
- gt_SfxIGetReadmode at Base 1.5.1
- gt_SfxIGetRot0Pos at Base 1.5.1
- gt_SfxIGetSeqStats at Base 1.5.1
- gt_SfxINewMRAEnc at Base 1.5.1
- gt_SfxIRegisterReader at Base 1.5.1
- gt_SfxInterface2Sfxiterator at Base 1.5.1
- gt_Sfxiterator_bcktab2file at Base 1.5.1
- gt_Sfxiterator_delete at Base 1.5.1
- gt_Sfxiterator_longest at Base 1.5.1
- gt_Sfxiterator_new at Base 1.5.1
- gt_Sfxiterator_new_withadditionalvalues at Base 1.5.1
- gt_Sfxiterator_next at Base 1.5.1
- gt_Sfxmappedrange_checkindex at Base 1.5.1
- gt_Sfxmappedrange_delete at Base 1.5.1
- gt_Sfxmappedrange_map at Base 1.5.1
- gt_Sfxmappedrange_map_entire at Base 1.5.1
- gt_Sfxmappedrange_new at Base 1.5.1
- gt_Sfxmappedrange_size_entire at Base 1.5.1
- gt_Sfxmappedrange_size_mapped at Base 1.5.1
- gt_Sfxmappedrange_storetmp_bitsequence at Base 1.5.1
- gt_Sfxmappedrange_storetmp_uint32 at Base 1.5.1
- gt_Sfxmappedrange_storetmp_ulong at Base 1.5.1
- gt_Sfxmappedrange_unmap at Base 1.5.1
- gt_Sfxmappedrange_usetmp at Base 1.5.1
- gt_Sfxmappedrangelist_add at Base 1.5.1
- gt_Sfxmappedrangelist_delete at Base 1.5.1
- gt_Sfxmappedrangelist_new at Base 1.5.1
- gt_Sfxmappedrangelist_size_entire at Base 1.5.1
- gt_Sfxmappedrangelist_size_mapped at Base 1.5.1
- gt_Viatwobitkeyvalues_delete at Base 1.5.1
- gt_Viatwobitkeyvalues_new at Base 1.5.1
- gt_Viatwobitkeyvalues_reinit at Base 1.5.1
- gt_addSuffixarrayXltor at Base 1.5.1
- gt_add_ids_stream_class at Base 1.5.1
- gt_add_ids_stream_disable at Base 1.5.1
- gt_add_ids_stream_new at Base 1.5.1
- gt_add_ids_visitor_class at Base 1.5.1
- gt_add_ids_visitor_finalize at Base 1.5.1
- gt_add_ids_visitor_get_node at Base 1.5.1
- gt_add_ids_visitor_new at Base 1.5.1
- gt_add_ids_visitor_node_buffer_size at Base 1.5.1
- gt_add_introns_stream_new at Base 1.5.1
- gt_affinealign at Base 1.5.1
- gt_aligned_segment_assign_refregion_chars at Base 1.5.1
- gt_aligned_segment_delete at Base 1.5.1
- gt_aligned_segment_description at Base 1.5.1
- gt_aligned_segment_enable_edit_tracking at Base 1.5.1
- gt_aligned_segment_has_indels at Base 1.5.1
- gt_aligned_segment_is_reverse at Base 1.5.1
- gt_aligned_segment_length at Base 1.5.1
- gt_aligned_segment_mapping_quality at Base 1.5.1
- gt_aligned_segment_new_from_sa at Base 1.5.1
- gt_aligned_segment_offset_for_refpos at Base 1.5.1
- gt_aligned_segment_orig_seq at Base 1.5.1
- gt_aligned_segment_orig_seqlen at Base 1.5.1
- gt_aligned_segment_orig_seqpos_for_refpos at Base 1.5.1
- gt_aligned_segment_qual at Base 1.5.1
- gt_aligned_segment_refregion at Base 1.5.1
- gt_aligned_segment_refregion_edited at Base 1.5.1
- gt_aligned_segment_refregion_endpos at Base 1.5.1
- gt_aligned_segment_refregion_set_edited at Base 1.5.1
- gt_aligned_segment_refregion_startpos at Base 1.5.1
- gt_aligned_segment_seq at Base 1.5.1
- gt_aligned_segment_seq_edited at Base 1.5.1
- gt_aligned_segment_seq_set_edited at Base 1.5.1
- gt_aligned_segment_show at Base 1.5.1
- gt_aligned_segment_ungap_refregion at Base 1.5.1
- gt_aligned_segment_ungap_seq_and_qual at Base 1.5.1
- gt_aligned_segments_pile_compare_as at Base 1.5.1
- gt_aligned_segments_pile_delete at Base 1.5.1
- gt_aligned_segments_pile_disable_segment_deletion at Base 1.5.1
- gt_aligned_segments_pile_enable_edit_tracking at Base 1.5.1
- gt_aligned_segments_pile_flush at Base 1.5.1
- gt_aligned_segments_pile_get at Base 1.5.1
- gt_aligned_segments_pile_move_over_position at Base 1.5.1
- gt_aligned_segments_pile_new at Base 1.5.1
- gt_aligned_segments_pile_register_process_complete at Base 1.5.1
- gt_aligned_segments_pile_register_process_skipped at Base 1.5.1
- gt_aligned_segments_pile_register_process_unmapped at Base 1.5.1
- gt_aligned_segments_pile_size at Base 1.5.1
- gt_alignment_add_deletion at Base 1.5.1
- gt_alignment_add_insertion at Base 1.5.1
- gt_alignment_add_replacement at Base 1.5.1
- gt_alignment_delete at Base 1.5.1
- gt_alignment_eval at Base 1.5.1
- gt_alignment_eval_with_score at Base 1.5.1
- gt_alignment_get_length at Base 1.5.1
- gt_alignment_get_urange at Base 1.5.1
- gt_alignment_get_vrange at Base 1.5.1
- gt_alignment_new at Base 1.5.1
- gt_alignment_new_with_seqs at Base 1.5.1
- gt_alignment_remove_last at Base 1.5.1
- gt_alignment_reset at Base 1.5.1
- gt_alignment_set_seqs at Base 1.5.1
- gt_alignment_set_urange at Base 1.5.1
- gt_alignment_set_vrange at Base 1.5.1
- gt_alignment_show at Base 1.5.1
- gt_alignment_show_multieop_list at Base 1.5.1
- gt_alignment_show_with_mapped_chars at Base 1.5.1
- gt_alignment_unit_test at Base 1.5.1
- gt_alphabet_add_mapping at Base 1.5.1
- gt_alphabet_add_wildcard at Base 1.5.1
- gt_alphabet_bits_per_symbol at Base 1.5.1
- gt_alphabet_characters at Base 1.5.1
- gt_alphabet_clone at Base 1.5.1
- gt_alphabet_decode at Base 1.5.1
- gt_alphabet_decode_seq_to_cstr at Base 1.5.1
- gt_alphabet_decode_seq_to_fp at Base 1.5.1
- gt_alphabet_decode_seq_to_str at Base 1.5.1
- gt_alphabet_delete at Base 1.5.1
- gt_alphabet_echo_pretty_symbol at Base 1.5.1
- gt_alphabet_encode at Base 1.5.1
- gt_alphabet_encode_seq at Base 1.5.1
- gt_alphabet_equals at Base 1.5.1
- gt_alphabet_guess at Base 1.5.1
- gt_alphabet_is_dna at Base 1.5.1
- gt_alphabet_is_protein at Base 1.5.1
- gt_alphabet_new_dna at Base 1.5.1
- gt_alphabet_new_empty at Base 1.5.1
- gt_alphabet_new_from_file at Base 1.5.1
- gt_alphabet_new_from_file_no_suffix at Base 1.5.1
- gt_alphabet_new_from_sequence at Base 1.5.1
- gt_alphabet_new_from_string at Base 1.5.1
- gt_alphabet_new_protein at Base 1.5.1
- gt_alphabet_num_of_chars at Base 1.5.1
- gt_alphabet_output at Base 1.5.1
- gt_alphabet_pretty_symbol at Base 1.5.1
- gt_alphabet_printf_symbolstring at Base 1.5.1
- gt_alphabet_ref at Base 1.5.1
- gt_alphabet_size at Base 1.5.1
- gt_alphabet_symbolmap at Base 1.5.1
- gt_alphabet_to_file at Base 1.5.1
- gt_alphabet_to_str at Base 1.5.1
- gt_alphabet_unit_test at Base 1.5.1
- gt_alphabet_valid_input at Base 1.5.1
- gt_alphabet_wildcard_show at Base 1.5.1
- gt_anno_db_gfflike_class at Base 1.5.1
- gt_anno_db_gfflike_new at Base 1.5.1
- gt_anno_db_gfflike_unit_test at Base 1.5.1
- gt_anno_db_schema_cast at Base 1.5.1
- gt_anno_db_schema_class_new at Base 1.5.1
- gt_anno_db_schema_create at Base 1.5.1
- gt_anno_db_schema_delete at Base 1.5.1
- gt_anno_db_schema_get_feature_index at Base 1.5.1
- gt_anno_db_schema_ref at Base 1.5.1
- gt_apme_AbstractDfstransformer at Base 1.5.1
- gt_applycheckfunctiontotext at Base 1.5.1
- gt_array2dim_example at Base 1.5.1
- gt_array2dim_sparse_example at Base 1.5.1
- gt_array3dim_example at Base 1.5.1
- gt_array_add_array at Base 1.5.1
- gt_array_add_elem at Base 1.5.1
- gt_array_add_ptr at Base 1.5.1
- gt_array_clone at Base 1.5.1
- gt_array_cmp at Base 1.5.1
- gt_array_delete at Base 1.5.1
- gt_array_elem_size at Base 1.5.1
- gt_array_equal at Base 1.5.1
- gt_array_example at Base 1.5.1
- gt_array_get at Base 1.5.1
- gt_array_get_first at Base 1.5.1
- gt_array_get_last at Base 1.5.1
- gt_array_get_space at Base 1.5.1
- gt_array_in_stream_class at Base 1.5.1
- gt_array_in_stream_new at Base 1.5.1
- gt_array_iterate at Base 1.5.1
- gt_array_iterate_reverse at Base 1.5.1
- gt_array_new at Base 1.5.1
- gt_array_out_stream_class at Base 1.5.1
- gt_array_out_stream_new at Base 1.5.1
- gt_array_pop at Base 1.5.1
- gt_array_prepend_array at Base 1.5.1
- gt_array_ref at Base 1.5.1
- gt_array_rem at Base 1.5.1
- gt_array_rem_span at Base 1.5.1
- gt_array_reset at Base 1.5.1
- gt_array_reverse at Base 1.5.1
- gt_array_set_size at Base 1.5.1
- gt_array_size at Base 1.5.1
- gt_array_sort at Base 1.5.1
- gt_array_sort_stable at Base 1.5.1
- gt_array_sort_stable_with_data at Base 1.5.1
- gt_array_sort_with_data at Base 1.5.1
- gt_array_unit_test at Base 1.5.1
- gt_asqg_writer_delete at Base 1.5.1
- gt_asqg_writer_new at Base 1.5.1
- gt_asqg_writer_show_header at Base 1.5.1
- gt_asqg_writer_show_vertices at Base 1.5.1
- gt_assembly_stats_calculator_add at Base 1.5.1
- gt_assembly_stats_calculator_delete at Base 1.5.1
- gt_assembly_stats_calculator_new at Base 1.5.1
- gt_assembly_stats_calculator_set_genome_length at Base 1.5.1
- gt_assembly_stats_calculator_show at Base 1.5.1
- gt_availBWTSeq at Base 1.5.1
- gt_availBWTSeqFromSA at Base 1.5.1
- gt_basename at Base 1.5.1
- gt_basename_unit_test at Base 1.5.1
- gt_bcktab_addfinalspecials at Base 1.5.1
- gt_bcktab_assignboundsforpart at Base 1.5.1
- gt_bcktab_calcboundaries at Base 1.5.1
- gt_bcktab_calcboundsparts at Base 1.5.1
- gt_bcktab_calcrightbounds at Base 1.5.1
- gt_bcktab_checkcountspecialcodes at Base 1.5.1
- gt_bcktab_codedownscale at Base 1.5.1
- gt_bcktab_delete at Base 1.5.1
- gt_bcktab_determinemaxsize at Base 1.5.1
- gt_bcktab_distpfxidxpartialsums at Base 1.5.1
- gt_bcktab_filltable at Base 1.5.1
- gt_bcktab_findfirstlarger at Base 1.5.1
- gt_bcktab_flush_to_file at Base 1.5.1
- gt_bcktab_get_leftborder at Base 1.5.1
- gt_bcktab_leftborder at Base 1.5.1
- gt_bcktab_leftborder_assign at Base 1.5.1
- gt_bcktab_leftborder_show at Base 1.5.1
- gt_bcktab_leftborderpartialsums at Base 1.5.1
- gt_bcktab_map at Base 1.5.1
- gt_bcktab_maprange_lb_cs at Base 1.5.1
- gt_bcktab_maxbucketsize at Base 1.5.1
- gt_bcktab_multimappower at Base 1.5.1
- gt_bcktab_new at Base 1.5.1
- gt_bcktab_nonspecialsmaxsize at Base 1.5.1
- gt_bcktab_numofallcodes at Base 1.5.1
- gt_bcktab_pfxidx2lcpvalues_Lcpvaluetype at Base 1.5.1
- gt_bcktab_pfxidx2lcpvalues_uint8 at Base 1.5.1
- gt_bcktab_prefixlength at Base 1.5.1
- gt_bcktab_remap_all at Base 1.5.1
- gt_bcktab_show at Base 1.5.1
- gt_bcktab_singletonmaxprefixindex at Base 1.5.1
- gt_bcktab_sizeforlcpvalues at Base 1.5.1
- gt_bcktab_sizeoftable at Base 1.5.1
- gt_bcktab_sizeofworkspace at Base 1.5.1
- gt_bcktab_storetmp at Base 1.5.1
- gt_bcktab_updatespecials at Base 1.5.1
- gt_bed_in_stream_class at Base 1.5.1
- gt_bed_in_stream_new at Base 1.5.1
- gt_bed_in_stream_set_block_type at Base 1.5.1
- gt_bed_in_stream_set_feature_type at Base 1.5.1
- gt_bed_in_stream_set_thick_feature_type at Base 1.5.1
- gt_bed_parser_delete at Base 1.5.1
- gt_bed_parser_new at Base 1.5.1
- gt_bed_parser_parse at Base 1.5.1
- gt_bed_parser_set_block_type at Base 1.5.1
- gt_bed_parser_set_feature_type at Base 1.5.1
- gt_bed_parser_set_thick_feature_type at Base 1.5.1
- gt_bioseq_col_class at Base 1.5.1
- gt_bioseq_col_md5_to_sequence_length at Base 1.5.1
- gt_bioseq_col_new at Base 1.5.1
- gt_bioseq_delete at Base 1.5.1
- gt_bioseq_filename at Base 1.5.1
- gt_bioseq_get_alphabet at Base 1.5.1
- gt_bioseq_get_char at Base 1.5.1
- gt_bioseq_get_description at Base 1.5.1
- gt_bioseq_get_encoded_char at Base 1.5.1
- gt_bioseq_get_encoded_sequence at Base 1.5.1
- gt_bioseq_get_encoded_sequence_range at Base 1.5.1
- gt_bioseq_get_md5_fingerprint at Base 1.5.1
- gt_bioseq_get_seq at Base 1.5.1
- gt_bioseq_get_seq_range at Base 1.5.1
- gt_bioseq_get_sequence at Base 1.5.1
- gt_bioseq_get_sequence_length at Base 1.5.1
- gt_bioseq_get_sequence_range at Base 1.5.1
- gt_bioseq_get_total_length at Base 1.5.1
- gt_bioseq_iterator_delete at Base 1.5.1
- gt_bioseq_iterator_new at Base 1.5.1
- gt_bioseq_iterator_next at Base 1.5.1
- gt_bioseq_md5_to_index at Base 1.5.1
- gt_bioseq_new at Base 1.5.1
- gt_bioseq_new_recreate at Base 1.5.1
- gt_bioseq_new_str at Base 1.5.1
- gt_bioseq_number_of_sequences at Base 1.5.1
- gt_bioseq_show_as_fasta at Base 1.5.1
- gt_bioseq_show_gc_content at Base 1.5.1
- gt_bioseq_show_seqlengthdistri at Base 1.5.1
- gt_bioseq_show_sequence_as_fasta at Base 1.5.1
- gt_bioseq_show_stat at Base 1.5.1
- gt_bitPackStringInt16_unit_test at Base 1.5.1
- gt_bitPackStringInt32_unit_test at Base 1.5.1
- gt_bitPackStringInt64_unit_test at Base 1.5.1
- gt_bitPackStringInt8_unit_test at Base 1.5.1
- gt_bitPackStringInt_unit_test at Base 1.5.1
- gt_bitPackString_unit_test at Base 1.5.1
- gt_bitinstream_delete at Base 1.5.1
- gt_bitinstream_get_next_bit at Base 1.5.1
- gt_bitinstream_new at Base 1.5.1
- gt_bitinstream_reinit at Base 1.5.1
- gt_bitoutstream_append at Base 1.5.1
- gt_bitoutstream_append_bittab at Base 1.5.1
- gt_bitoutstream_delete at Base 1.5.1
- gt_bitoutstream_flush at Base 1.5.1
- gt_bitoutstream_flush_advance at Base 1.5.1
- gt_bitoutstream_new at Base 1.5.1
- gt_bitoutstream_pos at Base 1.5.1
- gt_bitpackarray_unit_test at Base 1.5.1
- gt_bittab_and at Base 1.5.1
- gt_bittab_and_equal at Base 1.5.1
- gt_bittab_bit_is_set at Base 1.5.1
- gt_bittab_cmp at Base 1.5.1
- gt_bittab_complement at Base 1.5.1
- gt_bittab_count_set_bits at Base 1.5.1
- gt_bittab_delete at Base 1.5.1
- gt_bittab_equal at Base 1.5.1
- gt_bittab_example at Base 1.5.1
- gt_bittab_get_all_bitnums at Base 1.5.1
- gt_bittab_get_first_bitnum at Base 1.5.1
- gt_bittab_get_last_bitnum at Base 1.5.1
- gt_bittab_get_next_bitnum at Base 1.5.1
- gt_bittab_is_true at Base 1.5.1
- gt_bittab_nand at Base 1.5.1
- gt_bittab_new at Base 1.5.1
- gt_bittab_or at Base 1.5.1
- gt_bittab_or_equal at Base 1.5.1
- gt_bittab_set_bit at Base 1.5.1
- gt_bittab_shift_left_equal at Base 1.5.1
- gt_bittab_shift_right_equal at Base 1.5.1
- gt_bittab_show at Base 1.5.1
- gt_bittab_size at Base 1.5.1
- gt_bittab_unit_test at Base 1.5.1
- gt_bittab_unset at Base 1.5.1
- gt_bittab_unset_bit at Base 1.5.1
- gt_blindtrie_current_size at Base 1.5.1
- gt_blindtrie_delete at Base 1.5.1
- gt_blindtrie_new at Base 1.5.1
- gt_blindtrie_reset at Base 1.5.1
- gt_blindtrie_resize at Base 1.5.1
- gt_blindtrie_retrieve at Base 1.5.1
- gt_blindtrie_size at Base 1.5.1
- gt_blindtrie_suffixsort at Base 1.5.1
- gt_block2IndexPair at Base 1.5.1
- gt_blockEncIdxSeqSegmentLen at Base 1.5.1
- gt_block_caption_is_visible at Base 1.5.1
- gt_block_clone at Base 1.5.1
- gt_block_compare at Base 1.5.1
- gt_block_delete at Base 1.5.1
- gt_block_get_caption at Base 1.5.1
- gt_block_get_max_height at Base 1.5.1
- gt_block_get_range at Base 1.5.1
- gt_block_get_range_ptr at Base 1.5.1
- gt_block_get_size at Base 1.5.1
- gt_block_get_strand at Base 1.5.1
- gt_block_get_top_level_feature at Base 1.5.1
- gt_block_get_type at Base 1.5.1
- gt_block_has_only_one_fullsize_element at Base 1.5.1
- gt_block_insert_element at Base 1.5.1
- gt_block_merge at Base 1.5.1
- gt_block_new at Base 1.5.1
- gt_block_new_from_node at Base 1.5.1
- gt_block_print at Base 1.5.1
- gt_block_ref at Base 1.5.1
- gt_block_set_caption at Base 1.5.1
- gt_block_set_caption_visibility at Base 1.5.1
- gt_block_set_range at Base 1.5.1
- gt_block_set_strand at Base 1.5.1
- gt_block_set_type at Base 1.5.1
- gt_block_sketch at Base 1.5.1
- gt_block_unit_test at Base 1.5.1
- gt_bool_matrix_delete at Base 1.5.1
- gt_bool_matrix_get at Base 1.5.1
- gt_bool_matrix_get_first_column at Base 1.5.1
- gt_bool_matrix_get_last_column at Base 1.5.1
- gt_bool_matrix_get_next_column at Base 1.5.1
- gt_bool_matrix_new at Base 1.5.1
- gt_bool_matrix_set at Base 1.5.1
- gt_bs1BitsCount at Base 1.5.1
- gt_bsClear at Base 1.5.1
- gt_bsCompare at Base 1.5.1
- gt_bsCopy at Base 1.5.1
- gt_bsGetNonUniformInt16Array at Base 1.5.1
- gt_bsGetNonUniformInt16ArrayAdd at Base 1.5.1
- gt_bsGetNonUniformInt32Array at Base 1.5.1
- gt_bsGetNonUniformInt32ArrayAdd at Base 1.5.1
- gt_bsGetNonUniformInt64Array at Base 1.5.1
- gt_bsGetNonUniformInt64ArrayAdd at Base 1.5.1
- gt_bsGetNonUniformInt8Array at Base 1.5.1
- gt_bsGetNonUniformInt8ArrayAdd at Base 1.5.1
- gt_bsGetNonUniformUInt16Array at Base 1.5.1
- gt_bsGetNonUniformUInt16ArrayAdd at Base 1.5.1
- gt_bsGetNonUniformUInt32Array at Base 1.5.1
- gt_bsGetNonUniformUInt32ArrayAdd at Base 1.5.1
- gt_bsGetNonUniformUInt64Array at Base 1.5.1
- gt_bsGetNonUniformUInt64ArrayAdd at Base 1.5.1
- gt_bsGetNonUniformUInt8Array at Base 1.5.1
- gt_bsGetNonUniformUInt8ArrayAdd at Base 1.5.1
- gt_bsGetUInt16 at Base 1.5.1
- gt_bsGetUInt32 at Base 1.5.1
- gt_bsGetUInt64 at Base 1.5.1
- gt_bsGetUInt8 at Base 1.5.1
- gt_bsGetUniformUInt16Array at Base 1.5.1
- gt_bsGetUniformUInt16ArrayAdd at Base 1.5.1
- gt_bsGetUniformUInt32Array at Base 1.5.1
- gt_bsGetUniformUInt32ArrayAdd at Base 1.5.1
- gt_bsGetUniformUInt64Array at Base 1.5.1
- gt_bsGetUniformUInt64ArrayAdd at Base 1.5.1
- gt_bsGetUniformUInt8Array at Base 1.5.1
- gt_bsGetUniformUInt8ArrayAdd at Base 1.5.1
- gt_bsPrint at Base 1.5.1
- gt_bsStoreNonUniformUInt16Array at Base 1.5.1
- gt_bsStoreNonUniformUInt32Array at Base 1.5.1
- gt_bsStoreNonUniformUInt64Array at Base 1.5.1
- gt_bsStoreNonUniformUInt8Array at Base 1.5.1
- gt_bsStoreUInt16 at Base 1.5.1
- gt_bsStoreUInt32 at Base 1.5.1
- gt_bsStoreUInt64 at Base 1.5.1
- gt_bsStoreUInt8 at Base 1.5.1
- gt_bsStoreUniformUInt16Array at Base 1.5.1
- gt_bsStoreUniformUInt32Array at Base 1.5.1
- gt_bsStoreUniformUInt64Array at Base 1.5.1
- gt_bsStoreUniformUInt8Array at Base 1.5.1
- gt_bsearch_all at Base 1.5.1
- gt_bsearch_all_mark at Base 1.5.1
- gt_bsearch_data at Base 1.5.1
- gt_bsearch_unit_test at Base 1.5.1
- gt_buffer_stream_class at Base 1.5.1
- gt_buffer_stream_dequeue at Base 1.5.1
- gt_buffer_stream_new at Base 1.5.1
- gt_bwtrangesplitallwithoutspecial at Base 1.5.1
- gt_bwtrangesplitallwithspecial at Base 1.5.1
- gt_bwtrangesplitwithoutspecial at Base 1.5.1
- gt_bwtseq2maxdepth at Base 1.5.1
- gt_bwtseq2mbtab at Base 1.5.1
- gt_bwtseq2numofchars at Base 1.5.1
- gt_bwtseqfirstmatch at Base 1.5.1
- gt_bwtseqgetsymbol at Base 1.5.1
- gt_calc_linearedist at Base 1.5.1
- gt_calculateKr at Base 1.5.1
- gt_callenumquerymatches at Base 1.5.1
- gt_callenumselfmatches at Base 1.5.1
- gt_calloc_mem at Base 1.5.1
- gt_canvas_cairo_context_class at Base 1.5.1
- gt_canvas_cairo_context_new at Base 1.5.1
- gt_canvas_cairo_draw_ruler at Base 1.5.1
- gt_canvas_cairo_file_class at Base 1.5.1
- gt_canvas_cairo_file_new at Base 1.5.1
- gt_canvas_cairo_file_to_file at Base 1.5.1
- gt_canvas_cairo_file_to_stream at Base 1.5.1
- gt_canvas_cairo_visit_block at Base 1.5.1
- gt_canvas_cairo_visit_custom_track at Base 1.5.1
- gt_canvas_cairo_visit_element at Base 1.5.1
- gt_canvas_cairo_visit_layout_post at Base 1.5.1
- gt_canvas_cairo_visit_layout_pre at Base 1.5.1
- gt_canvas_cairo_visit_line_post at Base 1.5.1
- gt_canvas_cairo_visit_line_pre at Base 1.5.1
- gt_canvas_cairo_visit_track_post at Base 1.5.1
- gt_canvas_cairo_visit_track_pre at Base 1.5.1
- gt_canvas_cast at Base 1.5.1
- gt_canvas_class_new at Base 1.5.1
- gt_canvas_create at Base 1.5.1
- gt_canvas_delete at Base 1.5.1
- gt_canvas_draw_ruler at Base 1.5.1
- gt_canvas_get_height at Base 1.5.1
- gt_canvas_get_style at Base 1.5.1
- gt_canvas_try_cast at Base 1.5.1
- gt_canvas_visit_block at Base 1.5.1
- gt_canvas_visit_custom_track at Base 1.5.1
- gt_canvas_visit_element at Base 1.5.1
- gt_canvas_visit_layout_post at Base 1.5.1
- gt_canvas_visit_layout_pre at Base 1.5.1
- gt_canvas_visit_line_post at Base 1.5.1
- gt_canvas_visit_line_pre at Base 1.5.1
- gt_canvas_visit_track_post at Base 1.5.1
- gt_canvas_visit_track_pre at Base 1.5.1
- gt_cds_check_stream_class at Base 1.5.1
- gt_cds_check_stream_enable_tidy_mode at Base 1.5.1
- gt_cds_check_stream_new at Base 1.5.1
- gt_cds_check_visitor_class at Base 1.5.1
- gt_cds_check_visitor_enable_tidy_mode at Base 1.5.1
- gt_cds_check_visitor_new at Base 1.5.1
- gt_cds_stream_new at Base 1.5.1
- gt_cds_visitor_class at Base 1.5.1
- gt_cds_visitor_new at Base 1.5.1
- gt_cds_visitor_set_region_mapping at Base 1.5.1
- gt_chain_add_fragnum at Base 1.5.1
- gt_chain_analyzeopenformatfile at Base 1.5.1
- gt_chain_applyweight at Base 1.5.1
- gt_chain_chain_delete at Base 1.5.1
- gt_chain_chain_new at Base 1.5.1
- gt_chain_chainlength at Base 1.5.1
- gt_chain_chainmode_delete at Base 1.5.1
- gt_chain_chainmode_new at Base 1.5.1
- gt_chain_chainscore at Base 1.5.1
- gt_chain_delete at Base 1.5.1
- gt_chain_extractchainelem at Base 1.5.1
- gt_chain_fastchaining at Base 1.5.1
- gt_chain_fillthegapvalues at Base 1.5.1
- gt_chain_get_fragnum at Base 1.5.1
- gt_chain_get_score at Base 1.5.1
- gt_chain_matchtable_add at Base 1.5.1
- gt_chain_matchtable_delete at Base 1.5.1
- gt_chain_matchtable_empty at Base 1.5.1
- gt_chain_matchtable_new at Base 1.5.1
- gt_chain_new at Base 1.5.1
- gt_chain_possiblysortmatches at Base 1.5.1
- gt_chain_printchainelem at Base 1.5.1
- gt_chain_reset at Base 1.5.1
- gt_chain_set_fragnum at Base 1.5.1
- gt_chain_set_score at Base 1.5.1
- gt_chain_size at Base 1.5.1
- gt_chain_storedinreverseorder at Base 1.5.1
- gt_check_stopcodon at Base 1.5.1
- gt_checkandresetstorematch at Base 1.5.1
- gt_checkgreedyunitedist at Base 1.5.1
- gt_checkifprefixesareidentical at Base 1.5.1
- gt_checkprefixlength at Base 1.5.1
- gt_checksortedsuffixes at Base 1.5.1
- gt_chseqids_stream_class at Base 1.5.1
- gt_chseqids_stream_new at Base 1.5.1
- gt_class_alloc at Base 1.5.1
- gt_class_alloc_clean at Base 1.5.1
- gt_class_alloc_lock_clean at Base 1.5.1
- gt_class_alloc_lock_enter_func at Base 1.5.1
- gt_class_alloc_lock_init at Base 1.5.1
- gt_class_alloc_lock_leave_func at Base 1.5.1
- gt_clustered_set_class_new at Base 1.5.1
- gt_clustered_set_cluster_num at Base 1.5.1
- gt_clustered_set_create at Base 1.5.1
- gt_clustered_set_delete at Base 1.5.1
- gt_clustered_set_get_iterator at Base 1.5.1
- gt_clustered_set_iterator_delete at Base 1.5.1
- gt_clustered_set_iterator_next at Base 1.5.1
- gt_clustered_set_merge_clusters at Base 1.5.1
- gt_clustered_set_num_of_clusters at Base 1.5.1
- gt_clustered_set_num_of_elements at Base 1.5.1
- gt_clustered_set_union_find_class at Base 1.5.1
- gt_clustered_set_union_find_cluster_num at Base 1.5.1
- gt_clustered_set_union_find_delete at Base 1.5.1
- gt_clustered_set_union_find_iterator_new at Base 1.5.1
- gt_clustered_set_union_find_merge_clusters at Base 1.5.1
- gt_clustered_set_union_find_new at Base 1.5.1
- gt_clustered_set_union_find_num_of_clusters at Base 1.5.1
- gt_clustered_set_union_find_num_of_elements at Base 1.5.1
- gt_clustered_set_union_find_unit_test at Base 1.5.1
- gt_cntlist_count at Base 1.5.1
- gt_cntlist_parse at Base 1.5.1
- gt_cntlist_show at Base 1.5.1
- gt_cntlist_write_bin_header at Base 1.5.1
- gt_cntlist_xload at Base 1.5.1
- gt_codon_iterator_cast at Base 1.5.1
- gt_codon_iterator_class_new at Base 1.5.1
- gt_codon_iterator_create at Base 1.5.1
- gt_codon_iterator_current_position at Base 1.5.1
- gt_codon_iterator_delete at Base 1.5.1
- gt_codon_iterator_encseq_class at Base 1.5.1
- gt_codon_iterator_encseq_new at Base 1.5.1
- gt_codon_iterator_encseq_new_with_readmode at Base 1.5.1
- gt_codon_iterator_encseq_unit_test at Base 1.5.1
- gt_codon_iterator_length at Base 1.5.1
- gt_codon_iterator_next at Base 1.5.1
- gt_codon_iterator_rewind at Base 1.5.1
- gt_codon_iterator_simple_class at Base 1.5.1
- gt_codon_iterator_simple_new at Base 1.5.1
- gt_codon_iterator_simple_unit_test at Base 1.5.1
- gt_codon_iterator_try_cast at Base 1.5.1
- gt_coin_hmm_alphabet at Base 1.5.1
- gt_coin_hmm_fair at Base 1.5.1
- gt_coin_hmm_loaded at Base 1.5.1
- gt_collect_ids_visitor_class at Base 1.5.1
- gt_collect_ids_visitor_new at Base 1.5.1
- gt_color_delete at Base 1.5.1
- gt_color_equals at Base 1.5.1
- gt_color_new at Base 1.5.1
- gt_color_set at Base 1.5.1
- gt_colorspace_decode_string at Base 1.5.1
- gt_colorspace_unit_test at Base 1.5.1
- gt_combinatorics_binomial_dp at Base 1.5.1
- gt_combinatorics_binomial_ln at Base 1.5.1
- gt_combinatorics_binomial_simple at Base 1.5.1
- gt_combinatorics_clean at Base 1.5.1
- gt_combinatorics_init at Base 1.5.1
- gt_combinatorics_unit_test at Base 1.5.1
- gt_comment_node_class at Base 1.5.1
- gt_comment_node_get_comment at Base 1.5.1
- gt_comment_node_new at Base 1.5.1
- gt_compact_ulong_store_delete at Base 1.5.1
- gt_compact_ulong_store_get at Base 1.5.1
- gt_compact_ulong_store_new at Base 1.5.1
- gt_compact_ulong_store_size at Base 1.5.1
- gt_compact_ulong_store_unit_test at Base 1.5.1
- gt_compact_ulong_store_update at Base 1.5.1
- gt_complement at Base 1.5.1
- gt_completealignmentfromLocaliTracebackstate at Base 1.5.1
- gt_computePackedIndexDefaults at Base 1.5.1
- gt_compute_indelcount at Base 1.5.1
- gt_computefmkeyvalues at Base 1.5.1
- gt_consensus_sa at Base 1.5.1
- gt_constructmerbuckets at Base 1.5.1
- gt_contfind_bottomup at Base 1.5.1
- gt_contfinder_contained at Base 1.5.1
- gt_contfinder_delete at Base 1.5.1
- gt_contfinder_new at Base 1.5.1
- gt_contfinder_nofcontained at Base 1.5.1
- gt_contfinder_radixsort_str_eqlen_tester at Base 1.5.1
- gt_contfinder_run at Base 1.5.1
- gt_contfinder_write_cntlist at Base 1.5.1
- gt_contfinder_write_copynum at Base 1.5.1
- gt_contfinder_write_seqnums at Base 1.5.1
- gt_contfinder_write_sorted_seqnums at Base 1.5.1
- gt_contigpaths_to_fasta at Base 1.5.1
- gt_contigs_writer_abort at Base 1.5.1
- gt_contigs_writer_append at Base 1.5.1
- gt_contigs_writer_delete at Base 1.5.1
- gt_contigs_writer_new at Base 1.5.1
- gt_contigs_writer_show_stats at Base 1.5.1
- gt_contigs_writer_start at Base 1.5.1
- gt_contigs_writer_write at Base 1.5.1
- gt_convertBWTOptFlags2EISFeatures at Base 1.5.1
- gt_coords_calc_generic_range at Base 1.5.1
- gt_coords_convert_point at Base 1.5.1
- gt_copy_reversecomplement at Base 1.5.1
- gt_copysort_checkhardwork at Base 1.5.1
- gt_copysort_delete at Base 1.5.1
- gt_copysort_derivesorting at Base 1.5.1
- gt_copysort_new at Base 1.5.1
- gt_countingsort at Base 1.5.1
- gt_countingsort_get_max at Base 1.5.1
- gt_countingsort_unit_test at Base 1.5.1
- gt_createBWTSeqFromSA at Base 1.5.1
- gt_createBWTSeqFromSAI at Base 1.5.1
- gt_createBWTSeqFromSfxI at Base 1.5.1
- gt_createBWTSeqGeneric at Base 1.5.1
- gt_createEncIdxSeq at Base 1.5.1
- gt_createEncIdxSeqFromSA at Base 1.5.1
- gt_createEncIdxSeqFromSAI at Base 1.5.1
- gt_createEncIdxSeqFromSfxI at Base 1.5.1
- gt_createEncIdxSeqGen at Base 1.5.1
- gt_csa_gene_add_splice_form at Base 1.5.1
- gt_csa_gene_delete at Base 1.5.1
- gt_csa_gene_genomic_range at Base 1.5.1
- gt_csa_gene_get_representative at Base 1.5.1
- gt_csa_gene_get_splice_form at Base 1.5.1
- gt_csa_gene_new at Base 1.5.1
- gt_csa_gene_num_of_splice_forms at Base 1.5.1
- gt_csa_gene_strand at Base 1.5.1
- gt_csa_splice_form_add_sa at Base 1.5.1
- gt_csa_splice_form_delete at Base 1.5.1
- gt_csa_splice_form_genomic_range at Base 1.5.1
- gt_csa_splice_form_get_representative at Base 1.5.1
- gt_csa_splice_form_get_sa at Base 1.5.1
- gt_csa_splice_form_new at Base 1.5.1
- gt_csa_splice_form_num_of_sas at Base 1.5.1
- gt_csa_splice_form_strand at Base 1.5.1
- gt_csa_stream_class at Base 1.5.1
- gt_csa_stream_new at Base 1.5.1
- gt_csa_variable_strands at Base 1.5.1
- gt_csa_visitor_class at Base 1.5.1
- gt_csa_visitor_get_node at Base 1.5.1
- gt_csa_visitor_new at Base 1.5.1
- gt_csa_visitor_node_buffer_size at Base 1.5.1
- gt_csa_visitor_process_cluster at Base 1.5.1
- gt_cstr_array_delete at Base 1.5.1
- gt_cstr_array_dup at Base 1.5.1
- gt_cstr_array_prefix_first at Base 1.5.1
- gt_cstr_array_preprend at Base 1.5.1
- gt_cstr_array_show at Base 1.5.1
- gt_cstr_array_show_genfile at Base 1.5.1
- gt_cstr_array_size at Base 1.5.1
- gt_cstr_dup at Base 1.5.1
- gt_cstr_dup_nt at Base 1.5.1
- gt_cstr_iterator_cast at Base 1.5.1
- gt_cstr_iterator_class_new at Base 1.5.1
- gt_cstr_iterator_create at Base 1.5.1
- gt_cstr_iterator_delete at Base 1.5.1
- gt_cstr_iterator_next at Base 1.5.1
- gt_cstr_iterator_reset at Base 1.5.1
- gt_cstr_length_up_to_char at Base 1.5.1
- gt_cstr_nofree_ulp_destruct at Base 1.5.1
- gt_cstr_nofree_ulp_gt_hashmap_foreach at Base 1.5.1
- gt_cstr_nofree_ulp_gt_hashmap_foreach_in_default_order at Base 1.5.1
- gt_cstr_nofree_ulp_gt_hashmap_foreach_ordered at Base 1.5.1
- gt_cstr_nofree_ulp_hashtype at Base 1.5.1
- gt_cstr_rep at Base 1.5.1
- gt_cstr_rtrim at Base 1.5.1
- gt_cstr_show at Base 1.5.1
- gt_cstr_split at Base 1.5.1
- gt_cstr_table_add at Base 1.5.1
- gt_cstr_table_delete at Base 1.5.1
- gt_cstr_table_get at Base 1.5.1
- gt_cstr_table_get_all at Base 1.5.1
- gt_cstr_table_new at Base 1.5.1
- gt_cstr_table_remove at Base 1.5.1
- gt_cstr_table_reset at Base 1.5.1
- gt_cstr_table_unit_test at Base 1.5.1
- gt_cstr_unit_test at Base 1.5.1
- gt_custom_track_cast at Base 1.5.1
- gt_custom_track_class_new at Base 1.5.1
- gt_custom_track_create at Base 1.5.1
- gt_custom_track_delete at Base 1.5.1
- gt_custom_track_example_class at Base 1.5.1
- gt_custom_track_example_delete at Base 1.5.1
- gt_custom_track_example_get_height at Base 1.5.1
- gt_custom_track_example_get_title at Base 1.5.1
- gt_custom_track_example_new at Base 1.5.1
- gt_custom_track_example_sketch at Base 1.5.1
- gt_custom_track_gc_content_class at Base 1.5.1
- gt_custom_track_gc_content_delete at Base 1.5.1
- gt_custom_track_gc_content_get_height at Base 1.5.1
- gt_custom_track_gc_content_get_title at Base 1.5.1
- gt_custom_track_gc_content_new at Base 1.5.1
- gt_custom_track_gc_content_sketch at Base 1.5.1
- gt_custom_track_get_height at Base 1.5.1
- gt_custom_track_get_title at Base 1.5.1
- gt_custom_track_ref at Base 1.5.1
- gt_custom_track_render at Base 1.5.1
- gt_custom_track_script_wrapper_class at Base 1.5.1
- gt_custom_track_script_wrapper_delete at Base 1.5.1
- gt_custom_track_script_wrapper_get_height at Base 1.5.1
- gt_custom_track_script_wrapper_get_title at Base 1.5.1
- gt_custom_track_script_wrapper_new at Base 1.5.1
- gt_custom_track_script_wrapper_sketch at Base 1.5.1
- gt_custom_track_sketch at Base 1.5.1
- gt_decodesingleinteger at Base 1.5.1
- gt_deleteBWTSeq at Base 1.5.1
- gt_deleteBWTSeqCR at Base 1.5.1
- gt_deleteBWTSeqContextRetrieverFactory at Base 1.5.1
- gt_deleteCompositionList at Base 1.5.1
- gt_deleteEMIterator at Base 1.5.1
- gt_deleteEncIdxSeq at Base 1.5.1
- gt_deleteSeqRangeList at Base 1.5.1
- gt_deleteSfxInterface at Base 1.5.1
- gt_deleteSpecialsRankLookup at Base 1.5.1
- gt_deleteSuffixarrayFileInterface at Base 1.5.1
- gt_deletevoidBWTSeq at Base 1.5.1
- gt_depthfirstesa at Base 1.5.1
- gt_desc_buffer_append_char at Base 1.5.1
- gt_desc_buffer_delete at Base 1.5.1
- gt_desc_buffer_finish at Base 1.5.1
- gt_desc_buffer_get_next at Base 1.5.1
- gt_desc_buffer_length at Base 1.5.1
- gt_desc_buffer_new at Base 1.5.1
- gt_desc_buffer_ref at Base 1.5.1
- gt_desc_buffer_reset at Base 1.5.1
- gt_desc_buffer_show at Base 1.5.1
- gt_desc_buffer_unit_test at Base 1.5.1
- gt_deskeysfileexists at Base 1.5.1
- gt_destructCompositionList at Base 1.5.1
- gt_destructEMIterator at Base 1.5.1
- gt_destructSATaggedXltorStateList at Base 1.5.1
- gt_destructSeqReaderSet at Base 1.5.1
- gt_destructSuffixarrayFileInterface at Base 1.5.1
- gt_determine_ORFs at Base 1.5.1
- gt_determinebitspervalue at Base 1.5.1
- gt_determinenumberofspecialstostore at Base 1.5.1
- gt_determinetyrbckpfxlen at Base 1.5.1
- gt_diagram_add_custom_track at Base 1.5.1
- gt_diagram_delete at Base 1.5.1
- gt_diagram_get_blocks at Base 1.5.1
- gt_diagram_get_custom_tracks at Base 1.5.1
- gt_diagram_get_range at Base 1.5.1
- gt_diagram_new at Base 1.5.1
- gt_diagram_new_from_array at Base 1.5.1
- gt_diagram_reset_track_selector_func at Base 1.5.1
- gt_diagram_set_track_selector_func at Base 1.5.1
- gt_diagram_unit_test at Base 1.5.1
- gt_diagram_unit_test_sketch_func at Base 1.5.1
- gt_dice_hmm_alphabet at Base 1.5.1
- gt_dice_hmm_fair at Base 1.5.1
- gt_dice_hmm_loaded at Base 1.5.1
- gt_differencecover_check at Base 1.5.1
- gt_differencecover_compare at Base 1.5.1
- gt_differencecover_completelargelcpvalues at Base 1.5.1
- gt_differencecover_delete at Base 1.5.1
- gt_differencecover_is_empty at Base 1.5.1
- gt_differencecover_new at Base 1.5.1
- gt_differencecover_prepare_sample at Base 1.5.1
- gt_differencecover_requiredspace at Base 1.5.1
- gt_differencecover_samplesize at Base 1.5.1
- gt_differencecover_set_sssp_lcp at Base 1.5.1
- gt_differencecover_sortunsortedbucket at Base 1.5.1
- gt_direct_qsort_ulong at Base 1.5.1
- gt_disc_distri_add at Base 1.5.1
- gt_disc_distri_add_multi at Base 1.5.1
- gt_disc_distri_delete at Base 1.5.1
- gt_disc_distri_foreach at Base 1.5.1
- gt_disc_distri_foreach_in_reverse_order at Base 1.5.1
- gt_disc_distri_get at Base 1.5.1
- gt_disc_distri_new at Base 1.5.1
- gt_disc_distri_show at Base 1.5.1
- gt_disc_distri_unit_test at Base 1.5.1
- gt_distanceofshortstringsbytearray at Base 1.5.1
- gt_distanceofshortstringsencseq at Base 1.5.1
- gt_divergence at Base 1.5.1
- gt_dlist_add at Base 1.5.1
- gt_dlist_delete at Base 1.5.1
- gt_dlist_example at Base 1.5.1
- gt_dlist_find at Base 1.5.1
- gt_dlist_first at Base 1.5.1
- gt_dlist_last at Base 1.5.1
- gt_dlist_new at Base 1.5.1
- gt_dlist_new_with_data at Base 1.5.1
- gt_dlist_remove at Base 1.5.1
- gt_dlist_size at Base 1.5.1
- gt_dlist_unit_test at Base 1.5.1
- gt_dlistelem_get_data at Base 1.5.1
- gt_dlistelem_next at Base 1.5.1
- gt_dlistelem_previous at Base 1.5.1
- gt_dot_out_stream_new at Base 1.5.1
- gt_dot_visitor_class at Base 1.5.1
- gt_dot_visitor_finalize at Base 1.5.1
- gt_dot_visitor_new at Base 1.5.1
- gt_double_compare at Base 1.5.1
- gt_double_equals_double at Base 1.5.1
- gt_double_equals_one at Base 1.5.1
- gt_double_larger_double at Base 1.5.1
- gt_double_smaller_double at Base 1.5.1
- gt_drawing_range_compare at Base 1.5.1
- gt_drawing_range_contains at Base 1.5.1
- gt_drawing_range_length at Base 1.5.1
- gt_drawing_range_overlap at Base 1.5.1
- gt_dup_feature_stream_new at Base 1.5.1
- gt_dup_feature_visitor_class at Base 1.5.1
- gt_dup_feature_visitor_new at Base 1.5.1
- gt_dyn_bittab_bit_is_set at Base 1.5.1
- gt_dyn_bittab_delete at Base 1.5.1
- gt_dyn_bittab_get_first_bitnum at Base 1.5.1
- gt_dyn_bittab_get_last_bitnum at Base 1.5.1
- gt_dyn_bittab_get_next_bitnum at Base 1.5.1
- gt_dyn_bittab_new at Base 1.5.1
- gt_dyn_bittab_set_bit at Base 1.5.1
- gt_dyn_bittab_unit_test at Base 1.5.1
- gt_dyn_bittab_unset_bit at Base 1.5.1
- gt_dynalloc at Base 1.5.1
- gt_ebzopen at Base 1.5.1
- gt_echodescriptionandsequence at Base 1.5.1
- gt_edistmyersbitvectorAPM at Base 1.5.1
- gt_editoperation_length at Base 1.5.1
- gt_editoperation_set_length at Base 1.5.1
- gt_editoperation_show at Base 1.5.1
- gt_editoperation_type at Base 1.5.1
- gt_efopen at Base 1.5.1
- gt_egzopen at Base 1.5.1
- gt_element_delete at Base 1.5.1
- gt_element_get_node_ref at Base 1.5.1
- gt_element_get_range at Base 1.5.1
- gt_element_get_strand at Base 1.5.1
- gt_element_get_type at Base 1.5.1
- gt_element_is_marked at Base 1.5.1
- gt_element_new at Base 1.5.1
- gt_element_new_empty at Base 1.5.1
- gt_element_ref at Base 1.5.1
- gt_element_set_range at Base 1.5.1
- gt_element_set_type at Base 1.5.1
- gt_element_sketch at Base 1.5.1
- gt_element_unit_test at Base 1.5.1
- gt_elias_gamma_bitwise_decoder_delete at Base 1.5.1
- gt_elias_gamma_bitwise_decoder_new at Base 1.5.1
- gt_elias_gamma_bitwise_decoder_next at Base 1.5.1
- gt_elias_gamma_encode at Base 1.5.1
- gt_elias_gamma_unit_test at Base 1.5.1
- gt_emissionmergedesa_init at Base 1.5.1
- gt_emissionmergedesa_stepdeleteandinsertothersuffixes at Base 1.5.1
- gt_emissionmergedesa_wrap at Base 1.5.1
- gt_encdesc_decode at Base 1.5.1
- gt_encdesc_delete at Base 1.5.1
- gt_encdesc_encoder_delete at Base 1.5.1
- gt_encdesc_encoder_encode at Base 1.5.1
- gt_encdesc_encoder_get_sampling_rate at Base 1.5.1
- gt_encdesc_encoder_get_timer at Base 1.5.1
- gt_encdesc_encoder_new at Base 1.5.1
- gt_encdesc_encoder_set_sampling_none at Base 1.5.1
- gt_encdesc_encoder_set_sampling_page at Base 1.5.1
- gt_encdesc_encoder_set_sampling_rate at Base 1.5.1
- gt_encdesc_encoder_set_sampling_regular at Base 1.5.1
- gt_encdesc_encoder_set_timer at Base 1.5.1
- gt_encdesc_load at Base 1.5.1
- gt_encdesc_num_of_descriptions at Base 1.5.1
- gt_encdesc_sampling_is_page at Base 1.5.1
- gt_encdesc_sampling_is_regular at Base 1.5.1
- gt_encdesc_unit_test at Base 1.5.1
- gt_encseq2fastaoutput at Base 1.5.1
- gt_encseq2symbolstring at Base 1.5.1
- gt_encseqSequentialsuffixarrayreader at Base 1.5.1
- gt_encseq_access_type_determine at Base 1.5.1
- gt_encseq_access_type_get at Base 1.5.1
- gt_encseq_access_type_isviautables at Base 1.5.1
- gt_encseq_access_type_list at Base 1.5.1
- gt_encseq_access_type_str at Base 1.5.1
- gt_encseq_accessname at Base 1.5.1
- gt_encseq_accesstype_get at Base 1.5.1
- gt_encseq_alphabet at Base 1.5.1
- gt_encseq_alphabetcharacters at Base 1.5.1
- gt_encseq_alphabetnumofchars at Base 1.5.1
- gt_encseq_alphabetsymbolmap at Base 1.5.1
- gt_encseq_alphabetwildcardshow at Base 1.5.1
- gt_encseq_bitwise_cmp_ok at Base 1.5.1
- gt_encseq_builder_add_cstr at Base 1.5.1
- gt_encseq_builder_add_encoded at Base 1.5.1
- gt_encseq_builder_add_encoded_own at Base 1.5.1
- gt_encseq_builder_add_str at Base 1.5.1
- gt_encseq_builder_build at Base 1.5.1
- gt_encseq_builder_create_des_tab at Base 1.5.1
- gt_encseq_builder_create_sds_tab at Base 1.5.1
- gt_encseq_builder_create_ssp_tab at Base 1.5.1
- gt_encseq_builder_delete at Base 1.5.1
- gt_encseq_builder_disable_description_support at Base 1.5.1
- gt_encseq_builder_disable_multiseq_support at Base 1.5.1
- gt_encseq_builder_do_not_create_des_tab at Base 1.5.1
- gt_encseq_builder_do_not_create_sds_tab at Base 1.5.1
- gt_encseq_builder_do_not_create_ssp_tab at Base 1.5.1
- gt_encseq_builder_enable_description_support at Base 1.5.1
- gt_encseq_builder_enable_multiseq_support at Base 1.5.1
- gt_encseq_builder_new at Base 1.5.1
- gt_encseq_builder_reset at Base 1.5.1
- gt_encseq_builder_set_logger at Base 1.5.1
- gt_encseq_builder_unit_test at Base 1.5.1
- gt_encseq_charcount at Base 1.5.1
- gt_encseq_chardistri_mapoffset at Base 1.5.1
- gt_encseq_check_comparetwosuffixes at Base 1.5.1
- gt_encseq_check_consistency at Base 1.5.1
- gt_encseq_check_descriptions at Base 1.5.1
- gt_encseq_check_external_twobitencoding_to_file at Base 1.5.1
- gt_encseq_check_markpos at Base 1.5.1
- gt_encseq_check_minmax at Base 1.5.1
- gt_encseq_check_specialranges at Base 1.5.1
- gt_encseq_check_startpositions at Base 1.5.1
- gt_encseq_col_class at Base 1.5.1
- gt_encseq_col_md5_to_sequence_length at Base 1.5.1
- gt_encseq_col_new at Base 1.5.1
- gt_encseq_compare_pairof_different_twobitencodings at Base 1.5.1
- gt_encseq_compare_pairof_twobitencodings at Base 1.5.1
- gt_encseq_compare_viatwobitencoding at Base 1.5.1
- gt_encseq_contains_special at Base 1.5.1
- gt_encseq_create_reader_with_readmode at Base 1.5.1
- gt_encseq_create_reader_with_readmode_p at Base 1.5.1
- gt_encseq_delete at Base 1.5.1
- gt_encseq_description at Base 1.5.1
- gt_encseq_description_p at Base 1.5.1
- gt_encseq_determine_size at Base 1.5.1
- gt_encseq_effective_filelength at Base 1.5.1
- gt_encseq_effective_filelength_p at Base 1.5.1
- gt_encseq_encoder_create_des_tab at Base 1.5.1
- gt_encseq_encoder_create_esq_tab at Base 1.5.1
- gt_encseq_encoder_create_md5_tab at Base 1.5.1
- gt_encseq_encoder_create_ois_tab at Base 1.5.1
- gt_encseq_encoder_create_sds_tab at Base 1.5.1
- gt_encseq_encoder_create_ssp_tab at Base 1.5.1
- gt_encseq_encoder_delete at Base 1.5.1
- gt_encseq_encoder_des_tab_requested at Base 1.5.1
- gt_encseq_encoder_disable_description_support at Base 1.5.1
- gt_encseq_encoder_disable_esq_header at Base 1.5.1
- gt_encseq_encoder_disable_lossless_support at Base 1.5.1
- gt_encseq_encoder_disable_md5_support at Base 1.5.1
- gt_encseq_encoder_disable_multiseq_support at Base 1.5.1
- gt_encseq_encoder_do_not_create_des_tab at Base 1.5.1
- gt_encseq_encoder_do_not_create_esq_tab at Base 1.5.1
- gt_encseq_encoder_do_not_create_md5_tab at Base 1.5.1
- gt_encseq_encoder_do_not_create_ois_tab at Base 1.5.1
- gt_encseq_encoder_do_not_create_sds_tab at Base 1.5.1
- gt_encseq_encoder_do_not_create_ssp_tab at Base 1.5.1
- gt_encseq_encoder_enable_description_support at Base 1.5.1
- gt_encseq_encoder_enable_lossless_support at Base 1.5.1
- gt_encseq_encoder_enable_md5_support at Base 1.5.1
- gt_encseq_encoder_enable_multiseq_support at Base 1.5.1
- gt_encseq_encoder_encode at Base 1.5.1
- gt_encseq_encoder_get_timer at Base 1.5.1
- gt_encseq_encoder_is_input_dna at Base 1.5.1
- gt_encseq_encoder_is_input_preencoded at Base 1.5.1
- gt_encseq_encoder_is_input_protein at Base 1.5.1
- gt_encseq_encoder_md5_tab_requested at Base 1.5.1
- gt_encseq_encoder_new at Base 1.5.1
- gt_encseq_encoder_new_from_options at Base 1.5.1
- gt_encseq_encoder_representation at Base 1.5.1
- gt_encseq_encoder_sds_tab_requested at Base 1.5.1
- gt_encseq_encoder_set_input_dna at Base 1.5.1
- gt_encseq_encoder_set_input_preencoded at Base 1.5.1
- gt_encseq_encoder_set_input_protein at Base 1.5.1
- gt_encseq_encoder_set_logger at Base 1.5.1
- gt_encseq_encoder_set_timer at Base 1.5.1
- gt_encseq_encoder_ssp_tab_requested at Base 1.5.1
- gt_encseq_encoder_symbolmap_file at Base 1.5.1
- gt_encseq_encoder_use_representation at Base 1.5.1
- gt_encseq_encoder_use_symbolmap_file at Base 1.5.1
- gt_encseq_equallength at Base 1.5.1
- gt_encseq_equallength_write_twobitencoding_to_file at Base 1.5.1
- gt_encseq_exceptioncharacters at Base 1.5.1
- gt_encseq_exceptionranges at Base 1.5.1
- gt_encseq_extract2bitencvector at Base 1.5.1
- gt_encseq_extract2bitencwithtwobitencodingstoppos at Base 1.5.1
- gt_encseq_extract_decoded at Base 1.5.1
- gt_encseq_extract_decoded_p at Base 1.5.1
- gt_encseq_extract_encoded at Base 1.5.1
- gt_encseq_extract_encoded_p at Base 1.5.1
- gt_encseq_extractprefixcode at Base 1.5.1
- gt_encseq_faststream at Base 1.5.1
- gt_encseq_filenames at Base 1.5.1
- gt_encseq_filenum at Base 1.5.1
- gt_encseq_filenum_first_seqnum at Base 1.5.1
- gt_encseq_filenum_p at Base 1.5.1
- gt_encseq_filestartpos at Base 1.5.1
- gt_encseq_filestartpos_p at Base 1.5.1
- gt_encseq_gc_count at Base 1.5.1
- gt_encseq_gc_unit_test at Base 1.5.1
- gt_encseq_generic_write_twobitencoding_to_file at Base 1.5.1
- gt_encseq_get_decoded_char at Base 1.5.1
- gt_encseq_get_decoded_char_p at Base 1.5.1
- gt_encseq_get_encoded_char at Base 1.5.1
- gt_encseq_get_encoded_char_nospecial at Base 1.5.1
- gt_encseq_get_encoded_char_p at Base 1.5.1
- gt_encseq_get_md5_tab at Base 1.5.1
- gt_encseq_get_rel_gc at Base 1.5.1
- gt_encseq_has_description_support at Base 1.5.1
- gt_encseq_has_md5_support at Base 1.5.1
- gt_encseq_has_multiseq_support at Base 1.5.1
- gt_encseq_has_specialranges at Base 1.5.1
- gt_encseq_has_twobitencoding at Base 1.5.1
- gt_encseq_has_twobitencoding_stoppos_support at Base 1.5.1
- gt_encseq_has_wildcardranges at Base 1.5.1
- gt_encseq_indexname at Base 1.5.1
- gt_encseq_is_64_bit at Base 1.5.1
- gt_encseq_is_mirrored at Base 1.5.1
- gt_encseq_lcpofdifferenttwobitencodings at Base 1.5.1
- gt_encseq_lengthoflongestnonspecial at Base 1.5.1
- gt_encseq_lengthofspecialprefix at Base 1.5.1
- gt_encseq_lengthofspecialsuffix at Base 1.5.1
- gt_encseq_lengthofwildcardprefix at Base 1.5.1
- gt_encseq_lengthofwildcardsuffix at Base 1.5.1
- gt_encseq_loader_delete at Base 1.5.1
- gt_encseq_loader_des_tab_required at Base 1.5.1
- gt_encseq_loader_disable_autosupport at Base 1.5.1
- gt_encseq_loader_do_not_mirror at Base 1.5.1
- gt_encseq_loader_do_not_require_des_tab at Base 1.5.1
- gt_encseq_loader_do_not_require_esq_tab at Base 1.5.1
- gt_encseq_loader_do_not_require_md5_tab at Base 1.5.1
- gt_encseq_loader_do_not_require_ois_tab at Base 1.5.1
- gt_encseq_loader_do_not_require_sds_tab at Base 1.5.1
- gt_encseq_loader_do_not_require_ssp_tab at Base 1.5.1
- gt_encseq_loader_drop_description_support at Base 1.5.1
- gt_encseq_loader_drop_lossless_support at Base 1.5.1
- gt_encseq_loader_drop_md5_support at Base 1.5.1
- gt_encseq_loader_drop_multiseq_support at Base 1.5.1
- gt_encseq_loader_enable_autosupport at Base 1.5.1
- gt_encseq_loader_load at Base 1.5.1
- gt_encseq_loader_md5_tab_required at Base 1.5.1
- gt_encseq_loader_mirror at Base 1.5.1
- gt_encseq_loader_new at Base 1.5.1
- gt_encseq_loader_new_from_options at Base 1.5.1
- gt_encseq_loader_ois_tab_required at Base 1.5.1
- gt_encseq_loader_require_des_tab at Base 1.5.1
- gt_encseq_loader_require_description_support at Base 1.5.1
- gt_encseq_loader_require_esq_tab at Base 1.5.1
- gt_encseq_loader_require_lossless_support at Base 1.5.1
- gt_encseq_loader_require_md5_support at Base 1.5.1
- gt_encseq_loader_require_md5_tab at Base 1.5.1
- gt_encseq_loader_require_multiseq_support at Base 1.5.1
- gt_encseq_loader_require_ois_tab at Base 1.5.1
- gt_encseq_loader_require_sds_tab at Base 1.5.1
- gt_encseq_loader_require_ssp_tab at Base 1.5.1
- gt_encseq_loader_sds_tab_required at Base 1.5.1
- gt_encseq_loader_set_logger at Base 1.5.1
- gt_encseq_loader_ssp_tab_required at Base 1.5.1
- gt_encseq_max_seq_length at Base 1.5.1
- gt_encseq_max_subalpha_size at Base 1.5.1
- gt_encseq_metadata_accesstype at Base 1.5.1
- gt_encseq_metadata_alphabet at Base 1.5.1
- gt_encseq_metadata_delete at Base 1.5.1
- gt_encseq_metadata_has_custom_alphabet at Base 1.5.1
- gt_encseq_metadata_is64bit at Base 1.5.1
- gt_encseq_metadata_length_of_alphadef at Base 1.5.1
- gt_encseq_metadata_length_of_filenames at Base 1.5.1
- gt_encseq_metadata_max_seq_length at Base 1.5.1
- gt_encseq_metadata_min_seq_length at Base 1.5.1
- gt_encseq_metadata_new at Base 1.5.1
- gt_encseq_metadata_num_of_files at Base 1.5.1
- gt_encseq_metadata_num_of_sequences at Base 1.5.1
- gt_encseq_metadata_specialcharinfo at Base 1.5.1
- gt_encseq_metadata_total_length at Base 1.5.1
- gt_encseq_metadata_version at Base 1.5.1
- gt_encseq_min_seq_length at Base 1.5.1
- gt_encseq_mirror at Base 1.5.1
- gt_encseq_num_of_files at Base 1.5.1
- gt_encseq_num_of_files_p at Base 1.5.1
- gt_encseq_num_of_sequences at Base 1.5.1
- gt_encseq_num_of_sequences_p at Base 1.5.1
- gt_encseq_options_add_readmode_option at Base 1.5.1
- gt_encseq_options_db_option at Base 1.5.1
- gt_encseq_options_db_value at Base 1.5.1
- gt_encseq_options_delete at Base 1.5.1
- gt_encseq_options_des_option at Base 1.5.1
- gt_encseq_options_des_value at Base 1.5.1
- gt_encseq_options_dir_option at Base 1.5.1
- gt_encseq_options_dna_option at Base 1.5.1
- gt_encseq_options_dna_value at Base 1.5.1
- gt_encseq_options_indexname_option at Base 1.5.1
- gt_encseq_options_indexname_value at Base 1.5.1
- gt_encseq_options_lossless_option at Base 1.5.1
- gt_encseq_options_lossless_value at Base 1.5.1
- gt_encseq_options_md5_option at Base 1.5.1
- gt_encseq_options_md5_value at Base 1.5.1
- gt_encseq_options_mirrored_option at Base 1.5.1
- gt_encseq_options_mirrored_value at Base 1.5.1
- gt_encseq_options_plain_option at Base 1.5.1
- gt_encseq_options_plain_value at Base 1.5.1
- gt_encseq_options_protein_option at Base 1.5.1
- gt_encseq_options_protein_value at Base 1.5.1
- gt_encseq_options_register_encoding at Base 1.5.1
- gt_encseq_options_register_loading at Base 1.5.1
- gt_encseq_options_sat_option at Base 1.5.1
- gt_encseq_options_sat_value at Base 1.5.1
- gt_encseq_options_sds_option at Base 1.5.1
- gt_encseq_options_sds_value at Base 1.5.1
- gt_encseq_options_smap_option at Base 1.5.1
- gt_encseq_options_smap_value at Base 1.5.1
- gt_encseq_options_ssp_option at Base 1.5.1
- gt_encseq_options_ssp_value at Base 1.5.1
- gt_encseq_options_tis_option at Base 1.5.1
- gt_encseq_options_tis_value at Base 1.5.1
- gt_encseq_pairbitsum at Base 1.5.1
- gt_encseq_plainseq2bytecode at Base 1.5.1
- gt_encseq_position_is_separator at Base 1.5.1
- gt_encseq_reader_delete at Base 1.5.1
- gt_encseq_reader_next_decoded_char at Base 1.5.1
- gt_encseq_reader_next_encoded_char at Base 1.5.1
- gt_encseq_reader_reinit_with_readmode at Base 1.5.1
- gt_encseq_realspecialranges at Base 1.5.1
- gt_encseq_realwildcardranges at Base 1.5.1
- gt_encseq_ref at Base 1.5.1
- gt_encseq_relpos_extract2bitencvector at Base 1.5.1
- gt_encseq_relpos_seqnum_check at Base 1.5.1
- gt_encseq_sep2seqnum at Base 1.5.1
- gt_encseq_seppos2ssptab at Base 1.5.1
- gt_encseq_seqlength at Base 1.5.1
- gt_encseq_seqlength_p at Base 1.5.1
- gt_encseq_seqnum at Base 1.5.1
- gt_encseq_seqnum_p at Base 1.5.1
- gt_encseq_seqnum_ssptab at Base 1.5.1
- gt_encseq_seqstartpos at Base 1.5.1
- gt_encseq_seqstartpos_p at Base 1.5.1
- gt_encseq_sequence2bytecode at Base 1.5.1
- gt_encseq_show_features at Base 1.5.1
- gt_encseq_showatstartpos at Base 1.5.1
- gt_encseq_showatstartposwithdepth at Base 1.5.1
- gt_encseq_sizeofrep at Base 1.5.1
- gt_encseq_sizeofstructure at Base 1.5.1
- gt_encseq_specialcharacters at Base 1.5.1
- gt_encseq_specialranges at Base 1.5.1
- gt_encseq_total_length at Base 1.5.1
- gt_encseq_total_length_p at Base 1.5.1
- gt_encseq_twobitencoding_export at Base 1.5.1
- gt_encseq_twobitencoding_mapoffset at Base 1.5.1
- gt_encseq_twobitencoding_strcmp at Base 1.5.1
- gt_encseq_unmirror at Base 1.5.1
- gt_encseq_version at Base 1.5.1
- gt_encseq_wildcardranges at Base 1.5.1
- gt_encseq_wildcards at Base 1.5.1
- gt_encseqtable2sequenceoffsets at Base 1.5.1
- gt_enumeratemaxpairs at Base 1.5.1
- gt_eof_node_class at Base 1.5.1
- gt_eof_node_new at Base 1.5.1
- gt_eops_equal_referencelength at Base 1.5.1
- gt_errfind at Base 1.5.1
- gt_error_delete at Base 1.5.1
- gt_error_get at Base 1.5.1
- gt_error_get_progname at Base 1.5.1
- gt_error_is_set at Base 1.5.1
- gt_error_new at Base 1.5.1
- gt_error_set at Base 1.5.1
- gt_error_set_nonvariadic at Base 1.5.1
- gt_error_set_progname at Base 1.5.1
- gt_error_unset at Base 1.5.1
- gt_error_vset at Base 1.5.1
- gt_esa2shulengthqueryfiles at Base 1.5.1
- gt_esa_bottomup at Base 1.5.1
- gt_esa_bottomup_RAM at Base 1.5.1
- gt_esa_lcpitvs_visitor_new at Base 1.5.1
- gt_esa_spmitvs_visitor_class at Base 1.5.1
- gt_esa_spmitvs_visitor_delete at Base 1.5.1
- gt_esa_spmitvs_visitor_new at Base 1.5.1
- gt_esa_spmitvs_visitor_print_results at Base 1.5.1
- gt_esa_visitor_cast at Base 1.5.1
- gt_esa_visitor_class_new at Base 1.5.1
- gt_esa_visitor_create at Base 1.5.1
- gt_esa_visitor_delete at Base 1.5.1
- gt_esa_visitor_info_delete at Base 1.5.1
- gt_esa_visitor_info_new at Base 1.5.1
- gt_esa_visitor_visit_branching_edge at Base 1.5.1
- gt_esa_visitor_visit_lcp_interval at Base 1.5.1
- gt_esa_visitor_visit_leaf_edge at Base 1.5.1
- gt_estimateSegmentSize at Base 1.5.1
- gt_evaluator_add_actual at Base 1.5.1
- gt_evaluator_add_predicted at Base 1.5.1
- gt_evaluator_add_true at Base 1.5.1
- gt_evaluator_delete at Base 1.5.1
- gt_evaluator_get_sensitivity at Base 1.5.1
- gt_evaluator_get_specificity at Base 1.5.1
- gt_evaluator_new at Base 1.5.1
- gt_evaluator_reset at Base 1.5.1
- gt_evaluator_show_sensitivity at Base 1.5.1
- gt_evaluator_show_specificity at Base 1.5.1
- gt_evaluator_unit_test at Base 1.5.1
- gt_evalxdroparbitscoresextend at Base 1.5.1
- gt_example_a_class at Base 1.5.1
- gt_example_a_new at Base 1.5.1
- gt_example_b_class at Base 1.5.1
- gt_example_b_new at Base 1.5.1
- gt_example_create at Base 1.5.1
- gt_example_delete at Base 1.5.1
- gt_example_run at Base 1.5.1
- gt_extract_feature_sequence at Base 1.5.1
- gt_extract_feature_stream_new at Base 1.5.1
- gt_extract_feature_visitor_class at Base 1.5.1
- gt_extract_feature_visitor_new at Base 1.5.1
- gt_extractkeysfromdesfile at Base 1.5.1
- gt_extractkeysfromfastafile at Base 1.5.1
- gt_extractkeysfromfastaindex at Base 1.5.1
- gt_fa_bzclose at Base 1.5.1
- gt_fa_bzopen_func at Base 1.5.1
- gt_fa_check_fptr_leak at Base 1.5.1
- gt_fa_check_mmap_leak at Base 1.5.1
- gt_fa_clean at Base 1.5.1
- gt_fa_enable_global_spacepeak at Base 1.5.1
- gt_fa_fclose at Base 1.5.1
- gt_fa_fopen_func at Base 1.5.1
- gt_fa_fopen_with_suffix_func at Base 1.5.1
- gt_fa_get_space_current at Base 1.5.1
- gt_fa_get_space_peak at Base 1.5.1
- gt_fa_gzclose at Base 1.5.1
- gt_fa_gzopen_func at Base 1.5.1
- gt_fa_init at Base 1.5.1
- gt_fa_lock_exclusive at Base 1.5.1
- gt_fa_lock_shared at Base 1.5.1
- gt_fa_mmap_check_size_with_suffix at Base 1.5.1
- gt_fa_mmap_generic_fd_func at Base 1.5.1
- gt_fa_mmap_read_func at Base 1.5.1
- gt_fa_mmap_read_func_range at Base 1.5.1
- gt_fa_mmap_read_with_suffix_func at Base 1.5.1
- gt_fa_mmap_write_func at Base 1.5.1
- gt_fa_mmap_write_func_range at Base 1.5.1
- gt_fa_show_space_peak at Base 1.5.1
- gt_fa_unlock at Base 1.5.1
- gt_fa_xbzclose at Base 1.5.1
- gt_fa_xbzopen_func at Base 1.5.1
- gt_fa_xfclose at Base 1.5.1
- gt_fa_xfopen_func at Base 1.5.1
- gt_fa_xgzclose at Base 1.5.1
- gt_fa_xgzopen_func at Base 1.5.1
- gt_fa_xmmap_read_func at Base 1.5.1
- gt_fa_xmmap_read_func_range at Base 1.5.1
- gt_fa_xmmap_write_func at Base 1.5.1
- gt_fa_xmmap_write_func_range at Base 1.5.1
- gt_fa_xmunmap at Base 1.5.1
- gt_fasta_header_iterator_class at Base 1.5.1
- gt_fasta_header_iterator_new at Base 1.5.1
- gt_fasta_reader_cast at Base 1.5.1
- gt_fasta_reader_create at Base 1.5.1
- gt_fasta_reader_delete at Base 1.5.1
- gt_fasta_reader_fsm_class at Base 1.5.1
- gt_fasta_reader_fsm_new at Base 1.5.1
- gt_fasta_reader_rec_class at Base 1.5.1
- gt_fasta_reader_rec_new at Base 1.5.1
- gt_fasta_reader_run at Base 1.5.1
- gt_fasta_reader_seqit_class at Base 1.5.1
- gt_fasta_reader_seqit_new at Base 1.5.1
- gt_fasta_show_entry at Base 1.5.1
- gt_fasta_show_entry_with_suffix at Base 1.5.1
- gt_fastq_show_entry at Base 1.5.1
- gt_feature_index_add_feature_node at Base 1.5.1
- gt_feature_index_add_gff3file at Base 1.5.1
- gt_feature_index_add_region_node at Base 1.5.1
- gt_feature_index_cast at Base 1.5.1
- gt_feature_index_class_new at Base 1.5.1
- gt_feature_index_create at Base 1.5.1
- gt_feature_index_delete at Base 1.5.1
- gt_feature_index_get_features_for_range at Base 1.5.1
- gt_feature_index_get_features_for_seqid at Base 1.5.1
- gt_feature_index_get_first_seqid at Base 1.5.1
- gt_feature_index_get_range_for_seqid at Base 1.5.1
- gt_feature_index_get_seqids at Base 1.5.1
- gt_feature_index_gfflike_add_feature_node at Base 1.5.1
- gt_feature_index_gfflike_add_region_node at Base 1.5.1
- gt_feature_index_gfflike_delete at Base 1.5.1
- gt_feature_index_gfflike_get_all_features at Base 1.5.1
- gt_feature_index_gfflike_get_features_for_range at Base 1.5.1
- gt_feature_index_gfflike_get_features_for_seqid at Base 1.5.1
- gt_feature_index_gfflike_get_first_seqid at Base 1.5.1
- gt_feature_index_gfflike_get_range_for_seqid at Base 1.5.1
- gt_feature_index_gfflike_get_seqids at Base 1.5.1
- gt_feature_index_gfflike_has_seqid at Base 1.5.1
- gt_feature_index_gfflike_remove_node at Base 1.5.1
- gt_feature_index_has_seqid at Base 1.5.1
- gt_feature_index_memory_add_feature_node at Base 1.5.1
- gt_feature_index_memory_add_region_node at Base 1.5.1
- gt_feature_index_memory_class at Base 1.5.1
- gt_feature_index_memory_delete at Base 1.5.1
- gt_feature_index_memory_get_features_for_range at Base 1.5.1
- gt_feature_index_memory_get_features_for_seqid at Base 1.5.1
- gt_feature_index_memory_get_first_seqid at Base 1.5.1
- gt_feature_index_memory_get_node_by_ptr at Base 1.5.1
- gt_feature_index_memory_get_range_for_seqid at Base 1.5.1
- gt_feature_index_memory_get_seqids at Base 1.5.1
- gt_feature_index_memory_has_seqid at Base 1.5.1
- gt_feature_index_memory_new at Base 1.5.1
- gt_feature_index_memory_remove_node at Base 1.5.1
- gt_feature_index_memory_unit_test at Base 1.5.1
- gt_feature_index_ref at Base 1.5.1
- gt_feature_index_remove_node at Base 1.5.1
- gt_feature_index_save at Base 1.5.1
- gt_feature_index_unit_test at Base 1.5.1
- gt_feature_info_add at Base 1.5.1
- gt_feature_info_add_pseudo_parent at Base 1.5.1
- gt_feature_info_delete at Base 1.5.1
- gt_feature_info_find_root at Base 1.5.1
- gt_feature_info_get at Base 1.5.1
- gt_feature_info_get_pseudo_parent at Base 1.5.1
- gt_feature_info_new at Base 1.5.1
- gt_feature_info_replace_pseudo_parent at Base 1.5.1
- gt_feature_info_reset at Base 1.5.1
- gt_feature_node_add_attribute at Base 1.5.1
- gt_feature_node_add_child at Base 1.5.1
- gt_feature_node_average_splice_site_prob at Base 1.5.1
- gt_feature_node_class at Base 1.5.1
- gt_feature_node_clone at Base 1.5.1
- gt_feature_node_contains_marked at Base 1.5.1
- gt_feature_node_determine_transcripttypes at Base 1.5.1
- gt_feature_node_direct_children_do_not_overlap at Base 1.5.1
- gt_feature_node_direct_children_do_not_overlap_generic at Base 1.5.1
- gt_feature_node_direct_children_do_not_overlap_st at Base 1.5.1
- gt_feature_node_foreach_attribute at Base 1.5.1
- gt_feature_node_get_attribute at Base 1.5.1
- gt_feature_node_get_attribute_list at Base 1.5.1
- gt_feature_node_get_exons at Base 1.5.1
- gt_feature_node_get_multi_representative at Base 1.5.1
- gt_feature_node_get_phase at Base 1.5.1
- gt_feature_node_get_score at Base 1.5.1
- gt_feature_node_get_source at Base 1.5.1
- gt_feature_node_get_strand at Base 1.5.1
- gt_feature_node_get_transcriptfeaturetype at Base 1.5.1
- gt_feature_node_get_type at Base 1.5.1
- gt_feature_node_has_CDS at Base 1.5.1
- gt_feature_node_has_children at Base 1.5.1
- gt_feature_node_has_source at Base 1.5.1
- gt_feature_node_has_splice_site at Base 1.5.1
- gt_feature_node_has_type at Base 1.5.1
- gt_feature_node_is_marked at Base 1.5.1
- gt_feature_node_is_multi at Base 1.5.1
- gt_feature_node_is_pseudo at Base 1.5.1
- gt_feature_node_is_similar at Base 1.5.1
- gt_feature_node_is_tree at Base 1.5.1
- gt_feature_node_iterator_delete at Base 1.5.1
- gt_feature_node_iterator_example at Base 1.5.1
- gt_feature_node_iterator_new at Base 1.5.1
- gt_feature_node_iterator_new_direct at Base 1.5.1
- gt_feature_node_iterator_next at Base 1.5.1
- gt_feature_node_make_multi_representative at Base 1.5.1
- gt_feature_node_mark at Base 1.5.1
- gt_feature_node_new at Base 1.5.1
- gt_feature_node_new_pseudo at Base 1.5.1
- gt_feature_node_new_pseudo_template at Base 1.5.1
- gt_feature_node_new_standard_gene at Base 1.5.1
- gt_feature_node_number_of_children at Base 1.5.1
- gt_feature_node_number_of_children_of_type at Base 1.5.1
- gt_feature_node_observer_delete at Base 1.5.1
- gt_feature_node_observer_new at Base 1.5.1
- gt_feature_node_observer_ref at Base 1.5.1
- gt_feature_node_overlaps_nodes at Base 1.5.1
- gt_feature_node_overlaps_nodes_mark at Base 1.5.1
- gt_feature_node_remove_attribute at Base 1.5.1
- gt_feature_node_remove_leaf at Base 1.5.1
- gt_feature_node_score_is_defined at Base 1.5.1
- gt_feature_node_set_attribute at Base 1.5.1
- gt_feature_node_set_end at Base 1.5.1
- gt_feature_node_set_multi_representative at Base 1.5.1
- gt_feature_node_set_observer at Base 1.5.1
- gt_feature_node_set_phase at Base 1.5.1
- gt_feature_node_set_score at Base 1.5.1
- gt_feature_node_set_source at Base 1.5.1
- gt_feature_node_set_strand at Base 1.5.1
- gt_feature_node_set_type at Base 1.5.1
- gt_feature_node_traverse_children at Base 1.5.1
- gt_feature_node_traverse_children_top at Base 1.5.1
- gt_feature_node_traverse_direct_children at Base 1.5.1
- gt_feature_node_unit_test at Base 1.5.1
- gt_feature_node_unmark at Base 1.5.1
- gt_feature_node_unset_multi at Base 1.5.1
- gt_feature_node_unset_observer at Base 1.5.1
- gt_feature_node_unset_score at Base 1.5.1
- gt_feature_stream_new at Base 1.5.1
- gt_feature_visitor_class at Base 1.5.1
- gt_feature_visitor_new at Base 1.5.1
- gt_file_basename_length at Base 1.5.1
- gt_file_delete at Base 1.5.1
- gt_file_delete_without_handle at Base 1.5.1
- gt_file_dirname at Base 1.5.1
- gt_file_estimate_size at Base 1.5.1
- gt_file_exists at Base 1.5.1
- gt_file_exists_with_suffix at Base 1.5.1
- gt_file_find_exec_in_path at Base 1.5.1
- gt_file_find_in_env at Base 1.5.1
- gt_file_find_in_path at Base 1.5.1
- gt_file_is_newer at Base 1.5.1
- gt_file_mode at Base 1.5.1
- gt_file_mode_determine at Base 1.5.1
- gt_file_mode_suffix at Base 1.5.1
- gt_file_new at Base 1.5.1
- gt_file_new_from_fileptr at Base 1.5.1
- gt_file_number_of_lines at Base 1.5.1
- gt_file_open at Base 1.5.1
- gt_file_size at Base 1.5.1
- gt_file_size_with_suffix at Base 1.5.1
- gt_file_suffix at Base 1.5.1
- gt_file_unget_char at Base 1.5.1
- gt_file_xfgetc at Base 1.5.1
- gt_file_xfputc at Base 1.5.1
- gt_file_xfputs at Base 1.5.1
- gt_file_xopen at Base 1.5.1
- gt_file_xopen_file_mode at Base 1.5.1
- gt_file_xprintf at Base 1.5.1
- gt_file_xread at Base 1.5.1
- gt_file_xrewind at Base 1.5.1
- gt_file_xwrite at Base 1.5.1
- gt_files_estimate_total_size at Base 1.5.1
- gt_files_guess_if_protein_sequences at Base 1.5.1
- gt_fillfmmapspecstartptr at Base 1.5.1
- gt_filllargestchartable at Base 1.5.1
- gt_fillrankbounds at Base 1.5.1
- gt_fillspecialranklist at Base 1.5.1
- gt_findsubquerygmatchforward at Base 1.5.1
- gt_firstcode_runkmerscan at Base 1.5.1
- gt_firstcodes_accum_runkmerscan at Base 1.5.1
- gt_firstcodes_accumulatecounts_merge at Base 1.5.1
- gt_firstcodes_binsearchcache_check at Base 1.5.1
- gt_firstcodes_binsearchcache_delete at Base 1.5.1
- gt_firstcodes_binsearchcache_new at Base 1.5.1
- gt_firstcodes_binsearchcache_set_index_code at Base 1.5.1
- gt_firstcodes_binsearchcache_width at Base 1.5.1
- gt_firstcodes_countocc_delete at Base 1.5.1
- gt_firstcodes_countocc_setnull at Base 1.5.1
- gt_firstcodes_find_accu at Base 1.5.1
- gt_firstcodes_find_insert at Base 1.5.1
- gt_firstcodes_findfirstsamplelarger at Base 1.5.1
- gt_firstcodes_get_leftborder at Base 1.5.1
- gt_firstcodes_get_sample at Base 1.5.1
- gt_firstcodes_insert_runkmerscan at Base 1.5.1
- gt_firstcodes_kmerscan at Base 1.5.1
- gt_firstcodes_kmerscan_eqlen at Base 1.5.1
- gt_firstcodes_leftborder_address at Base 1.5.1
- gt_firstcodes_leftborder_entries at Base 1.5.1
- gt_firstcodes_leftborder_remap at Base 1.5.1
- gt_firstcodes_numofsamples at Base 1.5.1
- gt_firstcodes_outfilenameleftborder at Base 1.5.1
- gt_firstcodes_partialsums at Base 1.5.1
- gt_firstcodes_remdups at Base 1.5.1
- gt_firstcodes_sample2full at Base 1.5.1
- gt_firstcodes_samples_delete at Base 1.5.1
- gt_firstcodes_spacelog_add at Base 1.5.1
- gt_firstcodes_spacelog_delete at Base 1.5.1
- gt_firstcodes_spacelog_new at Base 1.5.1
- gt_firstcodes_spacelog_peak at Base 1.5.1
- gt_firstcodes_spacelog_showentries at Base 1.5.1
- gt_firstcodes_spacelog_start_diff at Base 1.5.1
- gt_firstcodes_spacelog_stop_diff at Base 1.5.1
- gt_firstcodes_spacelog_total at Base 1.5.1
- gt_firstcodes_spacelog_workspace at Base 1.5.1
- gt_firstcodes_tab_delete at Base 1.5.1
- gt_flushfmindex2file at Base 1.5.1
- gt_fmfindtextpos at Base 1.5.1
- gt_fmindex_dfstraverse at Base 1.5.1
- gt_fmindexexists at Base 1.5.1
- gt_format_ruler_label at Base 1.5.1
- gt_forwardprefixmatch at Base 1.5.1
- gt_fprintfencseq at Base 1.5.1
- gt_freeBwtSeqpositionextractor at Base 1.5.1
- gt_freeEnumpatterniterator at Base 1.5.1
- gt_freeLcpvalueiterator at Base 1.5.1
- gt_freeLimdfsresources at Base 1.5.1
- gt_freeMyersonlineresources at Base 1.5.1
- gt_freeSWdpresource at Base 1.5.1
- gt_freeSequentialsuffixarrayreader at Base 1.5.1
- gt_free_func at Base 1.5.1
- gt_free_mem at Base 1.5.1
- gt_freebucketenumerator at Base 1.5.1
- gt_freefmindex at Base 1.5.1
- gt_freestorematch at Base 1.5.1
- gt_freesuffixarray at Base 1.5.1
- gt_fromitv2sortedmatchpositions at Base 1.5.1
- gt_fromkmercode2string at Base 1.5.1
- gt_frompos2rank at Base 1.5.1
- gt_fromrank2pos at Base 1.5.1
- gt_frontresource_delete at Base 1.5.1
- gt_frontresource_new at Base 1.5.1
- gt_gc_content_show at Base 1.5.1
- gt_genome_node_accept at Base 1.5.1
- gt_genome_node_add_user_data at Base 1.5.1
- gt_genome_node_cast at Base 1.5.1
- gt_genome_node_change_seqid at Base 1.5.1
- gt_genome_node_class_new at Base 1.5.1
- gt_genome_node_cmp at Base 1.5.1
- gt_genome_node_compare at Base 1.5.1
- gt_genome_node_compare_delta at Base 1.5.1
- gt_genome_node_compare_with_data at Base 1.5.1
- gt_genome_node_create at Base 1.5.1
- gt_genome_node_delete at Base 1.5.1
- gt_genome_node_get_end at Base 1.5.1
- gt_genome_node_get_filename at Base 1.5.1
- gt_genome_node_get_idstr at Base 1.5.1
- gt_genome_node_get_length at Base 1.5.1
- gt_genome_node_get_line_number at Base 1.5.1
- gt_genome_node_get_range at Base 1.5.1
- gt_genome_node_get_seqid at Base 1.5.1
- gt_genome_node_get_start at Base 1.5.1
- gt_genome_node_get_user_data at Base 1.5.1
- gt_genome_node_ref at Base 1.5.1
- gt_genome_node_release_user_data at Base 1.5.1
- gt_genome_node_set_origin at Base 1.5.1
- gt_genome_node_set_range at Base 1.5.1
- gt_genome_node_try_cast at Base 1.5.1
- gt_genome_node_unit_test at Base 1.5.1
- gt_genome_nodes_are_equal_region_nodes at Base 1.5.1
- gt_genome_nodes_are_sorted at Base 1.5.1
- gt_genome_nodes_show at Base 1.5.1
- gt_genome_nodes_sort at Base 1.5.1
- gt_genome_nodes_sort_stable at Base 1.5.1
- gt_genomediff_calculate_div_from_avg at Base 1.5.1
- gt_genomediff_kr_calc at Base 1.5.1
- gt_genomediff_shulen_sum at Base 1.5.1
- gt_get_gtdata_path at Base 1.5.1
- gt_get_ln_n_fac at Base 1.5.1
- gt_get_password at Base 1.5.1
- gt_getargmodekeywords at Base 1.5.1
- gt_getnexttwobitencodingstoppos at Base 1.5.1
- gt_getsetargmodekeywords at Base 1.5.1
- gt_gff3_escape at Base 1.5.1
- gt_gff3_escaping_unit_test at Base 1.5.1
- gt_gff3_in_stream_check_id_attributes at Base 1.5.1
- gt_gff3_in_stream_class at Base 1.5.1
- gt_gff3_in_stream_disable_add_ids at Base 1.5.1
- gt_gff3_in_stream_enable_strict_mode at Base 1.5.1
- gt_gff3_in_stream_enable_tidy_mode at Base 1.5.1
- gt_gff3_in_stream_fix_region_boundaries at Base 1.5.1
- gt_gff3_in_stream_get_used_types at Base 1.5.1
- gt_gff3_in_stream_new_sorted at Base 1.5.1
- gt_gff3_in_stream_new_unsorted at Base 1.5.1
- gt_gff3_in_stream_plain_check_id_attributes at Base 1.5.1
- gt_gff3_in_stream_plain_check_region_boundaries at Base 1.5.1
- gt_gff3_in_stream_plain_class at Base 1.5.1
- gt_gff3_in_stream_plain_do_not_check_region_boundaries at Base 1.5.1
- gt_gff3_in_stream_plain_enable_strict_mode at Base 1.5.1
- gt_gff3_in_stream_plain_enable_tidy_mode at Base 1.5.1
- gt_gff3_in_stream_plain_get_used_types at Base 1.5.1
- gt_gff3_in_stream_plain_new_sorted at Base 1.5.1
- gt_gff3_in_stream_plain_new_unsorted at Base 1.5.1
- gt_gff3_in_stream_plain_set_offset at Base 1.5.1
- gt_gff3_in_stream_plain_set_offsetfile at Base 1.5.1
- gt_gff3_in_stream_plain_set_type_checker at Base 1.5.1
- gt_gff3_in_stream_plain_show_progress_bar at Base 1.5.1
- gt_gff3_in_stream_set_offset at Base 1.5.1
- gt_gff3_in_stream_set_offsetfile at Base 1.5.1
- gt_gff3_in_stream_set_type_checker at Base 1.5.1
- gt_gff3_in_stream_show_progress_bar at Base 1.5.1
- gt_gff3_out_stream_class at Base 1.5.1
- gt_gff3_out_stream_new at Base 1.5.1
- gt_gff3_out_stream_retain_id_attributes at Base 1.5.1
- gt_gff3_out_stream_set_fasta_width at Base 1.5.1
- gt_gff3_output_leading at Base 1.5.1
- gt_gff3_parser_build_target_str at Base 1.5.1
- gt_gff3_parser_check_id_attributes at Base 1.5.1
- gt_gff3_parser_check_region_boundaries at Base 1.5.1
- gt_gff3_parser_delete at Base 1.5.1
- gt_gff3_parser_do_not_check_region_boundaries at Base 1.5.1
- gt_gff3_parser_enable_strict_mode at Base 1.5.1
- gt_gff3_parser_enable_tidy_mode at Base 1.5.1
- gt_gff3_parser_new at Base 1.5.1
- gt_gff3_parser_parse_all_target_attributes at Base 1.5.1
- gt_gff3_parser_parse_genome_nodes at Base 1.5.1
- gt_gff3_parser_parse_target_attributes at Base 1.5.1
- gt_gff3_parser_reset at Base 1.5.1
- gt_gff3_parser_set_offset at Base 1.5.1
- gt_gff3_parser_set_offsetfile at Base 1.5.1
- gt_gff3_parser_set_type_checker at Base 1.5.1
- gt_gff3_unescape at Base 1.5.1
- gt_gff3_visitor_class at Base 1.5.1
- gt_gff3_visitor_new at Base 1.5.1
- gt_gff3_visitor_retain_id_attributes at Base 1.5.1
- gt_gff3_visitor_set_fasta_width at Base 1.5.1
- gt_globalchaining_coverage at Base 1.5.1
- gt_globalchaining_max at Base 1.5.1
- gt_golomb_bitwise_decoder_delete at Base 1.5.1
- gt_golomb_bitwise_decoder_new at Base 1.5.1
- gt_golomb_bitwise_decoder_next at Base 1.5.1
- gt_golomb_delete at Base 1.5.1
- gt_golomb_encode at Base 1.5.1
- gt_golomb_get_m at Base 1.5.1
- gt_golomb_new at Base 1.5.1
- gt_golomb_unit_test at Base 1.5.1
- gt_graphics_cairo_class at Base 1.5.1
- gt_graphics_cairo_delete at Base 1.5.1
- gt_graphics_cairo_draw_arrowhead at Base 1.5.1
- gt_graphics_cairo_draw_box at Base 1.5.1
- gt_graphics_cairo_draw_caret at Base 1.5.1
- gt_graphics_cairo_draw_colored_text at Base 1.5.1
- gt_graphics_cairo_draw_curve_data at Base 1.5.1
- gt_graphics_cairo_draw_dashes at Base 1.5.1
- gt_graphics_cairo_draw_horizontal_line at Base 1.5.1
- gt_graphics_cairo_draw_line at Base 1.5.1
- gt_graphics_cairo_draw_rectangle at Base 1.5.1
- gt_graphics_cairo_draw_text at Base 1.5.1
- gt_graphics_cairo_draw_text_centered at Base 1.5.1
- gt_graphics_cairo_draw_text_clip at Base 1.5.1
- gt_graphics_cairo_draw_text_right at Base 1.5.1
- gt_graphics_cairo_draw_vertical_line at Base 1.5.1
- gt_graphics_cairo_get_image_height at Base 1.5.1
- gt_graphics_cairo_get_image_width at Base 1.5.1
- gt_graphics_cairo_get_text_height at Base 1.5.1
- gt_graphics_cairo_get_text_width at Base 1.5.1
- gt_graphics_cairo_get_xmargins at Base 1.5.1
- gt_graphics_cairo_get_ymargins at Base 1.5.1
- gt_graphics_cairo_initialize at Base 1.5.1
- gt_graphics_cairo_new at Base 1.5.1
- gt_graphics_cairo_new_from_context at Base 1.5.1
- gt_graphics_cairo_save_to_file at Base 1.5.1
- gt_graphics_cairo_save_to_stream at Base 1.5.1
- gt_graphics_cairo_set_background_color at Base 1.5.1
- gt_graphics_cairo_set_font at Base 1.5.1
- gt_graphics_cairo_set_margins at Base 1.5.1
- gt_graphics_cast at Base 1.5.1
- gt_graphics_class_new at Base 1.5.1
- gt_graphics_create at Base 1.5.1
- gt_graphics_delete at Base 1.5.1
- gt_graphics_draw_arrowhead at Base 1.5.1
- gt_graphics_draw_arrowhead_p at Base 1.5.1
- gt_graphics_draw_box at Base 1.5.1
- gt_graphics_draw_box_p at Base 1.5.1
- gt_graphics_draw_caret at Base 1.5.1
- gt_graphics_draw_caret_p at Base 1.5.1
- gt_graphics_draw_colored_text at Base 1.5.1
- gt_graphics_draw_colored_text_p at Base 1.5.1
- gt_graphics_draw_curve_data at Base 1.5.1
- gt_graphics_draw_curve_data_p at Base 1.5.1
- gt_graphics_draw_dashes at Base 1.5.1
- gt_graphics_draw_dashes_p at Base 1.5.1
- gt_graphics_draw_horizontal_line at Base 1.5.1
- gt_graphics_draw_horizontal_line_p at Base 1.5.1
- gt_graphics_draw_line at Base 1.5.1
- gt_graphics_draw_line_p at Base 1.5.1
- gt_graphics_draw_rectangle at Base 1.5.1
- gt_graphics_draw_rectangle_p at Base 1.5.1
- gt_graphics_draw_text at Base 1.5.1
- gt_graphics_draw_text_centered at Base 1.5.1
- gt_graphics_draw_text_centered_p at Base 1.5.1
- gt_graphics_draw_text_clip at Base 1.5.1
- gt_graphics_draw_text_clip_p at Base 1.5.1
- gt_graphics_draw_text_p at Base 1.5.1
- gt_graphics_draw_text_right at Base 1.5.1
- gt_graphics_draw_text_right_p at Base 1.5.1
- gt_graphics_draw_vertical_line at Base 1.5.1
- gt_graphics_draw_vertical_line_p at Base 1.5.1
- gt_graphics_get_image_height at Base 1.5.1
- gt_graphics_get_image_width at Base 1.5.1
- gt_graphics_get_text_height at Base 1.5.1
- gt_graphics_get_text_width at Base 1.5.1
- gt_graphics_get_xmargins at Base 1.5.1
- gt_graphics_get_ymargins at Base 1.5.1
- gt_graphics_ref at Base 1.5.1
- gt_graphics_save_to_file at Base 1.5.1
- gt_graphics_save_to_stream at Base 1.5.1
- gt_graphics_set_background_color at Base 1.5.1
- gt_graphics_set_font at Base 1.5.1
- gt_graphics_set_margins at Base 1.5.1
- gt_graphics_set_margins_p at Base 1.5.1
- gt_grep at Base 1.5.1
- gt_grep_unit_test at Base 1.5.1
- gt_gtdata_show_help at Base 1.5.1
- gt_gtf_in_stream_class at Base 1.5.1
- gt_gtf_in_stream_enable_tidy_mode at Base 1.5.1
- gt_gtf_in_stream_new at Base 1.5.1
- gt_gtf_out_stream_new at Base 1.5.1
- gt_gtf_parser_delete at Base 1.5.1
- gt_gtf_parser_new at Base 1.5.1
- gt_gtf_parser_parse at Base 1.5.1
- gt_gtf_visitor_class at Base 1.5.1
- gt_gtf_visitor_new at Base 1.5.1
- gt_gth at Base 1.5.1
- gt_gthbssmbuild at Base 1.5.1
- gt_gthbssmfileinfo at Base 1.5.1
- gt_gthbssmprint at Base 1.5.1
- gt_gthconsensus at Base 1.5.1
- gt_gthfilestat at Base 1.5.1
- gt_gthmkbssmfiles at Base 1.5.1
- gt_gthsplit at Base 1.5.1
- gt_hashmap_add at Base 1.5.1
- gt_hashmap_delete at Base 1.5.1
- gt_hashmap_foreach at Base 1.5.1
- gt_hashmap_foreach_in_key_order at Base 1.5.1
- gt_hashmap_foreach_ordered at Base 1.5.1
- gt_hashmap_get at Base 1.5.1
- gt_hashmap_get_key at Base 1.5.1
- gt_hashmap_new at Base 1.5.1
- gt_hashmap_ref at Base 1.5.1
- gt_hashmap_remove at Base 1.5.1
- gt_hashmap_reset at Base 1.5.1
- gt_hashmap_unit_test at Base 1.5.1
- gt_hashtable_add at Base 1.5.1
- gt_hashtable_add_with_storage_ptr at Base 1.5.1
- gt_hashtable_delete at Base 1.5.1
- gt_hashtable_fill at Base 1.5.1
- gt_hashtable_foreach at Base 1.5.1
- gt_hashtable_foreach_in_default_order at Base 1.5.1
- gt_hashtable_foreach_ordered at Base 1.5.1
- gt_hashtable_get at Base 1.5.1
- gt_hashtable_new at Base 1.5.1
- gt_hashtable_new_with_start_size at Base 1.5.1
- gt_hashtable_ref at Base 1.5.1
- gt_hashtable_remove at Base 1.5.1
- gt_hashtable_reset at Base 1.5.1
- gt_hashtable_unit_test at Base 1.5.1
- gt_hcr_decoder_decode at Base 1.5.1
- gt_hcr_decoder_decode_range at Base 1.5.1
- gt_hcr_decoder_delete at Base 1.5.1
- gt_hcr_decoder_has_descs_support at Base 1.5.1
- gt_hcr_decoder_new at Base 1.5.1
- gt_hcr_decoder_num_of_reads at Base 1.5.1
- gt_hcr_decoder_readlength at Base 1.5.1
- gt_hcr_encoder_delete at Base 1.5.1
- gt_hcr_encoder_encode at Base 1.5.1
- gt_hcr_encoder_get_sampling_rate at Base 1.5.1
- gt_hcr_encoder_has_descs_support at Base 1.5.1
- gt_hcr_encoder_new at Base 1.5.1
- gt_hcr_encoder_set_sampling_none at Base 1.5.1
- gt_hcr_encoder_set_sampling_page at Base 1.5.1
- gt_hcr_encoder_set_sampling_rate at Base 1.5.1
- gt_hcr_encoder_set_sampling_regular at Base 1.5.1
- gt_hmm_backward at Base 1.5.1
- gt_hmm_decode at Base 1.5.1
- gt_hmm_delete at Base 1.5.1
- gt_hmm_emit at Base 1.5.1
- gt_hmm_forward at Base 1.5.1
- gt_hmm_get_emission_probability at Base 1.5.1
- gt_hmm_get_initial_state_probability at Base 1.5.1
- gt_hmm_get_transition_probability at Base 1.5.1
- gt_hmm_init_random at Base 1.5.1
- gt_hmm_is_valid at Base 1.5.1
- gt_hmm_new at Base 1.5.1
- gt_hmm_rmsd at Base 1.5.1
- gt_hmm_set_emission_probability at Base 1.5.1
- gt_hmm_set_initial_state_probability at Base 1.5.1
- gt_hmm_set_missing_transition_probabilities at Base 1.5.1
- gt_hmm_set_transition_probability at Base 1.5.1
- gt_hmm_show at Base 1.5.1
- gt_hmm_unit_test at Base 1.5.1
- gt_hpol_processor_delete at Base 1.5.1
- gt_hpol_processor_enable_aligned_segments_refregionscheck at Base 1.5.1
- gt_hpol_processor_enable_direct_segments_output at Base 1.5.1
- gt_hpol_processor_enable_segments_hlen_adjustment at Base 1.5.1
- gt_hpol_processor_enable_sorted_segments_output at Base 1.5.1
- gt_hpol_processor_enable_statistics_output at Base 1.5.1
- gt_hpol_processor_new at Base 1.5.1
- gt_hpol_processor_restrict_to_feature_type at Base 1.5.1
- gt_hpol_processor_run at Base 1.5.1
- gt_ht_2ptr_elem_free at Base 1.5.1
- gt_ht_cstr_elem_cmp at Base 1.5.1
- gt_ht_cstr_elem_hash at Base 1.5.1
- gt_ht_ptr_elem_cmp at Base 1.5.1
- gt_ht_ptr_elem_hash at Base 1.5.1
- gt_ht_ul_elem_cmp at Base 1.5.1
- gt_ht_ul_elem_hash at Base 1.5.1
- gt_huffman_bitwise_decoder_delete at Base 1.5.1
- gt_huffman_bitwise_decoder_new at Base 1.5.1
- gt_huffman_bitwise_decoder_next at Base 1.5.1
- gt_huffman_decoder_delete at Base 1.5.1
- gt_huffman_decoder_get_new_mem_chunk at Base 1.5.1
- gt_huffman_decoder_new at Base 1.5.1
- gt_huffman_decoder_new_from_memory at Base 1.5.1
- gt_huffman_decoder_next at Base 1.5.1
- gt_huffman_delete at Base 1.5.1
- gt_huffman_encode at Base 1.5.1
- gt_huffman_iterate at Base 1.5.1
- gt_huffman_new at Base 1.5.1
- gt_huffman_numofsymbols at Base 1.5.1
- gt_huffman_print_codes at Base 1.5.1
- gt_huffman_size at Base 1.5.1
- gt_huffman_totalnumofsymbols at Base 1.5.1
- gt_huffman_unit_test at Base 1.5.1
- gt_id_to_md5_stream_new at Base 1.5.1
- gt_id_to_md5_visitor_class at Base 1.5.1
- gt_id_to_md5_visitor_new at Base 1.5.1
- gt_image_info_add_rec_map at Base 1.5.1
- gt_image_info_delete at Base 1.5.1
- gt_image_info_get_height at Base 1.5.1
- gt_image_info_get_rec_map at Base 1.5.1
- gt_image_info_new at Base 1.5.1
- gt_image_info_num_of_rec_maps at Base 1.5.1
- gt_image_info_ref at Base 1.5.1
- gt_image_info_set_height at Base 1.5.1
- gt_image_info_unit_test at Base 1.5.1
- gt_index_options_algbounds_option at Base 1.5.1
- gt_index_options_algbounds_value at Base 1.5.1
- gt_index_options_bwtIdxParams_value at Base 1.5.1
- gt_index_options_delete at Base 1.5.1
- gt_index_options_lcpdist_value at Base 1.5.1
- gt_index_options_maximumspace_value at Base 1.5.1
- gt_index_options_numofparts_value at Base 1.5.1
- gt_index_options_outbcktab_option at Base 1.5.1
- gt_index_options_outbcktab_value at Base 1.5.1
- gt_index_options_outbwttab_option at Base 1.5.1
- gt_index_options_outbwttab_value at Base 1.5.1
- gt_index_options_outkyssort_value at Base 1.5.1
- gt_index_options_outkystab_value at Base 1.5.1
- gt_index_options_outlcptab_option at Base 1.5.1
- gt_index_options_outlcptab_value at Base 1.5.1
- gt_index_options_outsuftab_option at Base 1.5.1
- gt_index_options_outsuftab_value at Base 1.5.1
- gt_index_options_prefixlength_option at Base 1.5.1
- gt_index_options_prefixlength_value at Base 1.5.1
- gt_index_options_readmode_value at Base 1.5.1
- gt_index_options_register_esa at Base 1.5.1
- gt_index_options_register_esa_noout at Base 1.5.1
- gt_index_options_register_packedidx at Base 1.5.1
- gt_index_options_sfxstrategy_value at Base 1.5.1
- gt_index_options_spmopt_option at Base 1.5.1
- gt_index_options_swallow_tail_value at Base 1.5.1
- gt_indexbased_exact_pattern_count at Base 1.5.1
- gt_indexbasedapproxpatternmatching at Base 1.5.1
- gt_indexbasedexactpatternmatching at Base 1.5.1
- gt_indexbasedlocali at Base 1.5.1
- gt_indexbasedmstats at Base 1.5.1
- gt_indexbasedspacedseeds at Base 1.5.1
- gt_initCompositionList at Base 1.5.1
- gt_initEMIterator at Base 1.5.1
- gt_initEmptyEMIterator at Base 1.5.1
- gt_initEmptySeqReaderSet at Base 1.5.1
- gt_initMinimalcutoffsTravfunctions at Base 1.5.1
- gt_initMinimalcutoffsdata at Base 1.5.1
- gt_initRelaxedcutoffsTravfunctions at Base 1.5.1
- gt_initRelaxedcutoffsdata at Base 1.5.1
- gt_initSATaggedXltorStateList at Base 1.5.1
- gt_initStrictcutoffsTravfunctions at Base 1.5.1
- gt_initStrictcutoffsdata at Base 1.5.1
- gt_initSuffixarrayFileInterface at Base 1.5.1
- gt_initbasepower at Base 1.5.1
- gt_initeqsvector at Base 1.5.1
- gt_initeqsvectorrev at Base 1.5.1
- gt_initfilltable at Base 1.5.1
- gt_initmultimappower at Base 1.5.1
- gt_initstorematch at Base 1.5.1
- gt_inplace_reversecomplement at Base 1.5.1
- gt_inter_feature_stream_new at Base 1.5.1
- gt_inter_feature_visitor_class at Base 1.5.1
- gt_inter_feature_visitor_new at Base 1.5.1
- gt_interval_tree_delete at Base 1.5.1
- gt_interval_tree_find_all_overlapping at Base 1.5.1
- gt_interval_tree_find_first_overlapping at Base 1.5.1
- gt_interval_tree_get_successor at Base 1.5.1
- gt_interval_tree_insert at Base 1.5.1
- gt_interval_tree_iterate_overlapping at Base 1.5.1
- gt_interval_tree_new at Base 1.5.1
- gt_interval_tree_node_delete at Base 1.5.1
- gt_interval_tree_node_get_data at Base 1.5.1
- gt_interval_tree_node_new at Base 1.5.1
- gt_interval_tree_print at Base 1.5.1
- gt_interval_tree_remove at Base 1.5.1
- gt_interval_tree_size at Base 1.5.1
- gt_interval_tree_traverse at Base 1.5.1
- gt_interval_tree_unit_test at Base 1.5.1
- gt_intervalwidthleq at Base 1.5.1
- gt_io_delete at Base 1.5.1
- gt_io_expect at Base 1.5.1
- gt_io_get_char at Base 1.5.1
- gt_io_get_filename at Base 1.5.1
- gt_io_get_filename_str at Base 1.5.1
- gt_io_get_line_number at Base 1.5.1
- gt_io_has_char at Base 1.5.1
- gt_io_line_start at Base 1.5.1
- gt_io_new at Base 1.5.1
- gt_io_next at Base 1.5.1
- gt_io_peek at Base 1.5.1
- gt_io_unget_char at Base 1.5.1
- gt_is_little_endian at Base 1.5.1
- gt_jobs at Base 1.5.1
- gt_kmercode_at_firstpos at Base 1.5.1
- gt_kmercodeiterator_delete at Base 1.5.1
- gt_kmercodeiterator_encseq_new at Base 1.5.1
- gt_kmercodeiterator_encseq_next at Base 1.5.1
- gt_kmercodeiterator_encseq_nonspecial_next at Base 1.5.1
- gt_kmercodeiterator_filetab_new at Base 1.5.1
- gt_kmercodeiterator_filetab_next at Base 1.5.1
- gt_kmercodeiterator_inputexhausted at Base 1.5.1
- gt_kmp_preproc at Base 1.5.1
- gt_kmp_preproc_unit_test at Base 1.5.1
- gt_layout_delete at Base 1.5.1
- gt_layout_get_height at Base 1.5.1
- gt_layout_get_range at Base 1.5.1
- gt_layout_get_twc at Base 1.5.1
- gt_layout_new at Base 1.5.1
- gt_layout_new_with_twc at Base 1.5.1
- gt_layout_set_block_ordering_func at Base 1.5.1
- gt_layout_set_track_ordering_func at Base 1.5.1
- gt_layout_sketch at Base 1.5.1
- gt_layout_unset_block_ordering_func at Base 1.5.1
- gt_layout_unset_track_ordering_func at Base 1.5.1
- gt_lcp13_manzini at Base 1.5.1
- gt_lcp9_manzini at Base 1.5.1
- gt_lcpintervalextendlcp at Base 1.5.1
- gt_lcpintervalfindcharchildintv at Base 1.5.1
- gt_lcpintervalsplitwithoutspecial at Base 1.5.1
- gt_lcptab_getptr at Base 1.5.1
- gt_lcptab_lightweightcheck at Base 1.5.1
- gt_lcpvalues_rmq_new at Base 1.5.1
- gt_leftborderbuffer_delete at Base 1.5.1
- gt_leftborderbuffer_flush at Base 1.5.1
- gt_leftborderbuffer_new at Base 1.5.1
- gt_lib_clean at Base 1.5.1
- gt_lib_init at Base 1.5.1
- gt_lib_reg_atexit_func at Base 1.5.1
- gt_limdfs_getencodedchar at Base 1.5.1
- gt_line_breaker_bases_class at Base 1.5.1
- gt_line_breaker_bases_delete at Base 1.5.1
- gt_line_breaker_bases_is_line_occupied at Base 1.5.1
- gt_line_breaker_bases_new at Base 1.5.1
- gt_line_breaker_bases_register_block at Base 1.5.1
- gt_line_breaker_captions_class at Base 1.5.1
- gt_line_breaker_captions_delete at Base 1.5.1
- gt_line_breaker_captions_is_line_occupied at Base 1.5.1
- gt_line_breaker_captions_new at Base 1.5.1
- gt_line_breaker_captions_register_block at Base 1.5.1
- gt_line_breaker_cast at Base 1.5.1
- gt_line_breaker_class_new at Base 1.5.1
- gt_line_breaker_create at Base 1.5.1
- gt_line_breaker_delete at Base 1.5.1
- gt_line_breaker_line_is_occupied at Base 1.5.1
- gt_line_breaker_ref at Base 1.5.1
- gt_line_breaker_register_block at Base 1.5.1
- gt_line_delete at Base 1.5.1
- gt_line_get_blocks at Base 1.5.1
- gt_line_get_height at Base 1.5.1
- gt_line_has_captions at Base 1.5.1
- gt_line_insert_block at Base 1.5.1
- gt_line_new at Base 1.5.1
- gt_line_sketch at Base 1.5.1
- gt_line_unit_test at Base 1.5.1
- gt_loadBWTSeq at Base 1.5.1
- gt_loadBWTSeqForSA at Base 1.5.1
- gt_loadBlockEncIdxSeqGen at Base 1.5.1
- gt_loadEncIdxSeq at Base 1.5.1
- gt_loadEncIdxSeqForSA at Base 1.5.1
- gt_load_stream_class at Base 1.5.1
- gt_load_stream_new at Base 1.5.1
- gt_loadvoidBWTSeqForSA at Base 1.5.1
- gt_locali_AbstractDfstransformer at Base 1.5.1
- gt_log_clean at Base 1.5.1
- gt_log_enable at Base 1.5.1
- gt_log_enabled at Base 1.5.1
- gt_log_fp at Base 1.5.1
- gt_log_init at Base 1.5.1
- gt_log_log at Base 1.5.1
- gt_log_set_fp at Base 1.5.1
- gt_log_vlog at Base 1.5.1
- gt_logger_delete at Base 1.5.1
- gt_logger_disable at Base 1.5.1
- gt_logger_enable at Base 1.5.1
- gt_logger_enabled at Base 1.5.1
- gt_logger_log at Base 1.5.1
- gt_logger_log_force at Base 1.5.1
- gt_logger_log_va at Base 1.5.1
- gt_logger_log_va_force at Base 1.5.1
- gt_logger_new at Base 1.5.1
- gt_logger_set_target at Base 1.5.1
- gt_logger_target at Base 1.5.1
- gt_logsum at Base 1.5.1
- gt_lookaheadsearchPSSM at Base 1.5.1
- gt_ltr_classify_stream_class at Base 1.5.1
- gt_ltr_classify_stream_new at Base 1.5.1
- gt_ltr_cluster_prepare_seq_finish_encseqs at Base 1.5.1
- gt_ltr_cluster_prepare_seq_visitor_class at Base 1.5.1
- gt_ltr_cluster_prepare_seq_visitor_free at Base 1.5.1
- gt_ltr_cluster_prepare_seq_visitor_get_encseqs at Base 1.5.1
- gt_ltr_cluster_prepare_seq_visitor_get_features at Base 1.5.1
- gt_ltr_cluster_prepare_seq_visitor_new at Base 1.5.1
- gt_ltr_cluster_stream_class at Base 1.5.1
- gt_ltr_cluster_stream_new at Base 1.5.1
- gt_ltr_fileout_stream_class at Base 1.5.1
- gt_ltr_fileout_stream_enable_aa_sequence_output at Base 1.5.1
- gt_ltr_fileout_stream_enable_pdom_alignment_output at Base 1.5.1
- gt_ltr_fileout_stream_new at Base 1.5.1
- gt_ltr_four_char_motif_encode at Base 1.5.1
- gt_ltr_orf_annotator_stream_class at Base 1.5.1
- gt_ltr_orf_annotator_stream_new at Base 1.5.1
- gt_ltr_orf_annotator_stream_set_progress_location at Base 1.5.1
- gt_ltr_refseq_match_stream_class at Base 1.5.1
- gt_ltr_refseq_match_stream_new at Base 1.5.1
- gt_ltr_visitor_class at Base 1.5.1
- gt_ltr_visitor_new at Base 1.5.1
- gt_ltrclustering at Base 1.5.1
- gt_ltrdigest at Base 1.5.1
- gt_ltrdigest_arguments_check at Base 1.5.1
- gt_ltrdigest_stream_class at Base 1.5.1
- gt_ltrdigest_stream_new at Base 1.5.1
- gt_ltrelement_format_description at Base 1.5.1
- gt_ltrelement_get_sequence at Base 1.5.1
- gt_ltrelement_leftltrlen at Base 1.5.1
- gt_ltrelement_length at Base 1.5.1
- gt_ltrelement_rightltrlen at Base 1.5.1
- gt_ltrelement_unit_test at Base 1.5.1
- gt_ltrfileout_stream_free at Base 1.5.1
- gt_ltrfileout_stream_next at Base 1.5.1
- gt_ltrharvest at Base 1.5.1
- gt_ltrharvest_fasta_out_stream_new at Base 1.5.1
- gt_ltrharvest_fasta_out_visitor_class at Base 1.5.1
- gt_ltrharvest_fasta_out_visitor_new at Base 1.5.1
- gt_ltrharvest_stream_class at Base 1.5.1
- gt_ltrharvest_stream_get_encseq at Base 1.5.1
- gt_ltrharvest_stream_new at Base 1.5.1
- gt_ltrharvest_tabout_stream_new at Base 1.5.1
- gt_ltrharvest_tabout_stream_printlongheader at Base 1.5.1
- gt_ltrharvest_tabout_stream_printshortheader at Base 1.5.1
- gt_ltrharvest_tabout_visitor_class at Base 1.5.1
- gt_ltrharvest_tabout_visitor_new at Base 1.5.1
- gt_ltrharvest_tabout_visitor_new_longoutput at Base 1.5.1
- gt_lua_alphabet_push at Base 1.5.1
- gt_lua_encseq_push at Base 1.5.1
- gt_lua_error at Base 1.5.1
- gt_lua_export_metatable at Base 1.5.1
- gt_lua_genome_node_push at Base 1.5.1
- gt_lua_get_style_from_registry at Base 1.5.1
- gt_lua_get_table_as_strarray at Base 1.5.1
- gt_lua_open_alphabet at Base 1.5.1
- gt_lua_open_annotationsketch at Base 1.5.1
- gt_lua_open_bittab at Base 1.5.1
- gt_lua_open_canvas at Base 1.5.1
- gt_lua_open_cds_stream at Base 1.5.1
- gt_lua_open_core at Base 1.5.1
- gt_lua_open_csa_stream at Base 1.5.1
- gt_lua_open_diagram at Base 1.5.1
- gt_lua_open_encseq at Base 1.5.1
- gt_lua_open_extended at Base 1.5.1
- gt_lua_open_feature_index at Base 1.5.1
- gt_lua_open_feature_node_iterator at Base 1.5.1
- gt_lua_open_feature_stream at Base 1.5.1
- gt_lua_open_feature_visitor at Base 1.5.1
- gt_lua_open_genome_node at Base 1.5.1
- gt_lua_open_genome_stream at Base 1.5.1
- gt_lua_open_genome_visitor at Base 1.5.1
- gt_lua_open_imageinfo at Base 1.5.1
- gt_lua_open_layout at Base 1.5.1
- gt_lua_open_lib at Base 1.5.1
- gt_lua_open_mathsupport at Base 1.5.1
- gt_lua_open_range at Base 1.5.1
- gt_lua_open_region_mapping at Base 1.5.1
- gt_lua_open_score_matrix at Base 1.5.1
- gt_lua_open_stream_evaluator at Base 1.5.1
- gt_lua_open_translate at Base 1.5.1
- gt_lua_push_strarray_as_table at Base 1.5.1
- gt_lua_put_style_in_registry at Base 1.5.1
- gt_lua_range_push at Base 1.5.1
- gt_lua_serializer_unit_test at Base 1.5.1
- gt_lua_set_arg at Base 1.5.1
- gt_lua_set_modules_path at Base 1.5.1
- gt_lua_stack_dump at Base 1.5.1
- gt_lua_table_to_str at Base 1.5.1
- gt_ma_bookkeeping_enabled at Base 1.5.1
- gt_ma_check_space_leak at Base 1.5.1
- gt_ma_clean at Base 1.5.1
- gt_ma_disable_global_spacepeak at Base 1.5.1
- gt_ma_enable_global_spacepeak at Base 1.5.1
- gt_ma_get_space_current at Base 1.5.1
- gt_ma_get_space_peak at Base 1.5.1
- gt_ma_init at Base 1.5.1
- gt_ma_show_allocations at Base 1.5.1
- gt_ma_show_space_peak at Base 1.5.1
- gt_ma_unit_test at Base 1.5.1
- gt_maintainnullcols at Base 1.5.1
- gt_makeitmthresholds at Base 1.5.1
- gt_malloc_mem at Base 1.5.1
- gt_mapfmindex at Base 1.5.1
- gt_mapping_delete at Base 1.5.1
- gt_mapping_map_integer at Base 1.5.1
- gt_mapping_map_string at Base 1.5.1
- gt_mapping_new at Base 1.5.1
- gt_mapspec_add_bitelem_ptr at Base 1.5.1
- gt_mapspec_add_bitsequence_ptr at Base 1.5.1
- gt_mapspec_add_char_ptr at Base 1.5.1
- gt_mapspec_add_filelengthvalues_ptr at Base 1.5.1
- gt_mapspec_add_pairbwtindex_ptr at Base 1.5.1
- gt_mapspec_add_specialcharinfo_ptr at Base 1.5.1
- gt_mapspec_add_twobitencoding_ptr at Base 1.5.1
- gt_mapspec_add_uchar_ptr at Base 1.5.1
- gt_mapspec_add_uint16_ptr at Base 1.5.1
- gt_mapspec_add_uint32_ptr at Base 1.5.1
- gt_mapspec_add_uint64_ptr at Base 1.5.1
- gt_mapspec_add_ulong_ptr at Base 1.5.1
- gt_mapspec_add_ulongbound_ptr at Base 1.5.1
- gt_mapspec_pad at Base 1.5.1
- gt_mapspec_read at Base 1.5.1
- gt_mapspec_write at Base 1.5.1
- gt_mapsuffixarray at Base 1.5.1
- gt_marksubstring_bits_address at Base 1.5.1
- gt_marksubstring_bits_map at Base 1.5.1
- gt_marksubstring_bits_null at Base 1.5.1
- gt_marksubstring_checkmark at Base 1.5.1
- gt_marksubstring_delete at Base 1.5.1
- gt_marksubstring_entries at Base 1.5.1
- gt_marksubstring_mark at Base 1.5.1
- gt_marksubstring_new at Base 1.5.1
- gt_marksubstring_shiftright at Base 1.5.1
- gt_marksubstring_size at Base 1.5.1
- gt_match_blast_class at Base 1.5.1
- gt_match_blast_get_align_length at Base 1.5.1
- gt_match_blast_get_bitscore at Base 1.5.1
- gt_match_blast_get_evalue at Base 1.5.1
- gt_match_blast_get_similarity at Base 1.5.1
- gt_match_blast_new at Base 1.5.1
- gt_match_blast_set_align_length at Base 1.5.1
- gt_match_blast_set_bitscore at Base 1.5.1
- gt_match_blast_set_evalue at Base 1.5.1
- gt_match_blast_set_similarity at Base 1.5.1
- gt_match_cast at Base 1.5.1
- gt_match_class_new at Base 1.5.1
- gt_match_create at Base 1.5.1
- gt_match_delete at Base 1.5.1
- gt_match_get_direction at Base 1.5.1
- gt_match_get_range_seq1 at Base 1.5.1
- gt_match_get_range_seq2 at Base 1.5.1
- gt_match_get_seqid1 at Base 1.5.1
- gt_match_get_seqid2 at Base 1.5.1
- gt_match_iterator_blast_class at Base 1.5.1
- gt_match_iterator_blast_file_new at Base 1.5.1
- gt_match_iterator_blastalln_process_new at Base 1.5.1
- gt_match_iterator_blastallp_process_new at Base 1.5.1
- gt_match_iterator_blastn_process_new at Base 1.5.1
- gt_match_iterator_blastp_process_new at Base 1.5.1
- gt_match_iterator_cast at Base 1.5.1
- gt_match_iterator_class_new at Base 1.5.1
- gt_match_iterator_create at Base 1.5.1
- gt_match_iterator_delete at Base 1.5.1
- gt_match_iterator_last_class at Base 1.5.1
- gt_match_iterator_last_new at Base 1.5.1
- gt_match_iterator_next at Base 1.5.1
- gt_match_iterator_open_class at Base 1.5.1
- gt_match_iterator_open_new at Base 1.5.1
- gt_match_iterator_sw_class at Base 1.5.1
- gt_match_iterator_sw_new at Base 1.5.1
- gt_match_last_class at Base 1.5.1
- gt_match_last_get_score at Base 1.5.1
- gt_match_last_get_seqno1 at Base 1.5.1
- gt_match_last_get_seqno2 at Base 1.5.1
- gt_match_last_new at Base 1.5.1
- gt_match_open_class at Base 1.5.1
- gt_match_open_get_weight at Base 1.5.1
- gt_match_open_new at Base 1.5.1
- gt_match_open_set_weight at Base 1.5.1
- gt_match_set_range_seq1 at Base 1.5.1
- gt_match_set_range_seq2 at Base 1.5.1
- gt_match_set_seqid1 at Base 1.5.1
- gt_match_set_seqid1_nt at Base 1.5.1
- gt_match_set_seqid2 at Base 1.5.1
- gt_match_set_seqid2_nt at Base 1.5.1
- gt_match_sw_class at Base 1.5.1
- gt_match_sw_get_alignment_length at Base 1.5.1
- gt_match_sw_get_edist at Base 1.5.1
- gt_match_sw_get_seqno1 at Base 1.5.1
- gt_match_sw_get_seqno2 at Base 1.5.1
- gt_match_sw_new at Base 1.5.1
- gt_match_try_cast at Base 1.5.1
- gt_match_visitor_cast at Base 1.5.1
- gt_match_visitor_class_new at Base 1.5.1
- gt_match_visitor_create at Base 1.5.1
- gt_match_visitor_delete at Base 1.5.1
- gt_match_visitor_visit_match_blast at Base 1.5.1
- gt_match_visitor_visit_match_open at Base 1.5.1
- gt_matchspacedseed at Base 1.5.1
- gt_mathsupport_unit_test at Base 1.5.1
- gt_maxbasepower at Base 1.5.1
- gt_md5_encoder_add_block at Base 1.5.1
- gt_md5_encoder_delete at Base 1.5.1
- gt_md5_encoder_finish at Base 1.5.1
- gt_md5_encoder_new at Base 1.5.1
- gt_md5_encoder_reset at Base 1.5.1
- gt_md5_fingerprint at Base 1.5.1
- gt_md5_seqid_cmp_seqids at Base 1.5.1
- gt_md5_seqid_has_prefix at Base 1.5.1
- gt_md5_seqid_unit_test at Base 1.5.1
- gt_md5_tab_delete at Base 1.5.1
- gt_md5_tab_get at Base 1.5.1
- gt_md5_tab_map at Base 1.5.1
- gt_md5_tab_new at Base 1.5.1
- gt_md5_tab_new_from_cache_file at Base 1.5.1
- gt_md5_tab_ref at Base 1.5.1
- gt_md5_tab_size at Base 1.5.1
- gt_md5_to_id_stream_new at Base 1.5.1
- gt_md5_to_id_visitor_class at Base 1.5.1
- gt_md5_to_id_visitor_new at Base 1.5.1
- gt_md5set_add_sequence at Base 1.5.1
- gt_md5set_delete at Base 1.5.1
- gt_md5set_new at Base 1.5.1
- gt_merge_feature_stream_new at Base 1.5.1
- gt_merge_feature_visitor_class at Base 1.5.1
- gt_merge_feature_visitor_new at Base 1.5.1
- gt_merge_stream_class at Base 1.5.1
- gt_merge_stream_new at Base 1.5.1
- gt_mergertrie_delete at Base 1.5.1
- gt_mergertrie_deletesmallestpath at Base 1.5.1
- gt_mergertrie_findsmallestnode at Base 1.5.1
- gt_mergertrie_initnodetable at Base 1.5.1
- gt_mergertrie_insertsuffix at Base 1.5.1
- gt_merstatistics at Base 1.5.1
- gt_meta_node_class at Base 1.5.1
- gt_meta_node_get_data at Base 1.5.1
- gt_meta_node_get_directive at Base 1.5.1
- gt_meta_node_new at Base 1.5.1
- gt_metagenomethreader at Base 1.5.1
- gt_mmsearchiterator_count at Base 1.5.1
- gt_mmsearchiterator_delete at Base 1.5.1
- gt_mmsearchiterator_identical at Base 1.5.1
- gt_mmsearchiterator_isempty at Base 1.5.1
- gt_mmsearchiterator_new_complete_olain at Base 1.5.1
- gt_mmsearchiterator_next at Base 1.5.1
- gt_msort at Base 1.5.1
- gt_msort_r at Base 1.5.1
- gt_multi_sanitizer_visitor_class at Base 1.5.1
- gt_multi_sanitizer_visitor_new at Base 1.5.1
- gt_multiapplysmithwaterman at Base 1.5.1
- gt_multiesa2shulengthdist at Base 1.5.1
- gt_multiesa2shulengthdist_print at Base 1.5.1
- gt_multimappower_delete at Base 1.5.1
- gt_multithread at Base 1.5.1
- gt_mutate_seq at Base 1.5.1
- gt_mutex_delete at Base 1.5.1
- gt_mutex_new at Base 1.5.1
- gt_newBWTSeq at Base 1.5.1
- gt_newBWTSeqContextRetrieverFactory at Base 1.5.1
- gt_newBwtSeqpositionextractor at Base 1.5.1
- gt_newCharatpos at Base 1.5.1
- gt_newCompositionList at Base 1.5.1
- gt_newEMIterator at Base 1.5.1
- gt_newGenBlockEncIdxSeq at Base 1.5.1
- gt_newLcpvalueiterator at Base 1.5.1
- gt_newLimdfsresources at Base 1.5.1
- gt_newMultiRangeAlphabetEncodingUInt8 at Base 1.5.1
- gt_newMyersonlineresources at Base 1.5.1
- gt_newSWdpresource at Base 1.5.1
- gt_newSeqRangeList at Base 1.5.1
- gt_newSequentialsuffixarrayreaderfromRAM at Base 1.5.1
- gt_newSequentialsuffixarrayreaderfromfile at Base 1.5.1
- gt_newSfxInterface at Base 1.5.1
- gt_newSfxInterfaceWithReaders at Base 1.5.1
- gt_newSpecialsRankLookup at Base 1.5.1
- gt_newSuffixarrayFileInterface at Base 1.5.1
- gt_newbucketenumerator at Base 1.5.1
- gt_newenumpatterniterator at Base 1.5.1
- gt_nextEnumpatterniterator at Base 1.5.1
- gt_nextLcpvalueiterator at Base 1.5.1
- gt_nextSequentiallcpvalue at Base 1.5.1
- gt_nextSequentialsuftabvalue at Base 1.5.1
- gt_nextbucketenumerator at Base 1.5.1
- gt_node_stream_cast at Base 1.5.1
- gt_node_stream_class_new at Base 1.5.1
- gt_node_stream_create at Base 1.5.1
- gt_node_stream_delete at Base 1.5.1
- gt_node_stream_is_sorted at Base 1.5.1
- gt_node_stream_next at Base 1.5.1
- gt_node_stream_pull at Base 1.5.1
- gt_node_stream_ref at Base 1.5.1
- gt_node_visitor_cast at Base 1.5.1
- gt_node_visitor_class_new at Base 1.5.1
- gt_node_visitor_class_set_meta_node_func at Base 1.5.1
- gt_node_visitor_create at Base 1.5.1
- gt_node_visitor_delete at Base 1.5.1
- gt_node_visitor_visit_comment_node at Base 1.5.1
- gt_node_visitor_visit_eof_node at Base 1.5.1
- gt_node_visitor_visit_feature_node at Base 1.5.1
- gt_node_visitor_visit_meta_node at Base 1.5.1
- gt_node_visitor_visit_region_node at Base 1.5.1
- gt_node_visitor_visit_sequence_node at Base 1.5.1
- gt_non_r_cmpfunc at Base 1.5.1
- gt_obo_parse_tree_delete at Base 1.5.1
- gt_obo_parse_tree_get_stanza at Base 1.5.1
- gt_obo_parse_tree_get_stanza_type at Base 1.5.1
- gt_obo_parse_tree_get_stanza_value at Base 1.5.1
- gt_obo_parse_tree_new at Base 1.5.1
- gt_obo_parse_tree_num_of_stanzas at Base 1.5.1
- gt_obo_stanza_add at Base 1.5.1
- gt_obo_stanza_delete at Base 1.5.1
- gt_obo_stanza_filename at Base 1.5.1
- gt_obo_stanza_get_type at Base 1.5.1
- gt_obo_stanza_get_value at Base 1.5.1
- gt_obo_stanza_line at Base 1.5.1
- gt_obo_stanza_new at Base 1.5.1
- gt_obo_stanza_size at Base 1.5.1
- gt_option_argument_is_optional at Base 1.5.1
- gt_option_delete at Base 1.5.1
- gt_option_exclude at Base 1.5.1
- gt_option_get_name at Base 1.5.1
- gt_option_hide_default at Base 1.5.1
- gt_option_imply at Base 1.5.1
- gt_option_imply_either_2 at Base 1.5.1
- gt_option_imply_either_3 at Base 1.5.1
- gt_option_is_development_option at Base 1.5.1
- gt_option_is_extended_option at Base 1.5.1
- gt_option_is_mandatory at Base 1.5.1
- gt_option_is_mandatory_either at Base 1.5.1
- gt_option_is_mandatory_either_3 at Base 1.5.1
- gt_option_is_mandatory_either_4 at Base 1.5.1
- gt_option_is_set at Base 1.5.1
- gt_option_new_bool at Base 1.5.1
- gt_option_new_choice at Base 1.5.1
- gt_option_new_debug at Base 1.5.1
- gt_option_new_double at Base 1.5.1
- gt_option_new_double_min at Base 1.5.1
- gt_option_new_double_min_max at Base 1.5.1
- gt_option_new_filename at Base 1.5.1
- gt_option_new_filename_array at Base 1.5.1
- gt_option_new_int at Base 1.5.1
- gt_option_new_int_max at Base 1.5.1
- gt_option_new_int_min at Base 1.5.1
- gt_option_new_int_min_max at Base 1.5.1
- gt_option_new_long at Base 1.5.1
- gt_option_new_probability at Base 1.5.1
- gt_option_new_range at Base 1.5.1
- gt_option_new_range_min_max at Base 1.5.1
- gt_option_new_string at Base 1.5.1
- gt_option_new_string_array at Base 1.5.1
- gt_option_new_uint at Base 1.5.1
- gt_option_new_uint_max at Base 1.5.1
- gt_option_new_uint_min at Base 1.5.1
- gt_option_new_uint_min_max at Base 1.5.1
- gt_option_new_ulong at Base 1.5.1
- gt_option_new_ulong_min at Base 1.5.1
- gt_option_new_ulong_min_max at Base 1.5.1
- gt_option_new_verbose at Base 1.5.1
- gt_option_new_width at Base 1.5.1
- gt_option_parse_spacespec at Base 1.5.1
- gt_option_parser_add_option at Base 1.5.1
- gt_option_parser_delete at Base 1.5.1
- gt_option_parser_get_option at Base 1.5.1
- gt_option_parser_new at Base 1.5.1
- gt_option_parser_parse at Base 1.5.1
- gt_option_parser_refer_to_manual at Base 1.5.1
- gt_option_parser_register_hook at Base 1.5.1
- gt_option_parser_set_comment_func at Base 1.5.1
- gt_option_parser_set_mail_address at Base 1.5.1
- gt_option_parser_set_max_args at Base 1.5.1
- gt_option_parser_set_min_args at Base 1.5.1
- gt_option_parser_set_min_max_args at Base 1.5.1
- gt_option_parser_set_version_func at Base 1.5.1
- gt_option_ref at Base 1.5.1
- gt_optionargaddbitmask at Base 1.5.1
- gt_optionargsetsingle at Base 1.5.1
- gt_orf_finder_stream_class at Base 1.5.1
- gt_orf_finder_stream_new at Base 1.5.1
- gt_orf_finder_visitor_class at Base 1.5.1
- gt_orf_finder_visitor_new at Base 1.5.1
- gt_orf_iterator_delete at Base 1.5.1
- gt_orf_iterator_new at Base 1.5.1
- gt_orf_iterator_next at Base 1.5.1
- gt_orphanage_add at Base 1.5.1
- gt_orphanage_delete at Base 1.5.1
- gt_orphanage_get_orphan at Base 1.5.1
- gt_orphanage_is_orphan at Base 1.5.1
- gt_orphanage_new at Base 1.5.1
- gt_orphanage_parent_is_missing at Base 1.5.1
- gt_orphanage_reg_parent at Base 1.5.1
- gt_orphanage_reset at Base 1.5.1
- gt_out_power_for_small_exponents at Base 1.5.1
- gt_outprjfile at Base 1.5.1
- gt_output_file_info_delete at Base 1.5.1
- gt_output_file_info_new at Base 1.5.1
- gt_output_file_register_options at Base 1.5.1
- gt_output_file_xopen_forcecheck at Base 1.5.1
- gt_outputtranslationandorf at Base 1.5.1
- gt_ovlfind_bf at Base 1.5.1
- gt_ovlfind_bf_unit_test at Base 1.5.1
- gt_ovlfind_dp at Base 1.5.1
- gt_ovlfind_dp_unit_test at Base 1.5.1
- gt_ovlfind_kmp at Base 1.5.1
- gt_ovlfind_kmp_unit_test at Base 1.5.1
- gt_packedindexmstatsforward at Base 1.5.1
- gt_packedindexuniqueforward at Base 1.5.1
- gt_parse_algbounds at Base 1.5.1
- gt_parse_description_range at Base 1.5.1
- gt_parse_double at Base 1.5.1
- gt_parse_int at Base 1.5.1
- gt_parse_int_line at Base 1.5.1
- gt_parse_intermediate_output at Base 1.5.1
- gt_parse_long at Base 1.5.1
- gt_parse_phase at Base 1.5.1
- gt_parse_range at Base 1.5.1
- gt_parse_range_correct_neg at Base 1.5.1
- gt_parse_range_tidy at Base 1.5.1
- gt_parse_score at Base 1.5.1
- gt_parse_strand at Base 1.5.1
- gt_parse_uint at Base 1.5.1
- gt_parse_ulong at Base 1.5.1
- gt_parseargsandcallmkfmindex at Base 1.5.1
- gt_parseargsandcallsuffixerator at Base 1.5.1
- gt_parsequalifiedinteger at Base 1.5.1
- gt_pbs_find at Base 1.5.1
- gt_pbs_hit_get_alignment_length at Base 1.5.1
- gt_pbs_hit_get_coords at Base 1.5.1
- gt_pbs_hit_get_edist at Base 1.5.1
- gt_pbs_hit_get_offset at Base 1.5.1
- gt_pbs_hit_get_score at Base 1.5.1
- gt_pbs_hit_get_strand at Base 1.5.1
- gt_pbs_hit_get_trna at Base 1.5.1
- gt_pbs_hit_get_tstart at Base 1.5.1
- gt_pbs_results_delete at Base 1.5.1
- gt_pbs_results_get_number_of_hits at Base 1.5.1
- gt_pbs_results_get_ranked_hit at Base 1.5.1
- gt_pbs_unit_test at Base 1.5.1
- gt_pck_calculate_shulen at Base 1.5.1
- gt_pck_count_nodes_dfs at Base 1.5.1
- gt_pck_exact_pattern_count at Base 1.5.1
- gt_pck_exactpatternmatching at Base 1.5.1
- gt_pck_getGCcontent at Base 1.5.1
- gt_pck_getShuStringLength at Base 1.5.1
- gt_pck_get_nonspecial_count at Base 1.5.1
- gt_pck_special_occ_in_nonspecial_intervals at Base 1.5.1
- gt_pckbuckettable_2file at Base 1.5.1
- gt_pckbuckettable_delete at Base 1.5.1
- gt_pckbuckettable_exists at Base 1.5.1
- gt_pckbuckettable_map at Base 1.5.1
- gt_pckbuckettable_maxdepth_get at Base 1.5.1
- gt_pckbuckettable_mbtab_get at Base 1.5.1
- gt_pckbuckettable_new at Base 1.5.1
- gt_pckbuckettable_numofchars_get at Base 1.5.1
- gt_performtheindexmerging at Base 1.5.1
- gt_permute_word_init at Base 1.5.1
- gt_permute_word_next at Base 1.5.1
- gt_phase_get at Base 1.5.1
- gt_pms_AbstractDfstransformer at Base 1.5.1
- gt_popcount_tab_calculate_size at Base 1.5.1
- gt_popcount_tab_class at Base 1.5.1
- gt_popcount_tab_delete at Base 1.5.1
- gt_popcount_tab_get at Base 1.5.1
- gt_popcount_tab_get_offset_for_block at Base 1.5.1
- gt_popcount_tab_new at Base 1.5.1
- gt_popcount_tab_offset_bits at Base 1.5.1
- gt_popcount_tab_rank_0 at Base 1.5.1
- gt_popcount_tab_rank_1 at Base 1.5.1
- gt_popcount_tab_unit_test at Base 1.5.1
- gt_power_for_small_exponents at Base 1.5.1
- gt_ppt_find at Base 1.5.1
- gt_ppt_hit_get_coords at Base 1.5.1
- gt_ppt_hit_get_strand at Base 1.5.1
- gt_ppt_hit_get_ubox at Base 1.5.1
- gt_ppt_hmm_new at Base 1.5.1
- gt_ppt_results_delete at Base 1.5.1
- gt_ppt_results_get_number_of_hits at Base 1.5.1
- gt_ppt_results_get_ranked_hit at Base 1.5.1
- gt_ppt_unit_test at Base 1.5.1
- gt_priorityqueue_add at Base 1.5.1
- gt_priorityqueue_delete at Base 1.5.1
- gt_priorityqueue_delete_min at Base 1.5.1
- gt_priorityqueue_find_min at Base 1.5.1
- gt_priorityqueue_is_empty at Base 1.5.1
- gt_priorityqueue_is_full at Base 1.5.1
- gt_priorityqueue_new at Base 1.5.1
- gt_process_is_foreground at Base 1.5.1
- gt_process_spmitv at Base 1.5.1
- gt_processelemLocaliTracebackstate at Base 1.5.1
- gt_progressbar_start at Base 1.5.1
- gt_progressbar_stop at Base 1.5.1
- gt_qsort_r at Base 1.5.1
- gt_quality_fastq_to_phred at Base 1.5.1
- gt_quality_fastq_to_solexa at Base 1.5.1
- gt_quality_phred_to_errorprob at Base 1.5.1
- gt_quality_phred_to_solexa at Base 1.5.1
- gt_quality_solexa_to_errorprob at Base 1.5.1
- gt_quality_solexa_to_phred at Base 1.5.1
- gt_quality_unit_test at Base 1.5.1
- gt_querymatch_dbseqnum at Base 1.5.1
- gt_querymatch_dbstart at Base 1.5.1
- gt_querymatch_delete at Base 1.5.1
- gt_querymatch_fill at Base 1.5.1
- gt_querymatch_new at Base 1.5.1
- gt_querymatch_output at Base 1.5.1
- gt_querymatch_querylen at Base 1.5.1
- gt_querymatch_queryreverse at Base 1.5.1
- gt_querymatch_queryseqnum at Base 1.5.1
- gt_querymatch_querystart at Base 1.5.1
- gt_queue_add at Base 1.5.1
- gt_queue_delete at Base 1.5.1
- gt_queue_delete_with_contents at Base 1.5.1
- gt_queue_get at Base 1.5.1
- gt_queue_head at Base 1.5.1
- gt_queue_iterate at Base 1.5.1
- gt_queue_iterate_reverse at Base 1.5.1
- gt_queue_new at Base 1.5.1
- gt_queue_remove at Base 1.5.1
- gt_queue_size at Base 1.5.1
- gt_queue_unit_test at Base 1.5.1
- gt_radixsort_delete at Base 1.5.1
- gt_radixsort_inplace_GtUlongPair at Base 1.5.1
- gt_radixsort_inplace_sort at Base 1.5.1
- gt_radixsort_inplace_ulong at Base 1.5.1
- gt_radixsort_lsb_linear at Base 1.5.1
- gt_radixsort_max_num_of_entries_ulong at Base 1.5.1
- gt_radixsort_max_num_of_entries_ulongpair at Base 1.5.1
- gt_radixsort_new_ulong at Base 1.5.1
- gt_radixsort_new_ulongpair at Base 1.5.1
- gt_radixsort_size at Base 1.5.1
- gt_radixsort_space_ulong at Base 1.5.1
- gt_radixsort_space_ulongpair at Base 1.5.1
- gt_radixsort_str_delete at Base 1.5.1
- gt_radixsort_str_eqlen at Base 1.5.1
- gt_radixsort_str_maxwidth at Base 1.5.1
- gt_radixsort_str_minwidth at Base 1.5.1
- gt_radixsort_str_new at Base 1.5.1
- gt_rand_0_to_1 at Base 1.5.1
- gt_rand_char at Base 1.5.1
- gt_rand_max at Base 1.5.1
- gt_rand_max_double at Base 1.5.1
- gt_randomcodes_correct_data_collect_stats at Base 1.5.1
- gt_randomcodes_correct_data_delete at Base 1.5.1
- gt_randomcodes_correct_data_new at Base 1.5.1
- gt_randomcodes_correct_process_bucket at Base 1.5.1
- gt_randomcodes_countocc_delete at Base 1.5.1
- gt_randomcodes_countocc_new at Base 1.5.1
- gt_randomcodes_countocc_resize at Base 1.5.1
- gt_randomcodes_countocc_setnull at Base 1.5.1
- gt_randomcodes_find_accu at Base 1.5.1
- gt_randomcodes_find_insert at Base 1.5.1
- gt_randomcodes_findfirstsamplelarger at Base 1.5.1
- gt_randomcodes_get_leftborder at Base 1.5.1
- gt_randomcodes_get_sample at Base 1.5.1
- gt_randomcodes_insert_runkmerscan at Base 1.5.1
- gt_randomcodes_leftborder_address at Base 1.5.1
- gt_randomcodes_leftborder_entries at Base 1.5.1
- gt_randomcodes_leftborder_remap at Base 1.5.1
- gt_randomcodes_numofsamples at Base 1.5.1
- gt_randomcodes_outfilenameleftborder at Base 1.5.1
- gt_randomcodes_partialsums at Base 1.5.1
- gt_randomcodes_remdups at Base 1.5.1
- gt_randomcodes_sample2full at Base 1.5.1
- gt_randomcodes_samples_delete at Base 1.5.1
- gt_randomcodes_tab_delete at Base 1.5.1
- gt_range_compare at Base 1.5.1
- gt_range_compare_by_length_ptr at Base 1.5.1
- gt_range_compare_with_delta at Base 1.5.1
- gt_range_contains at Base 1.5.1
- gt_range_join at Base 1.5.1
- gt_range_length at Base 1.5.1
- gt_range_offset at Base 1.5.1
- gt_range_overlap at Base 1.5.1
- gt_range_overlap_delta at Base 1.5.1
- gt_range_reorder at Base 1.5.1
- gt_range_reverse at Base 1.5.1
- gt_range_unit_test at Base 1.5.1
- gt_range_within at Base 1.5.1
- gt_ranges_are_consecutive at Base 1.5.1
- gt_ranges_are_equal at Base 1.5.1
- gt_ranges_are_sorted at Base 1.5.1
- gt_ranges_are_sorted_and_do_not_overlap at Base 1.5.1
- gt_ranges_borders_are_in_region at Base 1.5.1
- gt_ranges_copy_to_opposite_strand at Base 1.5.1
- gt_ranges_do_not_overlap at Base 1.5.1
- gt_ranges_show at Base 1.5.1
- gt_ranges_sort at Base 1.5.1
- gt_ranges_sort_by_length_stable at Base 1.5.1
- gt_ranges_spanned_length at Base 1.5.1
- gt_ranges_total_length at Base 1.5.1
- gt_ranges_uniq at Base 1.5.1
- gt_ranges_uniq_count at Base 1.5.1
- gt_ranges_uniq_in_place at Base 1.5.1
- gt_ranges_uniq_in_place_count at Base 1.5.1
- gt_ranked_list_delete at Base 1.5.1
- gt_ranked_list_first at Base 1.5.1
- gt_ranked_list_insert at Base 1.5.1
- gt_ranked_list_iter_delete at Base 1.5.1
- gt_ranked_list_iter_new_from_first at Base 1.5.1
- gt_ranked_list_iter_new_from_last at Base 1.5.1
- gt_ranked_list_iter_next at Base 1.5.1
- gt_ranked_list_iter_prev at Base 1.5.1
- gt_ranked_list_last at Base 1.5.1
- gt_ranked_list_new at Base 1.5.1
- gt_ranked_list_size at Base 1.5.1
- gt_ranked_list_unit_test at Base 1.5.1
- gt_rbtree_clear at Base 1.5.1
- gt_rbtree_delete at Base 1.5.1
- gt_rbtree_erase at Base 1.5.1
- gt_rbtree_find at Base 1.5.1
- gt_rbtree_find_with_cmp at Base 1.5.1
- gt_rbtree_insert at Base 1.5.1
- gt_rbtree_insert_with_cmp at Base 1.5.1
- gt_rbtree_iter_data at Base 1.5.1
- gt_rbtree_iter_delete at Base 1.5.1
- gt_rbtree_iter_new_from_first at Base 1.5.1
- gt_rbtree_iter_new_from_last at Base 1.5.1
- gt_rbtree_iter_next at Base 1.5.1
- gt_rbtree_iter_prev at Base 1.5.1
- gt_rbtree_maximum_key at Base 1.5.1
- gt_rbtree_minimum_key at Base 1.5.1
- gt_rbtree_new at Base 1.5.1
- gt_rbtree_next_equal_key at Base 1.5.1
- gt_rbtree_next_key at Base 1.5.1
- gt_rbtree_previous_equal_key at Base 1.5.1
- gt_rbtree_previous_key at Base 1.5.1
- gt_rbtree_root_key at Base 1.5.1
- gt_rbtree_search at Base 1.5.1
- gt_rbtree_search_with_cmp at Base 1.5.1
- gt_rbtree_size at Base 1.5.1
- gt_rbtree_unit_test at Base 1.5.1
- gt_rbtree_walk at Base 1.5.1
- gt_rbtree_walk_reverse at Base 1.5.1
- gt_rbtree_walk_stop at Base 1.5.1
- gt_rcr_decoder_decode at Base 1.5.1
- gt_rcr_decoder_delete at Base 1.5.1
- gt_rcr_decoder_disable_description_support at Base 1.5.1
- gt_rcr_decoder_enable_description_support at Base 1.5.1
- gt_rcr_decoder_new at Base 1.5.1
- gt_rcr_encoder_delete at Base 1.5.1
- gt_rcr_encoder_disable_verbosity at Base 1.5.1
- gt_rcr_encoder_enable_verbosity at Base 1.5.1
- gt_rcr_encoder_encode at Base 1.5.1
- gt_rcr_encoder_new at Base 1.5.1
- gt_rdb_accept at Base 1.5.1
- gt_rdb_cast at Base 1.5.1
- gt_rdb_class_new at Base 1.5.1
- gt_rdb_create at Base 1.5.1
- gt_rdb_delete at Base 1.5.1
- gt_rdb_get_indexes at Base 1.5.1
- gt_rdb_get_tables at Base 1.5.1
- gt_rdb_last_inserted_id at Base 1.5.1
- gt_rdb_prepare at Base 1.5.1
- gt_rdb_ref at Base 1.5.1
- gt_rdb_sqlite_class at Base 1.5.1
- gt_rdb_sqlite_new at Base 1.5.1
- gt_rdb_stmt_bind_double at Base 1.5.1
- gt_rdb_stmt_bind_int at Base 1.5.1
- gt_rdb_stmt_bind_string at Base 1.5.1
- gt_rdb_stmt_bind_ulong at Base 1.5.1
- gt_rdb_stmt_cast at Base 1.5.1
- gt_rdb_stmt_class_new at Base 1.5.1
- gt_rdb_stmt_create at Base 1.5.1
- gt_rdb_stmt_delete at Base 1.5.1
- gt_rdb_stmt_exec at Base 1.5.1
- gt_rdb_stmt_get_double at Base 1.5.1
- gt_rdb_stmt_get_int at Base 1.5.1
- gt_rdb_stmt_get_string at Base 1.5.1
- gt_rdb_stmt_get_ulong at Base 1.5.1
- gt_rdb_stmt_reset at Base 1.5.1
- gt_rdb_stmt_sqlite_class at Base 1.5.1
- gt_rdb_visitor_cast at Base 1.5.1
- gt_rdb_visitor_class_new at Base 1.5.1
- gt_rdb_visitor_create at Base 1.5.1
- gt_rdb_visitor_delete at Base 1.5.1
- gt_rdb_visitor_visit_mysql at Base 1.5.1
- gt_rdb_visitor_visit_sqlite at Base 1.5.1
- gt_rdj_gusfield at Base 1.5.1
- gt_rdj_pairwise_approx at Base 1.5.1
- gt_rdj_pairwise_exact at Base 1.5.1
- gt_readjoiner_show_version at Base 1.5.1
- gt_readjoiner_ssar_delete at Base 1.5.1
- gt_readjoiner_ssar_new at Base 1.5.1
- gt_readmodeSequentialsuffixarrayreader at Base 1.5.1
- gt_readmode_parse at Base 1.5.1
- gt_readmode_show at Base 1.5.1
- gt_reads2twobit_add at Base 1.5.1
- gt_reads2twobit_add_library at Base 1.5.1
- gt_reads2twobit_decode_range at Base 1.5.1
- gt_reads2twobit_decode_sequence at Base 1.5.1
- gt_reads2twobit_delete at Base 1.5.1
- gt_reads2twobit_delete_sequences at Base 1.5.1
- gt_reads2twobit_encode at Base 1.5.1
- gt_reads2twobit_export_seppos at Base 1.5.1
- gt_reads2twobit_export_twobitencoding at Base 1.5.1
- gt_reads2twobit_invalid_seqs_totallength at Base 1.5.1
- gt_reads2twobit_new at Base 1.5.1
- gt_reads2twobit_nof_invalid_seqs at Base 1.5.1
- gt_reads2twobit_nofseqs at Base 1.5.1
- gt_reads2twobit_seqlen_eqlen at Base 1.5.1
- gt_reads2twobit_seqlen_max at Base 1.5.1
- gt_reads2twobit_seqlen_min at Base 1.5.1
- gt_reads2twobit_set_quality_filter at Base 1.5.1
- gt_reads2twobit_sort at Base 1.5.1
- gt_reads2twobit_total_seqlength at Base 1.5.1
- gt_reads2twobit_use_phred64 at Base 1.5.1
- gt_reads2twobit_write_encoded at Base 1.5.1
- gt_reads2twobit_write_encseq at Base 1.5.1
- gt_reads2twobit_write_fasta at Base 1.5.1
- gt_reads2twobit_write_libraries_table at Base 1.5.1
- gt_reads2twobit_write_seppos at Base 1.5.1
- gt_reads_library_table_read at Base 1.5.1
- gt_reads_library_table_write at Base 1.5.1
- gt_realloc_mem at Base 1.5.1
- gt_rec_map_delete at Base 1.5.1
- gt_rec_map_format_html_imagemap_coords at Base 1.5.1
- gt_rec_map_get_genome_feature at Base 1.5.1
- gt_rec_map_get_northwest_x at Base 1.5.1
- gt_rec_map_get_northwest_y at Base 1.5.1
- gt_rec_map_get_southeast_x at Base 1.5.1
- gt_rec_map_get_southeast_y at Base 1.5.1
- gt_rec_map_has_omitted_children at Base 1.5.1
- gt_rec_map_new at Base 1.5.1
- gt_rec_map_ref at Base 1.5.1
- gt_rec_map_set_omitted_children at Base 1.5.1
- gt_recommendedprefixlength at Base 1.5.1
- gt_region_mapping_delete at Base 1.5.1
- gt_region_mapping_get_description at Base 1.5.1
- gt_region_mapping_get_md5_fingerprint at Base 1.5.1
- gt_region_mapping_get_sequence at Base 1.5.1
- gt_region_mapping_get_sequence_length at Base 1.5.1
- gt_region_mapping_new_encseq at Base 1.5.1
- gt_region_mapping_new_mapping at Base 1.5.1
- gt_region_mapping_new_rawseq at Base 1.5.1
- gt_region_mapping_new_seqfiles at Base 1.5.1
- gt_region_mapping_ref at Base 1.5.1
- gt_region_node_builder_add_region at Base 1.5.1
- gt_region_node_builder_build at Base 1.5.1
- gt_region_node_builder_delete at Base 1.5.1
- gt_region_node_builder_new at Base 1.5.1
- gt_region_node_builder_reset at Base 1.5.1
- gt_region_node_class at Base 1.5.1
- gt_region_node_consolidate at Base 1.5.1
- gt_region_node_new at Base 1.5.1
- gt_regioncov_visitor_class at Base 1.5.1
- gt_regioncov_visitor_new at Base 1.5.1
- gt_regioncov_visitor_show_coverage at Base 1.5.1
- gt_registerBlockEncOptions at Base 1.5.1
- gt_registerCtxMapOptions at Base 1.5.1
- gt_registerEncIdxSeqOptions at Base 1.5.1
- gt_registerPackedIndexOptions at Base 1.5.1
- gt_regular_seqid_save at Base 1.5.1
- gt_reinitCharatpos at Base 1.5.1
- gt_reinitEMIterator at Base 1.5.1
- gt_reinitLocaliTracebackstate at Base 1.5.1
- gt_remove_zero_base_exons at Base 1.5.1
- gt_requiredUInt32Bits at Base 1.5.1
- gt_requiredUInt64Bits at Base 1.5.1
- gt_reverse_complement at Base 1.5.1
- gt_reversesuffixmatch at Base 1.5.1
- gt_rmq_delete at Base 1.5.1
- gt_rmq_find_min_index at Base 1.5.1
- gt_rmq_find_min_value at Base 1.5.1
- gt_rmq_new at Base 1.5.1
- gt_rmq_size at Base 1.5.1
- gt_rmq_unit_test at Base 1.5.1
- gt_round_to_long at Base 1.5.1
- gt_runcheckfunctiononalphalen at Base 1.5.1
- gt_runcheckfunctionontext at Base 1.5.1
- gt_runcheckfunctionontwofiles at Base 1.5.1
- gt_runenumlcpvalues at Base 1.5.1
- gt_rungetencseqkmers at Base 1.5.1
- gt_rungetencseqkmers_rc at Base 1.5.1
- gt_runidxlocali at Base 1.5.1
- gt_runscanesa at Base 1.5.1
- gt_runtagerator at Base 1.5.1
- gt_rwlock_delete at Base 1.5.1
- gt_rwlock_new at Base 1.5.1
- gt_safe_abs_check_func at Base 1.5.1
- gt_safe_cast2long_check_func at Base 1.5.1
- gt_safe_cast2ulong_64_check_func at Base 1.5.1
- gt_safe_cast2ulong_check_func at Base 1.5.1
- gt_safe_default_overflow_handler at Base 1.5.1
- gt_safe_labs_check_func at Base 1.5.1
- gt_safe_llabs_check_func at Base 1.5.1
- gt_safe_mult_u32_check_func at Base 1.5.1
- gt_safe_mult_u64_check_func at Base 1.5.1
- gt_safe_mult_ulong_check_func at Base 1.5.1
- gt_safearith_example at Base 1.5.1
- gt_safearith_unit_test at Base 1.5.1
- gt_sain_encseq_sortsuffixes at Base 1.5.1
- gt_sain_plain_sortsuffixes at Base 1.5.1
- gt_sam_alignment_cigar_i_length at Base 1.5.1
- gt_sam_alignment_cigar_i_operation at Base 1.5.1
- gt_sam_alignment_cigar_length at Base 1.5.1
- gt_sam_alignment_clone at Base 1.5.1
- gt_sam_alignment_delete at Base 1.5.1
- gt_sam_alignment_flag at Base 1.5.1
- gt_sam_alignment_has_qc_failure at Base 1.5.1
- gt_sam_alignment_identifier at Base 1.5.1
- gt_sam_alignment_is_optical_pcr_duplicate at Base 1.5.1
- gt_sam_alignment_is_paired at Base 1.5.1
- gt_sam_alignment_is_proper_paired at Base 1.5.1
- gt_sam_alignment_is_read1 at Base 1.5.1
- gt_sam_alignment_is_read2 at Base 1.5.1
- gt_sam_alignment_is_reverse at Base 1.5.1
- gt_sam_alignment_is_secondary at Base 1.5.1
- gt_sam_alignment_is_unmapped at Base 1.5.1
- gt_sam_alignment_mapping_quality at Base 1.5.1
- gt_sam_alignment_mate_is_reverse at Base 1.5.1
- gt_sam_alignment_mate_is_unmapped at Base 1.5.1
- gt_sam_alignment_new at Base 1.5.1
- gt_sam_alignment_pos at Base 1.5.1
- gt_sam_alignment_qualitystring at Base 1.5.1
- gt_sam_alignment_qualitystring_external_buffer at Base 1.5.1
- gt_sam_alignment_read_length at Base 1.5.1
- gt_sam_alignment_ref_num at Base 1.5.1
- gt_sam_alignment_rightmost_pos at Base 1.5.1
- gt_sam_alignment_sequence at Base 1.5.1
- gt_sam_alignment_sequence_external_buffer at Base 1.5.1
- gt_sam_query_name_iterator_class at Base 1.5.1
- gt_sam_query_name_iterator_new at Base 1.5.1
- gt_samfile_encseq_mapping_delete at Base 1.5.1
- gt_samfile_encseq_mapping_new at Base 1.5.1
- gt_samfile_encseq_mapping_seqpos at Base 1.5.1
- gt_samfile_iterator_delete at Base 1.5.1
- gt_samfile_iterator_new at Base 1.5.1
- gt_samfile_iterator_new_bam at Base 1.5.1
- gt_samfile_iterator_new_sam at Base 1.5.1
- gt_samfile_iterator_next at Base 1.5.1
- gt_samfile_iterator_number_of_references at Base 1.5.1
- gt_samfile_iterator_ref at Base 1.5.1
- gt_samfile_iterator_reference_name at Base 1.5.1
- gt_samfile_iterator_reset at Base 1.5.1
- gt_sampling_add_sample at Base 1.5.1
- gt_sampling_delete at Base 1.5.1
- gt_sampling_get_current_elementnum at Base 1.5.1
- gt_sampling_get_next_elementnum at Base 1.5.1
- gt_sampling_get_next_sample at Base 1.5.1
- gt_sampling_get_page at Base 1.5.1
- gt_sampling_get_rate at Base 1.5.1
- gt_sampling_is_next_element_sample at Base 1.5.1
- gt_sampling_is_regular at Base 1.5.1
- gt_sampling_new_page at Base 1.5.1
- gt_sampling_new_regular at Base 1.5.1
- gt_sampling_read at Base 1.5.1
- gt_sampling_write at Base 1.5.1
- gt_sarrquerysubstringmatch at Base 1.5.1
- gt_saveFmindex at Base 1.5.1
- gt_scannedprjkey_add at Base 1.5.1
- gt_scannedprjkey_allkeysdefined at Base 1.5.1
- gt_scannedprjkey_analyze at Base 1.5.1
- gt_scannedprjkeytable_delete at Base 1.5.1
- gt_scannedprjkeytable_new at Base 1.5.1
- gt_score_function_delete at Base 1.5.1
- gt_score_function_get_deletion_score at Base 1.5.1
- gt_score_function_get_insertion_score at Base 1.5.1
- gt_score_function_get_score at Base 1.5.1
- gt_score_function_get_scores at Base 1.5.1
- gt_score_function_new at Base 1.5.1
- gt_score_function_ref at Base 1.5.1
- gt_score_matrix_delete at Base 1.5.1
- gt_score_matrix_get_dimension at Base 1.5.1
- gt_score_matrix_get_score at Base 1.5.1
- gt_score_matrix_get_scores at Base 1.5.1
- gt_score_matrix_new at Base 1.5.1
- gt_score_matrix_new_read at Base 1.5.1
- gt_score_matrix_new_read_protein at Base 1.5.1
- gt_score_matrix_set_score at Base 1.5.1
- gt_score_matrix_show at Base 1.5.1
- gt_script_filter_delete at Base 1.5.1
- gt_script_filter_get_author at Base 1.5.1
- gt_script_filter_get_description at Base 1.5.1
- gt_script_filter_get_email at Base 1.5.1
- gt_script_filter_get_name at Base 1.5.1
- gt_script_filter_get_short_description at Base 1.5.1
- gt_script_filter_get_version at Base 1.5.1
- gt_script_filter_new at Base 1.5.1
- gt_script_filter_new_from_string at Base 1.5.1
- gt_script_filter_ref at Base 1.5.1
- gt_script_filter_run at Base 1.5.1
- gt_script_filter_validate at Base 1.5.1
- gt_script_wrapper_stream_class at Base 1.5.1
- gt_script_wrapper_stream_new at Base 1.5.1
- gt_script_wrapper_visitor_class at Base 1.5.1
- gt_script_wrapper_visitor_new at Base 1.5.1
- gt_searchinbuckets at Base 1.5.1
- gt_searchsinglemer at Base 1.5.1
- gt_select_stream_class at Base 1.5.1
- gt_select_stream_new at Base 1.5.1
- gt_select_stream_set_drophandler at Base 1.5.1
- gt_select_stream_set_single_intron_factor at Base 1.5.1
- gt_select_visitor_class at Base 1.5.1
- gt_select_visitor_get_node at Base 1.5.1
- gt_select_visitor_new at Base 1.5.1
- gt_select_visitor_node_buffer_size at Base 1.5.1
- gt_select_visitor_set_drophandler at Base 1.5.1
- gt_select_visitor_set_single_intron_factor at Base 1.5.1
- gt_seqReaderSetRegisterAutoConsumer at Base 1.5.1
- gt_seqReaderSetRegisterConsumer at Base 1.5.1
- gt_seq_col_cast at Base 1.5.1
- gt_seq_col_class_new at Base 1.5.1
- gt_seq_col_create at Base 1.5.1
- gt_seq_col_delete at Base 1.5.1
- gt_seq_col_get_description at Base 1.5.1
- gt_seq_col_get_md5_fingerprint at Base 1.5.1
- gt_seq_col_get_sequence at Base 1.5.1
- gt_seq_col_get_sequence_length at Base 1.5.1
- gt_seq_col_grep_desc at Base 1.5.1
- gt_seq_col_grep_desc_md5 at Base 1.5.1
- gt_seq_col_grep_desc_sequence_length at Base 1.5.1
- gt_seq_col_md5_to_description at Base 1.5.1
- gt_seq_col_md5_to_seq at Base 1.5.1
- gt_seq_col_md5_to_sequence_length at Base 1.5.1
- gt_seq_col_num_of_files at Base 1.5.1
- gt_seq_col_num_of_seqs at Base 1.5.1
- gt_seq_delete at Base 1.5.1
- gt_seq_get_alphabet at Base 1.5.1
- gt_seq_get_description at Base 1.5.1
- gt_seq_get_encoded at Base 1.5.1
- gt_seq_get_orig at Base 1.5.1
- gt_seq_info_cache_add at Base 1.5.1
- gt_seq_info_cache_delete at Base 1.5.1
- gt_seq_info_cache_get at Base 1.5.1
- gt_seq_info_cache_new at Base 1.5.1
- gt_seq_iterator_cast at Base 1.5.1
- gt_seq_iterator_class_new at Base 1.5.1
- gt_seq_iterator_colorspace_fastq_new at Base 1.5.1
- gt_seq_iterator_create at Base 1.5.1
- gt_seq_iterator_delete at Base 1.5.1
- gt_seq_iterator_fastq_class at Base 1.5.1
- gt_seq_iterator_fastq_delete at Base 1.5.1
- gt_seq_iterator_fastq_get_file_index at Base 1.5.1
- gt_seq_iterator_fastq_get_lastspeciallength at Base 1.5.1
- gt_seq_iterator_fastq_getcurrentcounter at Base 1.5.1
- gt_seq_iterator_fastq_new at Base 1.5.1
- gt_seq_iterator_fastq_next at Base 1.5.1
- gt_seq_iterator_fastq_relax_check_of_quality_description at Base 1.5.1
- gt_seq_iterator_fastq_set_chardisttab at Base 1.5.1
- gt_seq_iterator_fastq_set_quality_buffer at Base 1.5.1
- gt_seq_iterator_fastq_set_symbolmap at Base 1.5.1
- gt_seq_iterator_getcurrentcounter at Base 1.5.1
- gt_seq_iterator_has_qualities at Base 1.5.1
- gt_seq_iterator_next at Base 1.5.1
- gt_seq_iterator_sequence_buffer_class at Base 1.5.1
- gt_seq_iterator_sequence_buffer_new at Base 1.5.1
- gt_seq_iterator_sequence_buffer_new_with_buffer at Base 1.5.1
- gt_seq_iterator_set_quality_buffer at Base 1.5.1
- gt_seq_iterator_set_sequence_output at Base 1.5.1
- gt_seq_iterator_set_symbolmap at Base 1.5.1
- gt_seq_length at Base 1.5.1
- gt_seq_new at Base 1.5.1
- gt_seq_new_own at Base 1.5.1
- gt_seq_set_description at Base 1.5.1
- gt_seq_set_description_own at Base 1.5.1
- gt_seqabstract_delete at Base 1.5.1
- gt_seqabstract_encoded_char at Base 1.5.1
- gt_seqabstract_lcp at Base 1.5.1
- gt_seqabstract_length_get at Base 1.5.1
- gt_seqabstract_new_empty at Base 1.5.1
- gt_seqabstract_new_encseq at Base 1.5.1
- gt_seqabstract_new_ptr at Base 1.5.1
- gt_seqabstract_reinit_encseq at Base 1.5.1
- gt_seqabstract_reinit_ptr at Base 1.5.1
- gt_seqid2file_info_delete at Base 1.5.1
- gt_seqid2file_info_new at Base 1.5.1
- gt_seqid2file_option_used at Base 1.5.1
- gt_seqid2file_region_mapping_new at Base 1.5.1
- gt_seqid2file_register_options at Base 1.5.1
- gt_seqid2file_register_options_ext at Base 1.5.1
- gt_seqid2seqnum_mapping_delete at Base 1.5.1
- gt_seqid2seqnum_mapping_map at Base 1.5.1
- gt_seqid2seqnum_mapping_new_bioseq at Base 1.5.1
- gt_seqid2seqnum_mapping_new_seqcol at Base 1.5.1
- gt_seqnumrelpos_decode_pos at Base 1.5.1
- gt_seqnumrelpos_decode_relpos at Base 1.5.1
- gt_seqnumrelpos_decode_seqnum at Base 1.5.1
- gt_seqnumrelpos_delete at Base 1.5.1
- gt_seqnumrelpos_encode at Base 1.5.1
- gt_seqnumrelpos_new at Base 1.5.1
- gt_seqpos_classifier_delete at Base 1.5.1
- gt_seqpos_classifier_new at Base 1.5.1
- gt_seqpos_classifier_nof_features_found at Base 1.5.1
- gt_seqpos_classifier_position_is_inside_feature at Base 1.5.1
- gt_sequence_buffer_advance at Base 1.5.1
- gt_sequence_buffer_cast at Base 1.5.1
- gt_sequence_buffer_create at Base 1.5.1
- gt_sequence_buffer_delete at Base 1.5.1
- gt_sequence_buffer_embl_class at Base 1.5.1
- gt_sequence_buffer_embl_guess at Base 1.5.1
- gt_sequence_buffer_embl_new at Base 1.5.1
- gt_sequence_buffer_fasta_class at Base 1.5.1
- gt_sequence_buffer_fasta_guess at Base 1.5.1
- gt_sequence_buffer_fasta_new at Base 1.5.1
- gt_sequence_buffer_fastq_class at Base 1.5.1
- gt_sequence_buffer_fastq_guess at Base 1.5.1
- gt_sequence_buffer_fastq_new at Base 1.5.1
- gt_sequence_buffer_gb_class at Base 1.5.1
- gt_sequence_buffer_gb_guess at Base 1.5.1
- gt_sequence_buffer_gb_new at Base 1.5.1
- gt_sequence_buffer_get_counter at Base 1.5.1
- gt_sequence_buffer_get_file_index at Base 1.5.1
- gt_sequence_buffer_new_guess_type at Base 1.5.1
- gt_sequence_buffer_next at Base 1.5.1
- gt_sequence_buffer_next_with_original at Base 1.5.1
- gt_sequence_buffer_plain_class at Base 1.5.1
- gt_sequence_buffer_plain_free at Base 1.5.1
- gt_sequence_buffer_plain_new at Base 1.5.1
- gt_sequence_buffer_ref at Base 1.5.1
- gt_sequence_buffer_set_chardisttab at Base 1.5.1
- gt_sequence_buffer_set_desc_buffer at Base 1.5.1
- gt_sequence_buffer_set_filelengthtab at Base 1.5.1
- gt_sequence_buffer_set_symbolmap at Base 1.5.1
- gt_sequence_buffer_unit_test at Base 1.5.1
- gt_sequence_node_class at Base 1.5.1
- gt_sequence_node_get_description at Base 1.5.1
- gt_sequence_node_get_sequence at Base 1.5.1
- gt_sequence_node_get_sequence_length at Base 1.5.1
- gt_sequence_node_new at Base 1.5.1
- gt_sfx_multiesa2shulengthdist at Base 1.5.1
- gt_sfx_multiesa2shulengthdist_last at Base 1.5.1
- gt_sfx_multiesashulengthdist_delete at Base 1.5.1
- gt_sfx_multiesashulengthdist_new at Base 1.5.1
- gt_sfx_radixsort_str at Base 1.5.1
- gt_sfxoptions_delete at Base 1.5.1
- gt_shortreadsort_assigntableoflcpvalues at Base 1.5.1
- gt_shortreadsort_delete at Base 1.5.1
- gt_shortreadsort_firstcodes_sort at Base 1.5.1
- gt_shortreadsort_maxwidth at Base 1.5.1
- gt_shortreadsort_new at Base 1.5.1
- gt_shortreadsort_size at Base 1.5.1
- gt_shortreadsort_sssp_add_unsorted at Base 1.5.1
- gt_shortreadsort_sssp_sort at Base 1.5.1
- gt_shortreadsort_sumofstoredvalues at Base 1.5.1
- gt_showPatterndistribution at Base 1.5.1
- gt_showProfilematrix at Base 1.5.1
- gt_showentiresuftab at Base 1.5.1
- gt_showfrontvalues at Base 1.5.1
- gt_showmaximalprefixlength at Base 1.5.1
- gt_showshortversion at Base 1.5.1
- gt_showtime_disable at Base 1.5.1
- gt_showtime_enable at Base 1.5.1
- gt_showtime_enabled at Base 1.5.1
- gt_shredder_delete at Base 1.5.1
- gt_shredder_new at Base 1.5.1
- gt_shredder_set_overlap at Base 1.5.1
- gt_shredder_set_sample_probability at Base 1.5.1
- gt_shredder_shred at Base 1.5.1
- gt_shu_unit_file_info_read at Base 1.5.1
- gt_shu_unit_info_delete at Base 1.5.1
- gt_shu_unit_info_new at Base 1.5.1
- gt_sig_register_all at Base 1.5.1
- gt_sig_unregister_all at Base 1.5.1
- gt_size_of_sort_workspace at Base 1.5.1
- gt_sketch at Base 1.5.1
- gt_sketch_page at Base 1.5.1
- gt_skfmmstats at Base 1.5.1
- gt_skfmuniqueforward at Base 1.5.1
- gt_snp_annotator_stream_class at Base 1.5.1
- gt_snp_annotator_stream_new at Base 1.5.1
- gt_snp_annotator_visitor_class at Base 1.5.1
- gt_snp_annotator_visitor_new at Base 1.5.1
- gt_sort_stream_class at Base 1.5.1
- gt_sort_stream_new at Base 1.5.1
- gt_sortallbuckets at Base 1.5.1
- gt_sortallsuffixesfromstart at Base 1.5.1
- gt_spacepeak_add at Base 1.5.1
- gt_spacepeak_clean at Base 1.5.1
- gt_spacepeak_free at Base 1.5.1
- gt_spacepeak_get_space_peak at Base 1.5.1
- gt_spacepeak_init at Base 1.5.1
- gt_spacepeak_show_space_peak at Base 1.5.1
- gt_specialcharinfo_read at Base 1.5.1
- gt_specialrangeiterator_delete at Base 1.5.1
- gt_specialrangeiterator_new at Base 1.5.1
- gt_specialrangeiterator_next at Base 1.5.1
- gt_specialrangeiterator_reinit at Base 1.5.1
- gt_specialrangeiterator_reinit_with_startpos at Base 1.5.1
- gt_splice_site_info_stream_class at Base 1.5.1
- gt_splice_site_info_stream_intron_processed at Base 1.5.1
- gt_splice_site_info_stream_new at Base 1.5.1
- gt_splice_site_info_stream_show at Base 1.5.1
- gt_splice_site_info_stream_show_canonical at Base 1.5.1
- gt_splice_site_info_visitor_class at Base 1.5.1
- gt_splice_site_info_visitor_intron_processed at Base 1.5.1
- gt_splice_site_info_visitor_new at Base 1.5.1
- gt_splice_site_info_visitor_show at Base 1.5.1
- gt_splice_site_info_visitor_show_canonical at Base 1.5.1
- gt_splicedseq_add at Base 1.5.1
- gt_splicedseq_delete at Base 1.5.1
- gt_splicedseq_get at Base 1.5.1
- gt_splicedseq_length at Base 1.5.1
- gt_splicedseq_map at Base 1.5.1
- gt_splicedseq_new at Base 1.5.1
- gt_splicedseq_pos_is_border at Base 1.5.1
- gt_splicedseq_reset at Base 1.5.1
- gt_splicedseq_reverse at Base 1.5.1
- gt_splicedseq_unit_test at Base 1.5.1
- gt_splitter_delete at Base 1.5.1
- gt_splitter_get_token at Base 1.5.1
- gt_splitter_get_tokens at Base 1.5.1
- gt_splitter_new at Base 1.5.1
- gt_splitter_reset at Base 1.5.1
- gt_splitter_size at Base 1.5.1
- gt_splitter_split at Base 1.5.1
- gt_splitter_unit_test at Base 1.5.1
- gt_spmfind_eqlen_nof_irr_spm at Base 1.5.1
- gt_spmfind_eqlen_nof_trans_spm at Base 1.5.1
- gt_spmfind_eqlen_process at Base 1.5.1
- gt_spmfind_eqlen_process_end at Base 1.5.1
- gt_spmfind_eqlen_state_delete at Base 1.5.1
- gt_spmfind_eqlen_state_new at Base 1.5.1
- gt_spmfind_varlen_nof_irr_spm at Base 1.5.1
- gt_spmfind_varlen_nof_trans_spm at Base 1.5.1
- gt_spmfind_varlen_process at Base 1.5.1
- gt_spmfind_varlen_process_end at Base 1.5.1
- gt_spmfind_varlen_state_delete at Base 1.5.1
- gt_spmfind_varlen_state_new at Base 1.5.1
- gt_spmlist_parse at Base 1.5.1
- gt_spmlist_parse_ascii_approx at Base 1.5.1
- gt_spmlist_unit_test at Base 1.5.1
- gt_spmlist_write_header_bin32 at Base 1.5.1
- gt_spmlist_write_header_bin64 at Base 1.5.1
- gt_spmproc_a_e at Base 1.5.1
- gt_spmproc_a_show_ascii at Base 1.5.1
- gt_spmproc_a_skip at Base 1.5.1
- gt_spmproc_show_ascii at Base 1.5.1
- gt_spmproc_show_asgq at Base 1.5.1
- gt_spmproc_show_bin32 at Base 1.5.1
- gt_spmproc_show_bin64 at Base 1.5.1
- gt_spmproc_show_count at Base 1.5.1
- gt_spmproc_skip at Base 1.5.1
- gt_spmproc_skip_unit_test at Base 1.5.1
- gt_spmproc_strgraph_add at Base 1.5.1
- gt_spmproc_strgraph_count at Base 1.5.1
- gt_spmproc_strgraph_count_and_save at Base 1.5.1
- gt_spmsk_inl_delete at Base 1.5.1
- gt_spmsk_inl_new at Base 1.5.1
- gt_spmsk_inl_process at Base 1.5.1
- gt_spmsk_inl_process_end at Base 1.5.1
- gt_spmsuftab_delete at Base 1.5.1
- gt_spmsuftab_new at Base 1.5.1
- gt_spmsuftab_partoffset at Base 1.5.1
- gt_spmsuftab_requiredspace at Base 1.5.1
- gt_spmsuftab_usebitsforpositions at Base 1.5.1
- gt_spse_AbstractDfstransformer at Base 1.5.1
- gt_squarededistunit at Base 1.5.1
- gt_sspliced_alignment_add_exon at Base 1.5.1
- gt_sspliced_alignment_compare_ptr at Base 1.5.1
- gt_sspliced_alignment_delete at Base 1.5.1
- gt_sspliced_alignment_genomic_range at Base 1.5.1
- gt_sspliced_alignment_get_exon at Base 1.5.1
- gt_sspliced_alignment_is_forward at Base 1.5.1
- gt_sspliced_alignment_new at Base 1.5.1
- gt_sspliced_alignment_num_of_exons at Base 1.5.1
- gt_sspliced_alignment_parse at Base 1.5.1
- gt_stat_stream_class at Base 1.5.1
- gt_stat_stream_new at Base 1.5.1
- gt_stat_stream_show_stats at Base 1.5.1
- gt_stat_visitor_class at Base 1.5.1
- gt_stat_visitor_new at Base 1.5.1
- gt_stat_visitor_show_stats at Base 1.5.1
- gt_str_append_char at Base 1.5.1
- gt_str_append_cstr at Base 1.5.1
- gt_str_append_cstr_nt at Base 1.5.1
- gt_str_append_double at Base 1.5.1
- gt_str_append_int at Base 1.5.1
- gt_str_append_str at Base 1.5.1
- gt_str_append_uint at Base 1.5.1
- gt_str_append_ulong at Base 1.5.1
- gt_str_array_add at Base 1.5.1
- gt_str_array_add_cstr at Base 1.5.1
- gt_str_array_add_cstr_nt at Base 1.5.1
- gt_str_array_delete at Base 1.5.1
- gt_str_array_get at Base 1.5.1
- gt_str_array_get_str at Base 1.5.1
- gt_str_array_new at Base 1.5.1
- gt_str_array_new_file at Base 1.5.1
- gt_str_array_ref at Base 1.5.1
- gt_str_array_reset at Base 1.5.1
- gt_str_array_set at Base 1.5.1
- gt_str_array_set_cstr at Base 1.5.1
- gt_str_array_set_size at Base 1.5.1
- gt_str_array_size at Base 1.5.1
- gt_str_cache_delete at Base 1.5.1
- gt_str_cache_get at Base 1.5.1
- gt_str_cache_new at Base 1.5.1
- gt_str_clone at Base 1.5.1
- gt_str_cmp at Base 1.5.1
- gt_str_delete at Base 1.5.1
- gt_str_get at Base 1.5.1
- gt_str_get_mem at Base 1.5.1
- gt_str_length at Base 1.5.1
- gt_str_new at Base 1.5.1
- gt_str_new_cstr at Base 1.5.1
- gt_str_read_next_line at Base 1.5.1
- gt_str_read_next_line_generic at Base 1.5.1
- gt_str_ref at Base 1.5.1
- gt_str_reset at Base 1.5.1
- gt_str_set at Base 1.5.1
- gt_str_set_length at Base 1.5.1
- gt_str_unit_test at Base 1.5.1
- gt_strand_get at Base 1.5.1
- gt_strand_join at Base 1.5.1
- gt_strcmp at Base 1.5.1
- gt_strcmpptr at Base 1.5.1
- gt_stream_evaluator_delete at Base 1.5.1
- gt_stream_evaluator_evaluate at Base 1.5.1
- gt_stream_evaluator_new at Base 1.5.1
- gt_stream_evaluator_show at Base 1.5.1
- gt_strgraph__save_large_count at Base 1.5.1
- gt_strgraph_allocate_graph at Base 1.5.1
- gt_strgraph_close_spmlist_file at Base 1.5.1
- gt_strgraph_compact at Base 1.5.1
- gt_strgraph_counts_sum at Base 1.5.1
- gt_strgraph_delete at Base 1.5.1
- gt_strgraph_edges_compare_by_length at Base 1.5.1
- gt_strgraph_largest_count at Base 1.5.1
- gt_strgraph_load_counts at Base 1.5.1
- gt_strgraph_load_spm_from_file at Base 1.5.1
- gt_strgraph_log_space at Base 1.5.1
- gt_strgraph_log_stats at Base 1.5.1
- gt_strgraph_longest_read at Base 1.5.1
- gt_strgraph_new at Base 1.5.1
- gt_strgraph_new_from_file at Base 1.5.1
- gt_strgraph_nofedges at Base 1.5.1
- gt_strgraph_nofreads at Base 1.5.1
- gt_strgraph_nofspm at Base 1.5.1
- gt_strgraph_nofvertices at Base 1.5.1
- gt_strgraph_open_spmlist_file at Base 1.5.1
- gt_strgraph_reddepaths at Base 1.5.1
- gt_strgraph_redpbubbles at Base 1.5.1
- gt_strgraph_redself at Base 1.5.1
- gt_strgraph_redsubmax at Base 1.5.1
- gt_strgraph_redtrans at Base 1.5.1
- gt_strgraph_redwithrc at Base 1.5.1
- gt_strgraph_save_counts at Base 1.5.1
- gt_strgraph_set_encseq at Base 1.5.1
- gt_strgraph_show at Base 1.5.1
- gt_strgraph_show_context at Base 1.5.1
- gt_strgraph_show_counts_distribution at Base 1.5.1
- gt_strgraph_show_edge_lengths_distribution at Base 1.5.1
- gt_strgraph_show_limits at Base 1.5.1
- gt_strgraph_show_limits_debug_log at Base 1.5.1
- gt_strgraph_sort_edges_by_len at Base 1.5.1
- gt_strgraph_spell at Base 1.5.1
- gt_strgraph_unit_test at Base 1.5.1
- gt_string_distri_add at Base 1.5.1
- gt_string_distri_delete at Base 1.5.1
- gt_string_distri_foreach at Base 1.5.1
- gt_string_distri_get at Base 1.5.1
- gt_string_distri_get_prob at Base 1.5.1
- gt_string_distri_new at Base 1.5.1
- gt_string_distri_sub at Base 1.5.1
- gt_string_matching_bmh at Base 1.5.1
- gt_string_matching_brute_force at Base 1.5.1
- gt_string_matching_kmp at Base 1.5.1
- gt_string_matching_shift_and at Base 1.5.1
- gt_string_matching_unit_test at Base 1.5.1
- gt_style_clone at Base 1.5.1
- gt_style_delete at Base 1.5.1
- gt_style_delete_without_state at Base 1.5.1
- gt_style_get_bool at Base 1.5.1
- gt_style_get_bool_with_track at Base 1.5.1
- gt_style_get_color at Base 1.5.1
- gt_style_get_color_with_track at Base 1.5.1
- gt_style_get_num at Base 1.5.1
- gt_style_get_num_with_track at Base 1.5.1
- gt_style_get_str at Base 1.5.1
- gt_style_get_str_with_track at Base 1.5.1
- gt_style_is_unsafe at Base 1.5.1
- gt_style_load_file at Base 1.5.1
- gt_style_load_str at Base 1.5.1
- gt_style_new at Base 1.5.1
- gt_style_new_with_state at Base 1.5.1
- gt_style_ref at Base 1.5.1
- gt_style_reload at Base 1.5.1
- gt_style_safe_mode at Base 1.5.1
- gt_style_set_bool at Base 1.5.1
- gt_style_set_color at Base 1.5.1
- gt_style_set_num at Base 1.5.1
- gt_style_set_num_p at Base 1.5.1
- gt_style_set_str at Base 1.5.1
- gt_style_to_str at Base 1.5.1
- gt_style_unit_test at Base 1.5.1
- gt_style_unsafe_mode at Base 1.5.1
- gt_style_unset at Base 1.5.1
- gt_substriter_delete at Base 1.5.1
- gt_substriter_init at Base 1.5.1
- gt_substriter_new at Base 1.5.1
- gt_substriter_next at Base 1.5.1
- gt_sufbwt2fmindex at Base 1.5.1
- gt_suffixarraySequentialsuffixarrayreader at Base 1.5.1
- gt_suffixarrayfindinterval at Base 1.5.1
- gt_suffixarrayfindmums at Base 1.5.1
- gt_suffixarraymstats at Base 1.5.1
- gt_suffixarrayuniqueforward at Base 1.5.1
- gt_suffixeratoroptions at Base 1.5.1
- gt_suffixsortspace_bucketleftidx_get at Base 1.5.1
- gt_suffixsortspace_bucketleftidx_set at Base 1.5.1
- gt_suffixsortspace_checkorder at Base 1.5.1
- gt_suffixsortspace_delete at Base 1.5.1
- gt_suffixsortspace_export_done at Base 1.5.1
- gt_suffixsortspace_exportptr at Base 1.5.1
- gt_suffixsortspace_get at Base 1.5.1
- gt_suffixsortspace_getdirect at Base 1.5.1
- gt_suffixsortspace_getptr_uint32 at Base 1.5.1
- gt_suffixsortspace_getptr_ulong at Base 1.5.1
- gt_suffixsortspace_longest at Base 1.5.1
- gt_suffixsortspace_new at Base 1.5.1
- gt_suffixsortspace_new_fromfile at Base 1.5.1
- gt_suffixsortspace_nooffsets at Base 1.5.1
- gt_suffixsortspace_partoffset_set at Base 1.5.1
- gt_suffixsortspace_requiredspace at Base 1.5.1
- gt_suffixsortspace_set at Base 1.5.1
- gt_suffixsortspace_setdirect at Base 1.5.1
- gt_suffixsortspace_showrange at Base 1.5.1
- gt_suffixsortspace_sortspace_delete at Base 1.5.1
- gt_suffixsortspace_to_file at Base 1.5.1
- gt_suffixsortspace_ulong_get at Base 1.5.1
- gt_suffixsortspace_updatelongest at Base 1.5.1
- gt_suftabSequentialsuffixarrayreader at Base 1.5.1
- gt_suftab_lightweightcheck at Base 1.5.1
- gt_suftabparts_delete at Base 1.5.1
- gt_suftabparts_fit_memlimit at Base 1.5.1
- gt_suftabparts_largest_width at Base 1.5.1
- gt_suftabparts_largestsizemappedpartwise at Base 1.5.1
- gt_suftabparts_maxindex at Base 1.5.1
- gt_suftabparts_maxindex_last at Base 1.5.1
- gt_suftabparts_minindex at Base 1.5.1
- gt_suftabparts_new at Base 1.5.1
- gt_suftabparts_numofparts at Base 1.5.1
- gt_suftabparts_offset at Base 1.5.1
- gt_suftabparts_rc_delete at Base 1.5.1
- gt_suftabparts_rc_fit_memlimit at Base 1.5.1
- gt_suftabparts_rc_largest_width at Base 1.5.1
- gt_suftabparts_rc_largestsizemappedpartwise at Base 1.5.1
- gt_suftabparts_rc_maxindex at Base 1.5.1
- gt_suftabparts_rc_maxindex_last at Base 1.5.1
- gt_suftabparts_rc_minindex at Base 1.5.1
- gt_suftabparts_rc_new at Base 1.5.1
- gt_suftabparts_rc_numofparts at Base 1.5.1
- gt_suftabparts_rc_offset at Base 1.5.1
- gt_suftabparts_rc_showallrecords at Base 1.5.1
- gt_suftabparts_rc_sumofwidth at Base 1.5.1
- gt_suftabparts_rc_variance at Base 1.5.1
- gt_suftabparts_rc_widthofpart at Base 1.5.1
- gt_suftabparts_showallrecords at Base 1.5.1
- gt_suftabparts_sumofwidth at Base 1.5.1
- gt_suftabparts_variance at Base 1.5.1
- gt_suftabparts_widthofpart at Base 1.5.1
- gt_swalign at Base 1.5.1
- gt_symbol at Base 1.5.1
- gt_symbol_clean at Base 1.5.1
- gt_symbol_init at Base 1.5.1
- gt_symbol_unit_test at Base 1.5.1
- gt_symbolstring2fasta at Base 1.5.1
- gt_tag_value_map_add at Base 1.5.1
- gt_tag_value_map_delete at Base 1.5.1
- gt_tag_value_map_example at Base 1.5.1
- gt_tag_value_map_foreach at Base 1.5.1
- gt_tag_value_map_get at Base 1.5.1
- gt_tag_value_map_new at Base 1.5.1
- gt_tag_value_map_remove at Base 1.5.1
- gt_tag_value_map_set at Base 1.5.1
- gt_tag_value_map_show at Base 1.5.1
- gt_tag_value_map_unit_test at Base 1.5.1
- gt_targetbest_select_stream_class at Base 1.5.1
- gt_targetbest_select_stream_new at Base 1.5.1
- gt_test_trieins at Base 1.5.1
- gt_testmaxpairs at Base 1.5.1
- gt_text_width_calculator_cairo_class at Base 1.5.1
- gt_text_width_calculator_cairo_delete at Base 1.5.1
- gt_text_width_calculator_cairo_get_text_width at Base 1.5.1
- gt_text_width_calculator_cairo_new at Base 1.5.1
- gt_text_width_calculator_cast at Base 1.5.1
- gt_text_width_calculator_class_new at Base 1.5.1
- gt_text_width_calculator_create at Base 1.5.1
- gt_text_width_calculator_delete at Base 1.5.1
- gt_text_width_calculator_get_text_width at Base 1.5.1
- gt_text_width_calculator_ref at Base 1.5.1
- gt_text_width_calculator_try_cast at Base 1.5.1
- gt_thread_delete at Base 1.5.1
- gt_thread_new at Base 1.5.1
- gt_tidy_region_node_stream_class at Base 1.5.1
- gt_tidy_region_node_stream_new at Base 1.5.1
- gt_tidy_region_node_visitor_class at Base 1.5.1
- gt_tidy_region_node_visitor_get_node at Base 1.5.1
- gt_tidy_region_node_visitor_new at Base 1.5.1
- gt_tidy_region_node_visitor_node_buffer_size at Base 1.5.1
- gt_timer_delete at Base 1.5.1
- gt_timer_new at Base 1.5.1
- gt_timer_new_with_progress_description at Base 1.5.1
- gt_timer_omit_last_stage at Base 1.5.1
- gt_timer_show at Base 1.5.1
- gt_timer_show_cpu_time_by_progress at Base 1.5.1
- gt_timer_show_formatted at Base 1.5.1
- gt_timer_show_progress at Base 1.5.1
- gt_timer_show_progress_final at Base 1.5.1
- gt_timer_show_progress_formatted at Base 1.5.1
- gt_timer_show_progress_va at Base 1.5.1
- gt_timer_start at Base 1.5.1
- gt_timer_stop at Base 1.5.1
- gt_today at Base 1.5.1
- gt_tokenizer_delete at Base 1.5.1
- gt_tokenizer_get_filename at Base 1.5.1
- gt_tokenizer_get_line_number at Base 1.5.1
- gt_tokenizer_get_token at Base 1.5.1
- gt_tokenizer_has_token at Base 1.5.1
- gt_tokenizer_line_start at Base 1.5.1
- gt_tokenizer_new at Base 1.5.1
- gt_tokenizer_next_token at Base 1.5.1
- gt_tokenizer_skip_comment_lines at Base 1.5.1
- gt_tokenizer_unit_test at Base 1.5.1
- gt_tool_delete at Base 1.5.1
- gt_tool_new at Base 1.5.1
- gt_tool_run at Base 1.5.1
- gt_toolbox_add at Base 1.5.1
- gt_toolbox_add_hidden_tool at Base 1.5.1
- gt_toolbox_add_tool at Base 1.5.1
- gt_toolbox_delete at Base 1.5.1
- gt_toolbox_get at Base 1.5.1
- gt_toolbox_get_tool at Base 1.5.1
- gt_toolbox_has_tool at Base 1.5.1
- gt_toolbox_new at Base 1.5.1
- gt_toolbox_show at Base 1.5.1
- gt_tooldriver at Base 1.5.1
- gt_tooldriver_with_license at Base 1.5.1
- gt_toolinfo_delete at Base 1.5.1
- gt_toolinfo_new at Base 1.5.1
- gt_toolobjdriver at Base 1.5.1
- gt_toolobjdriver_with_license at Base 1.5.1
- gt_trSuftab2BWTSeq at Base 1.5.1
- gt_track_delete at Base 1.5.1
- gt_track_get_height at Base 1.5.1
- gt_track_get_number_of_discarded_blocks at Base 1.5.1
- gt_track_get_title at Base 1.5.1
- gt_track_get_y_index at Base 1.5.1
- gt_track_insert_block at Base 1.5.1
- gt_track_new at Base 1.5.1
- gt_track_set_y_index at Base 1.5.1
- gt_track_sketch at Base 1.5.1
- gt_track_unit_test at Base 1.5.1
- gt_trans_table_delete at Base 1.5.1
- gt_trans_table_description at Base 1.5.1
- gt_trans_table_get_scheme_descriptions at Base 1.5.1
- gt_trans_table_is_start_codon at Base 1.5.1
- gt_trans_table_is_stop_codon at Base 1.5.1
- gt_trans_table_new at Base 1.5.1
- gt_trans_table_new_standard at Base 1.5.1
- gt_trans_table_translate_codon at Base 1.5.1
- gt_trans_table_unit_test at Base 1.5.1
- gt_transcript_bittabs_delete at Base 1.5.1
- gt_transcript_bittabs_get_all at Base 1.5.1
- gt_transcript_bittabs_get_initial at Base 1.5.1
- gt_transcript_bittabs_get_internal at Base 1.5.1
- gt_transcript_bittabs_get_single at Base 1.5.1
- gt_transcript_bittabs_get_terminal at Base 1.5.1
- gt_transcript_bittabs_new at Base 1.5.1
- gt_transcript_counts_delete at Base 1.5.1
- gt_transcript_counts_get_all at Base 1.5.1
- gt_transcript_counts_get_initial at Base 1.5.1
- gt_transcript_counts_get_internal at Base 1.5.1
- gt_transcript_counts_get_single at Base 1.5.1
- gt_transcript_counts_get_terminal at Base 1.5.1
- gt_transcript_counts_new at Base 1.5.1
- gt_transcript_counts_set_all at Base 1.5.1
- gt_transcript_counts_set_initial at Base 1.5.1
- gt_transcript_counts_set_internal at Base 1.5.1
- gt_transcript_counts_set_single at Base 1.5.1
- gt_transcript_counts_set_terminal at Base 1.5.1
- gt_transcript_evaluators_add_actuals at Base 1.5.1
- gt_transcript_evaluators_delete at Base 1.5.1
- gt_transcript_evaluators_get_all at Base 1.5.1
- gt_transcript_evaluators_get_initial at Base 1.5.1
- gt_transcript_evaluators_get_internal at Base 1.5.1
- gt_transcript_evaluators_get_single at Base 1.5.1
- gt_transcript_evaluators_get_terminal at Base 1.5.1
- gt_transcript_evaluators_new at Base 1.5.1
- gt_transcript_exons_are_sorted at Base 1.5.1
- gt_transcript_exons_create_bittabs at Base 1.5.1
- gt_transcript_exons_delete at Base 1.5.1
- gt_transcript_exons_get_all at Base 1.5.1
- gt_transcript_exons_get_initial at Base 1.5.1
- gt_transcript_exons_get_internal at Base 1.5.1
- gt_transcript_exons_get_single at Base 1.5.1
- gt_transcript_exons_get_terminal at Base 1.5.1
- gt_transcript_exons_new at Base 1.5.1
- gt_transcript_exons_sort at Base 1.5.1
- gt_transcript_exons_uniq_in_place_count at Base 1.5.1
- gt_transcript_used_exons_delete at Base 1.5.1
- gt_transcript_used_exons_get_all at Base 1.5.1
- gt_transcript_used_exons_get_initial at Base 1.5.1
- gt_transcript_used_exons_get_internal at Base 1.5.1
- gt_transcript_used_exons_get_single at Base 1.5.1
- gt_transcript_used_exons_get_terminal at Base 1.5.1
- gt_transcript_used_exons_new at Base 1.5.1
- gt_translateSuftab2BWT at Base 1.5.1
- gt_translateSuftab2BWTSuffixsortspace at Base 1.5.1
- gt_translator_delete at Base 1.5.1
- gt_translator_find_codon at Base 1.5.1
- gt_translator_find_startcodon at Base 1.5.1
- gt_translator_find_stopcodon at Base 1.5.1
- gt_translator_new at Base 1.5.1
- gt_translator_new_with_table at Base 1.5.1
- gt_translator_next at Base 1.5.1
- gt_translator_next_with_start at Base 1.5.1
- gt_translator_reset at Base 1.5.1
- gt_translator_set_codon_iterator at Base 1.5.1
- gt_translator_set_translation_table at Base 1.5.1
- gt_translator_unit_test at Base 1.5.1
- gt_turningwheel_delete at Base 1.5.1
- gt_turningwheel_minchanged at Base 1.5.1
- gt_turningwheel_new at Base 1.5.1
- gt_turningwheel_next at Base 1.5.1
- gt_turningwheel_output at Base 1.5.1
- gt_turningwheel_size at Base 1.5.1
- gt_twobitenc_editor_delete at Base 1.5.1
- gt_twobitenc_editor_edit at Base 1.5.1
- gt_twobitenc_editor_new at Base 1.5.1
- gt_type_checker_builtin_class at Base 1.5.1
- gt_type_checker_builtin_new at Base 1.5.1
- gt_type_checker_cast at Base 1.5.1
- gt_type_checker_create at Base 1.5.1
- gt_type_checker_delete at Base 1.5.1
- gt_type_checker_description at Base 1.5.1
- gt_type_checker_is_partof at Base 1.5.1
- gt_type_checker_is_valid at Base 1.5.1
- gt_type_checker_obo_class at Base 1.5.1
- gt_type_checker_obo_new at Base 1.5.1
- gt_type_checker_ref at Base 1.5.1
- gt_type_graph_add_stanza at Base 1.5.1
- gt_type_graph_delete at Base 1.5.1
- gt_type_graph_is_partof at Base 1.5.1
- gt_type_graph_new at Base 1.5.1
- gt_type_node_add_is_a_vertex at Base 1.5.1
- gt_type_node_delete at Base 1.5.1
- gt_type_node_has_parent at Base 1.5.1
- gt_type_node_is_a_add at Base 1.5.1
- gt_type_node_is_a_get at Base 1.5.1
- gt_type_node_is_a_size at Base 1.5.1
- gt_type_node_new at Base 1.5.1
- gt_type_node_num at Base 1.5.1
- gt_type_node_part_of_add at Base 1.5.1
- gt_type_node_part_of_get at Base 1.5.1
- gt_type_node_part_of_size at Base 1.5.1
- gt_typecheck_info_create_type_checker at Base 1.5.1
- gt_typecheck_info_delete at Base 1.5.1
- gt_typecheck_info_new at Base 1.5.1
- gt_typecheck_info_option_used at Base 1.5.1
- gt_typecheck_info_register_options at Base 1.5.1
- gt_tyr_occratio_func at Base 1.5.1
- gt_tyrbckinfo_delete at Base 1.5.1
- gt_tyrbckinfo_new at Base 1.5.1
- gt_tyrcountinfo_delete at Base 1.5.1
- gt_tyrcountinfo_get at Base 1.5.1
- gt_tyrcountinfo_new at Base 1.5.1
- gt_tyrindex_alphasize at Base 1.5.1
- gt_tyrindex_binmersearch at Base 1.5.1
- gt_tyrindex_check at Base 1.5.1
- gt_tyrindex_delete at Base 1.5.1
- gt_tyrindex_isempty at Base 1.5.1
- gt_tyrindex_lastmer at Base 1.5.1
- gt_tyrindex_merbytes at Base 1.5.1
- gt_tyrindex_mersize at Base 1.5.1
- gt_tyrindex_mertable at Base 1.5.1
- gt_tyrindex_new at Base 1.5.1
- gt_tyrindex_ptr2number at Base 1.5.1
- gt_tyrindex_show at Base 1.5.1
- gt_tyrsearch at Base 1.5.1
- gt_uint32_data_hash at Base 1.5.1
- gt_uint64hashtable_countsum_get at Base 1.5.1
- gt_uint64hashtable_delete at Base 1.5.1
- gt_uint64hashtable_insertionindex at Base 1.5.1
- gt_uint64hashtable_new at Base 1.5.1
- gt_uint64hashtable_partialsums at Base 1.5.1
- gt_uint64hashtable_search at Base 1.5.1
- gt_uint64hashtable_unit_test at Base 1.5.1
- gt_union_find_delete at Base 1.5.1
- gt_union_find_find at Base 1.5.1
- gt_union_find_new at Base 1.5.1
- gt_union_find_union at Base 1.5.1
- gt_union_find_unit_test at Base 1.5.1
- gt_uniq_stream_class at Base 1.5.1
- gt_uniq_stream_new at Base 1.5.1
- gt_unit_test_run at Base 1.5.1
- gt_updateSequentialsuffixarrayreaderfromRAM at Base 1.5.1
- gt_verifymappedstr at Base 1.5.1
- gt_version_check at Base 1.5.1
- gt_versionfunc at Base 1.5.1
- gt_visitor_stream_class at Base 1.5.1
- gt_visitor_stream_new at Base 1.5.1
- gt_voidpackedfindfirstmatchconvert at Base 1.5.1
- gt_voidpackedindex_totallength_get at Base 1.5.1
- gt_voidpackedindexmstatsforward at Base 1.5.1
- gt_voidpackedindexuniqueforward at Base 1.5.1
- gt_warning at Base 1.5.1
- gt_warning_default_handler at Base 1.5.1
- gt_warning_disable at Base 1.5.1
- gt_warning_get_data at Base 1.5.1
- gt_warning_get_handler at Base 1.5.1
- gt_warning_set_handler at Base 1.5.1
- gt_whatisthemaximalprefixlength at Base 1.5.1
- gt_windowiterator_delete at Base 1.5.1
- gt_windowiterator_new at Base 1.5.1
- gt_windowiterator_next at Base 1.5.1
- gt_wrapCharatpos at Base 1.5.1
- gt_xatexit at Base 1.5.1
- gt_xbzfgetc at Base 1.5.1
- gt_xbzfputc at Base 1.5.1
- gt_xbzfputs at Base 1.5.1
- gt_xbzopen at Base 1.5.1
- gt_xbzread at Base 1.5.1
- gt_xbzrewind at Base 1.5.1
- gt_xbzwrite at Base 1.5.1
- gt_xclose at Base 1.5.1
- gt_xdrop_resources_delete at Base 1.5.1
- gt_xdrop_resources_new at Base 1.5.1
- gt_xfclose at Base 1.5.1
- gt_xfdopen at Base 1.5.1
- gt_xfflush at Base 1.5.1
- gt_xfgetc at Base 1.5.1
- gt_xfgetpos at Base 1.5.1
- gt_xfgets at Base 1.5.1
- gt_xfile_cmp at Base 1.5.1
- gt_xflock_exclusive at Base 1.5.1
- gt_xflock_shared at Base 1.5.1
- gt_xflock_unlock at Base 1.5.1
- gt_xfopen at Base 1.5.1
- gt_xfputc at Base 1.5.1
- gt_xfputs at Base 1.5.1
- gt_xfread at Base 1.5.1
- gt_xfseek at Base 1.5.1
- gt_xfsetpos at Base 1.5.1
- gt_xfstat at Base 1.5.1
- gt_xfwrite at Base 1.5.1
- gt_xgetrusage at Base 1.5.1
- gt_xglob at Base 1.5.1
- gt_xgzclose at Base 1.5.1
- gt_xgzfgetc at Base 1.5.1
- gt_xgzfputc at Base 1.5.1
- gt_xgzfputs at Base 1.5.1
- gt_xgzopen at Base 1.5.1
- gt_xgzread at Base 1.5.1
- gt_xgzrewind at Base 1.5.1
- gt_xgzwrite at Base 1.5.1
- gt_xmkdir at Base 1.5.1
- gt_xmkstemp at Base 1.5.1
- gt_xmmap at Base 1.5.1
- gt_xmunmap at Base 1.5.1
- gt_xopen at Base 1.5.1
- gt_xputchar at Base 1.5.1
- gt_xputs at Base 1.5.1
- gt_xraise at Base 1.5.1
- gt_xremove at Base 1.5.1
- gt_xsignal at Base 1.5.1
- gt_xstat at Base 1.5.1
- gt_xtime at Base 1.5.1
- gt_xtmpfp_generic_func at Base 1.5.1
- gt_xungetc at Base 1.5.1
- gt_xunlink at Base 1.5.1
- gt_xvfprintf at Base 1.5.1
- gt_xvsnprintf at Base 1.5.1
- gt_xwrite at Base 1.5.1
- gt_ya_rand_clean at Base 1.5.1
- gt_ya_rand_init at Base 1.5.1
- gt_ya_random at Base 1.5.1
- gth_ags_acceptor_site_prob at Base 1.5.1
- gth_ags_acceptor_site_range at Base 1.5.1
- gth_ags_delete at Base 1.5.1
- gth_ags_donor_site_prob at Base 1.5.1
- gth_ags_donor_site_range at Base 1.5.1
- gth_ags_filenum at Base 1.5.1
- gth_ags_genomic_offset at Base 1.5.1
- gth_ags_genomic_strand at Base 1.5.1
- gth_ags_get_exon at Base 1.5.1
- gth_ags_get_gen_id at Base 1.5.1
- gth_ags_is_forward at Base 1.5.1
- gth_ags_new at Base 1.5.1
- gth_ags_num_of_exons at Base 1.5.1
- gth_ags_total_length at Base 1.5.1
- gth_align_dna at Base 1.5.1
- gth_align_dna_simple at Base 1.5.1
- gth_align_protein at Base 1.5.1
- gth_backtrace_path_add_deletion at Base 1.5.1
- gth_backtrace_path_add_deletion_with_1_gap at Base 1.5.1
- gth_backtrace_path_add_deletion_with_2_gaps at Base 1.5.1
- gth_backtrace_path_add_dummy at Base 1.5.1
- gth_backtrace_path_add_eop at Base 1.5.1
- gth_backtrace_path_add_insertion at Base 1.5.1
- gth_backtrace_path_add_intron at Base 1.5.1
- gth_backtrace_path_add_intron_with_1_base_left at Base 1.5.1
- gth_backtrace_path_add_intron_with_2_bases_left at Base 1.5.1
- gth_backtrace_path_add_match at Base 1.5.1
- gth_backtrace_path_add_mismatch at Base 1.5.1
- gth_backtrace_path_add_mismatch_with_1_gap at Base 1.5.1
- gth_backtrace_path_add_mismatch_with_2_gaps at Base 1.5.1
- gth_backtrace_path_alphatype at Base 1.5.1
- gth_backtrace_path_append at Base 1.5.1
- gth_backtrace_path_contain_dummy at Base 1.5.1
- gth_backtrace_path_contains_no_zero_base_exons at Base 1.5.1
- gth_backtrace_path_cutoff_end at Base 1.5.1
- gth_backtrace_path_cutoff_start at Base 1.5.1
- gth_backtrace_path_cutoff_walked_path at Base 1.5.1
- gth_backtrace_path_delete at Base 1.5.1
- gth_backtrace_path_determine_cutoffs at Base 1.5.1
- gth_backtrace_path_ensure_length_1_before_introns at Base 1.5.1
- gth_backtrace_path_eopcutoff_end at Base 1.5.1
- gth_backtrace_path_eopcutoff_start at Base 1.5.1
- gth_backtrace_path_gen_dp_length at Base 1.5.1
- gth_backtrace_path_gen_dp_start at Base 1.5.1
- gth_backtrace_path_genomiccutoff_end at Base 1.5.1
- gth_backtrace_path_genomiccutoff_start at Base 1.5.1
- gth_backtrace_path_get at Base 1.5.1
- gth_backtrace_path_indelcount at Base 1.5.1
- gth_backtrace_path_is_valid at Base 1.5.1
- gth_backtrace_path_last_is_intron at Base 1.5.1
- gth_backtrace_path_length at Base 1.5.1
- gth_backtrace_path_new at Base 1.5.1
- gth_backtrace_path_prepend at Base 1.5.1
- gth_backtrace_path_ref_dp_length at Base 1.5.1
- gth_backtrace_path_referencecutoff_end at Base 1.5.1
- gth_backtrace_path_referencecutoff_start at Base 1.5.1
- gth_backtrace_path_remove_zero_base_exons at Base 1.5.1
- gth_backtrace_path_reset at Base 1.5.1
- gth_backtrace_path_reverse at Base 1.5.1
- gth_backtrace_path_set_alphatype at Base 1.5.1
- gth_backtrace_path_set_cutoffs_end at Base 1.5.1
- gth_backtrace_path_set_cutoffs_start at Base 1.5.1
- gth_backtrace_path_set_dummy at Base 1.5.1
- gth_backtrace_path_set_gen_dp_length at Base 1.5.1
- gth_backtrace_path_set_gen_dp_start at Base 1.5.1
- gth_backtrace_path_set_ref_dp_length at Base 1.5.1
- gth_backtrace_path_show at Base 1.5.1
- gth_backtrace_path_show_complete at Base 1.5.1
- gth_backtrace_path_sizeof at Base 1.5.1
- gth_bssm_param_delete at Base 1.5.1
- gth_bssm_param_echo at Base 1.5.1
- gth_bssm_param_extract at Base 1.5.1
- gth_bssm_param_is_seven_class at Base 1.5.1
- gth_bssm_param_load at Base 1.5.1
- gth_bssm_param_new at Base 1.5.1
- gth_bssm_param_parameterize at Base 1.5.1
- gth_bssm_param_save at Base 1.5.1
- gth_bssm_param_show_info at Base 1.5.1
- gth_build_AGS_from_assembly at Base 1.5.1
- gth_build_sa_collection at Base 1.5.1
- gth_call_info_delete at Base 1.5.1
- gth_call_info_new at Base 1.5.1
- gth_chain_collection_add at Base 1.5.1
- gth_chain_collection_delete at Base 1.5.1
- gth_chain_collection_get at Base 1.5.1
- gth_chain_collection_new at Base 1.5.1
- gth_chain_collection_size at Base 1.5.1
- gth_chain_collection_sort at Base 1.5.1
- gth_chain_contract at Base 1.5.1
- gth_chain_copy at Base 1.5.1
- gth_chain_delete at Base 1.5.1
- gth_chain_extend_borders at Base 1.5.1
- gth_chain_new at Base 1.5.1
- gth_chain_shorten_introns at Base 1.5.1
- gth_chaining at Base 1.5.1
- gth_compute_scores at Base 1.5.1
- gth_desc_cache_delete at Base 1.5.1
- gth_desc_cache_get at Base 1.5.1
- gth_desc_cache_new at Base 1.5.1
- gth_dp_options_core_clone at Base 1.5.1
- gth_dp_options_core_delete at Base 1.5.1
- gth_dp_options_core_new at Base 1.5.1
- gth_dp_options_est_clone at Base 1.5.1
- gth_dp_options_est_delete at Base 1.5.1
- gth_dp_options_est_new at Base 1.5.1
- gth_dp_options_postpro_delete at Base 1.5.1
- gth_dp_options_postpro_new at Base 1.5.1
- gth_dp_param_delete at Base 1.5.1
- gth_dp_param_new at Base 1.5.1
- gth_dp_param_new_with_range at Base 1.5.1
- gth_dp_scores_protein_delete at Base 1.5.1
- gth_dp_scores_protein_new at Base 1.5.1
- gth_get_time at Base 1.5.1
- gth_gff3_pgl_visitor_class at Base 1.5.1
- gth_gff3_pgl_visitor_new at Base 1.5.1
- gth_gff3_sa_visitor_class at Base 1.5.1
- gth_gff3_sa_visitor_new at Base 1.5.1
- gth_indent at Base 1.5.1
- gth_input_add_cdna_file at Base 1.5.1
- gth_input_add_genomic_file at Base 1.5.1
- gth_input_add_protein_file at Base 1.5.1
- gth_input_add_reference_file at Base 1.5.1
- gth_input_both at Base 1.5.1
- gth_input_bssmfile at Base 1.5.1
- gth_input_bssmfilename at Base 1.5.1
- gth_input_current_gen_alphabet at Base 1.5.1
- gth_input_current_gen_seq_con at Base 1.5.1
- gth_input_current_gen_seq_orig at Base 1.5.1
- gth_input_current_gen_seq_orig_rc at Base 1.5.1
- gth_input_current_gen_seq_tran at Base 1.5.1
- gth_input_current_gen_seq_tran_rc at Base 1.5.1
- gth_input_current_ref_alphabet at Base 1.5.1
- gth_input_current_ref_seq_con at Base 1.5.1
- gth_input_current_ref_seq_orig at Base 1.5.1
- gth_input_current_ref_seq_orig_rc at Base 1.5.1
- gth_input_current_ref_seq_tran at Base 1.5.1
- gth_input_current_ref_seq_tran_rc at Base 1.5.1
- gth_input_delete_complete at Base 1.5.1
- gth_input_delete_current at Base 1.5.1
- gth_input_determine_genomic_file_index at Base 1.5.1
- gth_input_determine_reference_file_index at Base 1.5.1
- gth_input_echo_genomic_description at Base 1.5.1
- gth_input_echo_reference_description at Base 1.5.1
- gth_input_echo_reference_sequence at Base 1.5.1
- gth_input_forward at Base 1.5.1
- gth_input_genomic_file_total_length at Base 1.5.1
- gth_input_genomic_substring_from at Base 1.5.1
- gth_input_genomic_substring_to at Base 1.5.1
- gth_input_genomicfrompos_ptr at Base 1.5.1
- gth_input_genomictopos_ptr at Base 1.5.1
- gth_input_genomicwidth_ptr at Base 1.5.1
- gth_input_get_alphatype at Base 1.5.1
- gth_input_get_genomic_description at Base 1.5.1
- gth_input_get_genomic_filename at Base 1.5.1
- gth_input_get_genomic_range at Base 1.5.1
- gth_input_get_reference_filename at Base 1.5.1
- gth_input_get_reference_range at Base 1.5.1
- gth_input_get_relative_genomic_range at Base 1.5.1
- gth_input_load_genomic_file_func at Base 1.5.1
- gth_input_load_reference_file_func at Base 1.5.1
- gth_input_load_scorematrix at Base 1.5.1
- gth_input_make_indices at Base 1.5.1
- gth_input_md5ids at Base 1.5.1
- gth_input_new at Base 1.5.1
- gth_input_num_of_gen_files at Base 1.5.1
- gth_input_num_of_gen_seqs at Base 1.5.1
- gth_input_num_of_ref_files at Base 1.5.1
- gth_input_num_of_ref_seqs at Base 1.5.1
- gth_input_original_genomic_sequence at Base 1.5.1
- gth_input_overall_alphatype at Base 1.5.1
- gth_input_preprocess at Base 1.5.1
- gth_input_proteinsmap at Base 1.5.1
- gth_input_ref_file_is_dna at Base 1.5.1
- gth_input_reverse at Base 1.5.1
- gth_input_save_gen_desc at Base 1.5.1
- gth_input_save_gen_id at Base 1.5.1
- gth_input_save_gen_identifier at Base 1.5.1
- gth_input_save_gen_md5 at Base 1.5.1
- gth_input_save_ref_desc at Base 1.5.1
- gth_input_save_ref_id at Base 1.5.1
- gth_input_save_ref_md5 at Base 1.5.1
- gth_input_score_matrix at Base 1.5.1
- gth_input_score_matrix_alpha at Base 1.5.1
- gth_input_set_and_check_substring_spec at Base 1.5.1
- gth_input_set_forward_only at Base 1.5.1
- gth_input_set_reverse_only at Base 1.5.1
- gth_input_use_substring_spec at Base 1.5.1
- gth_intermediate_output_is_correct at Base 1.5.1
- gth_match_processor at Base 1.5.1
- gth_matches_are_equal at Base 1.5.1
- gth_md5_cache_delete at Base 1.5.1
- gth_md5_cache_get at Base 1.5.1
- gth_md5_cache_new at Base 1.5.1
- gth_parse_options at Base 1.5.1
- gth_path_matrix_delete at Base 1.5.1
- gth_path_matrix_new at Base 1.5.1
- gth_path_matrix_set_max_path at Base 1.5.1
- gth_path_matrix_show at Base 1.5.1
- gth_path_walker_actual_eops at Base 1.5.1
- gth_path_walker_delete at Base 1.5.1
- gth_path_walker_eop_distance at Base 1.5.1
- gth_path_walker_gen_distance at Base 1.5.1
- gth_path_walker_has_next at Base 1.5.1
- gth_path_walker_is_forward at Base 1.5.1
- gth_path_walker_new at Base 1.5.1
- gth_path_walker_next at Base 1.5.1
- gth_path_walker_ref_distance at Base 1.5.1
- gth_path_walker_show at Base 1.5.1
- gth_path_walker_steps_in_current_eop at Base 1.5.1
- gth_path_walker_try_steps at Base 1.5.1
- gth_pgl_add_sa at Base 1.5.1
- gth_pgl_collection_delete at Base 1.5.1
- gth_pgl_collection_new at Base 1.5.1
- gth_pgl_collection_set_max_ags at Base 1.5.1
- gth_pgl_collection_size at Base 1.5.1
- gth_pgl_collection_sortAGSs at Base 1.5.1
- gth_pgl_collection_traverse at Base 1.5.1
- gth_pgl_delete at Base 1.5.1
- gth_pgl_filenum at Base 1.5.1
- gth_pgl_gen_id at Base 1.5.1
- gth_pgl_genomic_offset at Base 1.5.1
- gth_pgl_genomic_range at Base 1.5.1
- gth_pgl_genomic_strand at Base 1.5.1
- gth_pgl_get_ags at Base 1.5.1
- gth_pgl_is_forward at Base 1.5.1
- gth_pgl_new at Base 1.5.1
- gth_pgl_num_of_ags at Base 1.5.1
- gth_pgl_seqnum at Base 1.5.1
- gth_pgl_set_max_ags at Base 1.5.1
- gth_pgl_total_length at Base 1.5.1
- gth_pgl_visitor_cast at Base 1.5.1
- gth_pgl_visitor_create at Base 1.5.1
- gth_pgl_visitor_delete at Base 1.5.1
- gth_pgl_visitor_preface at Base 1.5.1
- gth_pgl_visitor_set_region_mapping at Base 1.5.1
- gth_pgl_visitor_trailer at Base 1.5.1
- gth_pgl_visitor_visit_pgl at Base 1.5.1
- gth_proc_sa_collection at Base 1.5.1
- gth_process_intermediate_files at Base 1.5.1
- gth_region_factory_delete at Base 1.5.1
- gth_region_factory_get_seqid at Base 1.5.1
- gth_region_factory_new at Base 1.5.1
- gth_region_factory_offset at Base 1.5.1
- gth_region_factory_save at Base 1.5.1
- gth_run_header_show at Base 1.5.1
- gth_sa_B_is_better_than_A at Base 1.5.1
- gth_sa_acceptor_site_prob at Base 1.5.1
- gth_sa_acceptor_site_range at Base 1.5.1
- gth_sa_add_exon at Base 1.5.1
- gth_sa_add_intron at Base 1.5.1
- gth_sa_alphastring at Base 1.5.1
- gth_sa_alphatype at Base 1.5.1
- gth_sa_append at Base 1.5.1
- gth_sa_average_splice_site_prob at Base 1.5.1
- gth_sa_backtrace_path at Base 1.5.1
- gth_sa_calc_polyAtailpos at Base 1.5.1
- gth_sa_call_number at Base 1.5.1
- gth_sa_cmp_genomic_actual at Base 1.5.1
- gth_sa_cmp_genomic_forward at Base 1.5.1
- gth_sa_collection_contains_sa at Base 1.5.1
- gth_sa_collection_delete at Base 1.5.1
- gth_sa_collection_insert_sa at Base 1.5.1
- gth_sa_collection_iterator_delete at Base 1.5.1
- gth_sa_collection_iterator_new at Base 1.5.1
- gth_sa_collection_iterator_next at Base 1.5.1
- gth_sa_collection_new at Base 1.5.1
- gth_sa_collection_set_md5s at Base 1.5.1
- gth_sa_collection_traverse at Base 1.5.1
- gth_sa_collections_are_equal at Base 1.5.1
- gth_sa_contains_no_zero_base_exons at Base 1.5.1
- gth_sa_coverage at Base 1.5.1
- gth_sa_coverage_char at Base 1.5.1
- gth_sa_cumlen_scored_exons at Base 1.5.1
- gth_sa_cutoff_end at Base 1.5.1
- gth_sa_cutoff_start at Base 1.5.1
- gth_sa_cutoff_walked_path at Base 1.5.1
- gth_sa_delete at Base 1.5.1
- gth_sa_determine_cutoffs at Base 1.5.1
- gth_sa_donor_site_prob at Base 1.5.1
- gth_sa_donor_site_range at Base 1.5.1
- gth_sa_echo_alignment at Base 1.5.1
- gth_sa_echo_genomic_description at Base 1.5.1
- gth_sa_echo_reference_description at Base 1.5.1
- gth_sa_echo_reference_sequence at Base 1.5.1
- gth_sa_eopcutoff_end at Base 1.5.1
- gth_sa_eopcutoff_start at Base 1.5.1
- gth_sa_exon_score at Base 1.5.1
- gth_sa_exons_are_forward_and_consecutive at Base 1.5.1
- gth_sa_filter_delete at Base 1.5.1
- gth_sa_filter_filter_sa at Base 1.5.1
- gth_sa_filter_new at Base 1.5.1
- gth_sa_filter_register_options at Base 1.5.1
- gth_sa_gen_desc at Base 1.5.1
- gth_sa_gen_dp_end at Base 1.5.1
- gth_sa_gen_dp_end_show at Base 1.5.1
- gth_sa_gen_dp_length at Base 1.5.1
- gth_sa_gen_dp_start at Base 1.5.1
- gth_sa_gen_dp_start_show at Base 1.5.1
- gth_sa_gen_file_num at Base 1.5.1
- gth_sa_gen_id at Base 1.5.1
- gth_sa_gen_id_str at Base 1.5.1
- gth_sa_gen_md5 at Base 1.5.1
- gth_sa_gen_offset at Base 1.5.1
- gth_sa_gen_seq_num at Base 1.5.1
- gth_sa_gen_strand at Base 1.5.1
- gth_sa_gen_strand_char at Base 1.5.1
- gth_sa_gen_strand_forward at Base 1.5.1
- gth_sa_gen_total_length at Base 1.5.1
- gth_sa_genomic_cov_is_highest at Base 1.5.1
- gth_sa_genomic_exon_length at Base 1.5.1
- gth_sa_genomiccutoff_end at Base 1.5.1
- gth_sa_genomiccutoff_start at Base 1.5.1
- gth_sa_get_alignment_lines at Base 1.5.1
- gth_sa_get_editoperations at Base 1.5.1
- gth_sa_get_editoperations_length at Base 1.5.1
- gth_sa_get_exon at Base 1.5.1
- gth_sa_get_exons at Base 1.5.1
- gth_sa_get_intron at Base 1.5.1
- gth_sa_gff3_target_attribute at Base 1.5.1
- gth_sa_indelcount at Base 1.5.1
- gth_sa_intron_length at Base 1.5.1
- gth_sa_is_poor at Base 1.5.1
- gth_sa_is_valid at Base 1.5.1
- gth_sa_left_genomic_exon_border at Base 1.5.1
- gth_sa_left_intron_border at Base 1.5.1
- gth_sa_new at Base 1.5.1
- gth_sa_new_and_set at Base 1.5.1
- gth_sa_num_of_exons at Base 1.5.1
- gth_sa_num_of_introns at Base 1.5.1
- gth_sa_polyAtail_start at Base 1.5.1
- gth_sa_polyAtail_stop at Base 1.5.1
- gth_sa_prepend at Base 1.5.1
- gth_sa_range_actual at Base 1.5.1
- gth_sa_range_forward at Base 1.5.1
- gth_sa_ref_desc at Base 1.5.1
- gth_sa_ref_file_num at Base 1.5.1
- gth_sa_ref_id at Base 1.5.1
- gth_sa_ref_id_str at Base 1.5.1
- gth_sa_ref_md5 at Base 1.5.1
- gth_sa_ref_seq_num at Base 1.5.1
- gth_sa_ref_strand_char at Base 1.5.1
- gth_sa_ref_strand_forward at Base 1.5.1
- gth_sa_ref_total_length at Base 1.5.1
- gth_sa_referencecutoff_end at Base 1.5.1
- gth_sa_referencecutoff_start at Base 1.5.1
- gth_sa_remove_zero_base_exons at Base 1.5.1
- gth_sa_right_genomic_exon_border at Base 1.5.1
- gth_sa_right_intron_border at Base 1.5.1
- gth_sa_save_ref_md5 at Base 1.5.1
- gth_sa_score at Base 1.5.1
- gth_sa_set at Base 1.5.1
- gth_sa_set_alphatype at Base 1.5.1
- gth_sa_set_coverage at Base 1.5.1
- gth_sa_set_cumlen_scored_exons at Base 1.5.1
- gth_sa_set_cutoffs_end at Base 1.5.1
- gth_sa_set_cutoffs_start at Base 1.5.1
- gth_sa_set_gen_dp_length at Base 1.5.1
- gth_sa_set_gen_dp_start at Base 1.5.1
- gth_sa_set_gen_file_num at Base 1.5.1
- gth_sa_set_gen_id at Base 1.5.1
- gth_sa_set_gen_offset at Base 1.5.1
- gth_sa_set_gen_seq_num at Base 1.5.1
- gth_sa_set_gen_strand at Base 1.5.1
- gth_sa_set_gen_total_length at Base 1.5.1
- gth_sa_set_highest_cov at Base 1.5.1
- gth_sa_set_polyAtail_start at Base 1.5.1
- gth_sa_set_polyAtail_stop at Base 1.5.1
- gth_sa_set_ref_file_num at Base 1.5.1
- gth_sa_set_ref_id at Base 1.5.1
- gth_sa_set_ref_seq_num at Base 1.5.1
- gth_sa_set_ref_strand at Base 1.5.1
- gth_sa_set_ref_total_length at Base 1.5.1
- gth_sa_set_score at Base 1.5.1
- gth_sa_show at Base 1.5.1
- gth_sa_show_exons at Base 1.5.1
- gth_sa_visitor_cast at Base 1.5.1
- gth_sa_visitor_create at Base 1.5.1
- gth_sa_visitor_delete at Base 1.5.1
- gth_sa_visitor_preface at Base 1.5.1
- gth_sa_visitor_trailer at Base 1.5.1
- gth_sa_visitor_visit_sa at Base 1.5.1
- gth_sas_are_equal at Base 1.5.1
- gth_save_chain at Base 1.5.1
- gth_seq_con_cast at Base 1.5.1
- gth_seq_con_class_new at Base 1.5.1
- gth_seq_con_create at Base 1.5.1
- gth_seq_con_delete at Base 1.5.1
- gth_seq_con_demand_orig_seq at Base 1.5.1
- gth_seq_con_echo_description at Base 1.5.1
- gth_seq_con_get_alphabet at Base 1.5.1
- gth_seq_con_get_description at Base 1.5.1
- gth_seq_con_get_length at Base 1.5.1
- gth_seq_con_get_orig_seq at Base 1.5.1
- gth_seq_con_get_orig_seq_rc at Base 1.5.1
- gth_seq_con_get_range at Base 1.5.1
- gth_seq_con_get_relative_range at Base 1.5.1
- gth_seq_con_get_tran_seq at Base 1.5.1
- gth_seq_con_get_tran_seq_rc at Base 1.5.1
- gth_seq_con_num_of_seqs at Base 1.5.1
- gth_seq_con_total_length at Base 1.5.1
- gth_show_on_stdout at Base 1.5.1
- gth_show_on_stdout_vmatch at Base 1.5.1
- gth_similarity_filter at Base 1.5.1
- gth_sortAGSs at Base 1.5.1
- gth_splice_site_model_U12intronmodel_set_usage at Base 1.5.1
- gth_splice_site_model_delete at Base 1.5.1
- gth_splice_site_model_load_bssm at Base 1.5.1
- gth_splice_site_model_new at Base 1.5.1
- gth_splice_site_model_set_U12typedonorprob at Base 1.5.1
- gth_splice_site_model_set_U12typedonorprob_one_mismatch at Base 1.5.1
- gth_spliced_seq_border_length at Base 1.5.1
- gth_spliced_seq_delete at Base 1.5.1
- gth_spliced_seq_new at Base 1.5.1
- gth_spliced_seq_new_with_comments at Base 1.5.1
- gth_spliced_seq_num_of_borders at Base 1.5.1
- gth_spliced_seq_orig_to_spliced_pos at Base 1.5.1
- gth_spliced_seq_pos_is_border at Base 1.5.1
- gth_stat_add_to_matchnumdistri at Base 1.5.1
- gth_stat_add_to_refseqcovdistri at Base 1.5.1
- gth_stat_add_to_sa_alignment_score_distri at Base 1.5.1
- gth_stat_add_to_sa_coverage_distri at Base 1.5.1
- gth_stat_delete at Base 1.5.1
- gth_stat_enable_exondistri at Base 1.5.1
- gth_stat_enable_gthfilestat_mode at Base 1.5.1
- gth_stat_enable_introndistri at Base 1.5.1
- gth_stat_enable_matchnumdistri at Base 1.5.1
- gth_stat_enable_refseqcovdistri at Base 1.5.1
- gth_stat_enable_sa_stats at Base 1.5.1
- gth_stat_get_exondistri at Base 1.5.1
- gth_stat_get_exondistribution at Base 1.5.1
- gth_stat_get_introndistri at Base 1.5.1
- gth_stat_get_introndistribution at Base 1.5.1
- gth_stat_get_matchnumdistri at Base 1.5.1
- gth_stat_get_numofSAs at Base 1.5.1
- gth_stat_get_refseqcovdistri at Base 1.5.1
- gth_stat_increase_numofPGLs_stored at Base 1.5.1
- gth_stat_increase_numofchains at Base 1.5.1
- gth_stat_increase_totalsizeofbacktracematricesinMB at Base 1.5.1
- gth_stat_increment_numofSAs at Base 1.5.1
- gth_stat_increment_numofautointroncutoutcalls at Base 1.5.1
- gth_stat_increment_numofbacktracematrixallocations at Base 1.5.1
- gth_stat_increment_numoffailedDPparameterallocations at Base 1.5.1
- gth_stat_increment_numoffailedmatrixallocations at Base 1.5.1
- gth_stat_increment_numofremovedzerobaseexons at Base 1.5.1
- gth_stat_increment_numofundeterminedSAs at Base 1.5.1
- gth_stat_increment_numofunsuccessfulintroncutoutDPs at Base 1.5.1
- gth_stat_new at Base 1.5.1
- gth_stat_show at Base 1.5.1
- gth_txt_pgl_visitor_class at Base 1.5.1
- gth_txt_pgl_visitor_new at Base 1.5.1
- gth_txt_sa_visitor_class at Base 1.5.1
- gth_txt_sa_visitor_new at Base 1.5.1
- gth_xml_final_sa_visitor_class at Base 1.5.1
- gth_xml_final_sa_visitor_new at Base 1.5.1
- gth_xml_inter_sa_visitor_class at Base 1.5.1
- gth_xml_inter_sa_visitor_new at Base 1.5.1
- gth_xml_inter_sa_visitor_set_outfp at Base 1.5.1
- gth_xml_pgl_visitor_class at Base 1.5.1
- gth_xml_pgl_visitor_new at Base 1.5.1
- gth_xml_show_leader at Base 1.5.1
- gth_xml_show_trailer at Base 1.5.1
- gthcalcSAdistributions at Base 1.5.1
- gthcalcsplicesitescore at Base 1.5.1
- gthclusterSAstoPGLs at Base 1.5.1
- gthfillthethreealignmentlines at Base 1.5.1
- gthfillthetwoalignmentlines at Base 1.5.1
- gthgetcodon at Base 1.5.1
- gthoutput_delete at Base 1.5.1
- gthoutput_new at Base 1.5.1
- gthshowORFs at Base 1.5.1
- gthshowalignmentdna at Base 1.5.1
- gthshowalignmentprotein at Base 1.5.1
- gthtraversealignment at Base 1.5.1
- hashfirstcodes_getencseqkmers_twobitencoding at Base 1.5.1
- kftp_connect at Base 1.5.1
- kftp_connect_file at Base 1.5.1
- kftp_parse_url at Base 1.5.1
- kftp_reconnect at Base 1.5.1
- khttp_connect_file at Base 1.5.1
- khttp_parse_url at Base 1.5.1
- kmemmem at Base 1.5.1
- knet_close at Base 1.5.1
- knet_dopen at Base 1.5.1
- knet_open at Base 1.5.1
- knet_read at Base 1.5.1
- knet_seek at Base 1.5.1
- ksplit_core at Base 1.5.1
- ksprintf at Base 1.5.1
- kstrnstr at Base 1.5.1
- kstrstr at Base 1.5.1
- kstrtok at Base 1.5.1
- mg_codon2amino at Base 1.5.1
- mg_combinedscore at Base 1.5.1
- mg_compute_gene_prediction at Base 1.5.1
- mg_computepath at Base 1.5.1
- mg_outputwriter at Base 1.5.1
- mg_reverse_complement at Base 1.5.1
- mg_xmlparser at Base 1.5.1
- o_hd_tags at Base 1.5.1
- o_pg_tags at Base 1.5.1
- o_rg_tags at Base 1.5.1
- o_sq_tags at Base 1.5.1
- optional_tags at Base 1.5.1
- r_hd_tags at Base 1.5.1
- r_pg_tags at Base 1.5.1
- r_rg_tags at Base 1.5.1
- r_sq_tags at Base 1.5.1
- razf_close at Base 1.5.1
- razf_dopen2 at Base 1.5.1
- razf_dopen at Base 1.5.1
- razf_get_data_size at Base 1.5.1
- razf_jump at Base 1.5.1
- razf_open2 at Base 1.5.1
- razf_open at Base 1.5.1
- razf_read at Base 1.5.1
- razf_seek2 at Base 1.5.1
- razf_seek at Base 1.5.1
- razf_skip at Base 1.5.1
- razf_tell2 at Base 1.5.1
- razf_write at Base 1.5.1
- required_tags at Base 1.5.1
- reset_decoder at Base 1.5.1
- runsuffixerator at Base 1.5.1
- sam_close at Base 1.5.1
- sam_header2key_val at Base 1.5.1
- sam_header2list at Base 1.5.1
- sam_header2tbl at Base 1.5.1
- sam_header2tbl_n at Base 1.5.1
- sam_header_clone at Base 1.5.1
- sam_header_free at Base 1.5.1
- sam_header_merge at Base 1.5.1
- sam_header_parse2 at Base 1.5.1
- sam_header_parse at Base 1.5.1
- sam_header_read2 at Base 1.5.1
- sam_header_read at Base 1.5.1
- sam_header_write at Base 1.5.1
- sam_open at Base 1.5.1
- sam_read1 at Base 1.5.1
- sam_tbl_destroy at Base 1.5.1
- sam_tbl_get at Base 1.5.1
- sam_tbl_size at Base 1.5.1
- samclose at Base 1.5.1
- samfaipath at Base 1.5.1
- samopen at Base 1.5.1
- sampileup at Base 1.5.1
- samread at Base 1.5.1
- samthreads at Base 1.5.1
- samwrite at Base 1.5.1
- storefirstcodes_getencseqkmers_twobitencoding at Base 1.5.1
- storerandomcodes_getencseqkmers_twobitencoding at Base 1.5.1
- streamsuffixarray at Base 1.5.1
- test_mem at Base 1.5.1
- types at Base 1.5.1
- u_rg_tags at Base 1.5.1
- u_sq_tags at Base 1.5.1
- unique_tags at Base 1.5.1
- unit_test_distr_func at Base 1.5.1
Deleted: trunk/packages/genometools/trunk/debian/patches/add-hardening
===================================================================
--- trunk/packages/genometools/trunk/debian/patches/add-hardening 2014-05-15 10:29:08 UTC (rev 16943)
+++ trunk/packages/genometools/trunk/debian/patches/add-hardening 2014-05-15 11:18:52 UTC (rev 16944)
@@ -1,11 +0,0 @@
---- genometools-1.4.1.orig/Makefile
-+++ genometools-1.4.1/Makefile
-@@ -25,6 +25,8 @@
- -I$(CURDIR)/src/external/bzip2-1.0.6 \
- -I$(CURDIR)/src/external/libtecla-1.6.1 \
- -I$(CURDIR)/src/external/samtools-0.1.18
-+#Debian hardening
-+CFLAGS+=`dpkg-buildflags --get CFLAGS` `dpkg-buildflags --get CPPFLAGS`
- # these variables are exported by the configuration script
- ifndef CC
- CC:=gcc
Added: trunk/packages/genometools/trunk/debian/patches/add-libtre
===================================================================
--- trunk/packages/genometools/trunk/debian/patches/add-libtre (rev 0)
+++ trunk/packages/genometools/trunk/debian/patches/add-libtre 2014-05-15 11:18:52 UTC (rev 16944)
@@ -0,0 +1,16 @@
+Description: add soname to linker call in Makefile
+ Upstream Makefile does not build a shared object with soname or version
+ number. This patch adds support for sonames, as well a symlink from
+ the .so to the .so.X file.
+Author: Sascha Steinbiss <steinbiss at zbh.uni-hamburg.de>
+--- a/Makefile
++++ b/Makefile
+@@ -191,7 +191,7 @@
+ # add necessary shared lib dependencies then not building them ourselves
+ ifeq ($(useshared),yes)
+ DEPLIBS:=-lbz2 -lz -lexpat -llua5.1-lpeg -llua5.1 -llua5.1-md5 \
+- -llua5.1-filesystem -llua5.1-des56 -lbam
++ -llua5.1-filesystem -llua5.1-des56 -lbam -ltre
+ else
+ DEPLIBS:=
+ endif
Modified: trunk/packages/genometools/trunk/debian/patches/adding_soname
===================================================================
--- trunk/packages/genometools/trunk/debian/patches/adding_soname 2014-05-15 10:29:08 UTC (rev 16943)
+++ trunk/packages/genometools/trunk/debian/patches/adding_soname 2014-05-15 11:18:52 UTC (rev 16944)
@@ -5,7 +5,7 @@
Author: Sascha Steinbiss <steinbiss at zbh.uni-hamburg.de>
--- a/Makefile
+++ b/Makefile
-@@ -96,6 +96,7 @@
+@@ -102,6 +102,7 @@
SHARED_OBJ_NAME_EXT:=.so
SHARED:=-shared
endif
@@ -13,25 +13,7 @@
# compiled executables
GTMAIN_SRC:=src/gt.c src/gtr.c src/gtt.c src/interactive.c
-@@ -249,7 +250,7 @@
-
- # add necessary shared lib dependencies then not building them ourselves
- ifeq ($(useshared),yes)
-- DEPLIBS:=-lbz2 -lz -lexpat -llua5.1-lpeg -llua5.1 -llua5.1-md5 \
-+ DEPLIBS:=-lm -lbz2 -lz -lexpat -llua5.1-lpeg -llua5.1 -llua5.1-md5 \
- -llua5.1-filesystem -llua5.1-des56 -lbam
- else
- DEPLIBS:=
-@@ -532,7 +533,7 @@
-
- ifdef DESTDIR
- prefix:=$(DESTDIR)$(prefix)
--endif
-+ endif
-
- # allow to set patch program
- patch ?= patch
-@@ -610,8 +611,9 @@
+@@ -540,8 +541,9 @@
$(ADDITIONAL_ZLIBS)
@echo "[link $(@F)]"
@test -d $(@D) || mkdir -p $(@D)
@@ -41,15 +23,15 @@
+ -Wl,-soname,$(notdir $@)$(SONAME_VERSION) $(LIBGENOMETOOLS_OBJ) \
+ -o $@$(SONAME_VERSION) $(GTSHAREDLIB_LIBDEP)
- lib/libtecla.a: $(LIBTECLA_OBJ)
- @echo "[link $(@F)]"
-@@ -950,7 +952,8 @@
- ifdef RANLIB
+ define PROGRAM_template
+ $(1): $(2)
+@@ -880,7 +882,8 @@
$(RANLIB) $(prefix)/lib/libgenometools.a
endif
+ ifneq ($(sharedlib),no)
- cp lib/libgenometools$(SHARED_OBJ_NAME_EXT) $(prefix)/lib
+ cp lib/libgenometools$(SHARED_OBJ_NAME_EXT)$(SONAME_VERSION) $(prefix)/lib
-+ ln -fs $(prefix)/lib/$(SHARED_OBJ_NAME_EXT)$(SONAME_VERSION) $(prefix)/lib/$(SHARED_OBJ_NAME_EXT)
++ ln -fs $(prefix)/lib/libgenometools$(SHARED_OBJ_NAME_EXT)$(SONAME_VERSION) $(prefix)/lib/libgenometools$(SHARED_OBJ_NAME_EXT)
+ endif
@echo '[build config script $(@F)]'
sed -e 's!@CC@!$(CC)!' -e 's!@CFLAGS@!$(EXP_CFLAGS)!' \
- -e 's!@CPPFLAGS@!$(subst ",\\",-I"$(prefix)/include" $(EXP_CPPFLAGS))!' \
Added: trunk/packages/genometools/trunk/debian/patches/fix-exports
===================================================================
--- trunk/packages/genometools/trunk/debian/patches/fix-exports (rev 0)
+++ trunk/packages/genometools/trunk/debian/patches/fix-exports 2014-05-15 11:18:52 UTC (rev 16944)
@@ -0,0 +1,31 @@
+Description: Add missing/renamed function wrappers.
+Author: Sascha Steinbiss <steinbiss at zbh.uni-hamburg.de>
+--- a/src/core/output_file.c
++++ b/src/core/output_file.c
+@@ -113,6 +113,12 @@
+ gt_option_parser_register_hook(op, determine_outfp, ofi);
+ }
+
++/* wrapper for ABI compatibility */
++void gt_output_file_register_options(GtOutputFileInfo *ofi,
++ GtOptionParser *op, GtFile **outfp) {
++ gt_output_file_info_register_options(ofi, op, outfp);
++}
++
+ void gt_output_file_info_delete(GtOutputFileInfo *ofi)
+ {
+ if (!ofi) return;
+--- a/src/core/seq_iterator_fastq.c
++++ b/src/core/seq_iterator_fastq.c
+@@ -492,3 +492,11 @@
+ true,
+ err);
+ }
++
++/* wrapper for ABI compatibility */
++GtSeqIterator* gt_seq_iterator_colorspace_fastq_new(
++ const GtStrArray *filenametab,
++ GtError *err)
++{
++ return gt_seq_iterator_fastq_new_colorspace(filenametab, err);
++}
Modified: trunk/packages/genometools/trunk/debian/patches/libbam-fix
===================================================================
--- trunk/packages/genometools/trunk/debian/patches/libbam-fix 2014-05-15 10:29:08 UTC (rev 16943)
+++ trunk/packages/genometools/trunk/debian/patches/libbam-fix 2014-05-15 11:18:52 UTC (rev 16944)
@@ -5,19 +5,19 @@
--- a/Makefile
+++ b/Makefile
-@@ -251,7 +251,7 @@
+@@ -192,7 +192,7 @@
# add necessary shared lib dependencies then not building them ourselves
ifeq ($(useshared),yes)
- DEPLIBS:=-lm -lbz2 -lz -lexpat -llua5.1-lpeg -llua5.1 -llua5.1-md5 \
-- -llua5.1-filesystem -llua5.1-des56 -lbam
-+ -llua5.1-filesystem -llua5.1-des56
+ DEPLIBS:=-lbz2 -lz -lexpat -llua5.1-lpeg -llua5.1 -llua5.1-md5 \
+- -llua5.1-filesystem -llua5.1-des56 -lbam -ltre
++ -llua5.1-filesystem -llua5.1-des56 -ltre
else
DEPLIBS:=
endif
-@@ -591,6 +591,10 @@
+@@ -521,6 +521,10 @@
@$(RANLIB) $@
endif
-
+
+ifeq ($(useshared),yes)
+ ADDITIONAL_STATIC_DEPS:=/usr/lib/libbam.a
+endif
@@ -25,7 +25,7 @@
lib/libgenometools.a: obj/gt_config.h $(LIBGENOMETOOLS_OBJ)
@echo "[link $(@F)]"
@test -d $(@D) || mkdir -p $(@D)
-@@ -608,12 +612,13 @@
+@@ -538,12 +542,13 @@
lib/libgenometools$(SHARED_OBJ_NAME_EXT): obj/gt_config.h \
$(LIBGENOMETOOLS_OBJ) \
$(ADDITIONAL_SO_DEPS) \
@@ -38,68 +38,63 @@
-Wl,-soname,$(notdir $@)$(SONAME_VERSION) $(LIBGENOMETOOLS_OBJ) \
- -o $@$(SONAME_VERSION) $(GTSHAREDLIB_LIBDEP)
+ -o $@$(SONAME_VERSION) $(GTSHAREDLIB_LIBDEP) $(ADDITIONAL_STATIC_DEPS)
-
- lib/libtecla.a: $(LIBTECLA_OBJ)
- @echo "[link $(@F)]"
-@@ -634,51 +639,61 @@
-
- $(eval $(call PROGRAM_template, bin/skproto, $(SKPROTO_OBJ) \
- lib/libgenometools.a \
-+ $(ADDITIONAL_STATIC_DEPS) \
- $(ADDITIONAL_ZLIBS)))
-
+
+ define PROGRAM_template
+ $(1): $(2)
+@@ -557,46 +562,55 @@
$(eval $(call PROGRAM_template, bin/gt, $(GTMAIN_OBJ) $(TOOLS_OBJ) \
lib/libgenometools.a \
-+ $(ADDITIONAL_STATIC_DEPS) \
$(GTLIBS) \
++ $(ADDITIONAL_STATIC_DEPS) \
$(ADDITIONAL_ZLIBS)))
-
+
$(eval $(call PROGRAM_template, bin/examples/custom_stream, \
obj/src/examples/custom_stream.o \
- lib/libgenometools.a\
+- lib/libgenometools.a\
++ lib/libgenometools.a \
+ $(ADDITIONAL_STATIC_DEPS) \
$(ADDITIONAL_ZLIBS)))
-
+
$(eval $(call PROGRAM_template, bin/examples/gff3sort, \
obj/src/examples/gff3sort.o \
lib/libgenometools.a \
+ $(ADDITIONAL_STATIC_DEPS) \
$(ADDITIONAL_ZLIBS)))
-
+
$(eval $(call PROGRAM_template, bin/examples/gff3validator, \
obj/src/examples/gff3validator.o \
lib/libgenometools.a \
+ $(ADDITIONAL_STATIC_DEPS) \
$(ADDITIONAL_ZLIBS)))
-
+
$(eval $(call PROGRAM_template, bin/examples/noop, \
obj/src/examples/noop.o \
lib/libgenometools.a \
+ $(ADDITIONAL_STATIC_DEPS) \
$(ADDITIONAL_ZLIBS)))
-
+
$(eval $(call PROGRAM_template, bin/examples/sketch_constructed, \
obj/src/examples/sketch_constructed.o \
lib/libgenometools.a \
+ $(ADDITIONAL_STATIC_DEPS) \
$(ADDITIONAL_ZLIBS)))
-
+
$(eval $(call PROGRAM_template, bin/examples/sketch_parsed, \
obj/src/examples/sketch_parsed.o \
lib/libgenometools.a \
+ $(ADDITIONAL_STATIC_DEPS) \
$(ADDITIONAL_ZLIBS)))
-
+
$(eval $(call PROGRAM_template, bin/examples/sketch_parsed_with_ctrack, \
obj/src/examples/sketch_parsed_with_ctrack.o \
lib/libgenometools.a \
+ $(ADDITIONAL_STATIC_DEPS) \
$(ADDITIONAL_ZLIBS)))
-
+
$(eval $(call PROGRAM_template, bin/examples/sketch_parsed_with_ordering, \
obj/src/examples/sketch_parsed_with_ordering.o \
lib/libgenometools.a \
+ $(ADDITIONAL_STATIC_DEPS) \
$(ADDITIONAL_ZLIBS)))
-
+
bin/lua: $(LUAMAIN_OBJ)
Modified: trunk/packages/genometools/trunk/debian/patches/mips-64
===================================================================
--- trunk/packages/genometools/trunk/debian/patches/mips-64 2014-05-15 10:29:08 UTC (rev 16943)
+++ trunk/packages/genometools/trunk/debian/patches/mips-64 2014-05-15 11:18:52 UTC (rev 16944)
@@ -2,22 +2,20 @@
Author: Sascha Steinbiss <steinbiss at zbh.uni-hamburg.de>
--- a/Makefile
+++ b/Makefile
-@@ -371,13 +371,11 @@
+@@ -308,12 +308,10 @@
endif
-
+
ifeq ($(m64),yes)
- ifneq ($(MACHINE),ia64)
- ifneq ($(MACHINE),alpha)
- GT_CFLAGS += -m64
-- HMMER_CFLAGS += -m64
- GT_LDFLAGS += -m64
- SQLITE_CFLAGS += -m64
- endif
+ ifeq (,$(filter $(MACHINE),ia64 alpha mips64 mips64el))
+ GT_CFLAGS += -m64
-+ HMMER_CFLAGS += -m64
+ GT_LDFLAGS += -m64
+ SQLITE_CFLAGS += -m64
endif
endif
-
+
Added: trunk/packages/genometools/trunk/debian/patches/missing-libs
===================================================================
--- trunk/packages/genometools/trunk/debian/patches/missing-libs (rev 0)
+++ trunk/packages/genometools/trunk/debian/patches/missing-libs 2014-05-15 11:18:52 UTC (rev 16944)
@@ -0,0 +1,44 @@
+Description: Fix linking.
+Author: Sascha Steinbiss <steinbiss at zbh.uni-hamburg.de>
+--- a/Makefile
++++ b/Makefile
+@@ -192,7 +192,7 @@
+ # add necessary shared lib dependencies then not building them ourselves
+ ifeq ($(useshared),yes)
+ DEPLIBS:=-lbz2 -lz -lexpat -llua5.1-lpeg -llua5.1 -llua5.1-md5 \
+- -llua5.1-filesystem -llua5.1-des56 -ltre
++ -llua5.1-filesystem -llua5.1-des56 -ltre -lm -lpthread
+ else
+ DEPLIBS:=
+ endif
+@@ -381,19 +381,19 @@
+ LIBGENOMETOOLS_DIRS := $(SQLITE3_DIR) $(LIBGENOMETOOLS_DIRS)
+ GT_CPPFLAGS += -I$(CURDIR)/$(SQLITE3_DIR)
+ OVERRIDELIBS += lib/libsqlite.a
++ ifeq ($(threads),yes)
++ EXP_CPPFLAGS += -DSQLITE_THREADSAFE=1
++ else
++ EXP_CPPFLAGS += -DSQLITE_THREADSAFE=0
++ endif
++ ifneq ($(SYSTEM),Windows)
++ EXP_LDLIBS += -lpthread
++ ifneq ($(SYSTEM),FreeBSD)
++ EXP_LDLIBS += -ldl
++ endif
++ endif
+ endif
+ EXP_CPPFLAGS += -DHAVE_SQLITE
+- ifeq ($(threads),yes)
+- EXP_CPPFLAGS += -DSQLITE_THREADSAFE=1
+- else
+- EXP_CPPFLAGS += -DSQLITE_THREADSAFE=0
+- endif
+- ifneq ($(SYSTEM),Windows)
+- EXP_LDLIBS += -lpthread
+- ifneq ($(SYSTEM),FreeBSD)
+- EXP_LDLIBS += -ldl
+- endif
+- endif
+ else
+ SQLITE_FILTER_OUT:=src/extended/rdb_sqlite.c
+ endif
Added: trunk/packages/genometools/trunk/debian/patches/no-xmllint
===================================================================
--- trunk/packages/genometools/trunk/debian/patches/no-xmllint (rev 0)
+++ trunk/packages/genometools/trunk/debian/patches/no-xmllint 2014-05-15 11:18:52 UTC (rev 16944)
@@ -0,0 +1,12 @@
+Description: Skip xmllint on manpage generation.
+Author: Sascha Steinbiss <steinbiss at zbh.uni-hamburg.de>
+--- a/scripts/create_manpages
++++ b/scripts/create_manpages
+@@ -3,6 +3,6 @@
+ for FILE in $1/*.mansrc;
+ do
+ echo -n '.'
+- a2x --doctype manpage --format manpage -D $2 $FILE
++ a2x --no-xmllint --doctype manpage --format manpage -D $2 $FILE
+ done
+ echo ''
Modified: trunk/packages/genometools/trunk/debian/patches/series
===================================================================
--- trunk/packages/genometools/trunk/debian/patches/series 2014-05-15 10:29:08 UTC (rev 16943)
+++ trunk/packages/genometools/trunk/debian/patches/series 2014-05-15 11:18:52 UTC (rev 16944)
@@ -1,5 +1,9 @@
-mips-64
-split_manuals
+add-libtre
adding_soname
libbam-fix
remove-gitignores
+fix-exports
+missing-libs
+mips-64
+no-xmllint
+spelling
Added: trunk/packages/genometools/trunk/debian/patches/spelling
===================================================================
--- trunk/packages/genometools/trunk/debian/patches/spelling (rev 0)
+++ trunk/packages/genometools/trunk/debian/patches/spelling 2014-05-15 11:18:52 UTC (rev 16944)
@@ -0,0 +1,25 @@
+Description: Fix spelling in hop.
+Author: Sascha Steinbiss <steinbiss at zbh.uni-hamburg.de>
+--- a/src/tools/gt_hop.c
++++ b/src/tools/gt_hop.c
+@@ -141,7 +141,8 @@
+ "the corrected reads are output in the currect working directory "
+ "in files which are named as the input files, each prepended "
+ "by a prefix (see -outprefix option)\n"
+- "-reads allows one to output the reads in the same order as in the input "
++ "-reads allows one one to output the reads in the same order as "
++ "in the input "
+ "and is mandatory if the SAM contains more than a single primary "
+ "alignment for each read (e.g. output of bwasw)\n"
+ "see also -o option as an alternative",
+--- a/gtdata/doc/hop.lua
++++ b/gtdata/doc/hop.lua
+@@ -25,7 +25,7 @@
+ mode to minimize the false positives. An even more conservative set
+ of corrections can be achieved using the '-ann' option (see '-help+').
+
+-The '-expert' mode allows to manually set each parameter; the default
++The '-expert' mode allows one to manually set each parameter; the default
+ values are the same as in the '-conservative' mode.
+
+ (Finally, for evaluation purposes only, the '-state-of-truth' mode can be used:
Modified: trunk/packages/genometools/trunk/debian/patches/split_manuals
===================================================================
--- trunk/packages/genometools/trunk/debian/patches/split_manuals 2014-05-15 10:29:08 UTC (rev 16943)
+++ trunk/packages/genometools/trunk/debian/patches/split_manuals 2014-05-15 11:18:52 UTC (rev 16944)
@@ -15,7 +15,6 @@
+\usepackage{xspace}
+\usepackage{times}
+\usepackage{listings}
-+\usepackage{bbm}
+\usepackage{verbatim}
+\usepackage{optionman}
+
@@ -168,10 +167,7 @@
+\end{document}
--- a/doc/manuals/uniquesub.tex
+++ b/doc/manuals/uniquesub.tex
-@@ -7,39 +7,14 @@
- \usepackage{listings}
- \usepackage{bbm}
- \usepackage{verbatim}
+@@ -7,37 +7,14 @@
-\usepackage{ifthen}
-\usepackage{comment}
\usepackage{optionman}
Added: trunk/packages/genometools/trunk/debian/patches/strip-nonpublic
===================================================================
--- trunk/packages/genometools/trunk/debian/patches/strip-nonpublic (rev 0)
+++ trunk/packages/genometools/trunk/debian/patches/strip-nonpublic 2014-05-15 11:18:52 UTC (rev 16944)
@@ -0,0 +1,17 @@
+--- a/Makefile
++++ b/Makefile
+@@ -894,8 +894,13 @@
+ $(RANLIB) $(prefix)/lib/libgenometools.a
+ endif
+ ifneq ($(sharedlib),no)
+- cp lib/libgenometools$(SHARED_OBJ_NAME_EXT)$(SONAME_VERSION) $(prefix)/lib
++ find src -name '*_api.h' | xargs egrep -ho '(gt_[0-9a-zA-Z_]+)(\[|\()' \
++ | sort | uniq | sed s'/.$$//' > apisyms
++ objcopy --strip-all --keep-symbols apisyms \
++ lib/libgenometools$(SHARED_OBJ_NAME_EXT)$(SONAME_VERSION) \
++ $(prefix)/lib/libgenometools$(SHARED_OBJ_NAME_EXT)$(SONAME_VERSION)
+ ln -fs $(prefix)/lib/libgenometools$(SHARED_OBJ_NAME_EXT)$(SONAME_VERSION) $(prefix)/lib/libgenometools$(SHARED_OBJ_NAME_EXT)
++ rm apisyms
+ endif
+ @echo '[build config script $(@F)]'
+ sed -e 's!@CC@!$(CC)!' -e 's!@CFLAGS@!$(EXP_CFLAGS)!' \
Modified: trunk/packages/genometools/trunk/debian/rules
===================================================================
--- trunk/packages/genometools/trunk/debian/rules 2014-05-15 10:29:08 UTC (rev 16943)
+++ trunk/packages/genometools/trunk/debian/rules 2014-05-15 11:18:52 UTC (rev 16944)
@@ -32,7 +32,8 @@
doc/manuals/annotationsketch.pdf
rm -f www/genometools.org/htdocs/docs.html \
www/genometools.org/htdocs/examples.html \
- www/genometools.org/htdocs/libgenometools.html
+ www/genometools.org/htdocs/libgenometools.html \
+ www/genometools.org/htdocs/tools/gt.html
rm -rf gtpython/build
override_dh_auto_build:
@@ -43,7 +44,7 @@
cd testsuite; ./testsuite.rb -keywords 'gt_sketch and not gt_python and not gt_ruby' -threads 3
override_dh_auto_install:
- dh_auto_install -- useshared=yes 64bit=$(64BIT) opt=no errorcheck=no prefix=$(DESTDIR)/usr
+ dh_auto_install -- installmanpages useshared=yes 64bit=$(64BIT) opt=no errorcheck=no prefix=$(DESTDIR)/usr
dh_auto_install --sourcedirectory=gtpython --destdir=$(CURDIR)/debian/python-genometools
override_dh_strip:
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