NCBI C++ ToolKit: Directories

This directory hierarchy is sorted roughly, but not completely, alphabetically:

include
- algo
  - align
    - contig_assembly
    - ngalign
    - nw
    - prosplign
    - splign
    - util
  - blast
    - api
    - blastinput
    - composition_adjustment
    - core
    - dbindex
    - dbindex_search
    - format
    - gumbel_params
    - igblast
  - cobalt
  - dustmask
  - gnomon
  - link_reduce
  - ms
    - formats
      - pepxml
  - phy_tree
    - phytree_format
  - primer
  - segmask
  - seqqa
  - sequence
  - structure
    - bma_refine
    - cd_utils
    - struct_dp
    - struct_util
    - threader
    - wx_tools
  - text
  - tree
  - volume_merge
  - winmask
- build-system
  - project_tree_builder
    - msbuild
- cgi
  - impl
- common
  - config
- connect
  - impl
  - services
- corelib
  - hash_impl
  - impl
- ctools
  - asn
- db
  - bdb
  - sqlite
- dbapi
  - cache
  - driver
    - ctlib
    - dblib
    - ftds64
      - freetds
        
        replacements
    - impl
    - mysql
    - odbc
      - unix_odbc
    - util
  - simple
- gui
  - cache
  - config
  - core
  - framework
    - demo
  - graph
  - math
  - objects
  - objutils
  - opengl
    - mesa
  - packages
    - pkg_alignment
    - pkg_sequence
    - pkg_sequence_edit
    - pkg_snp
      - bins
      - gap
      - hapmap
      - ld
      - table
      - track
      - utils
  - print
  - utils
    - muparser
  - widgets
    - aln_crossaln
    - aln_multiple
    - aln_table
    - config
    - data
    - edit
    - feat_table
    - gl
    - grid_widget
    - hit_matrix
    - macro_edit
    - object_list
    - phylo_tree
    - seq
    - seq_graphic
    - seq_text
    - snp
      - filter
    - tax_tree
    - text_widget
    - wx
  - wx_demo
- html
- misc
  - cgi_redirect
  - clog
  - grid_cgi
  - hgvs
  - xmlwrapp
    - impl
- objects
  - access
  - biblio
  - biotree
  - blast
  - blastdb
  - blastxml
  - cdd
  - cn3d
  - docsum
  - entrez2
  - entrezgene
  - featdef
  - gbseq
  - general
  - genomecoll
  - homologene
  - id1
  - id2
  - insdseq
  - macro
  - medlars
  - medline
  - mim
  - misc
  - mla
  - mmdb1
  - mmdb2
  - mmdb3
  - ncbimime
  - objprt
  - omssa
  - pcassay
  - pcsubstance
  - proj
  - pub
  - pubmed
  - remap
  - scoremat
  - seq
  - seqalign
  - seqblock
  - seqcode
  - seqedit
  - seqfeat
  - seqloc
  - seqres
  - seqset
  - seqsplit
  - seqtable
  - seqtest
  - submit
  - taxon1
  - taxon3
  - tinyseq
  - valerr
  - valid
  - variation
- objmgr
  - impl
  - split
  - util
- objtools
  - align
  - align_format
  - alnmgr
  - blast
    - blastdb_format
    - gene_info_reader
    - gene_info_writer
    - seqdb_reader
      - impl
    - seqdb_writer
    - services
  - blast_format
  - cddalignview
    - demo
  - cleanup
  - data_loaders
    - blastdb
    - cdd
    - genbank
      - cache
      - gicache
      - id1
      - id2
      - pubseq
      - pubseq2
      - readers
        
        cache
        
        id1
        
        id2
        
        pubseqos
        
        pubseqos2
    - lds
    - lds2
    - patcher
    - trace
  - edit
  - eutils
    - api
    - egquery
    - ehistory
    - einfo
    - elink
    - epost
    - esearch
    - espell
    - esummary
    - linkout
    - uilist
  - format
    - items
  - lds
  - lds2
  - manip
  - readers
    - gene_info
    - seqdb
  - seqmasks_io
  - simple
  - snputil
  - validator
  - writers
    - gene_info
    - writedb
- sample
  - app
    - asn
    - soap
  - lib
    - asn_lib
    - basic
    - dtd
    - xsd
- serial
  - impl
  - soap
- util
  - bitset
  - cache
  - compress
    - bzip2
    - zlib
  - creaders
  - debug
  - image
  - impl
  - math
  - qparse
  - regexp
  - sequtil
  - tables
  - xregexp
src
- algo
  - align
    - contig_assembly
      - demo
    - ngalign
    - nw
    - prosplign
      - demo
    - splign
    - util
      - demo
      - unit_test
  - blast
    - api
    - blastinput
      - demo
      - unit_test
    - composition_adjustment
    - core
    - dbindex
      - makeindex
    - dbindex_search
      - srsearch
    - format
    - gumbel_params
      - demo
      - unit_test
    - igblast
    - unit_tests
      - api
      - blast_format
      - blastdb
      - seqdb_reader
  - cobalt
    - demo
    - unit_test
  - dustmask
  - gnomon
    - demo
  - ms
    - formats
      - pepxml
    - omssa
      - demo
  - phy_tree
  - primer
  - segmask
  - seqqa
    - demo
  - sequence
    - demo
    - unit_test
  - structure
    - bma_refine
      - bma_refiner_app
    - cd_utils
    - struct_dp
      - demo
    - struct_util
      - demo
    - threader
    - wx_tools
  - text
  - volume_merge
  - winmask
    - demo
- app
  - agp_validate
  - agpconvert
  - annotwriter
  - asn2asn
  - asn2fasta
  - asn2flat
  - asn2gff
  - asn_cleanup
  - asnval
  - bdb_env_keeper
  - blast
  - blastdb
  - blastfmt
    - unit_test
  - cn3d
    - HelpBlocks
  - compart
  - convert_seq
  - dustmasker
  - formatguess
  - gi2taxid
  - grid
    - cgi2rcgi
    - cgi_tunnel2grid
    - grid_cli
    - remote_app
    - util
  - hfilter
  - id1_fetch
  - id2_fetch
  - idmapper
  - igblast
  - lds2_indexer
  - lds_indexer
  - multireader
  - netcache
  - netschedule
  - nmer_repeats
  - nw_aligner
  - objextract
  - objmgr
    - demo
    - split_demo
  - oligofar
  - read_blast_result
  - segmasker
  - speedtest
  - splign
  - split_cache
  - streamtest
  - wig2table
  - winmasker
- build-system
  - project_tree_builder
    - msbuild
- cgi
  - demo
- connect
  - services
- corelib
- ctools
  - asn
- db
  - bdb
    - cache_verify
    - demo
    - dumper
    - test_split
    - test_vmerge
  - sqlite
- dbapi
  - cache
    - admintool
  - driver
    - ctlib
      - samples
    - dblib
      - samples
    - ftds64
      - ctlib
        
        samples
      - freetds
        
        ctlib
        
        dblib
        
        odbc
        
        replacements
        
        tds
    - mysql
      - samples
    - odbc
      - samples
    - samples
    - util
      - samples
  - lang_bind
    - python
      - pythonpp
      - tests
  - simple
- gui
  - app
    - ini2reg
    - project_tools
  - cache
  - config
  - core
  - framework
    - demo
  - graph
  - objects
  - objutils
    - obj_conv_profile
  - opengl
    - mesa
      - demo
  - packages
    - pkg_alignment
    - pkg_sequence
    - pkg_sequence_edit
    - pkg_snp
      - bins
      - filter
      - gap
      - hapmap
      - ld
      - package
      - table
      - track
      - unit_test
      - utils
  - print
  - utils
    - app_job
    - demo
    - muparser
    - unit_test
  - widgets
    - aln_crossaln
      - demo
    - aln_multiple
      - cgi-demo
      - demo
    - aln_table
      - demo
    - config
      - demo
    - data
    - edit
      - demo
    - feat_table
    - gl
      - demo_wx
    - grid_widget
    - hit_matrix
      - demo
    - macro_edit
    - object_list
      - demo
    - phylo_tree
      - cgi-demo
      - demo
    - seq
      - demo
    - seq_graphic
      - cgi-demo
      - demo
    - seq_text
      - demo
    - tax_tree
      - demo
    - text_widget
    - wx
      - demo
  - wx_demo
- html
  - demo
- misc
  - cgi_redirect
  - clog
    - app
    - demo
  - grid_cgi
  - hgvs
  - xmlwrapp
- objects
  - access
  - biblio
  - biotree
  - blast
  - blastdb
  - blastxml
  - cdd
  - cn3d
  - docsum
  - entrez2
    - demo
  - entrezgene
  - featdef
  - gbseq
  - general
    - unit_test
  - genomecoll
  - homologene
  - id1
  - id2
  - insdseq
  - macro
  - medlars
  - medline
  - mim
  - mla
  - mmdb1
  - mmdb2
  - mmdb3
  - ncbimime
  - objprt
  - omssa
  - pcassay
  - pcsubstance
  - proj
  - pub
  - pubmed
  - remap
  - scoremat
  - seq
    - unit_test
  - seqalign
  - seqblock
  - seqcode
  - seqedit
  - seqfeat
  - seqloc
  - seqres
  - seqset
  - seqsplit
  - seqtable
  - seqtest
  - submit
  - taxon1
  - taxon3
  - tinyseq
  - valerr
  - valid
  - variation
- objmgr
  - split
  - util
    - unit_test
- objtools
  - align
  - align_format
    - unit_test
  - alnmgr
    - demo
  - asniotest
  - blast
    - blastdb_format
      - unit_test
    - gene_info_reader
      - demo
      - unit_test
    - gene_info_writer
      - unit_test
    - seqdb_reader
      - demo
    - seqdb_writer
      - unit_test
    - services
      - unit_test
  - cddalignview
    - demo
  - cleanup
  - data_loaders
    - blastdb
      - unit_test
    - cdd
    - genbank
      - cache
      - gicache
      - id1
      - id2
      - pubseq
      - pubseq2
    - lds
      - unit_test
    - lds2
    - patcher
    - trace
  - edit
    - demo
  - eutils
    - api
    - egquery
    - ehistory
    - einfo
    - elink
    - epost
    - esearch
    - espell
    - esummary
    - linkout
    - uilist
  - format
  - lds
  - lds2
  - manip
  - readers
    - app
    - unit_test
  - seqmasks_io
  - simple
  - snputil
  - validator
    - unit_test
  - writers
- sample
  - app
    - alnmgr
    - asn
    - basic
    - blast
    - cgi
      - cgires
    - dbapi
    - eutils
    - lds
    - netcache
    - netschedule
    - objects
    - objmgr
    - sdbapi
    - serial
    - soap
      - client
      - server
    - unit_test
  - lib
    - asn_lib
    - basic
    - dtd
    - xsd
- serial
  - datatool
  - soap
- util
  - bitset
    - demo
    - stress_test
  - compress
    - api
    - bzip2
    - zlib
  - creaders
  - demo
  - image
    - demo
  - qparse
  - regexp
  - sequtil
  - tables
  - xregexp