d8a257e711
files, write binary files. Not fully handled yet: *.adx, *.pdx, *.ldx, merged.dmp and delnodes.dmp files.
59 lines
1.7 KiB
Cython
59 lines
1.7 KiB
Cython
#cython: language_level=3
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from .obitypes cimport const_char_p
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from .obidms cimport OBIDMS_p
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from libc.stdint cimport int32_t
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cdef extern from "obidms_taxonomy.h" nogil:
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struct ecotxnode :
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int32_t taxid
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int32_t rank
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int32_t farest
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ecotxnode* parent
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char* name
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ctypedef ecotxnode ecotx_t
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struct ecotxidx_t :
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int32_t count
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int32_t max_taxid
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int32_t buffer_size
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ecotx_t* taxon
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struct OBIDMS_taxonomy_t :
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# ecorankidx_t* ranks
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# econameidx_t* names
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ecotxidx_t* taxa
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ctypedef OBIDMS_taxonomy_t* OBIDMS_taxonomy_p
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OBIDMS_taxonomy_p obi_read_taxonomy(OBIDMS_p dms, const_char_p taxonomy_name, bint read_alternative_names)
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OBIDMS_taxonomy_p obi_read_taxdump(const_char_p taxdump)
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int obi_write_taxonomy(OBIDMS_p dms, OBIDMS_taxonomy_p tax, const_char_p tax_name)
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int obi_close_taxonomy(OBIDMS_taxonomy_p taxonomy)
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ecotx_t* obi_taxo_get_parent_at_rank(ecotx_t* taxon, int32_t rankidx)
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ecotx_t* obi_taxo_get_taxon_with_taxid(OBIDMS_taxonomy_p taxonomy, int32_t taxid)
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bint obi_taxo_is_taxon_under_taxid(ecotx_t* taxon, int32_t other_taxid)
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ecotx_t* obi_taxo_get_species(ecotx_t* taxon, OBIDMS_taxonomy_p taxonomy)
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ecotx_t* obi_taxo_get_genus(ecotx_t* taxon, OBIDMS_taxonomy_p taxonomy)
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ecotx_t* obi_taxo_get_family(ecotx_t* taxon, OBIDMS_taxonomy_p taxonomy)
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ecotx_t* obi_taxo_get_kingdom(ecotx_t* taxon, OBIDMS_taxonomy_p taxonomy)
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ecotx_t* obi_taxo_get_superkingdom(ecotx_t* taxon, OBIDMS_taxonomy_p taxonomy)
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