Mercurial > repos > rliterman > csp2

comparison CSP2/CSP2_env/env-d9b9114564458d9d-741b3de822f2aaca6c6caa4325c4afce/lib/python3.8/site-packages/pysam/libctabixproxies.pxd @ 69:33d812a61356

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload commit 2e9511a184a1ca667c7be0c6321a36dc4e3d116d
author jpayne
date Tue, 18 Mar 2025 17:55:14 -0400
parents
children
comparison
equal deleted inserted replaced
67:0e9998148a16 69:33d812a61356
1 # cython: language_level=3
2
3 from libc.stdint cimport uint8_t, int32_t, uint32_t, int64_t, uint64_t
4
5 cdef class TupleProxy:
6
7 cdef:
8 char * data
9 char ** fields
10 int nfields
11 int nbytes
12 int offset
13 bint is_modified
14
15 cdef encoding
16
17 cpdef int getMaxFields(self)
18 cpdef int getMinFields(self)
19 # cdef char * _getindex(self, int idx)
20
21 cdef take(self, char * buffer, size_t nbytes)
22 cdef present(self, char * buffer, size_t nbytes)
23 cdef copy(self, char * buffer, size_t nbytes, bint reset=*)
24 cdef update(self, char * buffer, size_t nbytes)
25
26
27 cdef class TupleProxyIterator:
28 cdef TupleProxy proxy
29 cdef int index
30
31
32 cdef class NamedTupleProxy(TupleProxy):
33 pass
34
35
36 cdef class GTFProxy(NamedTupleProxy):
37 cdef object attribute_dict
38 cpdef int getMaxFields(self)
39 cpdef int getMinFields(self)
40
41
42 cdef class GFF3Proxy(GTFProxy):
43 pass
44
45
46 cdef class BedProxy(NamedTupleProxy):
47
48 cdef:
49 char * contig
50 uint32_t start
51 uint32_t end
52 int bedfields
53
54 cpdef int getMaxFields(self)
55 cpdef int getMinFields(self)
56 cdef update(self, char * buffer, size_t nbytes)
57
58 cdef class VCFProxy(NamedTupleProxy) :
59
60 cdef:
61 char * contig
62 uint32_t pos
63
64 cdef update(self, char * buffer, size_t nbytes)