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Showing content from http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/read__rrna_8cpp_source.html below:

NCBI C++ ToolKit: src/app/read_blast_result/read_rrna.cpp Source File

Go to the documentation of this file.

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39

ifstream is(

file

.c_str());

48

is.getline(line, 0xFFF);

50  if

(!is.good())

break

;

52  char

*token = strtok(line,

" \t"

);

57  string

genome_name=

""

;

69  case

1: from = atoi(token);

break

;

70  case

2: to = atoi(token);

break

;

71  case

3:

hash

= token;

break

;

72  case

4: strand1 = token;

break

;

73  case

5: type3 = token;

break

;

74  case

6: method = token;

break

;

79

token = strtok(0,

" \t"

);

83  bool

new_rrna = tmp_rrna.

find

(

hash

) == tmp_rrna.

end

();

88

last_for_type[type3]++;

91

descstr << type3 <<

" ribosomal RNA predicted by NCBI method with " 92

<< (method==

"ideal"

?

"high"

:

"low"

)

106

ext_rna.

exons

.push_back(pair);

107

ext_rna.

type

= type3;

108

ext_rna.

key

= ext_rna.

exons

[0].from;

111  if

(new_rrna) tmp_rrna[

hash

] = new_ext_rna;

static bool PrintDetails(int current_verbosity=m_current_verbosity)

int ReadRRNA2(const string &file)

TSimpleSeqs m_extRNAtable2

container_type::const_iterator const_iterator

const_iterator begin() const

const_iterator end() const

const_iterator find(const key_type &key) const

ENa_strand

strand of nucleic acid

string printed_range(const TSeqPos from2, const TSeqPos to2)

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