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Showing content from http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/pcr-primers-edit_8cpp_source.html below:

NCBI C++ ToolKit: src/gui/packages/pkg_sequence_edit/pcr-primers-edit.cpp Source File

39  return x_GetCommand

(tse,

"Trim Junk from Primer Seqs"

);

44  bool

modified =

false

;

50  if

((*primer)->IsSetSeq())

55  if

((*primer)->IsSetSeq())

70  bool

modified =

false

;

76  if

((*primer)->IsSetSeq())

81  if

((*primer)->IsSetSeq())

96  bool

modified =

false

;

102  if

((*primer)->IsSetSeq() && (*primer)->IsSetName())

104  string

seq = (*primer)->SetSeq().Set();

105  string

name = (*primer)->SetName().Set();

106

(*primer)->SetSeq().Set() = name;

107

(*primer)->SetName().Set() = seq;

113  if

((*primer)->IsSetSeq() && (*primer)->IsSetName())

115  string

seq = (*primer)->SetSeq().Set();

116  string

name = (*primer)->SetName().Set();

117

(*primer)->SetSeq().Set() = name;

118

(*primer)->SetName().Set() = seq;

134  bool

modified =

false

;

136  int

num_reaction = 0;

137

vector< CRef<CPCRPrimer> > forward, reverse;

140  if

(num_reaction > 0)

144

forward.push_back(*primer);

148

reverse.push_back(*primer);

157  for

(vector<

CRef<CPCRPrimer>

>::iterator p = forward.begin(); p != forward.end(); ++p)

158

biosource.

SetPcr_primers

().Set().front()->SetForward().Set().push_back(*p);

159  for

(vector<

CRef< CPCRPrimer>

>::iterator p = reverse.begin(); p != reverse.end(); ++p)

160

biosource.

SetPcr_primers

().Set().front()->SetReverse().Set().push_back(*p);

167  return x_GetCommand

(tse,

"Split Primer Sets By Position"

);

172  bool

modified =

false

;

174

vector< CRef<CPCRPrimer> > forward, reverse;

182

forward.push_back(*primer);

193

reverse.push_back(*primer);

200  if

(forward.size() == reverse.size())

201  for

(

unsigned int i

= 0;

i

< forward.size();

i

++)

204

reaction->

SetForward

().Set().push_back(forward[

i

]);

205

reaction->

SetReverse

().Set().push_back(reverse[

i

]);

CRef< CCmdComposite > GetCommand(objects::CSeq_entry_Handle tse)

virtual bool x_ApplyToBioSource(objects::CBioSource &biosource)

virtual bool x_ApplyToBioSource(objects::CBioSource &biosource)

CRef< CCmdComposite > GetCommand(objects::CSeq_entry_Handle tse)

static bool TrimJunk(string &seq)

static bool Fixi(string &seq)

CRef< CCmdComposite > GetCommand(objects::CSeq_entry_Handle tse)

virtual bool x_ApplyToBioSource(objects::CBioSource &biosource)

CRef< CCmdComposite > GetCommand(objects::CSeq_entry_Handle tse)

virtual bool x_ApplyToBioSource(objects::CBioSource &biosource)

virtual bool x_ApplyToBioSource(objects::CBioSource &biosource)

CRef< CCmdComposite > GetCommand(objects::CSeq_entry_Handle tse)

CRef< CCmdComposite > x_GetCommand(objects::CSeq_entry_Handle tse, const string &title)

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

void SetForward(TForward &value)

Assign a value to Forward data member.

void SetPcr_primers(TPcr_primers &value)

Assign a value to Pcr_primers data member.

void SetReverse(TReverse &value)

Assign a value to Reverse data member.

#define EDIT_EACH_PCRPRIMER_IN_PCRPRIMERSET(Itr, Var)

EDIT_EACH_PCRPRIMER_IN_PCRPRIMERSET.

#define ERASE_PCRPRIMER_IN_PCRPRIMERSET(Itr, Var)

ERASE_PCRPRIMER_IN_PCRPRIMERSET.

#define EDIT_EACH_PCRREACTION_IN_PCRREACTIONSET(Itr, Var)

EDIT_EACH_PCRREACTION_IN_PCRREACTIONSET.

#define ERASE_PCRREACTION_IN_PCRREACTIONSET(Itr, Var)

ERASE_PCRREACTION_IN_PCRREACTIONSET.

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