class blastSearch

class that runs CGI query on BLAST site

Public Methods

	blastSearch ( blastConfig *bc ) constructor
void	setConfig ( blastConfig *bc ) another way to set up the pointer to blastConfig object
int	do_blast_search (SaveFrameNode *save_frame) Open socket to BLAST site, send CGI queries and save result as /tmp/blast_out

blastSearch( blastConfig *bc )

constructor.
Sets up a pointer to blastConfig object.

See Also:

blastConfig

void setConfig( blastConfig *bc )

another way to set up the pointer to blastConfig object.

See Also:

blastConfig

int do_blast_search(SaveFrameNode *save_frame)

Open socket to BLAST site, send CGI queries and save result as /tmp/blast_out.

URL of the BLAST site, web server port, CGI program name and path to output file are stored in blastConfig object.
Residue sequence(s) (query string) are in the input file,
so is molecular class (used to decide which BLAST program to use: blastp, blastn or carbo).

BLAST site requires that query is sent in two chunks:
first we send residue sequence and get the RID,
then we send RID and get the result.

Returns:

-1 on error, 0 otherwise

Parameters:

save_frame - -- output, pointer to SaveFrameNode

See Also:

blastConfig

This class has no child classes.

Alphabetic index Hierarchy of classes