Esempi in C++ (Cpp) per display_scaff_usage

Esempio n. 1

File: scaffold.c Progetto: Bioinfo-Tools/PANGEA-plus

void initenv ( int argc, char ** argv )
{
	int copt;
	int inpseq;
	extern char * optarg;
	char temp[256];
	inpseq = 0;
	LINK = 0;
	SCAFF = 0;
	optind = 1;

	while ( ( copt = getopt ( argc, argv, "g:L:p:G:FuS" ) ) != EOF )
	{
		switch ( copt )
		{
			case 'g':
				inGraph = 1;
				sscanf ( optarg, "%s", graphfile ); //
				continue;
			case 'G':
				sscanf ( optarg, "%s", temp ); //
				GLDiff = atoi ( temp );
				continue;
			case 'L':
				sscanf ( optarg, "%s", temp );
				ctg_short = atoi ( temp );
				continue;
			case 'F':
				fillGap = 1;
				continue;
			case 'S':
				SCAFF = 1;
				continue;
			case 'u':
				maskRep = 0;
				continue;
			case 'p':
				sscanf ( optarg, "%s", temp ); //
				thrd_num = atoi ( temp );
				continue;
			default:

				if ( inGraph == 0 )       //
				{
					display_scaff_usage();
					exit ( -1 );
				}
		}
	}

	if ( inGraph == 0 )   //
	{
		display_scaff_usage();
		exit ( -1 );
	}
}

Esempio n. 2

File: scaffold.c Progetto: Marge-m/SOAPdenovo-Trans

void initenv (int argc, char **argv)
{
	int copt;
	int inpseq;
	extern char *optarg;
	char temp[256];

	inpseq = 0;
	LINK = 0;
	SCAFF = 0;
	optind = 1;

	while ((copt = getopt (argc, argv, "g:L:p:G:N:FuSt:c:rR")) != EOF)
	{
		switch (copt)
		{
		case 'g':
			inGraph = 1;
			sscanf (optarg, "%s", graphfile);	//
			break;
		case 'G':
			sscanf (optarg, "%s", temp);	//
			GLDiff = atoi (temp);
			break;
		case 'L':
			sscanf (optarg, "%s", temp);
			ctg_mask = atoi (temp);
			break;
		case 'N':                                   
			sscanf ( optarg, "%s", temp );         
			known_genome_size = atoi ( temp );    
			break;	
		case 'F':
			fillGap = 1;
			break;
		case 'S':
			SCAFF = 1;
			break;
		case 'u':
			maskRep = 0;
			break;
		case 'p':
			sscanf (optarg, "%s", temp);	//
			thrd_num = atoi (temp);
			break;
		case 't':
			sscanf (optarg, "%s", temp);    //
			max_num = atoi (temp)>0? atoi (temp):5;
			break;
		case 'c':
			sscanf (optarg, "%s", temp);    //
			max_cnt  = atoi (temp)>=0? atoi (temp):0;
			break;		
		case 'r':			
			read_trace= 1;
			break;
		case 'R':                                   
			RPKM=1;
			read_trace= 1;
			break;	
		default:
			if (inGraph == 0)	//
			{
				display_scaff_usage ();
				exit (-1);
			}
		}
	}

	if (inGraph == 0)	//
	{
		display_scaff_usage ();
		exit (-1);
	}
}