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#include <stdio.h> |
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#include <stdlib.h> |
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#include <string.h> |
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|
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|
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char *program_name; /*the name of the program */ |
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void usage(void); |
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|
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int main(argc, argv) |
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int argc; |
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char *argv[]; |
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{ |
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int i,j; // loop counters |
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|
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char *in_name = NULL; // name of the input file |
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char* out_prefix = NULL; // the output prefix |
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char current_flag; // used in parsing the flags |
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int done = 0; // multipurpose boolean |
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int have_prefix; // boolean for the output prefix |
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|
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|
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// here we set the name of the program need by the usage message |
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program_name = argv[0]; |
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|
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|
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for( i = 1; i < argc; i++){ |
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|
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if(argv[i][0] =='-'){ |
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|
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// parse the option |
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|
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if(argv[i][1] == '-' ){ |
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|
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// parse long word options |
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|
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if( !strcmp( argv[i], "--GofR" ) ){ |
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calcGofR = 1; |
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i++; |
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strcpy( gofR1, argv[i] ); |
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i++; |
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strcpy( gofR2, argv[i] ); |
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} |
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|
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else if( !strcmp( argv[i], "--CosCorr" ) ){ |
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calcCosCorr = 1; |
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i++; |
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strcpy( cosCorr1, argv[i] ); |
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i++; |
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strcpy( cosCorr2, argv[i] ); |
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} |
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|
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else if( !strcmp( argv[i], "--MuCorr") ){ |
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calcMuCorr = 1; |
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i++; |
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strcpy( muCorr, argv[i] ); |
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} |
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|
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else if( !strcmp( argv[i], "--startFrame" ) ){ |
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haveStartFrame = 1; |
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i++; |
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startFrame = atoi(argv[i]); |
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startFrame--; |
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} |
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|
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else if( !strcmp( argv[i], "--endFrame" ) ){ |
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haveEndFrame = 1; |
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i++; |
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endFrame = atoi(argv[i]); |
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} |
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|
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else{ |
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fprintf( stderr, |
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"Invalid option \"%s\"\n", argv[i] ); |
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usage(); |
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} |
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} |
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|
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else{ |
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|
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// parse single character options |
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|
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done =0; |
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j = 1; |
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current_flag = argv[i][j]; |
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while( (current_flag != '\0') && (!done) ){ |
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|
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switch(current_flag){ |
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|
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case 'o': |
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// -o <prefix> => the output prefix. |
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|
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i++; |
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out_prefix = argv[i]; |
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have_prefix = 1; |
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done = 1; |
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break; |
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|
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case 'h': |
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// -h => give the usage |
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|
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usage(); |
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break; |
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|
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case 'r': |
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// calculates the rmsd |
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|
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calcRMSD = 1; |
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break; |
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|
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case 'g': |
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// calculate all to all g(r) |
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|
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calcGofR = 1; |
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strcpy( gofR1, "all" ); |
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strcpy( gofR2, "all" ); |
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break; |
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|
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default: |
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|
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(void)fprintf(stderr, "Bad option \"-%c\"\n", current_flag); |
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usage(); |
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} |
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j++; |
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current_flag = argv[i][j]; |
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} |
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} |
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} |
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|
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else{ |
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|
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if( in_name != NULL ){ |
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fprintf( stderr, |
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"Error at \"%s\", program does not currently support\n" |
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"more than one input file.\n" |
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"\n", |
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argv[i]); |
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usage(); |
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} |
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|
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in_name = argv[i]; |
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} |
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} |
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|
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if(in_name == NULL){ |
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usage(); |
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} |
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|
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if( !have_prefix ) out_prefix = in_name; |
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|
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} |
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|
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|
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/*************************************************************************** |
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* prints out the usage for the command line arguments, then exits. |
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***************************************************************************/ |
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|
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void usage(){ |
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(void)fprintf(stdout, |
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"The proper usage is: %s [options] <input_file>\n" |
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"\n" |
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"Options:\n" |
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"\n" |
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" short:\n" |
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" ------\n" |
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" -h Display this message\n" |
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" -o <name> The output name/prefix\n" |
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" -r the r flag\n" |
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" -i <#> set number to <#>\n" |
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|
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"\n" |
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" long:\n" |
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" -----\n" |
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" --flag1 <arg1> <arg2> does flag 1 for arg1 and 2\n" |
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" --flag2 <arg1> does flag 2 for arg1\n" |
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" --flag3 does flag 3\n" |
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|
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"\n" |
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"\n", |
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program_name); |
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exit(8); |
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} |
