コード例 #1
0
ファイル: patterns.cpp プロジェクト: amiel/jugglemaster
// parse and combine JuggleMaster and JuggleSaver patterns
int ParseAllPatterns(FILE *jm_input, FILE* js_input, 
	struct groups_t *groups, struct styles_t *styles) {
  int jm = ParsePatterns(jm_input, groups, styles);
  if (!jm) return 0;

#ifdef JUGGLESAVER_SUPPORT  
  if (!js_input) return 1;
  
  struct pattern_group_t* last = groups->first;
  
  while (last->next != NULL) last = last->next;
  
  struct groups_t *js_groups = new groups_t;
  js_groups->first = NULL;
  
  int js = ParseJSPatterns(js_input, js_groups);
  if (!js) { delete js_groups; return 0; }
  
  last->next = js_groups->first;
  delete js_groups;
#endif
  return 1;
}
コード例 #2
0
ファイル: patterns.cpp プロジェクト: amiel/jugglemaster
int main(int argc, char *argv[]) {
	FILE *f;
	struct groups_t g;
	struct styles_t s;
	struct pattern_group_t *groups;
	struct style_t *styles;
	struct pattern_t *patterns;
	int quiet = 0;
	int current_arg;

	s.first = NULL;
	g.first = NULL;

	if(argc < 2) {
		printf("Format: %s [-q[uiet]] <filename1> [filename2 ...]\n", argv[0]);
		return 1;
	}

	if(strncmp(argv[1],"-q",2) == 0) {
		quiet = 1;
		current_arg = 2;
	} else {
		current_arg = 1;
	}

	for(;current_arg<argc;current_arg++) {

		if((f = fopen(argv[current_arg],"r")) == NULL) {
			perror("Couldn't open file");
			return 1;
		}

		ParsePatterns(f,&g,&s);
		fclose(f);

		if(!quiet) {
			printf("File: %s\n", argv[current_arg]);

			groups = FirstGroup(&g);
			printf("Group Data\n");
			while(groups) {
				printf(" Group Name: %s\n",Group_GetName(groups));
		
				patterns = Group_GetPatterns(groups);
				while(patterns) {
					printf("  Pattern Name: %s\n",Patt_GetName(patterns));
					printf("   Style: %s\n",Patt_GetStyle(patterns));
					printf("   Data: %s\n",Patt_GetData(patterns));
					printf("   Height ratio: %1.2f\n",Patt_GetHR(patterns));
					printf("   Dwell Ratio: %1.2f\n",Patt_GetDR(patterns));
					printf("   Author: %s\n",Patt_GetAuthor(patterns));
					patterns = NextPatt(patterns);
				}

				groups = NextGroup(groups);
				printf("\n");
			};

			printf("\n\n");
			printf("Style Data\n");
			styles = FirstStyle(&s);
			while(styles) {
				int i;
				printf(" Style Name: %s\n",Style_GetName(styles));
				printf("  Length: %i\n",Style_GetLength(styles));
				printf("  Data:\n");
				for(i=0;i<(int)Style_GetLength(styles);i++) {
					if((i%4) == 0) {
						printf("   {");
					} else if ((i%4) == 2) {
						printf("}{");
					}
					printf(" %i",Style_GetData(styles)[i]);
	
					if ((i%4) == 0 || (i%4) == 2) {
						printf(", ");
					} else if ((i%4) == 3) {
						printf("}\n");
					}
				}
				styles = NextStyle(styles);
				printf("\n");
			}

			printf("\n\n");
		}

		FreeGroups(&g);
		FreeStyles(&s);

	}

	return 0;
}
コード例 #3
0
ファイル: msdesc.c プロジェクト: rbundschuh/MonoSeq
/* load a description from a file */
PMSDESCRIPTION LoadSiteDescription(const char *Filename)
{
  int error;                     /* non-zero if error occurred          */
  int foundPattern;              /* non-zero if pattern found           */
  int foundScoring;              /* non-zero if scoring parameters found*/
  int foundQuality;              /* non-zero if quality filter found    */
  PMSDESCRIPTION pDescription;   /* site description to be loaded       */
  xmlDocPtr pXMLDocument;        /* the XML document in the file        */
  xmlNode *pNode;                /* current node in XML document        */

  /* parse XML file */
  xmlInitParser();
  pXMLDocument=xmlParseFile(Filename);
  if (!pXMLDocument) {
    fprintf(stderr,"Could not parse site description file!\n");
    return(NULL);
  }

  /* get memory for site description */
  pDescription=(PMSDESCRIPTION)malloc(sizeof(MSDESCRIPTION));
  if (!pDescription) {
    fprintf(stderr,"Could not allocate memory for site description!\n");
    xmlFreeDoc(pXMLDocument);
    xmlCleanupParser();
    return(NULL);
  }
  pDescription->Length=0;
  pDescription->Sequence=NULL;
  pDescription->RepeatBasePosition=-1;
  pDescription->Minimal5Flank=5;
  pDescription->Minimal3Flank=5;
  pDescription->MaximalMismatch=10;
  pDescription->MaxMismatch5Req=1;
  pDescription->MaxMismatch3Req=1;
  pDescription->CutoffForNs=20;
  pDescription->MaximumNs=30;

  error=0;
  do { /* region of controlled exit */

    for(pNode=xmlDocGetRootElement(pXMLDocument);pNode;pNode=pNode->next)
      if (pNode->type==XML_ELEMENT_NODE &&
	  !strcmp((const char*)pNode->name,"SiteDescription"))
	break;
    if (!pNode) {
      fprintf(stderr,"Could not find <SiteDescription> in description file!\n");
      error=1;
      break;
    }
    foundPattern=0;
    foundScoring=0;
    foundQuality=0;
    for(pNode=pNode->children;pNode;pNode=pNode->next) {
      if (pNode->type != XML_ELEMENT_NODE) continue;
      if (!strcmp((const char*)pNode->name,"Pattern")) {
	if (foundPattern) {
	  fprintf(stderr,"Site description contains two patterns!\n");
	  error=1;
	  break;
	}
	foundPattern=1;
	error=ParsePatterns(pDescription,pNode);
      }
      if (!strcmp((const char*)pNode->name,"ScoringRules")) {
	if (foundScoring) {
	  fprintf(stderr,"Site description contains two scoring parameter "
		  "sets!\n");
	  error=1;
	  break;
	}
	foundScoring=1;
	error=ParseScoring(pDescription,pNode);
      }
      if (!strcmp((const char*)pNode->name,"QualityFilter")) {
	if (foundQuality) {
	  fprintf(stderr,"Site description contains two quality filter "
		  "parameter sets!\n");
	  error=1;
	  break;
	}
	foundQuality=1;
	error=ParseQuality(pDescription,pNode);
      }
      if (error) break;
    }

    if (!foundPattern) {
      fprintf(stderr,"Site description does not contain a pattern!\n");
      error=1;
      break;
    }

    if (pDescription->RepeatBasePosition<pDescription->Minimal5Flank) {
      fprintf(stderr,"5' flank is shorter than requested minimal 5' flank "
	      "length!\n");
      error=1;
      break;
    }
    
    if (pDescription->Length-pDescription->RepeatBasePosition-1
	<pDescription->Minimal3Flank) {
      fprintf(stderr,"3' flank is shorter than requested minimal 3' flank "
	      "length!\n");
      error=1;
      break;
    }

  } while(0); /* end of region of controlled exit */
  
  xmlFreeDoc(pXMLDocument);
  xmlCleanupParser();

  if (error) DestroySiteDescription(&pDescription);
  
  return(pDescription);
}