git-svn-id: https://www.grenoble.prabi.fr/svn/LECASofts/ecoPCR/branches/refactoring@70 60f365c0-8329-0410-b2a4-ec073aeeaa1d

src/ecogrep.c

@@ -7,12 +7,6 @@
 #include <sys/stat.h>
 
 
-typedef enum 
-{
-	FALSE	= 0,
-	TRUE	= 1
-} BOOL;
-
 #define VERSION "0.1"
 
 void getLineContent(char *stream, ecoseq_t *seq){
@@ -50,7 +44,7 @@ void freememory(char **tab, int32_t num){
 }
 
 /**
- * Check if a pattern match a string using mamberall libapat function
+ * Check if pattern match a string using mamberall libapat function
  * @param	line		array containing sequence information
  * @param	pattern		array containing patterns to test on the sequence
  * @param	numpattern	number of pattern in pattern array
@@ -242,7 +236,7 @@ int main(int argc, char **argv){
 	/**
 	 * Get the taxonomy back
 	 **/
-	taxonomy = read_taxonomy(database);
+	taxonomy = read_taxonomy(database,0);
 	 
 	/**
 	 * Parse the stream
@@ -312,10 +306,8 @@ int main(int argc, char **argv){
 				{
 					printf("%s",orig);
 	     			matchingresult++;
-				}				     	
+				}
 		 	}
-		 	
-		 
 		}
 		if ( file != stdin )
     		fclose(file);