[med-svn] [Git][med-team/sumalibs][upstream] New upstream version 1.0.36

[Pierre Gruet]

Pierre Gruet pushed to branch upstream at Debian Med / sumalibs


Commits:
b51bac16 by Pierre Gruet at 2020-04-13T15:05:09+02:00
New upstream version 1.0.36
- - - - -


1 changed file:

- libfasta/sequence.c


Changes:

=====================================
libfasta/sequence.c
=====================================
@@ -162,19 +162,24 @@ void seq_fillSeqOnlyATGC(char *seq, fastaSeqPtr seqElem, int seqLen)
 {
 	char* seqTemp;
 	char c;
-	int32_t index = 0, seqIndex = 0, len = strlen(seq);
+	int32_t index = 1, seqIndex = 0, len = strlen(seq);
 	char* seqAlphabets = "acgtACGT";
 	int notAllATGC = 0;
+	int goOnParsing = 1;
 
 	seqTemp = (char*) util_malloc(seqLen*sizeof(char), __FILE__, __LINE__);
 
-	while (index < len)
+	while (goOnParsing)
 	{
 		c = seq[index++];
 		if (strchr(seqAlphabets, c) != NULL)
 			seqTemp[seqIndex++] = tolower(c);
+		else if (seq[index+1]=='\0')
+			goOnParsing = 0; // end of the sequence has been reached.
 		else if (c != '\n')
 			notAllATGC = 1;
+		if (index == len)
+			goOnParsing = 0;
 	}
 
 	if (notAllATGC)



View it on GitLab: https://salsa.debian.org/med-team/sumalibs/-/commit/b51bac168ca8431d9dd5e7aa26c20fb6ec03f6f8

-- 
View it on GitLab: https://salsa.debian.org/med-team/sumalibs/-/commit/b51bac168ca8431d9dd5e7aa26c20fb6ec03f6f8
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