4c23ed8c2c9becf91f0c521dac0983c21ca0e20b
angie
  Mon Jan 6 14:35:20 2014 -0800
Tolerate missing '=' in metadata line for VCF3 because as Jonathan pointed out, the spec didn't demand key=val in 3.3.refs #12412

diff --git src/lib/vcf.c src/lib/vcf.c
index b2eaed7..8b43371 100644
--- src/lib/vcf.c
+++ src/lib/vcf.c
@@ -270,30 +270,31 @@
 {
 (void)strSwapStrs(line, strlen(line)+1, "\342\200\234", "\"");
 (void)strSwapStrs(line, strlen(line)+1, "\342\200\235", "\"");
 }
 
 static void parseMetadataLine(struct vcfFile *vcff, char *line)
 /* Parse a VCF header line beginning with "##" that defines a metadata. */
 {
 char *ptr = line;
 if (ptr == NULL && !startsWith(ptr, "##"))
     errAbort("Bad line passed to parseMetadataLine");
 ptr += 2;
 char *firstEq = strchr(ptr, '=');
 if (firstEq == NULL)
     {
+    if (vcff->majorVersion >= 4)
 	vcfFileErr(vcff, "Metadata line lacks '=': \"%s\"", line);
     return;
     }
 regmatch_t substrs[8];
 // Some of the metadata lines are crucial for parsing the rest of the file:
 if (startsWith("##fileformat=", line) || startsWith("##format", line))
     {
     if (regexMatchSubstr(line, fileformatRegex, substrs, ArraySize(substrs)))
 	{
 	// substrs[2] is major version #, substrs[3] is set only if there is a minor version,
 	// and substrs[4] is the minor version #.
 	vcff->majorVersion = atoi(line + substrs[2].rm_so);
 	if (substrs[3].rm_so != -1)
 	    vcff->minorVersion = atoi(line + substrs[4].rm_so);
 	}