Do not segfault when only INFO fields are queried with -t q. Fixes samtools#982

pd3 · pd3 · commit 9e81e923706d · 2019-03-22T16:56:52.000+01:00
diff --git a/plugins/setGT.c b/plugins/setGT.c
@@ -391,7 +391,7 @@ bcf1_t *process(bcf1_t *rec)
 
         for (i=0; i<rec->n_sample; i++)
         {
-            if ( !args->smpl_pass[i] ) continue;
+            if ( args->smpl_pass && !args->smpl_pass[i] ) continue;
             if ( args->new_mask&GT_UNPHASED )
                 changed += unphase_gt(args->gts + i*ngts, ngts);
             else if ( args->new_mask==GT_PHASED )

Original file line number	Diff line number	Diff line change
`@@ -391,7 +391,7 @@ bcf1_t process(bcf1_t rec)`
`391`	`391`
`392`	`392`	`for (i=0; i<rec->n_sample; i++)`
`393`	`393`	`{`
`394`		`- if ( !args->smpl_pass[i] ) continue;`
	`394`	`+ if ( args->smpl_pass && !args->smpl_pass[i] ) continue;`
`395`	`395`	`if ( args->new_mask&GT_UNPHASED )`
`396`	`396`	`changed += unphase_gt(args->gts + i*ngts, ngts);`
`397`	`397`	`else if ( args->new_mask==GT_PHASED )`