Fix csq error message for now fasta file.

jkbonfield · pd3 · commit 106f15806603 · 2024-03-28T11:20:20.000Z
It stated "Missing the --fa-ref option", but the option is "--fasta-ref".
diff --git a/csq.c b/csq.c
@@ -3495,7 +3495,7 @@ int main_csq(int argc, char *argv[])
     }
     else fname = argv[optind];
     if ( argc - optind>1 ) error("%s", usage());
-    if ( !args->fa_fname ) error("Missing the --fa-ref option\n");
+    if ( !args->fa_fname ) error("Missing the --fasta-ref option\n");
     if ( !args->gff_fname ) error("Missing the --gff option\n");
     args->sr = bcf_sr_init();
     if ( targets_list )

Original file line number	Diff line number	Diff line change
`@@ -3495,7 +3495,7 @@ int main_csq(int argc, char *argv[])`
`3495`	`3495`	`}`
`3496`	`3496`	`else fname = argv[optind];`
`3497`	`3497`	`if ( argc - optind>1 ) error("%s", usage());`
`3498`		`- if ( !args->fa_fname ) error("Missing the --fa-ref option\n");`
	`3498`	`+ if ( !args->fa_fname ) error("Missing the --fasta-ref option\n");`
`3499`	`3499`	`if ( !args->gff_fname ) error("Missing the --gff option\n");`
`3500`	`3500`	`args->sr = bcf_sr_init();`
`3501`	`3501`	`if ( targets_list )`