Fixed peddy parsing script for ultra2

docs/SOP_alignment_variant_annotation.md

@@ -192,10 +192,11 @@ batch_id=<batch_id>
 
 perl $SCRIPTS/trio_whole_exome_parse_peddy_ped_csv.pl \
   --output ../qc/${short_project_id}_${version}.ped_check.txt \
-  --project $project_id \
+  --project $short_project_id \
   --batch $batch_id \
   --version $version \
-  --ped $PARAMS_DIR/$project_id.ped
+  --ped ../params/$project_id.ped
+  --families .
 grep -v False$ ../qc/${short_project_id}_${version}.ped_check.txt
 ```