[WARNING] Couldn't find /home/sam/data/oly_plat_22mer_sb_contig.qual... assuming there isn't a quality file for the reference
2017-11-14 06:24:58,487 [INFO] Running /home/shared/PBSuite_15.8.24//bin//Collection.py /home/sam/analyses/20171113_oly_pbjelly/Protocol.xml
2017-11-14 06:24:58,487 [INFO] Grabbing Filling Metrics
2017-11-14 06:24:58,488 [INFO] Number of Gaps Addressed 0
2017-11-14 06:24:58,488 [INFO] No Filling Metrics 0
2017-11-14 06:24:58,488 [INFO] Min Read Failed 0
2017-11-14 06:24:58,488 [INFO] Filled 0
2017-11-14 06:24:58,488 [INFO] NFilled 0
2017-11-14 06:24:58,488 [INFO] Single-End Reduced 0
2017-11-14 06:24:58,488 [INFO] Double-End Reduced 0
2017-11-14 06:24:58,488 [INFO] Overfilled 0
2017-11-14 06:24:58,488 [INFO] Gaps with trimmed edges 0
2017-11-14 06:24:58,488 [INFO] Loading Reference
2017-11-14 06:31:21,286 [ERROR] Consolidated support graph file /home/sam/analyses/20171113_oly_pbjelly/assembly/masterSupport.bml not found!