>|> 20241003 01:07:05.312 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|- Start
>|> 20241003 01:07:05.313 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|- /opt/pacbio/pa-smrt-basecaller-13.0.0/bin/baz2bam --filelist /data/nrtb/0/m84039_241001_220042_s2/pb_internal/m84039_241001_220042_s2.bazfilelist.txt --logoutput /data/icc/m84039_241001_220042_s2/metadata/m84039_241001_220042_s2_full_preview_23hr.baz2bam.log --kestrel-files-layout --metadata /data/icc/m84039_241001_220042_s2/metadata/m84039_241001_220042_s2_full_preview_23hr.metadata.xml -j 24 -b 8 --uuid c20cf330-8510-426c-b9d3-0dc43c8deb36 --inlinePbi --statusfd=2 --silent --bazThreads 6 --maxInputQueueMB 7000 --zmwBatchMB 500 --zmwHeaderBatchMB 10 --maxOutputQueueMB 10000 --defaultZmwBatchSize 75 --enableBarcodedAdapters=False --samplePercent 0.04 --fileListStride 4 --startFileListIdx 0 --streamedBam -o m84039_241001_220042_s2_full_preview_23hr 
>|> 20241003 01:07:05.313 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|- commit hash: 664e9a3f3e1bb4eac405607fd1fd4bd1485c1cd8-dirty
>|> 20241003 01:07:05.313 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|- commit date: 2024-09-24 09:52:04 +0200
>|> 20241003 01:07:05.313 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|- Version: release/kestrel-13.3_664e9a3f3e1bb4eac405607fd1fd4bd1485c1cd8-dirty
>|> 20241003 01:07:05.313 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|- Roughly processing the first 2147483647 ZMWs, up to a slice boundary...
>|> 20241003 01:07:05.313 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|- Processing the first 0.04% ZMWs of each BAZ file
>|> 20241003 01:07:11.069 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|- Processing the first 0.04% ZMWs of each BAZ file
>|> 20241003 01:07:16.818 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|- Processing the first 0.04% ZMWs of each BAZ file
>|> 20241003 01:07:22.519 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|- Processing the first 0.04% ZMWs of each BAZ file
>|> 20241003 01:07:28.312 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|- Processing the first 0.04% ZMWs of each BAZ file
>|> 20241003 01:07:33.941 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|- Processing the first 0.04% ZMWs of each BAZ file
>|> 20241003 01:07:41.335 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|- Parsing /data/icc/m84039_241001_220042_s2/metadata/m84039_241001_220042_s2_full_preview_23hr.metadata.xml
>|> 20241003 01:07:41.339 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|- PPAAlgoConfig = {"adapterFinding":{"disableAdapterFinding":false,"leftAdapter":"CAACAACAACAACGGAGGAGGAGGAAAAG","rightAdapter":"CAACAACAACAACGGAGGAGGAGGAAAAG"},"controlFilter":{"disableControlFiltering":false,"leftAdapter":"TAGAGAGAGAAAAGGAGGAGGAGGCAACAACAACAACTCTCTCTA","rightAdapter":"TAGAGAGAGAAAAGGAGGAGGAGGCAACAACAACAACTCTCTCTA","sequence":"TCCCGACTGGAAAGCGGGCAGTGAGCGCAACGCAATTAATGTGAGTTAGCTCACTCATTAGGCACCCCAGGCTTTACACTTTATGCTTCCGGCTCGTATGTTGTGTGGAATTGTGAGCGGATAACAATTTCACACAGGAAACAGCTATGACCATGATTACGCCAAGCTTGCATGCCTGCAGGTCGACTCTAGAGGATCCCCCTGGCCGCATCCAGACTCAAATCAACGACCAGATCGCCTACCGGTTCAGCCATACCGGACTCCTCCTGCGATCCCTTCTGATACTGTCATCAGCATTACGTCATCCTCCGTCATGTCCGCCACATCCGGGGAAGCGGGGATAACTTCATTCCCGTCCGGGCCAAAGCGGACACCTCCGGCAAGCCCTGCCGCTTTCTGCAGCAGGCTCGCCAGCAGCGCACTGAGATCCAGCTGCCAGCGGGAAATACTGATGCGCAGCGCCGCCAGCGCATAAACGAAGCAGTCGAGTGCCTCATTGCGTCGCTTTTTGCTGTCCCACAGTATTTTTTTCCTGCCATCCACCCATTTTTCGACCTGCTCTTCAGCAGTCAGCTGCTGCGCTTCGGTCAGATCAAAAATAGGGTACCGAGCTCGAATTCACTGGCCGTCGTTTTACAACGTCGTGACTGGGAAAACCCTGGCGTTACCCAACTTAATCGCCTTGCAGCACATCCCCCTTTCGCCAGCTGGCGTAATAGCGAAGAGGCCCGCACCGATCGCCCTTCCCAACAGTTGCGCAGCCTGAATGGCGAATGGCGCCTGATGCGGTATTTTCTCCTTA"},"hqrf":{"method":"N2"},"inputFilter":{"minSnr":1.5},"outputFilter":{"zmwOutputStride":1}}
>|> 20241003 01:07:41.611 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|- 24 adapter callers have been configured with the standard method
>|> 20241003 01:07:41.613 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|- Created BAM Header comment:{
	"collection_metadata_xml" : "<suppressed>",
	"dataset_uuid" : "6736dea5-f88a-4554-b77a-6e06271371d1",
	"external_resources" : 
	[
		{
			"file_name" : "../metadata/m84039_241001_220042_s2_full_preview_23hr.sts.xml",
			"meta_type" : "PacBio.SubreadFile.ChipStatsFile"
		}
	],
	"name" : "baz2bam_ccs_sideband",
	"subreadset_name" : "HG2_BC18-Cell1",
	"version" : "1.2",
	"zmws" : 2520
}
>|> 20241003 01:07:41.613 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|- bam file: -
>|> 20241003 01:07:41.613 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|- bamThreads = 8
>|> 20241003 01:07:41.613 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|- Writing streaming BAM file to stdout
>|> 20241003 01:07:41.626 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|- ZOFFSET_CART_HMM configured
>|> 20241003 01:07:41.626 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|- Creating sts.h5 file pb_internal/m84039_241001_220042_s2_full_preview_23hr.sts.h5 with parameters numHoles:2520 numAnalogs:4 numFilters:1
>|> 20241003 01:07:41.630 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|- Starting Baz2bam.	MovieName: /data/nrtb/0/m84039_241001_220042_s2/pb_internal/m84039_241001_220042_s2.0.baz,  BaseCallerVersion: 5.0,  BazWriterVersion: 0.0.0,  BazVersion: 2.6.1,  OutputPrefix: m84039_241001_220042_s2_full_preview_23hr,  ProdFileLayout: Kestrel,  Baz2bamVersion: release/kestrel-13.3_664e9a3f3e1bb4eac405607fd1fd4bd1485c1cd8-dirty
>|> 20241003 01:07:41.630 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|- Spawn 24 workers
>|> 20241003 01:07:41.874 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125774 -|- Beginning read of next slice
>|> 20241003 01:07:41.874 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125772 -|- OOM score went from -1 to 675
>|> 20241003 01:07:41.874 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125773 -|- Beginning read of next slice
>|> 20241003 01:07:41.878 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125776 -|- Beginning read of next slice
>|> 20241003 01:07:41.878 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125778 -|- Beginning read of next slice
>|> 20241003 01:07:41.878 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125777 -|- Beginning read of next slice
>|> 20241003 01:07:41.878 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125775 -|- Beginning read of next slice
>|> 20241003 01:07:41.881 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125773 -|- Skipping to end of BAZ file.
>|> 20241003 01:07:42.245 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125773 -|- Finished read of next slice
>|> 20241003 01:07:42.246 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125773 -|- Anomalous profiling event (reported in ms):
>|> 20241003 01:07:42.246 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125773 -|-     READ_PROFILES measured slower than specified threshold of 3.40282e+38 standard deviations
>|> 20241003 01:07:42.246 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125773 -|-     IDs:       Historic mean +- stdev, [ Current Measurements ]
>|> 20241003 01:07:42.246 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125773 -|-     ----------------------------------------------------------
>|> 20241003 01:07:42.246 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125773 -|-     Full:      0.00e+00 +- 0.00e+00, [ 3.72e+02 ]
>|> 20241003 01:07:42.246 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125773 -|-     TOTAL:     1.31e-03 +- 0.00e+00, [ 1.31e-03 ]
>|> 20241003 01:07:42.246 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125773 -|-     READ_DATA: 3.72e+02 +- 0.00e+00, [ 3.72e+02 ]
>|> 20241003 01:07:42.246 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125773 -|-     SEND_DATA: 1.47e-02 +- 0.00e+00, [ 1.47e-02 ]
>|> 20241003 01:07:42.246 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125773 -|- Beginning read of next slice
>|> 20241003 01:07:42.246 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125751 -|- Marking all ZMWs as sequencing, Kestrel does not yet have a replacement for Sequel layout
>|> 20241003 01:07:42.247 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125751 -|- ZmwStats not setting hole type
>|> 20241003 01:07:42.248 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125746 -|- Scaterring Metrology disabled in ChipStats, Kestrel does not yet have a replacement for Sequel layout
>|> 20241003 01:07:42.874 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125772 -|- OOM score went from 675 to 678
>|> 20241003 01:07:42.874 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125772 -|- Sending progress 0.041666
>|> 20241003 01:07:43.901 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125775 -|- Skipping to end of BAZ file.
>|> 20241003 01:07:43.904 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125776 -|- Skipping to end of BAZ file.
>|> 20241003 01:07:43.906 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125778 -|- Skipping to end of BAZ file.
>|> 20241003 01:07:43.918 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125777 -|- Skipping to end of BAZ file.
>|> 20241003 01:07:44.035 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125774 -|- Skipping to end of BAZ file.
>|> 20241003 01:07:44.204 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125773 -|- Skipping to end of BAZ file.
>|> 20241003 01:07:44.210 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125776 -|- Finished read of next slice
>|> 20241003 01:07:44.210 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125776 -|- Anomalous profiling event (reported in ms):
>|> 20241003 01:07:44.210 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125776 -|-     READ_PROFILES measured slower than specified threshold of 3.40282e+38 standard deviations
>|> 20241003 01:07:44.210 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125776 -|-     IDs:       Historic mean +- stdev, [ Current Measurements ]
>|> 20241003 01:07:44.210 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125776 -|-     ----------------------------------------------------------
>|> 20241003 01:07:44.210 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125776 -|-     Full:      0.00e+00 +- 0.00e+00, [ 2.34e+03 ]
>|> 20241003 01:07:44.210 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125776 -|-     TOTAL:     1.22e-03 +- 0.00e+00, [ 1.22e-03 ]
>|> 20241003 01:07:44.210 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125776 -|-     READ_DATA: 2.34e+03 +- 0.00e+00, [ 2.34e+03 ]
>|> 20241003 01:07:44.210 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125776 -|-     SEND_DATA: 1.52e-02 +- 0.00e+00, [ 1.52e-02 ]
>|> 20241003 01:07:44.210 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125776 -|- Beginning read of next slice
>|> 20241003 01:07:44.211 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125778 -|- Finished read of next slice
>|> 20241003 01:07:44.211 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125778 -|- Anomalous profiling event (reported in ms):
>|> 20241003 01:07:44.211 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125778 -|-     READ_PROFILES measured slower than specified threshold of 3.40282e+38 standard deviations
>|> 20241003 01:07:44.211 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125778 -|-     IDs:       Historic mean +- stdev, [ Current Measurements ]
>|> 20241003 01:07:44.211 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125778 -|-     ----------------------------------------------------------
>|> 20241003 01:07:44.211 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125778 -|-     Full:      0.00e+00 +- 0.00e+00, [ 2.34e+03 ]
>|> 20241003 01:07:44.211 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125778 -|-     TOTAL:     9.77e-04 +- 0.00e+00, [ 9.77e-04 ]
>|> 20241003 01:07:44.211 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125778 -|-     READ_DATA: 2.33e+03 +- 0.00e+00, [ 2.33e+03 ]
>|> 20241003 01:07:44.211 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125778 -|-     SEND_DATA: 1.35e-02 +- 0.00e+00, [ 1.35e-02 ]
>|> 20241003 01:07:44.211 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125778 -|- Beginning read of next slice
>|> 20241003 01:07:44.214 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125759 -|- QualityValues not currently supported
>|> 20241003 01:07:44.223 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125775 -|- Finished read of next slice
>|> 20241003 01:07:44.224 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125775 -|- Anomalous profiling event (reported in ms):
>|> 20241003 01:07:44.224 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125775 -|-     READ_PROFILES measured slower than specified threshold of 3.40282e+38 standard deviations
>|> 20241003 01:07:44.224 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125775 -|-     IDs:       Historic mean +- stdev, [ Current Measurements ]
>|> 20241003 01:07:44.224 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125775 -|-     ----------------------------------------------------------
>|> 20241003 01:07:44.224 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125775 -|-     Full:      0.00e+00 +- 0.00e+00, [ 2.35e+03 ]
>|> 20241003 01:07:44.224 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125775 -|-     TOTAL:     9.77e-04 +- 0.00e+00, [ 9.77e-04 ]
>|> 20241003 01:07:44.224 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125775 -|-     READ_DATA: 2.35e+03 +- 0.00e+00, [ 2.35e+03 ]
>|> 20241003 01:07:44.224 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125775 -|-     SEND_DATA: 1.41e-02 +- 0.00e+00, [ 1.41e-02 ]
>|> 20241003 01:07:44.224 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125775 -|- Beginning read of next slice
>|> 20241003 01:07:44.224 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125777 -|- Finished read of next slice
>|> 20241003 01:07:44.224 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125777 -|- Anomalous profiling event (reported in ms):
>|> 20241003 01:07:44.224 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125777 -|-     READ_PROFILES measured slower than specified threshold of 3.40282e+38 standard deviations
>|> 20241003 01:07:44.224 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125777 -|-     IDs:       Historic mean +- stdev, [ Current Measurements ]
>|> 20241003 01:07:44.224 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125777 -|-     ----------------------------------------------------------
>|> 20241003 01:07:44.224 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125777 -|-     Full:      0.00e+00 +- 0.00e+00, [ 2.35e+03 ]
>|> 20241003 01:07:44.224 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125777 -|-     TOTAL:     1.71e-03 +- 0.00e+00, [ 1.71e-03 ]
>|> 20241003 01:07:44.224 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125777 -|-     READ_DATA: 2.35e+03 +- 0.00e+00, [ 2.35e+03 ]
>|> 20241003 01:07:44.224 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125777 -|-     SEND_DATA: 1.36e-02 +- 0.00e+00, [ 1.36e-02 ]
>|> 20241003 01:07:44.224 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125777 -|- Beginning read of next slice
>|> 20241003 01:07:44.294 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125774 -|- Finished read of next slice
>|> 20241003 01:07:44.294 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125774 -|- Anomalous profiling event (reported in ms):
>|> 20241003 01:07:44.294 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125774 -|-     READ_PROFILES measured slower than specified threshold of 3.40282e+38 standard deviations
>|> 20241003 01:07:44.294 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125774 -|-     IDs:       Historic mean +- stdev, [ Current Measurements ]
>|> 20241003 01:07:44.294 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125774 -|-     ----------------------------------------------------------
>|> 20241003 01:07:44.294 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125774 -|-     Full:      0.00e+00 +- 0.00e+00, [ 2.42e+03 ]
>|> 20241003 01:07:44.294 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125774 -|-     TOTAL:     1.22e-03 +- 0.00e+00, [ 1.22e-03 ]
>|> 20241003 01:07:44.294 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125774 -|-     READ_DATA: 2.42e+03 +- 0.00e+00, [ 2.42e+03 ]
>|> 20241003 01:07:44.294 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125774 -|-     SEND_DATA: 1.83e-02 +- 0.00e+00, [ 1.83e-02 ]
>|> 20241003 01:07:44.294 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125774 -|- Beginning read of next slice
>|> 20241003 01:07:44.571 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125773 -|- Finished read of next slice
>|> 20241003 01:07:44.571 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125773 -|- Anomalous profiling event (reported in ms):
>|> 20241003 01:07:44.571 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125773 -|-     READ_PROFILES measured slower than specified threshold of 3.40282e+38 standard deviations
>|> 20241003 01:07:44.571 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125773 -|-     IDs:       Historic mean +- stdev, [ Current Measurements ]
>|> 20241003 01:07:44.571 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125773 -|-     ----------------------------------------------------------
>|> 20241003 01:07:44.571 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125773 -|-     Full:      3.72e+02 +- 0.00e+00, [ 2.33e+03 ]
>|> 20241003 01:07:44.571 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125773 -|-     TOTAL:     7.78e-04 +- 7.55e-04, [ 2.44e-04 ]
>|> 20241003 01:07:44.571 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125773 -|-     READ_DATA: 1.35e+03 +- 1.38e+03, [ 2.33e+03 ]
>|> 20241003 01:07:44.571 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125773 -|-     SEND_DATA: 1.41e-02 +- 7.92e-04, [ 1.35e-02 ]
>|> 20241003 01:07:44.571 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125773 -|- Beginning read of next slice
>|> 20241003 01:07:44.578 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125773 -|- Skipping to end of BAZ file.
>|> 20241003 01:07:44.874 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125772 -|- Sending progress 0.065476
>|> 20241003 01:07:44.932 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125773 -|- Finished read of next slice
>|> 20241003 01:07:44.933 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125773 -|- Beginning read of next slice
>|> 20241003 01:07:45.874 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125772 -|- Sending progress 0.303568
>|> 20241003 01:07:46.251 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125776 -|- Skipping to end of BAZ file.
>|> 20241003 01:07:46.262 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125777 -|- Skipping to end of BAZ file.
>|> 20241003 01:07:46.268 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125778 -|- Skipping to end of BAZ file.
>|> 20241003 01:07:46.271 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125775 -|- Skipping to end of BAZ file.
>|> 20241003 01:07:46.536 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125777 -|- Finished read of next slice
>|> 20241003 01:07:46.539 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125777 -|- Beginning read of next slice
>|> 20241003 01:07:46.541 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125776 -|- Finished read of next slice
>|> 20241003 01:07:46.542 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125776 -|- Beginning read of next slice
>|> 20241003 01:07:46.548 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125778 -|- Finished read of next slice
>|> 20241003 01:07:46.549 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125778 -|- Beginning read of next slice
>|> 20241003 01:07:46.575 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125775 -|- Finished read of next slice
>|> 20241003 01:07:46.575 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125775 -|- Anomalous profiling event (reported in ms):
>|> 20241003 01:07:46.575 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125775 -|-     READ_PROFILES measured slower than specified threshold of 3.40282e+38 standard deviations
>|> 20241003 01:07:46.575 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125775 -|-     IDs:       Historic mean +- stdev, [ Current Measurements ]
>|> 20241003 01:07:46.575 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125775 -|-     ----------------------------------------------------------
>|> 20241003 01:07:46.575 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125775 -|-     Full:      2.35e+03 +- 0.00e+00, [ 2.35e+03 ]
>|> 20241003 01:07:46.575 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125775 -|-     TOTAL:     6.10e-04 +- 5.18e-04, [ 2.44e-04 ]
>|> 20241003 01:07:46.575 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125775 -|-     READ_DATA: 2.35e+03 +- 1.24e+00, [ 2.35e+03 ]
>|> 20241003 01:07:46.575 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125775 -|-     SEND_DATA: 1.45e-02 +- 5.52e-04, [ 1.49e-02 ]
>|> 20241003 01:07:46.575 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125775 -|- Beginning read of next slice
>|> 20241003 01:07:46.875 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125772 -|- Sending progress 0.333330
>|> 20241003 01:07:46.912 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125774 -|- Skipping to end of BAZ file.
>|> 20241003 01:07:47.876 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125772 -|- Sending progress 0.380949
>|> 20241003 01:07:48.144 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125774 -|- Finished read of next slice
>|> 20241003 01:07:48.144 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125774 -|- Anomalous profiling event (reported in ms):
>|> 20241003 01:07:48.144 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125774 -|-     READ_PROFILES measured slower than specified threshold of 3.40282e+38 standard deviations
>|> 20241003 01:07:48.144 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125774 -|-     IDs:       Historic mean +- stdev, [ Current Measurements ]
>|> 20241003 01:07:48.144 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125774 -|-     ----------------------------------------------------------
>|> 20241003 01:07:48.144 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125774 -|-     Full:      2.42e+03 +- 0.00e+00, [ 3.85e+03 ]
>|> 20241003 01:07:48.144 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125774 -|-     TOTAL:     7.32e-04 +- 6.91e-04, [ 2.44e-04 ]
>|> 20241003 01:07:48.144 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125774 -|-     READ_DATA: 3.14e+03 +- 1.01e+03, [ 3.85e+03 ]
>|> 20241003 01:07:48.144 -|- WARN     -|- PBLogger -|- nrtb-84039|P:125675|T:125774 -|-     SEND_DATA: 1.68e-02 +- 2.15e-03, [ 1.53e-02 ]
>|> 20241003 01:07:48.144 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125774 -|- Beginning read of next slice
>|> 20241003 01:07:48.576 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125773 -|- Skipping to end of BAZ file.
>|> 20241003 01:07:48.579 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125773 -|- Finished read of next slice
>|> 20241003 01:07:48.876 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125772 -|- Sending progress 0.511900
>|> 20241003 01:07:49.881 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125772 -|- Sending progress 0.583327
>|> 20241003 01:07:50.248 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125777 -|- Skipping to end of BAZ file.
>|> 20241003 01:07:50.287 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125775 -|- Skipping to end of BAZ file.
>|> 20241003 01:07:50.331 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125776 -|- Skipping to end of BAZ file.
>|> 20241003 01:07:50.437 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125778 -|- Skipping to end of BAZ file.
>|> 20241003 01:07:50.841 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125777 -|- Finished read of next slice
>|> 20241003 01:07:50.841 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125777 -|- Beginning read of next slice
>|> 20241003 01:07:50.897 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125776 -|- Finished read of next slice
>|> 20241003 01:07:50.897 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125776 -|- Beginning read of next slice
>|> 20241003 01:07:51.014 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125778 -|- Finished read of next slice
>|> 20241003 01:07:51.015 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125778 -|- Beginning read of next slice
>|> 20241003 01:07:51.019 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125775 -|- Finished read of next slice
>|> 20241003 01:07:51.019 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125775 -|- Beginning read of next slice
>|> 20241003 01:07:51.883 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125772 -|- Sending progress 0.630946
>|> 20241003 01:07:52.884 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125772 -|- Sending progress 0.749993
>|> 20241003 01:07:55.768 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125774 -|- Skipping to end of BAZ file.
>|> 20241003 01:07:57.552 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125777 -|- Skipping to end of BAZ file.
>|> 20241003 01:07:57.596 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125777 -|- Finished read of next slice
>|> 20241003 01:07:58.526 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125778 -|- Skipping to end of BAZ file.
>|> 20241003 01:07:58.636 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125776 -|- Skipping to end of BAZ file.
>|> 20241003 01:07:58.662 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125776 -|- Finished read of next slice
>|> 20241003 01:07:58.673 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125778 -|- Finished read of next slice
>|> 20241003 01:07:59.900 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125772 -|- Sending progress 0.773802
>|> 20241003 01:08:00.902 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125772 -|- Sending progress 0.785706
>|> 20241003 01:08:00.938 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125775 -|- Skipping to end of BAZ file.
>|> 20241003 01:08:00.959 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125775 -|- Finished read of next slice
>|> 20241003 01:08:01.884 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125774 -|- Finished read of next slice
>|> 20241003 01:08:01.884 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125774 -|- Beginning read of next slice
>|> 20241003 01:08:02.907 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125772 -|- Sending progress 0.857134
>|> 20241003 01:08:03.911 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125772 -|- Sending progress 0.886896
>|> 20241003 01:08:04.912 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125772 -|- Sending progress 0.898801
>|> 20241003 01:08:05.916 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125772 -|- Sending progress 0.958324
>|> 20241003 01:08:16.202 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125774 -|- Skipping to end of BAZ file.
>|> 20241003 01:08:16.209 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125774 -|- Finished read of next slice
>|> 20241003 01:08:16.610 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|- Final Performance Profiling Results for READ_PROFILES: (reported in milliseconds)
>|> 20241003 01:08:16.610 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|-     PerfReport: Gathered 24 samples.
>|> 20241003 01:08:16.610 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|-     PerfReport: % Compute,	FullMean/OutlierMean  FullDev/OutlierDev
>|> 20241003 01:08:16.610 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|-     PerfReport: 		Full Execution	-- 4.56e+03 / 4.67e+03,	2.90e+03 / 2.78e+03
>|> 20241003 01:08:16.610 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|-     PerfReport: 0.00%,	     TOTAL -- 4.77e-02 / 6.20e-02,	1.65e-01 / 1.64e-01
>|> 20241003 01:08:16.610 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|-     PerfReport: 99.99%,	 READ_DATA -- 4.56e+03 / 4.67e+03,	2.90e+03 / 2.78e+03
>|> 20241003 01:08:16.610 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|-     PerfReport: 0.00%,	 SEND_DATA -- 1.46e-02 / 1.46e-02,	1.58e-03 / 1.39e-03
>|> 20241003 01:08:17.396 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:132259 -|- Closing BAM files
>|> 20241003 01:08:17.396 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:132259 -|- Writing PBI files
>|> 20241003 01:08:17.954 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125772 -|- Sending progress 0.999990
>|> 20241003 01:08:18.397 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:132259 -|- Corrected missing adapter (>35% per ZMW) in 41 ZMWs, 3.49233% of 1174 total ZMWs with adapters
>|> 20241003 01:08:18.397 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:132259 -|- Corrected missed adapter (<=35% per ZMW) in 109 ZMWs, 9.2845% of 1174 total ZMWs with adapters
>|> 20241003 01:08:18.397 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:132259 -|- Corrected adapters in 150 ZMWs, 12.7768% of 1174 total ZMWs with adapters
>|> 20241003 01:08:18.397 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:132259 -|- Adapter Correction imputed 396 of 9582 total adapters (4.13275%)
>|> 20241003 01:08:18.397 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:132259 -|- Opening file metadata/m84039_241001_220042_s2_full_preview_23hr.sts.xml.tmp
>|> 20241003 01:08:18.423 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:132259 -|- Renaming file metadata/m84039_241001_220042_s2_full_preview_23hr.sts.xml.tmp -> metadata/m84039_241001_220042_s2_full_preview_23hr.sts.xml
>|> 20241003 01:08:18.446 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:132259 -|- BAM files closed and PBIs written
>|> 20241003 01:08:18.446 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:132259 -|- Closing sts.h5 file
>|> 20241003 01:08:18.459 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:132259 -|- sts.h5 file closed and written
>|> 20241003 01:08:18.459 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:132259 -|- Closing logging
>|> 20241003 01:08:18.964 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:132259 -|- Logging closed
>|> 20241003 01:08:18.964 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:132259 -|- Finished ZMW processing 2520
>|> 20241003 01:08:18.966 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|- Finished
>|> 20241003 01:08:18.966 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|- Final Performance Profiling Results for COMPUTE_PROFILES: (reported in milliseconds)
>|> 20241003 01:08:18.966 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|-     PerfReport: Gathered 65881 samples.
>|> 20241003 01:08:18.966 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|-     PerfReport: % Compute,	FullMean/OutlierMean  FullDev/OutlierDev
>|> 20241003 01:08:18.966 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|-     PerfReport: 		Full Execution	-- 1.27e+01 / -nan,	4.95e+01 / 0.00e+00
>|> 20241003 01:08:18.966 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|-     PerfReport: 92.08%,	      DATA_WAIT -- 1.17e+01 / 0.00e+00,	1.26e+00 / 0.00e+00
>|> 20241003 01:08:18.966 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|-     PerfReport: 0.00%,	      DATA_MOVE -- 3.97e-01 / 0.00e+00,	7.24e-01 / 0.00e+00
>|> 20241003 01:08:18.966 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|-     PerfReport: 0.00%,	      DATA_SEND -- 5.48e-02 / 0.00e+00,	2.45e-02 / 0.00e+00
>|> 20241003 01:08:18.966 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|-     PerfReport: 0.92%,	   PARSE_BINARY -- 3.05e+00 / 0.00e+00,	4.88e+00 / 0.00e+00
>|> 20241003 01:08:18.966 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|-     PerfReport: 0.34%,	PROCESS_PACKETS -- 1.13e+00 / 0.00e+00,	2.46e+00 / 0.00e+00
>|> 20241003 01:08:18.966 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|-     PerfReport: 0.62%,	      FIND_HQRF -- 2.05e+00 / 0.00e+00,	3.69e+00 / 0.00e+00
>|> 20241003 01:08:18.966 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|-     PerfReport: 0.72%,	   FIND_INSERTS -- 2.40e+00 / 0.00e+00,	4.04e+00 / 0.00e+00
>|> 20241003 01:08:18.966 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|-     PerfReport: 0.00%,	     PROD_STATS -- 1.54e-02 / 0.00e+00,	2.19e-01 / 0.00e+00
>|> 20241003 01:08:18.966 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|-     PerfReport: 4.42%,	   FIND_SUBREAD -- 1.47e+01 / 0.00e+00,	2.51e+01 / 0.00e+00
>|> 20241003 01:08:18.966 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|-     PerfReport: 0.83%,	      ZMW_STATS -- 2.77e+00 / 0.00e+00,	4.77e+00 / 0.00e+00
>|> 20241003 01:08:18.966 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|-     PerfReport: 0.06%,	       FINALIZE -- 2.03e-01 / 0.00e+00,	9.92e-01 / 0.00e+00
>|> 20241003 01:08:18.966 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|- joining thread pool
>|> 20241003 01:08:18.966 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|- joining loggingThread_
>|> 20241003 01:08:18.966 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|- joining done
>|> 20241003 01:08:18.966 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|- Peak RSS      : 14.824 GiB
>|> 20241003 01:08:18.966 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|- ~ConvertBaz2BamDestroyed
>|> 20241003 01:08:18.966 -|- INFO     -|- PBLogger -|- nrtb-84039|P:125675|T:125675 -|- Remap Stats:  shiftedHqRegionStart = 1384 noStartOnLabelTransition = 0 noEndOnLabelTransition = 0