Revio file structure¶
The Revio platform has a different output file structure than Sequel II and Sequel IIe.
Directory structure¶
Transfer_Scheme_Path/
└─ rNNNNN_YYYYMMDD_HHMMSS/
└─ P_WNN/
├─ fail_reads/
├─ hifi_reads/
├─ metadata/
├─ pb_formats/
└─ statistics/
Movie Context ID is defined as
mNNNNN_YYMMDD_HHMMSS_sN
in particular:
mNNNNN - instrument identifier
YYMMDD - date stamp
HHMMSS - time stamp
sN - stage number (Revio has four)
File structure¶
In the following example, one barcode (‘bc2001’) has been used. If you see the ‘default’ file infix, this is the standard, unbarcoded TC6 SMRTbell adapter.
Transfer_Scheme_Path/
└─r84001_20220722_134701
└─1_A01
├─ fail_reads
│ ├─ m84001_220722_134701_s1.fail_reads.bc2001.bam
│ ├─ m84001_220722_134701_s1.fail_reads.bc2001.bam.pbi
│ ├─ m84001_220722_134701_s1.fail_reads.unassigned.bam
│ └─ m84001_220722_134701_s1.fail_reads.unassigned.bam.pbi
├─ hifi_reads
│ ├─ m84001_220722_134701_s1.hifi_reads.bc2001.bam
│ ├─ m84001_220722_134701_s1.hifi_reads.bc2001.bam.pbi
│ ├─ m84001_220722_134701_s1.hifi_reads.unassigned.bam
│ └─ m84001_220722_134701_s1.hifi_reads.unassigned.bam.pbi
├─ metadata
│ ├─ m84001_220722_134701_s1.barcodes.fasta
│ ├─ m84001_220722_134701_s1.basecaller.log
│ ├─ m84001_220722_134701_s1.ccs.log
│ ├─ m84001_220722_134701_s1.darkcal.log
│ ├─ m84001_220722_134701_s1.fail_reads.alarms.json
│ ├─ m84001_220722_134701_s1.fail_reads.lima.log
│ ├─ m84001_220722_134701_s1.fail_reads.primrose.log
│ ├─ m84001_220722_134701_s1.hifi_reads.alarms.json
│ ├─ m84001_220722_134701_s1.hifi_reads.lima.log
│ ├─ m84001_220722_134701_s1.hifi_reads.primrose.log
│ ├─ m84001_220722_134701_s1.metadata.xml
│ ├─ m84001_220722_134701_s1.ppa.log
│ ├─ m84001_220722_134701_s1.run.metadata.xml
│ ├─ m84001_220722_134701_s1.sts.xml
│ └─ m84001_220722_134701_s1.transferdone
├─ pb_formats
│ ├─ m84001_220722_134701_s1.consensusreadset.xml
│ ├─ m84001_220722_134701_s1.fail_reads.bc2001.consensusreadset.xml
│ ├─ m84001_220722_134701_s1.fail_reads.consensusreadset.xml
│ ├─ m84001_220722_134701_s1.fail_reads.unassigned.consensusreadset.xml
│ ├─ m84001_220722_134701_s1.hifi_reads.bc2001.consensusreadset.xml
│ ├─ m84001_220722_134701_s1.hifi_reads.consensusreadset.xml
│ └─ m84001_220722_134701_s1.hifi_reads.unassigned.consensusreadset.xml
└─ statistics
├─ m84001_220722_134701_s1.ccs_reports.json
├─ m84001_220722_134701_s1.fail_reads.5mc_report.json
├─ m84001_220722_134701_s1.fail_reads.lima_counts.txt
├─ m84001_220722_134701_s1.fail_reads.lima_guess.json
├─ m84001_220722_134701_s1.fail_reads.lima_report.txt
├─ m84001_220722_134701_s1.fail_reads.lima_summary.txt
├─ m84001_220722_134701_s1.hifi_reads.5mc_report.json
├─ m84001_220722_134701_s1.hifi_reads.lima_counts.txt
├─ m84001_220722_134701_s1.hifi_reads.lima_guess.json
├─ m84001_220722_134701_s1.hifi_reads.lima_report.txt
├─ m84001_220722_134701_s1.hifi_reads.lima_summary.txt
└─ m84001_220722_134701_s1.zmw_metrics.json.gz