Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4c/b3b57b68a8cd47f112a2eaff576b7a/.command.sh
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/08/b99f60c0b44ee589e6703522405332/output/Reports/Demultiplex_Stats.csv
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/66/8274dca260eb4b401880709a284651/output/Reports/Top_Unknown_Barcodes.csv
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c5/2f6de210cceafc4ae7d3b8c68cdc93/output/Reports/Top_Unknown_Barcodes.csv
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c5/2f6de210cceafc4ae7d3b8c68cdc93/output/Reports/Demultiplex_Stats.csv
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4c/b3b57b68a8cd47f112a2eaff576b7a/.command.run
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/03/ea5715862c8ef10148c491985faaf8/output/Reports/Top_Unknown_Barcodes.csv
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/66/8274dca260eb4b401880709a284651/output/Reports/Demultiplex_Stats.csv
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/03/ea5715862c8ef10148c491985faaf8/output/Reports/Demultiplex_Stats.csv
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/08/b99f60c0b44ee589e6703522405332/output/Reports/Top_Unknown_Barcodes.csv
==> STAGING COMPLETE (10 inputs)
Analyzing demux output from: merged
Loading Demultiplex_Stats.csv from: merged/Reports/Demultiplex_Stats.csv
Loaded 12 rows from Demultiplex_Stats.csv
================================================================================
1. % UNDETERMINED PER LANE
================================================================================
Undetermined Summary per Lane:
%_Undetermined Undetermined_Reads Total_Reads
Lane
1 0.0 0 5000000
2 0.0 0 5000000
3 0.0 0 5000000
4 0.0 0 5000000
================================================================================
2. SAMPLES WITH <1000000 READS (NON-NTC)
================================================================================
No samples found with <1000000 reads
================================================================================
3. NTC SAMPLES WITH >2000000 READS
================================================================================
No NTC samples found in the data
================================================================================
4. TOP UNKNOWN BARCODES (>0.05% OF LANE READS)
================================================================================
Loading Top_Unknown_Barcodes.csv from: merged/Reports/Top_Unknown_Barcodes.csv
No barcodes found with >0.05% of lane reads in any lane
================================================================================
5. BARCODES WITH HIGH MISMATCH RATES
================================================================================
No barcodes found with >20.0% mismatch rate
================================================================================
FINAL STATUS CHECK
================================================================================
Overall % Undetermined: 0.00%
Status: 🟢 PASS
Thresholds: <5.0% = PASS, 5.0-10.0% = WARNING, >10.0% = FAIL
NTC gate: >2,000,000 reads = FAIL
=== Creating reports in . ===
QC summary saved to: ./qc_report.csv
Detailed QC report saved to: ./qc_report_detailed.txt
Pass file created: ./samplesheet_status.pass
================================================================================
QC SUMMARY
================================================================================
Metric Value
Total_Reads 20000000
Total_Samples_Analyzed 3
Number_of_Lanes 4
Global_Percent_Undetermined 0.00%
Lanes_Exceeding_Fail_Threshold None
Samples_with_Low_Reads 0
NTC_Samples_with_High_Reads 0
Significant_Unknown_Barcodes 0
High_Mismatch_Barcodes 0
Final_Status PASS
================================================================================
QC Analysis completed successfully!
Flowcell Status: PASS
Reports generated:
- ./qc_report.csv
- ./qc_report_detailed.txt
- ./samplesheet_status.pass
================================================================================