Read1 fastq file does not contain R1 label or is not in standard Illumina naming format

[emjbishop]

Hello, these are bcl2fastq files so I think they're standard. Is something wrong with my well or sample sheet?

Error message (same without using docker):

root@67ab6b5e0828:/# bash BarWare-pipeline/01_run_BarCounter.sh \
>   -s proj/sample_sheet.csv \
>   -w proj/docker_well_sheet.csv \
>   -o proj/demultiplex_results
[2023-04-21 20:13:29] START BarWare HTO Counting
[2023-04-21 20:13:29] PARAM -o Output Directory: proj/demultiplex_results

[2023-04-21 20:13:29] PARAM -s Input samplesheet.csv: proj/sample_sheet.csv

[2023-04-21 20:13:29] PARAM -w Input WellSheet.csv: proj/docker_well_sheet.csv

[2023-04-21 20:13:29] Checking Inputs
[2023-04-21 20:13:29] Found input proj/sample_sheet.csv
[2023-04-21 20:13:29] Found input proj/docker_well_sheet.csv
[2023-04-21 20:13:29] Total time: 00:00:00 | Split time: 00:00:00
[2023-04-21 20:13:29] Building Taglist
[2023-04-21 20:13:29] Total time: 00:00:00 | Split time: 00:00:00
[2023-04-21 20:13:29] Running BarCounter
Read1 fastq file fq/All_BAL_ADT_S4_L001_R1_001.fastq.gz doesn not contain R1 label or is not in standard Illumina naming format. Exiting...
[2023-04-21 20:13:30] Total time: 00:00:01 | Split time: 00:00:01
[2023-04-21 20:13:30] Total time: 00:00:01 | Split time: 00:00:00
[2023-04-21 20:13:30] END BarWare HTO Counting

Well sheet

well_id,fastq_path,fastq_prefix,cellranger_outs
Tube4,fq,All_BAL_ADT_S4,cellranger

Sample sheet

sample_id,pool_id,hash_name,hash_tag
bal-hashtag1,Tube4_BAL,HTO1,GTCAACTCTTTAGCG
bal-hashtag2,Tube4_BAL,HTO2,TGATGGCCTATTGGG
bal-hashtag3,Tube4_BAL,HTO3,TTCCGCCTCTCTTTG
bal-hashtag4,Tube4_BAL,HTO4,AGTAAGTTCAGCGTA
bal-hashtag5,Tube4_BAL,HTO5,AAGTATCGTTTCGCA
bal-hashtag6,Tube4_BAL,HTO6,GGTTGCCAGATGTCA
bal-hashtag7,Tube4_BAL,HTO7,TGTCTTTCCTGCCAG
bal-hashtag8,Tube4_BAL,HTO8,CTCCTCTGCAATTAC