ERROR: No input FASTQs were found for the requested parameters.

[2124sa]

I am grateful for your assistance. I am a novice in using cellranger. While executing cellranger count, I encountered an error. Below is the error message. ERROR: No input FASTQs were found for the requested parameters.

If your files came from bcl2fastq or mkfastq:

• Make sure you are specifying the correct --sample(s), i.e. matching the sample sheet
• Make sure your files follow the correct naming convention, e.g. SampleName_S1_L001_R1_001.fastq.gz (and the R2 version)
• Make sure your --fastqs points to the correct location.
• Make sure your --lanes, if any, are correctly specified. Refer to the "Specifying Input FASTQs" page at https://support.10xgenomics.com/ for more details.

My code is cellranger count --id=bc --transcriptome=/home/a2433564374/public/cellranger.index/refdata-gex-GRCh38-2024-A --fastqs=/home/a2433564374/lesson/lesson1-cellranger/out --create-bam=true --sample=bc --nosecondary

I am utilizing the version 8.0.0 of CellRanger

(cellranger1) a2433564374@lizhengjian:~/public/cellranger.index$ ls refdata-gex-GRCh38-2024-A refdata-gex-GRCh38-2024-A.tar.gz (cellranger1) a2433564374@lizhengjian:~/public/cellranger.index$ cd refdata-gex-GRCh38-2024-A (cellranger1) a2433564374@lizhengjian:~/public/cellranger.index/refdata-gex-GRCh38-2024-A$ ls fasta genes reference.json star (cellranger1) a2433564374@lizhengjian:~/public/cellranger.index/refdata-gex-GRCh38-2024-A$ pwd /home/a2433564374/public/cellranger.index/refdata-gex-GRCh38-2024-A

(cellranger1) a2433564374@lizhengjian:~/lesson/lesson1-cellranger$ cd out (cellranger1) a2433564374@lizhengjian:~/lesson/lesson1-cellranger/out$ ls bc_S1_LOO1_R1_001.fastq.gz bc_S1_LOO1_R2_001.fastq.gz (cellranger1) a2433564374@lizhengjian:~/lesson/lesson1-cellranger/out$ pwd /home/a2433564374/lesson/lesson1-cellranger/out

How should I proceed to address this issue? Once again, I express gratitude for your assistance！

[github-actions[bot]]

Thank you for your interest in Cell Ranger. GitHub Issues are not monitored by our support team. Please e-mail support@10xgenomics.com for support with Cell Ranger or visit our documentation site at https://www.10xgenomics.com/support/software/cell-ranger.