Thanks!And I want to ask for help for an another problem.When I run cellranger-atac count with fastqs:

[yejg2017]

Thanks!And I want to ask for help for an another problem.When I run cellranger-atac count with fastqs: CAT-08_S1_L001_I1_001.fastq.gz CAT-08_S1_L001_R1_001.fastq.gz CAT-08_S1_L001_R2_001.fastq.gz CAT-08_S1_L001_R3_001.fastq.gz CAT-08_S2_L001_I1_001.fastq.gz CAT-08_S2_L001_R1_001.fastq.gz CAT-08_S2_L001_R2_001.fastq.gz CAT-08_S2_L001_R3_001.fastq.gz CAT-08_S3_L001_I1_001.fastq.gz CAT-08_S3_L001_R1_001.fastq.gz CAT-08_S3_L001_R2_001.fastq.gz CAT-08_S3_L001_R3_001.fastq.gz CAT-08_S4_L001_I1_001.fastq.gz CAT-08_S4_L001_R1_001.fastq.gz CAT-08_S4_L001_R2_001.fastq.gz CAT-08_S4_L001_R3_001.fastq.gz

The log file told me the error: [error] Input FASTQ file is not gzipped but filename has CAT-08_S1_L001_R2_001.fastq.gz suffix: .gz

Originally posted by @yejg2017 in https://github.com/10XGenomics/cellranger/issues/72#issuecomment-612715918

[evolvedmicrobe]

Hi @yejg2017,

Please reach out to support@10xgenomics.com, you appear to be passing files with a gzipped suffix that are not gzipped per the code here:

https://github.com/10XGenomics/cellranger/blob/5f5a6293bbc067e1965e50f0277286914b96c908/mro/stages/common/setup_chunks/__init__.py#L199

Cheers, N