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10XGenomics / cellranger

10x Genomics Single Cell Analysis
https://www.10xgenomics.com/support/software/cell-ranger
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cellranger error on wsl2 #250

Closed AdotaLover closed 3 months ago

AdotaLover commented 3 months ago

i mount Mobile Hard disk in wsl to preprocessing fastq,but an error out,i check the log,it shows:

Running preflight checks (please wait)... 2024-08-17 02:59:05 [runtime] (ready) ID.HRR084196_output.SC_RNA_COUNTER_CS.CELLRANGER_PREFLIGHT 2024-08-17 02:59:05 [runtime] Could not create symlink for ID.HRR084196_output.SC_RNA_COUNTER_CS.CELLRANGER_PREFLIGHT.fork0.chnk0 symlink chnk0-u3090bfa179 /mnt/e/fastq/HRR084196/HRR084196_output/SC_RNA_COUNTER_CS/CELLRANGER_PREFLIGHT/fork0/chnk0: operation not permitted 2024-08-17 02:59:05 [runtime] ID.HRR084196_output.SC_RNA_COUNTER_CS.CELLRANGER_PREFLIGHT.fork0: Error making chunk directory. symlink chnk0-u3090bfa179 /mnt/e/fastq/HRR084196/HRR084196_output/SC_RNA_COUNTER_CS/CELLRANGER_PREFLIGHT/fork0/chnk0: operation not permitted 2024-08-17 02:59:05 [runtime] (ready) ID.HRR084196_output.SC_RNA_COUNTER_CS.CELLRANGER_PREFLIGHT_LOCAL 2024-08-17 02:59:05 [runtime] Could not create symlink for ID.HRR084196_output.SC_RNA_COUNTER_CS.CELLRANGER_PREFLIGHT_LOCAL.fork0.chnk0 symlink chnk0-u3090bfa179 /mnt/e/fastq/HRR084196/HRR084196_output/SC_RNA_COUNTER_CS/CELLRANGER_PREFLIGHT_LOCAL/fork0/chnk0: operation not permitted 2024-08-17 02:59:05 [runtime] ID.HRR084196_output.SC_RNA_COUNTER_CS.CELLRANGER_PREFLIGHT_LOCAL.fork0: Error making chunk directory. symlink chnk0-u3090bfa179 /mnt/e/fastq/HRR084196/HRR084196_output/SC_RNA_COUNTER_CS/CELLRANGER_PREFLIGHT_LOCAL/fork0/chnk0: operation not permitted

i search that problem and it may result from the mount disk,how can i fix that?or i can never use mount disk to process it?thanks

github-actions[bot] commented 3 months ago

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.