unrecognized parameter

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Norah Alghamdi

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May 2, 2023, 5:48:54 PM5/2/23

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Hi Alex,

I got an error that I couldn't solve could you please help me to understand it?

STAR --runThreadN 16 --genomeDir /ibex/scratch/alghn0a/isoformAnalysis/CellRangerForAlignment/refdata-gex-mm10-2020-A/star/ --soloType CB_UMI_Simple --readFilesIn /ibex/scratch/alghn0a/isoformAnalysis/CellRangerForAlignment/P2_alignment/outs/possorted_genome_bam.bam --readFilesCommand samtools view -F 0x100 --readFilesType SAM SE --soloInputSAMattrBarcodeSeq CR UR --soloInputSAMattrBarcodeQual CY UY --readFilesSAMattrKeep None --soloCBwhitelist /ibex/scratch/alghn0a/isoformAnalysis/CellRangerForAlignment/cellranger-7.1.0/lib/python/cellranger/barcodes/737K-august-2016.txt --soloFeatures Gene SJ

EXITING: FATAL INPUT ERROR: unrecognized parameter name "soloInputSAMattrBarcodeSeq" in input "Command-Line-Initial"
SOLUTION: use correct parameter name (check the manual)

Thank you in advance.

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Alexander Dobin

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May 2, 2023, 5:55:12 PM5/2/23

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Hi @nalghamd88

please use the latest version of STAR, older versions do not support this option.

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