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I run follow Command-line code:
Linux (Ununtu 22.04.5 LTS in Whidows WSL)
hisat2 -p 6 --dta -x /mnt/d/hiv_omics/scripts/Hisat2_index/genome_tran -U /mnt/d/hiv_omics/GSE180044/SRR15127754/trimmed_output/SRR15127754_trimmed.fq.gz -S /mnt/d/hiv_omics/GSE180044/SRR15127754/alignment/SRR15127754_align.sam
samtools view -@ 8 -bS /mnt/d/hiv_omics/GSE180044/SRR15127754/alignment/SRR15127754_align.sam | samtools sort -@ 8 -o /mnt/d/hiv_omics/GSE180044/SRR15127754/alignment/SRR15127754_align.sorted.bam
samtools markdup -@ 8 -r -s /mnt/d/hiv_omics/GSE180044/SRR15127754/alignment/SRR15127754_align.sorted.bam /mnt/d/hiv_omics/GSE180044/SRR15127754/alignment/SRR15127754_align.dedup.bam
featureCounts -T 8 -t exon -g gene_id -a /mnt/d/hiv_omics/scripts/Homo_sapiens.GRCh38.114.gtf --primary -o /mnt/d/hiv_omics/GSE180044/SRR15127754/alignment/SRR15127754_counts.txt /mnt/d/hiv_omics/GSE180044/SRR15127754/alignment/SRR15127754_align.dedup.bam
In the final step (featureCount), the report error is: buffer overflow detected : terminated Aborted (core dumped)
How can I solve it. Thanks. Rui Tang
The buffer overflow detected error in your featureCount step usually indicates that the program is trying to write more data into memory than it can handle. In 3 Patti World PK, managing resources carefully is just as crucial whether its memory in a program or chips in a card game Free Download APK. To fix this, check for updates to featureCount, increase buffer sizes if configurable, or process data in smaller chunks to prevent memory overflow.