You signed in with another tab or window. Reload to refresh your session.You signed out in another tab or window. Reload to refresh your session.You switched accounts on another tab or window. Reload to refresh your session.Dismiss alert
I would like to test it with some of my samples in our computer (32C 128GbRam). After follow the installation steps I wasnt able to run the first job with STAR alignment, due to this error.
Any potential solution?
Many thanks
Thanks for developing this pipeline.
I would like to test it with some of my samples in our computer (32C 128GbRam). After follow the installation steps I wasnt able to run the first job with STAR alignment, due to this error.
Any potential solution?
Many thanks
STAR --runThreadN 24 --genomeDir ./ref_files/v22
--outReadsUnmapped None
--chimSegmentMin 12
--chimJunctionOverhangMin 12
--chimOutJunctionFormat 1
--alignSJDBoverhangMin 10
--alignMatesGapMax 1000000
--alignIntronMax 1000000
--alignSJstitchMismatchNmax 5 -1 5 5
--outSAMstrandField intronMotif
--outSAMunmapped Within
--outSAMtype BAM Unsorted
--readFilesIn /home/biouser/RIMA/RIMA_pipeline/data/S174627_1.fastq.gz /home/biouser/RIMA/RIMA_pipeline/data/S174627_2.fastq.gz
--chimMultimapScoreRange 10
--chimMultimapNmax 10
--chimNonchimScoreDropMin 10
--peOverlapNbasesMin 12
--peOverlapMMp 0.1
--outSAMheaderHD @hd VN:1.4
--twopassMode Basic
--readFilesCommand zcat
--outFileNamePrefix analysis/star/S174627/S174627
--quantMode TranscriptomeSAM && mv analysis/star/S174627/S174627Aligned.out.bam analysis/star/S174627/S174627.unsorted.bam && samtools sort -T analysis/star/S174627/S174627TMP -o analysis/star/S174627/S174627.sorted.bam -@ 8 analysis/star/S174627/S174627.unsorted.bam && mv analysis/star/S174627/S174627Aligned.toTranscriptome.out.bam analysis/star/S174627/S174627.transcriptome.bam && mv analysis/star/S174627/S174627Chimeric.out.junction analysis/star/S174627/S174627.Chimeric.out.junction && mv analysis/star/S174627/S174627Log.final.out analysis/star/S174627/S174627.Log.final.out
Segmentation fault (core dumped)
The text was updated successfully, but these errors were encountered: