fatal error: buffer size for SJ output is too small Solution: increase input parameter --limitOutSJcollapsed about rsem HOT 3 CLOSED

Error executing process > 'NFCORE_RNASEQ:RNASEQ:QUANTIFY_RSEM:RSEM_CALCULATEEXPRESSION (HepG2_Rep3)'

Caused by:
 Process `NFCORE_RNASEQ:RNASEQ:QUANTIFY_RSEM:RSEM_CALCULATEEXPRESSION (HepG2_Rep3)` terminated with an error exit status (255)

Command executed:

 INDEX=`find -L ./ -name "*.grp" | sed 's/\.grp$//'`
 rsem-calculate-expression \
   --num-threads 12 \
   --temporary-folder ./tmp/ \
   --strandedness forward \
   --paired-end \
   --star --star-output-genome-bam --star-gzipped-read-file --estimate-rspd --seed 1 \
   HepG2_Rep3_1_val_1.fq.gz HepG2_Rep3_2_val_2.fq.gz \
   $INDEX \
   HepG2_Rep3
  
 cat <<-END_VERSIONS > versions.yml
 "NFCORE_RNASEQ:RNASEQ:QUANTIFY_RSEM:RSEM_CALCULATEEXPRESSION":
   rsem: $(rsem-calculate-expression --version | sed -e "s/Current version: RSEM v//g")
   star: $(STAR --version | sed -e "s/STAR_//g")
 END_VERSIONS

Command exit status:
 255

Command output:
 STAR --genomeDir ./rsem --outSAMunmapped Within --outFilterType BySJout --outSAMattributes NH HI AS NM MD --outFilterMultimapNmax 20 --outFilterMismatchNmax 999 --outFilterMismatchNoverLmax 0.04 --alignIntronMin 20 --alignIntronMax 1000000 --alignMatesGapMax 1000000 --alignSJoverhangMin 8 --alignSJDBoverhangMin 1 --sjdbScore 1 --runThreadN 12 --genomeLoad NoSharedMemory --outSAMtype BAM Unsorted --quantMode TranscriptomeSAM --outSAMheaderHD @HD VN:1.4 SO:unsorted --outFileNamePrefix ./tmp//HepG2_Rep3 --readFilesCommand zcat --readFilesIn HepG2_Rep3_1_val_1.fq.gz HepG2_Rep3_2_val_2.fq.gz
 	STAR --genomeDir ./rsem --outSAMunmapped Within --outFilterType BySJout --outSAMattributes NH HI AS NM MD --outFilterMultimapNmax 20 --outFilterMismatchNmax 999 --outFilterMismatchNoverLmax 0.04 --alignIntronMin 20 --alignIntronMax 1000000 --alignMatesGapMax 1000000 --alignSJoverhangMin 8 --alignSJDBoverhangMin 1 --sjdbScore 1 --runThreadN 12 --genomeLoad NoSharedMemory --outSAMtype BAM Unsorted --quantMode TranscriptomeSAM --outSAMheaderHD @HD VN:1.4 SO:unsorted --outFileNamePrefix ./tmp//HepG2_Rep3 --readFilesCommand zcat --readFilesIn HepG2_Rep3_1_val_1.fq.gz HepG2_Rep3_2_val_2.fq.gz
 	STAR version: 2.7.10a  compiled: 2022-01-14T18:50:00-05:00 :/home/dobin/data/STAR/STARcode/STAR.master/source
 Jul 12 17:07:07 ..... started STAR run
 Jul 12 17:07:07 ..... loading genome
 Jul 12 17:07:43 ..... started mapping
 "STAR --genomeDir ./rsem --outSAMunmapped Within --outFilterType BySJout --outSAMattributes NH HI AS NM MD --outFilterMultimapNmax 20 --outFilterMismatchNmax 999 --outFilterMismatchNoverLmax 0.04 --alignIntronMin 20 --alignIntronMax 1000000 --alignMatesGapMax 1000000 --alignSJoverhangMin 8 --alignSJDBoverhangMin 1 --sjdbScore 1 --runThreadN 12 --genomeLoad NoSharedMemory --outSAMtype BAM Unsorted --quantMode TranscriptomeSAM --outSAMheaderHD @HD VN:1.4 SO:unsorted --outFileNamePrefix ./tmp//HepG2_Rep3 --readFilesCommand zcat --readFilesIn HepG2_Rep3_1_val_1.fq.gz HepG2_Rep3_2_val_2.fq.gz" failed! Plase check if you provide correct parameters/options for the pipeline!

Command error:
  
 EXITING because of fatal error: buffer size for SJ output is too small
 Solution: increase input parameter --limitOutSJcollapsed
  
 Jul 12 17:35:08 ...... FATAL ERROR, exiting