hello. thank you in advance.
I am receiving the error
open: No such file or directory
[bam_merge_core] fail to open file Sample_S6-N-2_output_single/tmp/accepted_hits0_sorted.bam
which causes an error and does not produce the accepted_hits.bam file which I need.
This was for a single read Tophat submission given for ONLY THE SECOND READ:
/auto/rcf-proj/sa1/software/tophat-2.0.10/bin/tophat --GTF /auto/rcf-proj/sa1/data/Homo_sapiens1/UCSC/hg19/Annotation/Archives/archive-2013-03-06-11-23-03/Genes/genes.gtf --num-threads 16 --library-type fr-firststrand --mate-inner-dist 100 --output-dir Sample_S6-N-2_output_single /auto/rcf-proj/sa1/data/Homo_sapiens1/UCSC/hg19/Sequence/Bowtie2Index/genome paired_trimmed_Sample_S6-N-2_R2.fastq.gz
any advice would be appreciated!
I am receiving the error
open: No such file or directory
[bam_merge_core] fail to open file Sample_S6-N-2_output_single/tmp/accepted_hits0_sorted.bam
which causes an error and does not produce the accepted_hits.bam file which I need.
This was for a single read Tophat submission given for ONLY THE SECOND READ:
/auto/rcf-proj/sa1/software/tophat-2.0.10/bin/tophat --GTF /auto/rcf-proj/sa1/data/Homo_sapiens1/UCSC/hg19/Annotation/Archives/archive-2013-03-06-11-23-03/Genes/genes.gtf --num-threads 16 --library-type fr-firststrand --mate-inner-dist 100 --output-dir Sample_S6-N-2_output_single /auto/rcf-proj/sa1/data/Homo_sapiens1/UCSC/hg19/Sequence/Bowtie2Index/genome paired_trimmed_Sample_S6-N-2_R2.fastq.gz
any advice would be appreciated!
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