Closed evcon131 closed 4 years ago
I'm trying to restart and the file does exist but I still get this error
'ls' fcout/ banned_seq.fa banned.txt candidate_fusion-genes_further_eporcrlf2igh.txt candidate_fusion-genes_further_mark.txt candidate_fusion-genes_further_paired-reads.txt candidate_fusion-genes_supporting_paired-reads.txt count_reads_left_after_filtering.txt exon-exon_junction_cut__nuc.txt exon-exon_junction_cut__seq.txt final-list_candidate-fusion-genes-t5.txt fusioncatcher.log fusioncatcher.log.001.bak fusioncatcher.log.002.bak fusioncatcher.log.003.bak fusioncatcher.log.004.bak fusioncatcher.log.005.bak fusioncatcher.log.006.bak fusioncatcher.log.007.bak fusioncatcher.log.008.bak gene-gene_longest.txt gene-gene__nuc.txt gene-gene__seq.txt gene-gene_unique.fa gene-gene_unique__nuc.txt gene-gene_unique__seq.txt info.txt log_bowtie_reads_mapped-genome.stdout.txt log_bowtie_reads_not-mapped-genome_but_mapped-transcriptome.stdout.txt log_bowtie_reads_unique-mapped-genome_mapped-transcriptome.stdout.txt log_counts_reads_gene-gene_no-str.txt log_lengths_original_reads_final.txt log_lengths_original_reads.txt log_lengths_reads_gene-gene_no-str.txt log_lengths_reads.txt log_minimum_length_short_read.txt log_number_of_reads_processed.txt log_removed_single_reads1.txt original.fq original_important.fq.gz preliminary-list_candidate-fusion-genes.txt reads_filtered_not-mapped-genome_not-mapped-transcriptome_final2.txt reads_filtered_not-mapped-genome_not-mapped-transcriptome.fq reads_filtered_not-mapped-genome_transcriptome_trim2_3end.map.all.ex.good reads_ids_unmapped.txt restart.sh star_sdjboverhang.txt supporting-reads_gene-fusions_BLAT.zip supporting-reads_gene-fusions_BOWTIE.zip supporting-reads_gene-fusions_STAR.zip tmp viruses_bacteria_phages.txt
This looks like is the same like https://github.com/ndaniel/fusioncatcher/issues/160
Just create an empty file called "banned_seq.fa" and it should fix this.
I'm trying to restart and the file does exist but I still get this error