Open JianGuoZhou3 opened 1 year ago
nohup /home/zhou2/soft/NCLscan-1.7.0/NCLscan.py -c /home/zhou2/soft/NCLscan-1.7.0/NCLscan.config -pj raw -o ${dir}/NCLscan/${i}.output --fq1 ${dir}/raw/${i}_1.fastq.gz --fq2 ${dir}/raw/${i}_2.fastq.gz
There are some errors.
# novoindex (4.3) - Universal k-mer index constructor.
# (C) 2008 - 2011 NovoCraft Technologies Sdn Bhd
# novoindex /home/data/EGA/IMmotion151/NCLscan/WO29637_ngs_rna_targrna_EA_001b0af504.output/raw.JS2.ndx /home/data/EGA/IMmotion151/NCLscan/WO29637_ngs_rna_targrna_EA_001b0af504.output/raw.JS2.fa
# Creating 127 indexing threads.
# Building with 9-mer and step of 1 bp.
# 0 kmers were indexed.
# 0 kmers not indexed due to excess N's.
# novoindex construction dT = 0.0s
# Index memory size 0.001Gbyte.
# Done.
Error: /home/data/EGA/IMmotion151/NCLscan/WO29637_ngs_rna_targrna_EA_001b0af504.output/raw.JS2.ndx does not appear to be a valid novoindex. Code 9
Start to split the input into 20 part ...
Traceback (most recent call last):
File "/home/zhou2/soft/NCLscan-1.7.0/bin/mp_blat.py", line 152, in <module>
mp_blat(args.reference, args.fasta, args.output, args.process, args.tmp_path, args.blat_bin, args.blat_opt)
File "/home/zhou2/soft/NCLscan-1.7.0/bin/mp_blat.py", line 72, in mp_blat
edge_pos = [all_reads_pos[0]] + splice_positions + [fasta_file_size]
IndexError: list index out of range
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