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prepare_transcripts failed

Open manishbiotechie opened this issue 5 years ago • 3 comments

Traceback (most recent call last): File "/home/dr/anaconda2/bin/prepare_transcripts", line 10, in sys.exit(main()) File "/home/dr/anaconda2/lib/python2.7/site-packages/RiboCode/prepare_transcripts.py", line 388, in main processTranscripts(args.genomeFasta,args.gtfFile,args.out_dir) File "/home/dr/anaconda2/lib/python2.7/site-packages/RiboCode/prepare_transcripts.py", line 308, in processTranscripts gene_dict,transcript_dict = readGTF(gtfFile) File "/home/dr/anaconda2/lib/python2.7/site-packages/RiboCode/prepare_transcripts.py", line 187, in readGTF gene => transcript => exon (or CDS)" % i) RiboCode.prepare_transcripts.ParsingError: Error in line 0. The annotation in GTF file should be three-level hierarchy of gene => transcript => exon (or CDS)

I am getting this error and I am new to bioinformatics kindly resolve....

manishbiotechie avatar Aug 04 '18 07:08 manishbiotechie