I get the following error during the splice junctions step:
Traceback (most recent call last):
File "/scratch/ahegde/pyQuilts/scripts/quilts_AH01.2.py", line 1965, in
translate(results_folder+"/log/", "alternative_frameshift.bed.dna")
File "/scratch/ahegde/pyQuilts/scripts/quilts_AH01.2.py", line 857, in translate
translated = translate_seq(sequence.upper(), strand)
File "/scratch/ahegde/pyQuilts/scripts/quilts_AH01.2.py", line 813, in translate_seq
translated += codon_map[sequence[i:i+3]]
KeyError: 'EGN'
I searched for "EGN" in the alternative_frameshift.bed.dna file but didn't find it. Not able to figure out a straightforward way of debugging this. Help is much appreciated!
ekawaler
commented
6 years ago
Hello,
I get the following error during the splice junctions step:
Traceback (most recent call last): File "/scratch/ahegde/pyQuilts/scripts/quilts_AH01.2.py", line 1965, in
translate(results_folder+"/log/", "alternative_frameshift.bed.dna")
File "/scratch/ahegde/pyQuilts/scripts/quilts_AH01.2.py", line 857, in translate
translated = translate_seq(sequence.upper(), strand)
File "/scratch/ahegde/pyQuilts/scripts/quilts_AH01.2.py", line 813, in translate_seq
translated += codon_map[sequence[i:i+3]]
KeyError: 'EGN'
I searched for "EGN" in the alternative_frameshift.bed.dna file but didn't find it. Not able to figure out a straightforward way of debugging this. Help is much appreciated!