Error trimming files using option: -ad ion

[maikelcolli]

When I am trying to trim .fastq files from ion torrent sequencing I am getting the error msg below:

Traceback (most recent call last):
File "/home/maikel/.local/bin/miRge2.0", line 10, in
sys.exit(main())
File "/home/maikel/.local/lib/python2.7/site-packages/mirge/main.py", line 358, in main
phred, processed_count, kept_count = trim_file(samplePrefix, adapter, cleanedReads, int(numCPU))
File "/home/maikel/.local/lib/python2.7/site-packages/mirge/utils/trim_file.py", line 109, in trim_file
start_workers()
File "/home/maikel/.local/lib/python2.7/site-packages/mirge/utils/trim_file.py", line 96, in start_workers
worker = Worker(queue=read_queue, results=result_queue, phred64=phred==64, adapter=adapter)
File "/home/maikel/.local/lib/python2.7/site-packages/mirge/utils/trim_file.py", line 39, in init
self.adapters = parse_adapters(adapter, error_rate=self.error_rate)
File "/home/maikel/.local/lib/python2.7/site-packages/mirge/utils/trim_file.py", line 22, in parse_adapters
return AdapterParser(max_error_rate=error_rate).parse_multi(adapter.split(','), [], [])
File "/home/maikel/.local/lib/python2.7/site-packages/cutadapt/adapters.py", line 194, in parse_multi
adapters.extend(self.parse(spec, cmdline_type))
File "/home/maikel/.local/lib/python2.7/site-packages/cutadapt/adapters.py", line 168, in parse
yield self._parse_no_file(spec, name, cmdline_type)
File "/home/maikel/.local/lib/python2.7/site-packages/cutadapt/adapters.py", line 150, in _parse_no_file
return self.adapter_class(sequence=spec, where=where, name=name, **self.constructor_args)
File "/home/maikel/.local/lib/python2.7/site-packages/cutadapt/adapters.py", line 482, in init
'XACGTURYSWKMBDHVN.'.format(c, self.sequence))
ValueError: Character '1' in adapter sequence '11' is not a valid IUPAC code. Use only characters XACGTURYSWKMBDHVN.

[mhalushka]

Hi. Thanks for writing. We think your data has numbers in it and miRge can only use the standard nucleotide letters. Can you check your FASTQ file? If so, you'll need to convert this before processing in miRge.