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This is cutadapt 2.7 with Python 3.6.0
Command line parameters: -a XNNNCAATAGCATGCCTTGCCGATTTGTCATC...AGATGGGGGGAAACAAANNNNX --info-file info.txt merged_fq.fastq
Processing reads on 1 core in single-end mode ...
Traceback (most recent call last):
File "/usr/.venvs/lsl/bin/cutadapt", line 8, in <module>
sys.exit(main())
File "/usr/.venvs/lsl/lib/python3.6/site-packages/cutadapt/__main__.py", line 825, in main
stats = runner.run()
File "/usr/.venvs/lsl/lib/python3.6/site-packages/cutadapt/pipeline.py", line 758, in run
(n, total1_bp, total2_bp) = self._pipeline.process_reads(progress=self._progress)
File "/usr/.venvs/lsl/lib/python3.6/site-packages/cutadapt/pipeline.py", line 266, in process_reads
if filter_(read, matches):
File "/usr/.venvs/lsl/lib/python3.6/site-packages/cutadapt/filters.py", line 91, in __call__
if self.filter(read, matches):
File "/usr/.venvs/lsl/lib/python3.6/site-packages/cutadapt/filters.py", line 409, in __call__
info_record = match.get_info_record()
AttributeError: 'LinkedMatch' object has no attribute 'get_info_record'
Changed my path to "usr" for simplification.
Trimming is working fine without "--info-file " option.
Thank you
The text was updated successfully, but these errors were encountered:
Citteny
changed the title
--info-file results in LinkedMatch' object has no attribute 'get_info_record'
--info-file results in 'LinkedMatch' object has no attribute 'get_info_record'
Dec 22, 2019
Hi continuing #430
The goal is to get the trimmed sequence
I'm using
linked adapters
, and encountered a problem using the info file option.i'm using cutadapt 2.7 (pip installation), Python 3.6.0
The command:
cutadapt -a "XNNNCAATAGCATGCCTTGCCGATTTGTCATC...AGATGGGGGGAAACAAANNNNX" --info-file info.txt merged_fq.fastq
Content of merged_fq.fastq:
Traceback:
Changed my path to "usr" for simplification.
Trimming is working fine without "--info-file " option.
Thank you
The text was updated successfully, but these errors were encountered: