I am trying to import sequences as manifest format.
I am running Qiime 2 version 2019.1, installed with conda.
This is the code I ran:
qiime tools import
--type 'SampleData[PairedEndSequencesWithQuality]'
--input-path crn_manifest.csv
--output-path paired-end-demux.qza
--input-format PairedEndFastqManifestPhred33
This is the error I got:
Traceback (most recent call last):
File "/Users/dariange/miniconda2/envs/qiime2-2019.1/lib/python3.6/site-packages/q2cli/tools.py", line 146, in import_data
view_type=input_format)
File "/Users/dariange/miniconda2/envs/qiime2-2019.1/lib/python3.6/site-packages/qiime2/sdk/result.py", line 240, in import_data
return cls.from_view(type, view, view_type, provenance_capture)
File "/Users/dariange/miniconda2/envs/qiime2-2019.1/lib/python3.6/site-packages/qiime2/sdk/result.py", line 265, in _from_view
result = transformation(view)
File "/Users/dariange/miniconda2/envs/qiime2-2019.1/lib/python3.6/site-packages/qiime2/core/transform.py", line 70, in transformation
new_view = transformer(view)
File "/Users/dariange/miniconda2/envs/qiime2-2019.1/lib/python3.6/site-packages/q2_types/per_sample_sequences/_transformer.py", line 338, in _8
single_end=False)
File "/Users/dariange/miniconda2/envs/qiime2-2019.1/lib/python3.6/site-packages/q2_types/per_sample_sequences/_transformer.py", line 268, in _fastq_manifest_helper
absolute=True)
File "/Users/dariange/miniconda2/envs/qiime2-2019.1/lib/python3.6/site-packages/q2_types/per_sample_sequences/_transformer.py", line 158, in _parse_and_validate_manifest
_validate_paired_end_fastq_manifest_directions(manifest)
File "/Users/dariange/miniconda2/envs/qiime2-2019.1/lib/python3.6/site-packages/q2_types/per_sample_sequences/_transformer.py", line 211, in _validate_paired_end_fastq_manifest_directions
'"reverse", but observed: %s' % direction)
ValueError: Directions can only be "forward" or "reverse", but observed: reverse
An unexpected error has occurred:
Directions can only be "forward" or "reverse", but observed: reverse
See above for debug info.
I know that whitespace used to cause this issue but I have checked for that (I think).
Manifest file attached.
crn_manifest.csv (25.3 KB)
Thanks for your help