Hello,
I'm using QIIME2 to analyze my human gut microbiome 16s rRNA sequence data. Below is my command when I import my data:
qiime tools import
--type EMPSingleEndSequences
--input-path emp-single-end-sequences
--output-path emp-single-end-sequences.qza
But it turns out a ValueError: Missing one or more files for EMPSingleEndDirFmt: 'barcodes.fastq.gz'
The problem is I even don't have the barcodes file.
Note that when I try to import my data as a SampleData[SequencesWithQuality]
type, as follows
qiime tools import --type SampleData[SequencesWithQuality] --input-path ./SampleData/ --output-path SampleData.qza
I get the following error
Traceback (most recent call last):
File "/Users/yinghe/miniconda3/envs/qiime2-2017.4/bin/qiime", line 6, in <module>
sys.exit(q2cli.__main__.qiime())
File "/Users/yinghe/miniconda3/envs/qiime2-2017.4/lib/python3.5/site-packages/click/core.py", line 722, in __call__
return self.main(*args, **kwargs)
File "/Users/yinghe/miniconda3/envs/qiime2-2017.4/lib/python3.5/site-packages/click/core.py", line 697, in main
rv = self.invoke(ctx)
File "/Users/yinghe/miniconda3/envs/qiime2-2017.4/lib/python3.5/site-packages/click/core.py", line 1066, in invoke
return _process_result(sub_ctx.command.invoke(sub_ctx))
File "/Users/yinghe/miniconda3/envs/qiime2-2017.4/lib/python3.5/site-packages/click/core.py", line 1066, in invoke
return _process_result(sub_ctx.command.invoke(sub_ctx))
File "/Users/yinghe/miniconda3/envs/qiime2-2017.4/lib/python3.5/site-packages/click/core.py", line 895, in invoke
return ctx.invoke(self.callback, **ctx.params)
File "/Users/yinghe/miniconda3/envs/qiime2-2017.4/lib/python3.5/site-packages/click/core.py", line 535, in invoke
return callback(*args, **kwargs)
File "/Users/yinghe/miniconda3/envs/qiime2-2017.4/lib/python3.5/site-packages/q2cli/tools.py", line 62, in import_data
view_type=source_format)
File "/Users/yinghe/miniconda3/envs/qiime2-2017.4/lib/python3.5/site-packages/qiime2/sdk/result.py", line 191, in import_data
return cls._from_view(type_, view, view_type, provenance_capture)
File "/Users/yinghe/miniconda3/envs/qiime2-2017.4/lib/python3.5/site-packages/qiime2/sdk/result.py", line 216, in _from_view
result = transformation(view)
File "/Users/yinghe/miniconda3/envs/qiime2-2017.4/lib/python3.5/site-packages/qiime2/core/transform.py", line 57, in transformation
self.validate(view)
File "/Users/yinghe/miniconda3/envs/qiime2-2017.4/lib/python3.5/site-packages/qiime2/core/transform.py", line 114, in validate
view.validate()
File "/Users/yinghe/miniconda3/envs/qiime2-2017.4/lib/python3.5/site-packages/qiime2/plugin/model/directory_format.py", line 168, in validate
getattr(self, field)._validate_members(collected_paths)
File "/Users/yinghe/miniconda3/envs/qiime2-2017.4/lib/python3.5/site-packages/qiime2/plugin/model/directory_format.py", line 104, in _validate_members
self.pathspec))
ValueError: Missing one or more files for SingleLanePerSampleSingleEndFastqDirFmt: '.+_.+_L[0-9][0-9][0-9]_R[12]_001\\.fastq\\.gz'
Not exactly sure what this error means, or how to get started figuring this out.
Any pointers would be greatly appreciated.
Thanks,
dullgreen