Hi,
I am trying to run dada2 on a large number of samples, and after finishing the import step, it says paired-end-demux.qza is not a qiime archive. This is the command I used to generate it:
qiime tools import --type SampleData[PairedEndSequencesWithQuality] --input-path Manifest1000.csv --output-path paired-end-demux.qza --source-format PairedEndFastqManifestPhred33
When I look at the object, it is 56 GB, so it’s clearly there and has data in it. Do you have any insight on what the problem could be?
Best,
Anna
qiime dada2 denoise-paired --i-demultiplexed-seqs paired-end-demux.qza --o-table table.qza --o-representative-sequences rep-seqs.qza --p-trim-left-f 10 --p-trim-left-r 0 --p-trunc-len-f 290 --p-trunc-len-r 290 --p-n-threads 0
Traceback (most recent call last):
File "/home/ec2-user/miniconda3/envs/qiime2-2017.4/bin/qiime", line 6, in <module>
sys.exit(q2cli.__main__.qiime())
File "/home/ec2-user/miniconda3/envs/qiime2-2017.4/lib/python3.5/site-packages/click/core.py", line 722, in __call__
return self.main(*args, **kwargs)
File "/home/ec2-user/miniconda3/envs/qiime2-2017.4/lib/python3.5/site-packages/click/core.py", line 697, in main
rv = self.invoke(ctx)
File "/home/ec2-user/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 "/home/ec2-user/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 "/home/ec2-user/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 "/home/ec2-user/miniconda3/envs/qiime2-2017.4/lib/python3.5/site-packages/click/core.py", line 535, in invoke
return callback(*args, **kwargs)
File "/home/ec2-user/miniconda3/envs/qiime2-2017.4/lib/python3.5/site-packages/q2cli/commands.py", line 187, in __call__
arguments, missing_in, verbose = self.handle_in_params(kwargs)
File "/home/ec2-user/miniconda3/envs/qiime2-2017.4/lib/python3.5/site-packages/q2cli/commands.py", line 261, in handle_in_params
kwargs, fallback=cmd_fallback
File "/home/ec2-user/miniconda3/envs/qiime2-2017.4/lib/python3.5/site-packages/q2cli/handlers.py", line 255, in get_value
return qiime2.Artifact.load(path)
File "/home/ec2-user/miniconda3/envs/qiime2-2017.4/lib/python3.5/site-packages/qiime2/sdk/result.py", line 60, in load
archiver = archive.Archiver.load(filepath)
File "/home/ec2-user/miniconda3/envs/qiime2-2017.4/lib/python3.5/site-packages/qiime2/core/archive/archiver.py", line 294, in load
archive = cls.get_archive(filepath)
File "/home/ec2-user/miniconda3/envs/qiime2-2017.4/lib/python3.5/site-packages/qiime2/core/archive/archiver.py", line 259, in get_archive
raise ValueError("%s is not a QIIME archive." % filepath)
ValueError: paired-end-demux.qza is not a QIIME archive.