Dear All,
I am trying to use GRD database for qiime de novo clustering approach. But I am getting the following error;
Traceback (most recent call last):
File "/nfs/home/users/monica188/.conda/envs/qiime1/bin/pick_de_novo_otus.py", line 4, in <module>
__import__('pkg_resources').run_script('qiime==1.9.1', 'pick_de_novo_otus.py')
File "/nfs/home/users/monica188/.conda/envs/qiime1/lib/python2.7/site-packages/pkg_resources/__init__.py", line 666, in run_script
self.require(requires)[0].run_script(script_name, ns)
File "/nfs/home/users/monica188/.conda/envs/qiime1/lib/python2.7/site-packages/pkg_resources/__init__.py", line 1462, in run_script
exec(code, namespace, namespace)
File "/nfs/home/users/monica188/.conda/envs/qiime1/lib/python2.7/site-packages/qiime-1.9.1-py2.7.egg-info/scripts/pick_de_novo_otus.py", line 180, in <module>
main()
File "/nfs/home/users/monica188/.conda/envs/qiime1/lib/python2.7/site-packages/qiime-1.9.1-py2.7.egg-info/scripts/pick_de_novo_otus.py", line 177, in main
status_update_callback=status_update_callback)
File "/nfs/home/users/monica188/.conda/envs/qiime1/lib/python2.7/site-packages/qiime/workflow/upstream.py", line 306, in run_pick_de_novo_otus
close_logger_on_success=close_logger_on_success)
File "/nfs/home/users/monica188/.conda/envs/qiime1/lib/python2.7/site-packages/qiime/workflow/util.py", line 122, in call_commands_serially
raise WorkflowError(msg)
qiime.workflow.util.WorkflowError:
*** ERROR RAISED DURING STEP: Assign taxonomy
Command run was:
assign_taxonomy.py -o denovo_clustering_97_GRD/uclust_assigned_taxonomy -i denovo_clustering_97_GRD/rep_set//seqs_rep_set.fasta --reference_seqs_fp /nfs/home/users/monica188/Hyper_region_analysis/train_GRD/sequence.fasta --id_to_taxonomy_fp /nfs/home/users/monica188/Hyper_region_analysis/train_GRD/GRD*.txt
Command returned exit status: 1
Stdout:
Stderr
Traceback (most recent call last):
File "/nfs/home/users/monica188/.conda/envs/qiime1/bin/assign_taxonomy.py", line 4, in <module>
__import__('pkg_resources').run_script('qiime==1.9.1', 'assign_taxonomy.py')
File "/nfs/home/users/monica188/.conda/envs/qiime1/lib/python2.7/site-packages/pkg_resources/__init__.py", line 666, in run_script
self.require(requires)[0].run_script(script_name, ns)
File "/nfs/home/users/monica188/.conda/envs/qiime1/lib/python2.7/site-packages/pkg_resources/__init__.py", line 1462, in run_script
exec(code, namespace, namespace)
File "/nfs/home/users/monica188/.conda/envs/qiime1/lib/python2.7/site-packages/qiime-1.9.1-py2.7.egg-info/scripts/assign_taxonomy.py", line 417, in <module>
main()
File "/nfs/home/users/monica188/.conda/envs/qiime1/lib/python2.7/site-packages/qiime-1.9.1-py2.7.egg-info/scripts/assign_taxonomy.py", line 386, in main
taxon_assigner = taxon_assigner_constructor(params)
File "/nfs/home/users/monica188/.conda/envs/qiime1/lib/python2.7/site-packages/qiime/assign_taxonomy.py", line 1234, in __init__
self.id_to_taxonomy = self._parse_id_to_taxonomy_file(id_to_taxonomy_f)
File "/nfs/home/users/monica188/.conda/envs/qiime1/lib/python2.7/site-packages/qiime/assign_taxonomy.py", line 117, in _parse_id_to_taxonomy_file
identifier, taxonomy = map(strip, line.split('\t'))
ValueError: too many values to unpack
I have also attached my sequence file taxonomic file for your reference