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OS: debian buster/sid, 8 cores, ~ 16 GB RAM. Python: 3.7.3
AMPtk v1.4.0, USEARCH v10.0.240, VSEARCH v2.13.4
Loading FASTA Records
8,203 OTUs
Global alignment OTUs with usearch_global (VSEARCH) against ITS.udb
Classifying OTUs with UTAX (USEARCH)
Classifying OTUs with SINTAX (USEARCH)
UTAX results empty
SINTAX results empty
Traceback (most recent call last):
File "/amptk/bin/amptk", line 735, in
main()
File "/amptk/bin/amptk", line 726, in main
mod.main(arguments)
File "/amptk/lib/python3.7/site-packages/amptk/assign_taxonomy.py", line 320, in main
bestClassify = amptklib.bestclassifier(utaxDict, sintaxDict, otuList)
File "/amptk/lib/python3.7/site-packages/amptk/amptklib.py", line 1494, in bestclassifier
BestClassify[otu] = hit
UnboundLocalError: local variable 'hit' referenced before assignment
OS: debian buster/sid, 8 cores, ~ 16 GB RAM. Python: 3.7.3
AMPtk v1.4.0, USEARCH v10.0.240, VSEARCH v2.13.4
Loading FASTA Records
8,203 OTUs
Global alignment OTUs with usearch_global (VSEARCH) against ITS.udb
Classifying OTUs with UTAX (USEARCH)
Classifying OTUs with SINTAX (USEARCH)
UTAX results empty
SINTAX results empty
Traceback (most recent call last):
File "/amptk/bin/amptk", line 735, in
main()
File "/amptk/bin/amptk", line 726, in main
mod.main(arguments)
File "/amptk/lib/python3.7/site-packages/amptk/assign_taxonomy.py", line 320, in main
bestClassify = amptklib.bestclassifier(utaxDict, sintaxDict, otuList)
File "/amptk/lib/python3.7/site-packages/amptk/amptklib.py", line 1494, in bestclassifier
BestClassify[otu] = hit
UnboundLocalError: local variable 'hit' referenced before assignment
running:
amptk taxonomy -f .cluster.filtered.otus.fa -i .cluster.final.txt -m mapping_file.txt -d ITS2 -u usearch10
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