Logging started at 10:30:05 on 23 Aug 2017
QIIME version: 1.9.1

qiime_config values:
blastmat_dir	/usr/share/ncbi/data
pick_otus_reference_seqs_fp	/usr/lib/python2.7/dist-packages/qiime_default_reference/gg_13_8_otus/rep_set/97_otus.fasta
jobs_to_start	1
qiime_scripts_dir	/usr/lib/qiime/bin/
working_dir	.
pynast_template_alignment_fp	/usr/share/qiime/data/core_set_aligned.fasta.imputed
python_exe_fp	python
temp_dir	/tmp/
assign_taxonomy_reference_seqs_fp	/usr/share/qiime/data/gg_13_8_otus/rep_set/97_otus.fasta
blastall_fp	blastall
seconds_to_sleep	60
assign_taxonomy_id_to_taxonomy_fp	/usr/share/qiime/data/gg_13_8_otus/taxonomy/97_otu_taxonomy.txt

parameter file values:
align_seqs.py:template_fp	/data/amir/SILVA_128_QIIME_release/core_alignment/core_alignment_SILVA128.fna
filter_alignment:allowed_gap_frac	0.80
filter_alignment:entropy_threshold	0.10
filter_alignment:suppress_lane_mask_filter	True
assign_taxonomy:reference_seqs_fp	/data/amir/SILVA_128_QIIME_release/rep_set/rep_set_all/97/97_otus.fasta
assign_taxonomy:id_to_taxonomy_fp	/data/amir/SILVA_128_QIIME_release/taxonomy/taxonomy_all/97/taxonomy_7_levels.txt
parallel:jobs_to_start	16

Input file md5 sums:
../3.chimeras/no-chimeras/lenca.fasta: a2d42bc9f77b37078e339df28371a09d
/data/amir/SILVA_128_QIIME_release/rep_set/rep_set_all/97/97_otus.fasta: ceebb6b091e1d899ea6aef2e1104d7e4

Forcing --suppress_new_clusters as this is reference-based OTU picking.

Executing commands.

# Pick Reference OTUs command 
pick_otus.py -i ../3.chimeras/no-chimeras/lenca.fasta -o remove_lenca_test/lenca/step1_otus -r /data/amir/SILVA_128_QIIME_release/rep_set/rep_set_all/97/97_otus.fasta -m usearch61_ref  --suppress_new_clusters



*** ERROR RAISED DURING STEP: Pick Reference OTUs
Command run was:
 pick_otus.py -i ../3.chimeras/no-chimeras/lenca.fasta -o remove_lenca_test/lenca/step1_otus -r /data/amir/SILVA_128_QIIME_release/rep_set/rep_set_all/97/97_otus.fasta -m usearch61_ref  --suppress_new_clusters
Command returned exit status: 1
Stdout:

Stderr
Traceback (most recent call last):
  File "/usr/lib/qiime/bin/pick_otus.py", line 1004, in <module>
    main()
  File "/usr/lib/qiime/bin/pick_otus.py", line 897, in main
    otu_prefix=otu_prefix, HALT_EXEC=False)
  File "/usr/lib/python2.7/dist-packages/qiime/pick_otus.py", line 1800, in __call__
    HALT_EXEC=HALT_EXEC
  File "/usr/lib/python2.7/dist-packages/bfillings/usearch.py", line 1844, in usearch61_ref_cluster
    raise ApplicationError('Error running usearch61. Possible causes are '
burrito.util.ApplicationError: Error running usearch61. Possible causes are unsupported version (current supported version is usearch v6.1.544) is installed or improperly formatted input file was provided


Logging stopped at 10:30:36 on 23 Aug 2017