(place_seqs.py -s ../seqs.fna -o out.tre -p 1 \
--intermediate intermediate/place_seqs)
(picrust2_pipeline.py -s study_seqs.fna -i study_seqs.biom -o picrust2_out_pipeline -p 1)
picrust2_pipeline.py -s New_Analysis_with_fna/sequence2.fna -i trial4621/feature-table.biom.tsv -o trial4621 -p 1
It resusted out error:
(qiime2-2019.10) msiddiq7@enggpz1p23:~/Kang_dataset_picrust$ picrust2_pipeline.py -s New_Analysis_with_fna/sequence2.fna -i trial4621/feature-table.biom.tsv -o trial4621 -p 1
Traceback (most recent call last):
File "/home/utad/msiddiq7/.conda/envs/qiime2-2019.10/bin/picrust2_pipeline.py", line 264, in <module>
main()
File "/home/utad/msiddiq7/.conda/envs/qiime2-2019.10/bin/picrust2_pipeline.py", line 255, in main
verbose=args.verbose)
File "/home/utad/msiddiq7/.conda/envs/qiime2-2019.10/lib/python3.6/site-packages/picrust2/pipeline.py", line 118, in full_pipeline
check_overlapping_seqs(study_fasta, input_table, verbose)
File "/home/utad/msiddiq7/.conda/envs/qiime2-2019.10/lib/python3.6/site-packages/picrust2/pipeline.py", line 361, in check_overlapping_seqs
FASTA_ASVs = set(read_fasta(in_seq).keys())
File "/home/utad/msiddiq7/.conda/envs/qiime2-2019.10/lib/python3.6/site-packages/picrust2/util.py", line 63, in read_fasta
seq[name] += line
KeyError: None
(qiime2-2019.10) msiddiq7@enggpz1p23:~/Kang_dataset_picrust$
I did not understand what it means or how to solve it!
Later on, I have installed picrust2 on another Linux computer and used the following commands :
>>
Template (place_seqs.py -s ../seqs.fna -o out.tre -p 1 \
--intermediate intermediate/place_seqs)
place_seqs.py -s sequence2.fna -o out.tre -p 1 \
--intermediate intermediate/place_seqs
>> Second command:
Template: (picrust2_pipeline.py -s study_seqs.fna -i study_seqs.biom -o picrust2_out_pipeline -p 1)
picrust2_pipeline.py -s sequence2.fna -i feature-table.biom -o picrust2_out_pipeline -p 1
(picrust2) afia@afia-P452LA:~/Desktop/picrust2$ picrust2_pipeline.py -s sequence2.fna -i feature-table.biom -o picrust2_out_pipeline -p 1
Traceback (most recent call last):
File "/home/afia/miniconda3/envs/picrust2/bin/picrust2_pipeline.py", line 248, in <module>
main()
File "/home/afia/miniconda3/envs/picrust2/bin/picrust2_pipeline.py", line 238, in main
verbose=args.verbose)
File "/home/afia/miniconda3/envs/picrust2/lib/python3.6/site-packages/picrust2/pipeline.py", line 122, in full_pipeline
check_overlapping_seqs(study_fasta, input_table, verbose)
File "/home/afia/miniconda3/envs/picrust2/lib/python3.6/site-packages/picrust2/pipeline.py", line 326, in check_overlapping_seqs
FASTA_ASVs = set(read_fasta(in_seq).keys())
File "/home/afia/miniconda3/envs/picrust2/lib/python3.6/site-packages/picrust2/util.py", line 62, in read_fasta
seq[name] += line
KeyError: None
(picrust2) afia@afia-P452LA:~/Desktop/picrust2$
It also resulted in similar output/bugs
Could you please suggest to me what should I do, now?
Thanks in advance
Mashuk
--
You received this message because you are subscribed to the Google Groups "picrust-users" group.
To unsubscribe from this group and stop receiving emails from it, send an email to picrust-user...@googlegroups.com.
To view this discussion on the web visit https://groups.google.com/d/msgid/picrust-users/af8b65d4-e0c3-4b51-b879-5971d5a5179fn%40googlegroups.com.
<vi_place_seqs2.jpg>
To view this discussion on the web visit https://groups.google.com/d/msgid/picrust-users/3F0FFCBF-F4AA-4D94-B232-8580B678E963%40gmail.com.
-------------------------------------------------------
Regards
Mashuk Siddiquee
E-mail: mashu...@gmail.com
To view this discussion on the web visit https://groups.google.com/d/msgid/picrust-users/CALtY15z%3DiAxL-%3Dg_L%2BwMN9nCfhXuKUYegUzm0WBahYUrdO%3D_9Q%40mail.gmail.com.
<head_Seq fna.jpg><Seq_point_fna_file.jpg>