UnicodeDecodeError: 'utf-8' codec can't decode byte 0x89 in position 0: invalid start byte

[abelTan131]

Hi,

I ran picrust2 using the following command:

picrust2_pipeline.py -s /oceanstor/home/e1103389/host_age_prediction/host_age_prediction_dataset/qiime2/rep-seqs_test.fasta -i /oceanstor/home/e1103389/host_age_prediction/host_age_prediction_dataset/qiime2/table.biome -o /oceanstor/home/e1103389/host_age_prediction/host_age_prediction_dataset/picrust_output.

But it came back with an error saying:

__Traceback (most recent call last): File "/home/svu/e1103389/anaconda3/envs/picrust2/bin/picrust2_pipeline.py", line 277, in main() File "/home/svu/e1103389/anaconda3/envs/picrust2/bin/picrust2_pipeline.py", line 239, in main func_outfiles, pathway_outfiles = full_pipeline(study_fasta=args.study_fasta, File "/home/svu/e1103389/anaconda3/envs/picrust2/lib/python3.8/site-packages/picrust2/pipeline.py", line 116, in full_pipeline check_overlapping_seqs(study_fasta, input_table, verbose) File "/home/svu/e1103389/anaconda3/envs/picrust2/lib/python3.8/site-packages/picrust2/pipeline.py", line 363, in check_overlapping_seqs in_table = read_seqabun(in_tab) File "/home/svu/e1103389/anaconda3/envs/picrust2/lib/python3.8/site-packages/picrust2/util.py", line 383, in read_seqabun for line in quickread: File "/home/svu/e1103389/anaconda3/envs/picrust2/lib/python3.8/codecs.py", line 322, in decode (result, consumed) = self._bufferdecode(data, self.errors, final) UnicodeDecodeError: 'utf-8' codec can't decode byte 0x89 in position 0: invalid start byte

How can I fix the problem?

[abelTan131]

I will add that:

The fasta and biome files were extracted using unzip from a qiime 2 artefact created by

denoise single reads using DADA2

qiime dada2 denoise-single \ --i-demultiplexed-seqs single-end-trim-demux.qza \ --p-trim-left 0 \ --p-trunc-len 176 \ --p-n-threads 8 \ --o-table table.qza \ --o-representative-sequences rep-seqs_test.qza \ --o-denoising-stats denoising-stats.qza

[R-Wright-1]

Hi there,

Could you add your input files please? The .fasta and .biome files? This kind of error usually suggests some character in one of the files that isn't expected with the given formatting, but I'll be able to work that out more easily if I can see the files.

Robyn

[abelTan131]

Hello Robyn

No worries, I fixed the error already.

Thanks for your help.