, 'min_reads': 10, 'keep_tmp_files': True, 'pos_ref_fp': (), 'seqs_fp': '/tmp/qiime2-archive-l7b177tm/b055dc96-e416-488b-a725-91ab141898dc/data', 'left_trim_length': 0, 'output_dir': '/tmp/tmpsr2gx2vo', 'neg_ref_db_fp': (), 'trim_length': 250, 'threads_per_sample': 1, 'indel_max': 3, 'is_worker_thread': None, 'log_level': 2, 'pos_ref_db_fp': (), 'mean_error': 0.005, 'jobs_to_start': 1, 'log_file': '/home/qiime2/mojetesty/deblur.log', 'indel_prob': 0.01, 'min_size': 2, 'neg_ref_fp': (), 'overwrite': True, 'error_dist': [1, 0.06, 0.02, 0.02, 0.01, 0.005, 0.005, 0.005, 0.001, 0.001, 0.001, 0.0005]}
> INFO(139970853230336)2017-12-01 17:29:44,164:error_dist is : [1, 0.06, 0.02, 0.02, 0.01, 0.005, 0.005, 0.005, 0.001, 0.001, 0.001, 0.0005]
> INFO(139970853230336)2017-12-01 17:29:44,164:deblur main program started
> INFO(139970853230336)2017-12-01 17:29:44,164:processing directory /tmp/qiime2-archive-l7b177tm/b055dc96-e416-488b-a725-91ab141898dc/data
> INFO(139970853230336)2017-12-01 17:29:44,166:building negative db sortmerna index files
> INFO(139970853230336)2017-12-01 17:29:44,167:build_index_sortmerna files ['/home/qiime2/miniconda/envs/qiime2-2017.11/lib/python3.5/site-packages/deblur/support_files/artifacts.fa'] to dir /tmp/tmpsr2gx2vo/deblur_working_dir
> INFO(139970853230336)2017-12-01 17:29:44,224:building positive db sortmerna index files
> INFO(139970853230336)2017-12-01 17:29:44,224:build_index_sortmerna files ['/home/qiime2/miniconda/envs/qiime2-2017.11/lib/python3.5/site-packages/deblur/support_files/88_otus.fasta'] to dir /tmp/tmpsr2gx2vo/deblur_working_dir
> INFO(139970853230336)2017-12-01 17:30:51,194:processing per sample fasta files
> INFO(139970853230336)2017-12-01 17:30:51,194:--------------------------------------------------------
> INFO(139970853230336)2017-12-01 17:30:51,194:launch_workflow for file /tmp/qiime2-archive-l7b177tm/b055dc96-e416-488b-a725-91ab141898dc/data/MZ2_1_L001_R1_001.fastq.gz
> INFO(139970853230336)2017-12-01 17:32:47,292:dereplicate seqs file /tmp/tmpsr2gx2vo/deblur_working_dir/MZ2_1_L001_R1_001.fastq.gz.trim
> INFO(139970853230336)2017-12-01 17:32:47,622:remove_artifacts_seqs file /tmp/tmpsr2gx2vo/deblur_working_dir/MZ2_1_L001_R1_001.fastq.gz.trim.derep
> INFO(139970853230336)2017-12-01 17:32:49,255:total sequences 9283, passing sequences 9283, failing sequences 0
> INFO(139970853230336)2017-12-01 17:32:49,255:multiple_sequence_alignment seqs file /tmp/tmpsr2gx2vo/deblur_working_dir/MZ2_1_L001_R1_001.fastq.gz.trim.derep.no_artifacts
>
> ```
Thanks 🙂
---
### Author:  [@colinbrislawn](https://forum.qiime2.org/u/colinbrislawn)
#### Post date: [December 1, 2017, 8:37pm UTC](https://forum.qiime2.org/t/deblur-paired-end-sequences-empty-output/2053/2 "2017-12-01T20:37:43Z")
Good afternoon,
This line caught my eye.
> [@Jaroslaw\_Grzadziel](#):
>
> INFO(140236079888128)2017-12-01 15:45:29,263:total sequences 3916, passing sequences 0, failing sequences 3916
I wonder if your 'deblured' features are less then 250 bp long. That might conflict with `--p-trim-length 250` setting.
---
### Author:  [@Jaroslaw\_Grzadziel](https://forum.qiime2.org/u/Jaroslaw_Grzadziel)
#### Post date: [December 1, 2017, 9:26pm UTC](https://forum.qiime2.org/t/deblur-paired-end-sequences-empty-output/2053/3 "2017-12-01T21:26:54Z")
> [@colinbrislawn](#):
>
> I wonder if your ‘deblured’ features are less then 250 bp long. That might conflict with --p-trim-length 250 setting.
I will try to set `--p-trim-length 250` different values and check if this was an issue. I will post a result tomorrow.
Thank you for advise 😉
---
### Author:  [@Jaroslaw\_Grzadziel](https://forum.qiime2.org/u/Jaroslaw_Grzadziel)
#### Post date: [December 4, 2017, 3:52pm UTC](https://forum.qiime2.org/t/deblur-paired-end-sequences-empty-output/2053/4 "2017-12-04T15:52:38Z")
Hello,
Suprisingly the fastq files were corrupted after migration from 2017.10 to 2017.11 version, I don't know why, but now I restored original ones, and everything is working .
To sum up: It was my mistake, not qiime2 error 🙂
Thanks everyone 🙂
---
### Author:  [@thermokarst](https://forum.qiime2.org/u/thermokarst)
#### Post date: [December 4, 2017, 3:56pm UTC](https://forum.qiime2.org/t/deblur-paired-end-sequences-empty-output/2053/5 "2017-12-04T15:56:20Z")
Hi @Jaroslaw_Grzadziel - thanks for the update! Can I ask though, what do you mean here:
> [@Jaroslaw\_Grzadziel](#):
>
> Suprisingly the fastq files were corrupted after migration from 2017.10 to 2017.11 version
How were your files "corrupted"? Something doesn't sound quite right here - QIIME 2 Artifacts have some pretty excellent backwards-compatible guarantees, and once an Artifact is created, it is immutable, and is never modified or edited (by QIIME 2, at least). This is part of how we make things like provenance happen! Anyway, if you have any additional info here about what happened, that would be really helpful! 🦖
---
### Author:  [@Jaroslaw\_Grzadziel](https://forum.qiime2.org/u/Jaroslaw_Grzadziel)
#### Post date: [December 5, 2017, 1:29pm UTC](https://forum.qiime2.org/t/deblur-paired-end-sequences-empty-output/2053/6 "2017-12-05T13:29:56Z")
> [@thermokarst](#):
>
> How were your files “corrupted”
Actually my fastq.gz files were corrupted, not artifacts. I don't know which step exactly caused this situation, but I realized that my fastq.gz files had a different size after copying them from previous to a new virtual machine. I removed them and copied again directly from the primary disk, run analysis from the scratch, and everytching was fine.
---
### Author:  [@system](https://forum.qiime2.org/u/system)
#### Post date: [January 5, 2018, 7:30pm UTC](https://forum.qiime2.org/t/deblur-paired-end-sequences-empty-output/2053/7 "2018-01-05T19:30:04Z")
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