# Diagnostic.py or Mask-alignment.py filtered my important sequences

**URL:** <https://nextstrain.discourse.group/t/diagnostic-py-or-mask-alignment-py-filtered-my-important-sequences/153>\
**Category:** Help and Getting Started\
**Created:** [October 8, 2020, 6:06pm UTC](https://nextstrain.discourse.group/t/diagnostic-py-or-mask-alignment-py-filtered-my-important-sequences/153 "2020-10-08T18:06:08Z")\
**Posts on this page:** 1\
**Page:** 1

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**Author:** ![IrinaB](https://avatars.discourse-cdn.com/v4/letter/i/bbe5ce/32.png) [@IrinaB](https://nextstrain.discourse.group/u/IrinaB)\
**Post date:** [October 8, 2020, 6:06pm UTC](https://nextstrain.discourse.group/t/diagnostic-py-or-mask-alignment-py-filtered-my-important-sequences/153/1 "2020-10-08T18:06:08Z")

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Hello!  
I started using nextstrain only two days ago) My question is about filtering. I take 2 samples from example folder and 5 my samples (with bad quality). I see that there is problem with my seqs - they were filtered on the step python3 scripts/diagnostic.py, as I could understand from log-file. In results/aligned.fasta there are all 5 samples, but in aligned-filtered.fasta only 2 good samples from examples.  
It is not a problem about wrong dates or locations, etc, because when changed only sequences in my samples it worked well. Also I add samples to “include-file” and it did not help  
Could you help me, please: how could I change a filter to have my bad samples in results?