# count.seqs error: group file sequence number mismatch

**URL:** https://forum.mothur.org/t/count-seqs-error-group-file-sequence-number-mismatch/2715
**Category:** Commands in mothur
**Created:** [February 16, 2016, 3:26pm UTC](https://forum.mothur.org/t/count-seqs-error-group-file-sequence-number-mismatch/2715 "2016-02-16T15:26:15Z")
**Posts on this page:** 2
**Page:** 1

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### Author: ![fstephan](https://avatars.discourse-cdn.com/v4/letter/f/4491bb/32.png) [@fstephan](https://forum.mothur.org/u/fstephan)
#### Post date: [February 16, 2016, 3:26pm UTC](https://forum.mothur.org/t/count-seqs-error-group-file-sequence-number-mismatch/2715/1 "2016-02-16T15:26:15Z")

</div>

When I run the command below:  
mothur \> count.seqs(name=Flowers\_stability.trim.contigs.good.unique.good.filter.names, group=Flowers\_stability.contigs.good.groups)

I get the following error:

Using 1 processors.  
[ERROR]: processes reported processing 199341 sequences, but group file indicates you have 2592229 sequences. Could you have a file mismatch?  
It took 31 secs to create a table for 199341 sequences.  
Total number of sequences: 199341

I am working with the latest version of mother: 1.36.1.

Down the line, I run into another issue:

mothur \> classify.seqs(fasta=current, count=current, reference=trainset9\_03201.pds.fasta, taxonomy=trainset9\_032012.pds.tax, cutoff=80)  
Using Flowers\_stability.trim.contigs.good.unique.good.filter.unique.precluster.denovo.uchime.pick.count\_table as input file for the count parameter.  
Using Flowers\_stability.trim.contigs.good.unique.good.filter.unique.precluster.pick.fasta as input file for the fasta parameter.

[ERROR]: M02127\_127\_000000000-AHV2V\_1\_1101\_10002\_25577 is not in your count table. Please correct.

A previous count file, Flowers\_stability.trim.contigs.good.unique.good.filter.count\_table, has M02127\_127\_000000000-AHV2V\_1\_1101\_10002\_25577.

  
I'm new to mothur. Have I missed something?

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<div class="post-metadata">

### Author: ![pschloss](https://yyz2.discourse-cdn.com/flex036/user_avatar/forum.mothur.org/pschloss/32/4_2.png) [@pschloss](https://forum.mothur.org/u/pschloss)
#### Post date: [February 18, 2016, 11:30am UTC](https://forum.mothur.org/t/count-seqs-error-group-file-sequence-number-mismatch/2715/2 "2016-02-18T11:30:51Z")

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I think you want…

```nohighlight
mothur > count.seqs(name=Flowers_stability.trim.contigs.good.unique.good.filter.names, group=Flowers_stability.contigs.good.good.groups)

```

This should also resolve your second problem.

Pat