# count.seqs() command

**URL:** https://forum.mothur.org/t/count-seqs-command/2165
**Category:** Commands in mothur
**Created:** [December 9, 2014, 8:34pm UTC](https://forum.mothur.org/t/count-seqs-command/2165 "2014-12-09T20:34:18Z")
**Posts on this page:** 4
**Page:** 1

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### Author: ![kilaza](https://avatars.discourse-cdn.com/v4/letter/k/ecc23a/32.png) [@kilaza](https://forum.mothur.org/u/kilaza)
#### Post date: [December 9, 2014, 8:34pm UTC](https://forum.mothur.org/t/count-seqs-command/2165/1 "2014-12-09T20:34:18Z")

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Hi to all

I am new to mothur package and now struggling to learn. Can anyone help me. I run the command count.seqs and could get this error in the output {[ERROR]: processes reported processing 2292609 sequences, but group file indicates you have 2292610 sequences. Could you have a file mismatch?} how can I handle this? on tracing the error source could also find the make.contigs commands generated some sequences with the same name! eg severa had the name " No". could this be the reason? and how can I handle it?

Thanks

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### Author: ![westcott](https://yyz2.discourse-cdn.com/flex036/user_avatar/forum.mothur.org/westcott/32/18_2.png) [@westcott](https://forum.mothur.org/u/westcott)
#### Post date: [December 9, 2014, 9:53pm UTC](https://forum.mothur.org/t/count-seqs-command/2165/2 "2014-12-09T21:53:55Z")

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Welcome to the mothur community! I would be happy to help. Could you post the command you gave to make.contigs?

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### Author: ![kilaza](https://avatars.discourse-cdn.com/v4/letter/k/ecc23a/32.png) [@kilaza](https://forum.mothur.org/u/kilaza)
#### Post date: [December 10, 2014, 8:45am UTC](https://forum.mothur.org/t/count-seqs-command/2165/3 "2014-12-10T08:45:27Z")

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> [@westcott](#):
>
> Welcome to the mothur community! I would be happy to help. Could you post the command you gave to make.contigs?

The command was {make.contigs(file=stability.files, processors=12)

Thanks for your willingness to help

Kilaza

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### Author: ![westcott](https://yyz2.discourse-cdn.com/flex036/user_avatar/forum.mothur.org/westcott/32/18_2.png) [@westcott](https://forum.mothur.org/u/westcott)
#### Post date: [December 10, 2014, 6:55pm UTC](https://forum.mothur.org/t/count-seqs-command/2165/4 "2014-12-10T18:55:53Z")

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Could you send me the stability.files and the fastq files it contains at [mothur.bugs@gmail.com](mailto:mothur.bugs@gmail.com)?