# LefSe error v 1.47.0 still missing class

**URL:** <https://forum.mothur.org/t/lefse-error-v-1-47-0-still-missing-class/21272>\
**Category:** mothur bugs\
**Created:** [February 11, 2022, 6:19pm UTC](https://forum.mothur.org/t/lefse-error-v-1-47-0-still-missing-class/21272 "2022-02-11T18:19:15Z")\
**Posts on this page:** 2\
**Page:** 1

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**Author:** ![jmacnico](https://avatars.discourse-cdn.com/v4/letter/j/b4bc9f/32.png) [@jmacnico](https://forum.mothur.org/u/jmacnico)\
**Post date:** [February 11, 2022, 6:19pm UTC](https://forum.mothur.org/t/lefse-error-v-1-47-0-still-missing-class/21272/1 "2022-02-11T18:19:15Z")

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Hi!! Sorry my student was just able to run this LefSe again on the updated 1.47 version of mothur but we’re still not getting the class values in the output. I’ve included the log and part of the output in case we’re missing something!! Any ideas??

**LOG**

Mac version

Using ReadLine,Boost,HDF5,GSL  
mothur v.1.47.0  
Last updated: 1/21/22  
by  
Patrick D. Schloss

Department of Microbiology & Immunology

University of Michigan

> **[mothur website](http://mothur.org/)**
>
> The website that supports the mothur software program - one of the most widely used tools for analyzing 16S rRNA gene sequence data. Step inside to learn how to use the software, get help, and join our community!

When using, please cite:  
Schloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.

Distributed under the GNU General Public License

Type ‘help()’ for information on the commands that are available

For questions and analysis support, please visit our forum at [https://forum.mothur.org](https://forum.mothur.org)

Type ‘quit()’ to exit program

[NOTE]: Setting random seed to 19760620.

Interactive Mode

mothur \> lefse(shared=stability.trim.contigs.good.unique.good.filter.unique.precluster.pick.pick.opti\_mcc.0.03.subsample.shared, design=healthy.status.design)

You did not provide a class, using Horse.

0.03

Number of significantly discriminative features: 1676 ( 3788 ) before internal wilcoxon.  
Number of discriminative features with abs LDA score \> 2 : 697.

Output File Names:  
stability.trim.contigs.good.unique.good.filter.unique.precluster.pick.pick.opti\_mcc.0.03.subsample.0.03.lefse\_summary

mothur \> quit()  
Logfile : mothur.1644603149.logfile

**OUTPUT**

| OTU | logMaxMean | LDA | pValue |
| --- | --- | --- | --- |
| Otu00001 | 4.63535 | 4.15518 | 0.00547327 |
| Otu00002 | 4.63602 | 4.14292 | 0.0047793 |
| Otu00003 | 4.9219 | NA | NA |
| Otu00004 | 4.36013 | NA | NA |
| Otu00005 | 4.06121 | 3.60389 | 0.000888753 |
| Otu00006 | 4.24132 | 3.80731 | 0.0002196 |
| Otu00007 | 4.35071 | 4.01646 | 5.88673e-06 |
| Otu00008 | 4.10149 | 3.58508 | 0.01029 |
| Otu00009 | 4.2222 | 3.91117 | 0.000108709 |
| Otu00010 | 4.10926 | 3.71313 | 0.000254189 |
| Otu00011 | 4.03043 | 3.80899 | 0.000448923 |
| Otu00012 | 4.27474 | NA | NA |
| Otu00013 | 4.17678 | 3.81173 | 5.44742e-05 |
| Otu00014 | 4.19785 | 3.8552 | 0.000174323 |

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**Author:** ![system](https://yyz2.discourse-cdn.com/flex036/user_avatar/forum.mothur.org/system/32/2_2.png) [@system](https://forum.mothur.org/u/system)\
**Post date:** [February 21, 2022, 6:19pm UTC](https://forum.mothur.org/t/lefse-error-v-1-47-0-still-missing-class/21272/2 "2022-02-21T18:19:19Z")

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