# Dataset not run by LefSe in galaxy at second step. b) LDA effect size (LefSe)

**URL:** <https://forum.biobakery.org/t/dataset-not-run-by-lefse-in-galaxy-at-second-step-b-lda-effect-size-lefse/1319>\
**Category:** LEfSe\
**Created:** [November 20, 2020, 4:00pm UTC](https://forum.biobakery.org/t/dataset-not-run-by-lefse-in-galaxy-at-second-step-b-lda-effect-size-lefse/1319 "2020-11-20T16:00:20Z")\
**Posts on this page:** 1\
**Page:** 1

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**Author:** ![DEEPCHANDA7](https://avatars.discourse-cdn.com/v4/letter/d/eb9ed0/32.png) [@DEEPCHANDA7](https://forum.biobakery.org/u/DEEPCHANDA7)\
**Post date:** [November 20, 2020, 4:00pm UTC](https://forum.biobakery.org/t/dataset-not-run-by-lefse-in-galaxy-at-second-step-b-lda-effect-size-lefse/1319/1 "2020-11-20T16:00:20Z")

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Hi, my MetaPhlAn output is not running by LeFse (Galaxy). The first `[A) Format Data for LEfSe]` step is running but the next `[B) LDA Effect Size` step is not running. It reverts the following error:

> Number of significantly discriminative features: 51 ( 51 ) before internal wilcoxon  
> /galaxy\_venv/local/lib/python2.7/site-packages/rpy2/rinterface/ **init**.py:185: RRuntimeWarning: Error in (function (file = “”, n = NULL, text = NULL, prompt = “?”, keep.

Why is it happening? Here’s my file MetaPhlAn output file: [lefsetobiobakery.txt](https://forum.biobakery.org/uploads/short-url/rNyGtF8iiyzGuBEPiCs6H2T6lHN.txt) (41.7 KB)

Thanks