SOFT : HUMAnN
------

Site du soft: https://huttenhower.sph.harvard.edu/humann/
-------------

LICENSE:
--------

MIT

See software documentation for more informations.

Location: /usr/local/bioinfo/src/HUMAnN
---------

Load binaries and environment:
------------------------------

-> Version v3.7

#Need Miniconda
module load devel/Miniconda/Miniconda3
module load bioinfo/HUMAnN/3.7

To unload module, unload  in order:

module unload bioinfo/HUMAnN/3.7
module unload devel/Miniconda/Miniconda3

To use metaphlan database, 

humann --metaphlan-options  "--bowtie2db  /usr/local/bioinfo/src/Miniconda/Miniconda3/envs/humann-v3.7_env/lib/python3.7/site-packages/metaphlan/metaphlan_databases/ --index mpa_v30_CHOCOPhlAn_201901" ...

-> Version v4.0.0.alpha.1-final (bugs)

#Need Miniconda
module load devel/Miniconda/Miniconda3
module load bioinfo/HUMAnN/humann-v4.0.0.alpha.1-final

To unload module, unload  in order:

module unload bioinfo/HUMAnN/humann-v4.0.0.alpha.1-final
module unload devel/Miniconda/Miniconda3

To use metaphlan database, 

humann --metaphlan-options  "--bowtie2db  /usr/local/bioinfo/src/Miniconda/Miniconda3/envs/humann-v4.0.0.alpha.1-final_env/lib/python3.12/site-packages/metaphlan/metaphlan_databases/ --index mpa_vJun23_CHOCOPhlAnSGB_202403" 
Mapping files: /usr/local/bioinfo/src/Miniconda/Miniconda3/envs/humann-v4.0.0.alpha.1-final_env/lib/python3.12/site-packages/humann/data/utility_mapping

Example directory for use on cluster:
-------------------------------------

/usr/local/bioinfo/src/HUMAnN/example_on_cluster

To submit: sbatch test_humann-v3.7.sh 

See software documentation and our FAQ (http://bioinfo.genotoul.fr/index.php/faq/) for more informations.