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checkm-software

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checkm-software [2020/03/12 14:27] – created aorthcheckm-software [2020/03/12 16:45] (current) – aorth
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 $ pip install --upgrade pip setuptools $ pip install --upgrade pip setuptools
 $ pip install checkm-genome==1.1.2 $ pip install checkm-genome==1.1.2
 +$ wget https://data.ace.uq.edu.au/public/CheckM_databases/checkm_data_2015_01_16.tar.gz
 +$ mkdir -p /export/apps/checkm/1.1.2/data
 +$ tar xf checkm_data_2015_01_16.tar.gz -C /export/apps/checkm/1.1.2/data
 +$ find /export/apps/checkm/1.1.2/data -type d -exec chmod 755 {} \;
 +$ find /export/apps/checkm/1.1.2/data -type f -exec chmod 644 {} \;
 +$ checkm data setRoot /export/apps/checkm/1.1.2/data
 $ sudo chown -R root:root /export/apps/checkm/1.1.2</code> $ sudo chown -R root:root /export/apps/checkm/1.1.2</code>
 +
 +Test the installation with:
 +
 +<code>$ checkm test /tmp/test-checkm</code>
checkm-software.1584023246.txt.gz · Last modified: 2020/03/12 14:27 by aorth