Created
May 15, 2017 10:46
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Install THAPBI-pycits on a bare Linux account
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virtualenv venv-THAPBI-pycits -p python2 | |
virtualenv venv-THAPBI-pycits -p python3 | |
source venv-THAPBI-pycits/bin/activate | |
python2 -m pip install -U pip setuptools | |
python3 -m pip install -U pip setuptools | |
python2 -m pip install numpy | |
python2 -m pip install -r requirements.txt | |
python3 -m pip install numpy | |
python3 -m pip install -r requirements.txt | |
python2 -m pip uninstall nose | |
python3 -m pip install nose -I | |
python2 -m pip install toolz | |
python2 -m pip install packaging appdirs | |
python2 -m pip install ipython==5.3 | |
python2 -m pip install qiime | |
cd | |
wget https://github.com/JoseBlanca/seq_crumbs/archive/v0.1.9.tar.gz | |
tar -zxvf v0.1.9.tar.gz | |
cd seq_crumbs-0.1.9/ | |
python2 setup.py install | |
cd ~/THAPBI-pycits/ | |
./run_pycits.py -v -i data/reads/ -p DNAMIX_S95_L001_R -r data/database.fasta -t 6 -o 2017-05-06_run_pycits_test -l 2017-05-06_run_pycits_test.log |
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