Install FAQs

1. Most install issues can be solved with updating pip

   pip install --upgrade pip

   or

   pip3 install --upgrade pip

2. Linux: Do you want to continue? [Y/n] Abort.

   sudo xargs apt-get -y install < install/requirements.sys

   OR

   sudo xargs apt-get -y --force-yes install < install/requirements.sys

   WARNING: this will automatically install everything in the requirements.sys file.

3. mysqlclient: OSError: mysql_config not found

   Make sure MySQL is installed and running before trying to install mysqlclient with pip.

4. ImportError: No module named 'numpy'

   You must install numpy manually and then rerun pip install dlatk:

   pip install numpy

5. Packaged datasets: To find the path to the data do the following (assuming everything installed properly) and replace __init__.py with data

   python -c "import dlatk; print(dlatk.__file__)"

6. mysqlclient does not install in conda

   conda install -c bioconda mysqlclient