Requirement already satisfied: six>=1.5 in /usr/lib/python2.7/dist-packages (from python-dateutil>=2.5.0->pandas>=0.19.0->pysnptools->hlmm)Īnd, I do see the hlmm folder under /usr/local/lib/python2.7/dist-packages, but cannot find that tests folder: ls -1 /usr/local/lib/python2. Requirement already satisfied: python-dateutil>=2.5.0 in /usr/local/lib/python2.7/dist-packages (from pandas>=0.19.0->pysnptools->hlmm) Requirement already satisfied: pytz>=2011k in /usr/local/lib/python2.7/dist-packages (from pandas>=0.19.0->pysnptools->hlmm) Requirement already satisfied: pandas>=0.19.0 in /usr/local/lib/python2.7/dist-packages (from pysnptools->hlmm) Requirement already satisfied: pysnptools in /usr/local/lib/python2.7/dist-packages (from hlmm) Added this to the bashrc file export PATH'/anaconda3/bin:PATH' 5. Requirement already satisfied: numpy in /usr/local/lib/python2.7/dist-packages (from hlmm) Here are the exact commands I used to install and verify 1. Requirement already satisfied: scipy in /usr/local/lib/python2.7/dist-packages (from hlmm) If I redo sudo pip install hlmm I get: Requirement already satisfied: hlmm in /usr/local/lib/python2.7/dist-packages Downloading conda Anaconda or Miniconda Choosing a version of Anaconda or Miniconda GUI versus command line installer Choosing a version of Python Cryptographic hash verification You have 3 conda download options: Download Anaconda -free. ModuleNotFoundError: No module named 'hlmm' I then executed conda update conda in the base environment and installed everything. (base) conda config -add channels conda-forge (base) conda config -set channelpriority strict. alicesubmit wget alicesubmit sh Miniconda3-latest-Linux-x8664.sh Accept the license agreement and default options. I also tried in python to import the package, using: import hlmm I have then added conda-forge as a channel and also provided it with 'strict'. Create a Miniconda installation On the submit server, download the latest Linux miniconda installer and run it. I used pip list | xargs -exec pip show to look for the location of that package but it doesn't show up. Now I want to run a test script from the package I installed, which is located under a tests folder relative to where that package was installed. that you can run it without sudo/admin rights on your. bashrc is: export PATH="/home//miniconda3/bin:$PATH" how to install and start postgresql locally (using conda within a conda environment - with the result. I'm using the miniconda3 environment and the only environment variable specified in my. Its main features are the complete implementation of the Python DB API 2.0 specification and the thread safety. Psycopg is the most popular PostgreSQL adapter for the Python programming language. If you did not understand the preceding paragraph then read the next section.On an Ubuntu system, I installed a python package using sudo pip install. To install this package run one of the following: conda install -c anaconda psycopg2. The bottom line is this: if you try to start an application program and it complains that it cannot connect to the database, you should consult your site administrator or, if that is you, the documentation to make sure that your environment is properly set up. The environment variable PGPORT might also have to be set. For example, if the database server machine is a remote machine, you will need to set the PGHOST environment variable to the name of the database server machine. If your site administrator has not set things up in the default way, you might have some more work to do. Be sure to follow closely the section about setting up the appropriate environment variables. Tip Looking for Python 3.5 or 3.6 See our FAQ. If you don’t want the hundreds of packages included with Anaconda, install Miniconda, a mini version of Anaconda that includes just conda, its dependencies, and Python. If you are installing PostgreSQL yourself, then refer to Chapter 16 for instructions on installation, and return to this guide when the installation is complete. Installation Review the system requirements listed below before installing Anaconda Distribution. PostgreSQL can be installed by any unprivileged user no superuser ( root) access is required. Doing so is not hard and it can be a good exercise. If you are not sure whether PostgreSQL is already available or whether you can use it for your experimentation then you can install it yourself. If that is the case, you should obtain information from the operating system documentation or your system administrator about how to access PostgreSQL. It is possible that PostgreSQL is already installed at your site, either because it was included in your operating system distribution or because the system administrator already installed it. Before you can use PostgreSQL you need to install it, of course.
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