I would suggest to make a clean install of everything with one of the package managers. PyCharm will do both: you'll see a notification during the installation, then the import will be generated in the right way, according to your project styles. pip install biopython pip install --upgrade biopython pip uninstall biopython Since Biopython 1.70 we have provided pre-compiled binary wheel packages on PyPI for Linux, Mac OS X and Windows. As a popular open source development project, Python has an active supporting community of contributors and users that also make their software available for other Python developers to use under open source license terms. When I came across this problem I noticed that after I installed biopython using pip install biopython the module directory in the site-packages folder was written with lowercase instead of uppercase letters. Do not mix conda and pip installations, both are package managers but do stuff differently. Alternatively, if SuiteSparse is not available as a dynamic library, the SuiteSparse source must be available. Type the name of the package and hit Alt-Enter, then choose Install and Import package. These are not part of the default python distribution and must be installed. In Pycharm (which I use) there is special setting for executable PATH independent on environment variables, so maybe it might be similar in Spyder. python -m pip install biopython pip install biopython pip install biopython --upgrade pip3 install biopython (didn't work at all) pip install biopython --user Except in the case of the pip3 command, which didn't work at all, every installation said it was successful. How to install/import Biopython into Python 3.8/ PyCharm IDE I'm new to Python/Biopython programming. Many programs use external packages such as numpy, matplotlib, or biopython. The installation of the source tarball (.tar.gz) contains pre-built C-files and cython needs not be present during installation. distutils-sig @ python. As of Ubuntu 16.04, SuiteSparse can be installed as a dynamic library by installing the libsuitesparse-dev package. But you haven't installed it yet. Step-by-step guide. All in all, the folder was named bio instead Bio, so I just renamed the … Installation from repository¶ pysam depends on cython to provide the connectivity to the htslib C library. Download and run the installer, select “Install for all users,” and then click “Next.” Change install docs to use GitHub link, since not yet on PyPI 0.1.0 2015-05-22 Lookup PubMed records and make Publication objects with info about a scientific publication To build the optional CVXOPT extensions (DSDP, FFTW, GLPK, and GSL), the following packages should be installed as well PyCharm provides an interface for installing python packages (rather than using pip) In the File menu, select Settings; On the right hand side of the window click the green + Installing Python 2 is a snap, and unlike in years past, the installer will even set the path variable for you (something we’ll be getting into a bit later). I'd like to install Biopython into my PyCharm IDE but I've tried all instructions on this, but it's not confirming it. How to Install Python 2. Installing Python Modules¶ Email. This means pip install should be quick, and not require a compiler. 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