PyPI 官网下载 | biobb_dna-1.1.1.tar.gz

[](https://biobb-dna.readthedocs.io/en/latest/?badge=latest) # biobb_dna ## Introduction Biobb_dna is a package composed of different analyses for nucleic acid trajectories and helical parameters. Biobb (BioExcel building blocks) packages are Python building blocks that create new layer of compatibility and interoperability over popular bioinformatics tools. The latest documentation of this package can be found in our readthedocs site: [latest API documentation](http://biobb_dna.readthedocs.io/en/latest/). ## Version v2.0.0 2020.4 ## Installation If you have no experience with anaconda, please first take a look to the [New with anaconda?](https://biobb-documentation.readthedocs.io/en/latest/first_steps.html#new-with-anaconda) section of the [official documentation](https://biobb-documentation.readthedocs.io/en/latest/). ### Download repository Although the biobb_dna repository is available at GitHub and thus you can clone it, we strongly recommend you to [**download it compressed**](https://github.com/bioexcel/biobb_dna/archive/master.zip) and start your new project from scratch. ### Create new conda environment Once you have the project unzipped in your computer, please follow the next steps to create a new conda environment: ```console cd biobb_dna-master conda env create -f conda_env/environment.yml ``` ### Update environment paths Edit **conda_env/biobb_dna.pth** with the paths to your *biobb_dna* folder. Example: ```console /home/user_name/projects/biobb_dna/ /home/user_name/projects/biobb_dna/biobb_dna/biobb_dna ``` Copy the edited **conda_env/biobb_dna.pth** file to the site-packages folder of your environment. This folder is in */[anaconda-path]/envs/biobb_dna/lib/python3.7/site-packages*, where */[anaconda-path]* is usually */anaconda3* or */opt/conda*. ```console cp conda_env/biobb_dna.pth /[anaconda-path]/envs/biobb_dna/lib/python3.7/site-packages ``` ### Activate environment Then, activate the recently created *biobb_dna* conda environment: ```console conda activate biobb_dna ``` ### Create repository This template includes some folders not standard for a biobb, such as **biobb_dna/adapters/**, **biobb_dna/notebooks/** or **conda_env/**. For the sake of having a pure biobb structure, you should uncomment the three last lines of the **.gitignore** file before creating a new git repository: ```console biobb_dna/adapters biobb_dna/notebooks conda_env ``` Then, inialitize repository: ```console git init ``` ### Binary paths configuration Additionally, it's recommendable to configure binary paths in your environment in order to ease the command line execution. More info about this subject in the [Binary path configuration](https://biobb-documentation.readthedocs.io/en/latest/execution.html#binary-path-configuration) section of the [official documentation](https://biobb-documentation.readthedocs.io/en/latest/). ## Documentation [Click here to find the API Documentation example](https://biobb-dna.readthedocs.io/en/latest/template.html) for this template and [here for Command Line documentation](http://biobb_dna.readthedocs.io/en/latest/command_line.html). And here you can find [the full documentation](https://biobb-documentation.readthedocs.io/en/latest/) about how to build a new **BioExcel building block** from scratch. ## Copyright & Licensing This software has been developed in the [MMB group](http://mmb.irbbarcelona.org) at the [BSC](http://www.bsc.es/) & [IRB](https://www.irbbarcelona.org/) for the [European BioExcel](http://bioexcel.eu/), funded by the European Commission (EU H2020 [823830](http://cordis.europa.eu/projects/823830), EU H2020 [675728](http://cordis.europa.eu/projects/675728)). * (c) 2015-2020 [Barcelona Supercomputing Center](https://www.bsc.es/) * (c) 2015-2020 [Institute for Research in Biomedicine](https://www.irbbarcelona.org/) Licensed under the [Apache License 2.0](https://www.apache.org/licenses/LICENSE-2.0), see the file LICENSE for details.