{"id":34841854,"url":"https://github.com/sbmlteam/new-sbml-software-guide","last_synced_at":"2026-03-16T15:37:43.151Z","repository":{"id":70445031,"uuid":"141158852","full_name":"sbmlteam/new-sbml-software-guide","owner":"sbmlteam","description":"A summer project to develop a fresh new SBML Software Guide","archived":false,"fork":false,"pushed_at":"2018-08-26T23:35:48.000Z","size":178,"stargazers_count":1,"open_issues_count":0,"forks_count":1,"subscribers_count":6,"default_branch":"master","last_synced_at":"2024-04-16T11:10:00.187Z","etag":null,"topics":["sbml"],"latest_commit_sha":null,"homepage":null,"language":"HTML","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":null,"status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/sbmlteam.png","metadata":{"files":{"readme":"README.md","changelog":null,"contributing":null,"funding":null,"license":null,"code_of_conduct":null,"threat_model":null,"audit":null,"citation":null,"codeowners":null,"security":null,"support":null,"governance":null}},"created_at":"2018-07-16T15:37:08.000Z","updated_at":"2020-02-15T01:28:59.000Z","dependencies_parsed_at":"2023-02-28T04:01:06.962Z","dependency_job_id":null,"html_url":"https://github.com/sbmlteam/new-sbml-software-guide","commit_stats":null,"previous_names":[],"tags_count":0,"template":false,"template_full_name":null,"purl":"pkg:github/sbmlteam/new-sbml-software-guide","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/sbmlteam%2Fnew-sbml-software-guide","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/sbmlteam%2Fnew-sbml-software-guide/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/sbmlteam%2Fnew-sbml-software-guide/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/sbmlteam%2Fnew-sbml-software-guide/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/sbmlteam","download_url":"https://codeload.github.com/sbmlteam/new-sbml-software-guide/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/sbmlteam%2Fnew-sbml-software-guide/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":286080680,"owners_count":28033421,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2022-07-04T15:15:14.044Z","status":"online","status_checked_at":"2025-12-25T02:00:05.988Z","response_time":58,"last_error":null,"robots_txt_status":"success","robots_txt_updated_at":"2025-07-24T06:49:26.215Z","robots_txt_url":"https://github.com/robots.txt","online":true,"can_crawl_api":true,"host_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories","repository_names_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repository_names","owners_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners"}},"keywords":["sbml"],"created_at":"2025-12-25T17:06:41.688Z","updated_at":"2025-12-25T17:07:11.948Z","avatar_url":"https://github.com/sbmlteam.png","language":"HTML","funding_links":[],"categories":[],"sub_categories":[],"readme":"## Installation\n\nPython 3 is highly recommended for this installation! If you're using Python 2, it'll function but be harder.\n\n### Get the Code\n\nFirst, open a command prompt.\n\n*Important!* Give the code a short file path with no spaces!\n\nEither clone the repository to your computer using\n```\ngit clone https://github.com/sbmlteam/new-sbml-software-guide.git\n```\nor download the ZIP and unzip to your computer.\n\nNavigate to your new-sbml-software-guide folder. \n\n### Python 3 Virtual Environments\n\n*Note: These instructions are for Python 3; if you're on Python 2, see [these instructions](#python-2-virtual-environments) instead.*\n\nCreate and activate the virtual environment.\n\nOn Windows:\n```\npy -3 -m venv venv\n```\n\nEverything else:\n```\npython3 -m venv venv\n```\n\n### Install Flask\nOn Windows:\n```\nvenv\\Scripts\\activate\n```\n\nEverything else:\n```\n. venv/bin/activate\n```\n\nYou'll know this succeeded if `(venv)` appears at the front of your shell prompt.\n\nNow, install Flask to the virtual environment using\n```\npip install Flask\n```\n\nIf you get errors about not being able to find pip, your file path is too long or contains spaces. You'll need to relocate the folder; then try again. If it still doesn't work, make sure the new-sbml-software-guide folder is in your `$PYTHONPATH` (or `%PYTHONPATH%` on Windows).\n\n### Running the Code\nDouble-check you're in your virtual environment (ie: `(venv)` precedes your shell prompt) and you're in new-sbml-software-guide!\n\nThen run these commands (for Windows):\n\n```\nexport FLASK_APP=\"flaskr:start()\"\nexport FLASK_ENV=development\n```\n\nEverything else:\n```\nset FLASK_APP=\"flaskr:start()\"\nset FLASK_ENV=development\n```\n\nTo run the code, use:\n```\npython flaskr\\__init__.py -i\n```\nThe `-i` option initializes the database and must be run each time `schema.sql` is changed. Use `CTRL+C` to exit that process, then run:\n\n```\npython flaskr\\__init__.py\n```\nThen navigate to [http://127.0.0.1:5000/](http://127.0.0.1:5000/) and you should see the software guide!\n\n### Python 2 Virtual Environments\nVirtual environment support isn't a built-in module in Python 2, so you need to download it yourself. \n\nIf you're on Mac OS X or Windows, first download get-pip.py [here](https://bootstrap.pypa.io/get-pip.py). \n\nOn Mac OS X:\n```\nsudo python2 Downloads/get-pip.py # or wherever you saved it\nsudo python2 -m pip install virtualenv\n```\n\nOn Windows, as an administrator:\n```\n\\Python27\\python.exe Downloads\\get-pip.py # or wherever you saved it\n\\Python27\\python.exe -m pip install virtualenv\n```\n\nIf you're on Linux, get virtualenv using the appropriate command:\n```\nsudo apt-get install python-virtualenv # Debian, Ubuntu\nsudo yum install python-virtualenv # CentOS, Fedora\nsudo pacman -S python-virtualenv #Arch\n```\n\nCreate and activate the virtual environment.\n\nOn Windows:\n```\n\\Python27\\Scripts\\virtualenv.exe venv\n```\n\nEverything else:\n```\nvirtualenv venv\n```\n\nNow you can return to [Install Flask](#install-flask) above!\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fsbmlteam%2Fnew-sbml-software-guide","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fsbmlteam%2Fnew-sbml-software-guide","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fsbmlteam%2Fnew-sbml-software-guide/lists"}