{ "info": { "author": "Marc Wouts", "author_email": "marc.wouts@gmail.com", "bugtrack_url": null, "classifiers": [ "Development Status :: 4 - Beta", "Environment :: Console", "Framework :: Jupyter", "Intended Audience :: Science/Research", "Programming Language :: Python", "Programming Language :: Python :: 2.7", "Programming Language :: Python :: 3", "Programming Language :: Python :: 3.4", "Programming Language :: Python :: 3.5", "Programming Language :: Python :: 3.6", "Topic :: Text Processing :: Markup" ], "description": "# Jupyter notebooks as markdown documents, Python or R scripts\n\n[![Pypi](https://img.shields.io/pypi/v/nbrmd.svg)](https://pypi.python.org/pypi/nbrmd)\n[![Pypi](https://img.shields.io/pypi/l/nbrmd.svg)](https://pypi.python.org/pypi/nbrmd)\n[![Build Status](https://travis-ci.com/mwouts/nbrmd.svg?branch=master)](https://travis-ci.com/mwouts/nbrmd)\n[![codecov.io](https://codecov.io/github/mwouts/nbrmd/coverage.svg?branch=master)](https://codecov.io/github/mwouts/nbrmd?branch=master)\n![pylint Score](https://mperlet.github.io/pybadge/badges/9.9.svg)\n[![pyversions](https://img.shields.io/pypi/pyversions/nbrmd.svg)](https://pypi.python.org/pypi/nbrmd)\n[![Binder](https://mybinder.org/badge.svg)](https://mybinder.org/v2/gh/mwouts/nbrmd/master?filepath=demo)\n\nYou've always wanted to edit Jupyter notebooks in your favorite editor? To have Jupyter notebooks under version control? Or to *collaborate* on Jupyter notebooks using standard (text-only) merge tools?\n\n## Supported formats\n\nThe `nbrmd` package allows to open and edit, in Jupyter,\n- Python and R scripts ( extensions `.py` and `.R`)\n- Markdown documents (extension `.md`)\n- R Markdown documents (extension `.Rmd`).\n\nObviously these documents can also be edited outside of Jupyter. You will find useful to refactor your notebook as a mere python script in a real IDE. If you are working on a documentation and you prefer the markdown format, you will be able to use both Jupyter and your specialized markdown editor.\n\nReloading the updated document in Jupyter is just a matter of refreshing the browser. Refreshing preserves the python variables. Outputs are also preserved when you use the text notebooks *in pair* with classical notebooks.\n\nTry our package on [![Binder](https://mybinder.org/badge.svg)](https://mybinder.org/v2/gh/mwouts/nbrmd/master?filepath=demo)! Recommended experiments are\n- Have a look at the sample text notebooks in the [demo](https://github.com/mwouts/nbrmd/tree/master/demo) folder. See how notebook are represented as text\n- Go to [![Binder](https://mybinder.org/badge.svg)](https://mybinder.org/v2/gh/mwouts/nbrmd/master?filepath=demo) and open these notebooks\n- You may also open arbitrary python scripts like `matplotlib example.py` (run it)\n- Feel free to explore the package files with Jupyter (open `README.md` at the project root)\n- Check by yourself that outputs and variables are preserved, and inputs are updated, when the text notebook is modified outside of Jupyter (this is `Paired Jupyter notebook and python script.ipynb`).\n\n## Screenshots\n\n![](https://raw.githubusercontent.com/mwouts/nbrmd/master/img/jupyter_python_markdown.gif)\n\n## Round-trip conversion\n\nRound trip conversion is safe! A few hundred of tests help to guarantee this.\n- Script to Jupyter notebook, to script again is identity. If you\nassociate a Jupyter kernel to your notebook, that information will go to\na yaml header at the top of your script.\n- Markdown to Jupyter notebook, to markdown again is identity. \n- Jupyter to script, and Jupyter again preserves source and metadata.\n- Jupyter to markdown, and Jupyter again preserves source and metadata (cell metadata available only for R markdown). Note that markdown cells with two consecutive blank lines will be splitted into multiple cells (as the two blank line pattern is used to separate cells).\n\n## Jupyter setup\n\nTo open `.py`, `.R`, `.md` and `.Rmd` files as notebooks in Jupyter, use our `ContentsManager`. That is:\n- generate a jupyter config, if you don't have one yet, with `jupyter notebook --generate-config`\n- edit the config and include the below:\n```python\nc.NotebookApp.contents_manager_class = \"nbrmd.RmdFileContentsManager\"\n```\n\nThen, make sure you have the `nbrmd` package up-to-date, and re-start jupyter, i.e. run\n```bash\npip install nbrmd --upgrade\njupyter notebook\n```\n\n## Paired notebooks\n\nIf you want to preserve inputs and outputs, while being able to edit the text format, then add an `nbrmd_formats` entry to the notebook metadata, in Jupyter, as follows:\n```\n{\n \"kernelspec\": {\n \"name\": \"python3\",\n (...)\n },\n \"language_info\": {\n (...)\n },\n \"nbrmd_formats\": \"ipynb,py\"\n}\n```\n\nWhen you save the notebook, both the Jupyter notebook and the python scripts are updated. You can edit the text version\nand then get the updated version in Jupyter by refreshing your browser (you may want to deactivate Jupyter's autosave with `%autosave 0`).\n\nAccepted formats are: `ipynb`, `md`, `Rmd`, `py` and `R`. In case you want multiple text extensions, please note that the\norder matters: the first non-`ipynb` extension\nis the one used as the reference source for notebook inputs when you open the `ipynb` file.\n\nFinally, it is also possible to pair every notebook with a text representation. If you add\n```\nc.NotebookApp.contents_manager_class = \"nbrmd.RmdFileContentsManager\"\nc.ContentsManager.default_nbrmd_formats = \"ipynb,py\" # or \"ipynb,nb.py\" # or \"ipynb,md\" # or \"ipynb,Rmd\"\n```\nto your Jupyter configuration file, then *every* Jupyter notebook that you save will have a companion `.py` (`.nb.py`, `.md`, or `.Rmd`) notebook. And every `.py` (`.nb.py`, `.md`, or `.Rmd`) notebook will have a companion `.ipynb` notebook.\n\nThe default configuration can also contain multiple extension groups. Use\n```python\nc.NotebookApp.contents_manager_class = \"nbrmd.RmdFileContentsManager\"\nc.ContentsManager.default_nbrmd_formats = \"ipynb,nb.py;py.ipynb,py\"\n```\nif you want `.ipynb` notebooks to have `.nb.py` companion scripts, and `.py` files to have `.py.ipynb` companion notebooks (learn more on the possible values for `nbrmd_formats` [here](https://github.com/mwouts/nbsrc/issues/5#issuecomment-414093471)).\n\n## Command line conversion\n\nThe package provides a `nbrmd` script for command line conversion between the various notebook extensions:\n\n```bash\nnbrmd notebook.ipynb md --test # Test round trip conversion\nnbrmd notebook.ipynb md # display the markdown version on screen\n\nnbrmd notebook.ipynb .md # create a notebook.md file\nnbrmd notebook.ipynb .py # create a notebook.py file\nnbrmd notebook.ipynb notebook.py # create a notebook.py file\n\nnbrmd notebook.md .ipynb # overwrite notebook.ipynb (remove outputs)\nnbrmd notebook.md .ipynb --update # update notebook.ipynb (preserve outputs)\n\nnbrmd notebook1.md notebook2.py .ipynb # overwrite notebook1.ipynb notebook2.ipynb\n```\n\n## Usefull cell metadata\n\n- Set `\"active\": \"ipynb,py\"` if you want that cell to be active only in the Jupyter notebook, and the Python script representation. 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