|
| 1 | +# clean |
| 2 | + |
| 3 | + |
| 4 | +<!-- WARNING: THIS FILE WAS AUTOGENERATED! DO NOT EDIT! --> |
| 5 | + |
| 6 | +To avoid pointless conflicts while working with jupyter notebooks (with |
| 7 | +different execution counts or cell metadata), it is recommended to clean |
| 8 | +the notebooks before committing anything (done automatically if you |
| 9 | +install the git hooks with |
| 10 | +[`nbdev_install_hooks`](https://nbdev.fast.ai/api/clean.html#nbdev_install_hooks)). |
| 11 | +The following functions are used to do that. |
| 12 | + |
| 13 | +## Trust |
| 14 | + |
| 15 | +------------------------------------------------------------------------ |
| 16 | + |
| 17 | +<a |
| 18 | +href="https://github.com/AnswerDotAI/nbdev/blob/main/nbdev/clean.py#L25" |
| 19 | +target="_blank" style="float:right; font-size:smaller">source</a> |
| 20 | + |
| 21 | +### nbdev_trust |
| 22 | + |
| 23 | +> nbdev_trust (fname:str=None, force_all:bool=False) |
| 24 | +
|
| 25 | +*Trust notebooks matching `fname`* |
| 26 | + |
| 27 | +- `fname:str=None` *A notebook name or glob to trust* |
| 28 | +- `force_all:bool=False` *Also trust notebooks that haven’t changed* |
| 29 | +- `return` |
| 30 | + |
| 31 | +## Clean |
| 32 | + |
| 33 | +------------------------------------------------------------------------ |
| 34 | + |
| 35 | +<a |
| 36 | +href="https://github.com/AnswerDotAI/nbdev/blob/main/nbdev/clean.py#L86" |
| 37 | +target="_blank" style="float:right; font-size:smaller">source</a> |
| 38 | + |
| 39 | +### clean_nb |
| 40 | + |
| 41 | +> clean_nb (nb, clear_all=False, allowed_metadata_keys:list=None, |
| 42 | +> allowed_cell_metadata_keys:list=None, clean_ids=True) |
| 43 | +
|
| 44 | +*Clean `nb` from superfluous metadata* |
| 45 | + |
| 46 | +- `nb` *The notebook to clean* |
| 47 | +- `clear_all:bool=False` *Remove all cell metadata and cell outputs?* |
| 48 | +- `allowed_metadata_keys:list=None` *Preserve the list of keys in the |
| 49 | + main notebook metadata* |
| 50 | +- `allowed_cell_metadata_keys:list=None` *Preserve the list of keys in |
| 51 | + cell level metadata* |
| 52 | +- `clean_ids:bool=True` *Remove ids from plaintext reprs?* |
| 53 | +- `return` |
| 54 | + |
| 55 | +Jupyter adds a trailing <code></code> to images in cell outputs. |
| 56 | +Vscode-jupyter does not. |
| 57 | +Notebooks should be brought to a common style to avoid unnecessary |
| 58 | +diffs: |
| 59 | + |
| 60 | +``` python |
| 61 | +test_nb = read_nb('../../tests/image.ipynb') |
| 62 | +assert test_nb.cells[0].outputs[0].data['image/png'][-1] == "\n" # Make sure it was not converted by acccident |
| 63 | +clean_nb(test_nb) |
| 64 | +assert test_nb.cells[0].outputs[0].data['image/png'][-1] != "\n" |
| 65 | +``` |
| 66 | + |
| 67 | +The test notebook has metadata in both the main metadata section and |
| 68 | +contains cell level metadata in the second cell: |
| 69 | + |
| 70 | +``` python |
| 71 | +test_nb = read_nb('../../tests/metadata.ipynb') |
| 72 | + |
| 73 | +assert {'meta', 'jekyll', 'my_extra_key', 'my_removed_key'} <= test_nb.metadata.keys() |
| 74 | +assert {'meta', 'hide_input', 'my_extra_cell_key', 'my_removed_cell_key'} == test_nb.cells[1].metadata.keys() |
| 75 | +``` |
| 76 | + |
| 77 | +After cleaning the notebook, all extra metadata is removed, only some |
| 78 | +keys are allowed by default: |
| 79 | + |
| 80 | +``` python |
| 81 | +clean_nb(test_nb) |
| 82 | + |
| 83 | +assert {'jekyll', 'kernelspec'} == test_nb.metadata.keys() |
| 84 | +assert {'hide_input'} == test_nb.cells[1].metadata.keys() |
| 85 | +``` |
| 86 | + |
| 87 | +We can preserve some additional keys at the notebook or cell levels: |
| 88 | + |
| 89 | +``` python |
| 90 | +test_nb = read_nb('../../tests/metadata.ipynb') |
| 91 | +clean_nb(test_nb, allowed_metadata_keys={'my_extra_key'}, allowed_cell_metadata_keys={'my_extra_cell_key'}) |
| 92 | + |
| 93 | +assert {'jekyll', 'kernelspec', 'my_extra_key'} == test_nb.metadata.keys() |
| 94 | +assert {'hide_input', 'my_extra_cell_key'} == test_nb.cells[1].metadata.keys() |
| 95 | +``` |
| 96 | + |
| 97 | +Passing `clear_all=True` removes everything from the cell metadata: |
| 98 | + |
| 99 | +``` python |
| 100 | +test_nb = read_nb('../../tests/metadata.ipynb') |
| 101 | +clean_nb(test_nb, clear_all=True) |
| 102 | + |
| 103 | +assert {'jekyll', 'kernelspec'} == test_nb.metadata.keys() |
| 104 | +test_eq(test_nb.cells[1].metadata, {}) |
| 105 | +``` |
| 106 | + |
| 107 | +Passing `clean_ids=True` removes `id`s from plaintext repr outputs, to |
| 108 | +avoid notebooks whose contents change on each run since they often lead |
| 109 | +to git merge conflicts. For example: |
| 110 | + |
| 111 | + <PIL.PngImagePlugin.PngImageFile image mode=L size=28x28 at 0x7FB4F8979690> |
| 112 | + |
| 113 | +becomes: |
| 114 | + |
| 115 | + <PIL.PngImagePlugin.PngImageFile image mode=L size=28x28> |
| 116 | + |
| 117 | +------------------------------------------------------------------------ |
| 118 | + |
| 119 | +<a |
| 120 | +href="https://github.com/AnswerDotAI/nbdev/blob/main/nbdev/clean.py#L109" |
| 121 | +target="_blank" style="float:right; font-size:smaller">source</a> |
| 122 | + |
| 123 | +### process_write |
| 124 | + |
| 125 | +> process_write (warn_msg, proc_nb, f_in, f_out=None, disp=False) |
| 126 | +
|
| 127 | +------------------------------------------------------------------------ |
| 128 | + |
| 129 | +<a |
| 130 | +href="https://github.com/AnswerDotAI/nbdev/blob/main/nbdev/clean.py#L132" |
| 131 | +target="_blank" style="float:right; font-size:smaller">source</a> |
| 132 | + |
| 133 | +### nbdev_clean |
| 134 | + |
| 135 | +> nbdev_clean (fname:str=None, clear_all:bool=False, disp:bool=False, |
| 136 | +> stdin:bool=False) |
| 137 | +
|
| 138 | +*Clean all notebooks in `fname` to avoid merge conflicts* |
| 139 | + |
| 140 | +- `fname:str=None` *A notebook name or glob to clean* |
| 141 | +- `clear_all:bool=False` *Remove all cell metadata and cell outputs?* |
| 142 | +- `disp:bool=False` *Print the cleaned outputs* |
| 143 | +- `stdin:bool=False` *Read notebook from input stream* |
| 144 | +- `return` |
| 145 | + |
| 146 | +By default (`fname` left to `None`), all the notebooks in |
| 147 | +`config.nbs_path` are cleaned. You can opt in to fully clean the |
| 148 | +notebook by removing every bit of metadata and the cell outputs by |
| 149 | +passing `clear_all=True`. |
| 150 | + |
| 151 | +If you want to keep some keys in the main notebook metadata you can set |
| 152 | +`allowed_metadata_keys` in `settings.ini`. Similarly for cell level |
| 153 | +metadata use: `allowed_cell_metadata_keys`. For example, to preserve |
| 154 | +both `k1` and `k2` at both the notebook and cell level adding the |
| 155 | +following in `settings.ini`: |
| 156 | + |
| 157 | + ... |
| 158 | + allowed_metadata_keys = k1 k2 |
| 159 | + allowed_cell_metadata_keys = k1 k2 |
| 160 | + ... |
| 161 | + |
| 162 | +------------------------------------------------------------------------ |
| 163 | + |
| 164 | +<a |
| 165 | +href="https://github.com/AnswerDotAI/nbdev/blob/main/nbdev/clean.py#L147" |
| 166 | +target="_blank" style="float:right; font-size:smaller">source</a> |
| 167 | + |
| 168 | +### clean_jupyter |
| 169 | + |
| 170 | +> clean_jupyter (path, model, **kwargs) |
| 171 | +
|
| 172 | +*Clean Jupyter `model` pre save to `path`* |
| 173 | + |
| 174 | +This cleans notebooks on-save to avoid unnecessary merge conflicts. The |
| 175 | +easiest way to install it for both Jupyter Notebook and Lab is by |
| 176 | +running |
| 177 | +[`nbdev_install_hooks`](https://nbdev.fast.ai/api/clean.html#nbdev_install_hooks). |
| 178 | +It works by implementing a `pre_save_hook` from Jupyter’s [file save |
| 179 | +hook |
| 180 | +API](https://jupyter-server.readthedocs.io/en/latest/developers/savehooks.html). |
| 181 | + |
| 182 | +## Hooks |
| 183 | + |
| 184 | +------------------------------------------------------------------------ |
| 185 | + |
| 186 | +<a |
| 187 | +href="https://github.com/AnswerDotAI/nbdev/blob/main/nbdev/clean.py#L189" |
| 188 | +target="_blank" style="float:right; font-size:smaller">source</a> |
| 189 | + |
| 190 | +### nbdev_install_hooks |
| 191 | + |
| 192 | +> nbdev_install_hooks () |
| 193 | +
|
| 194 | +*Install Jupyter and git hooks to automatically clean, trust, and fix |
| 195 | +merge conflicts in notebooks* |
| 196 | + |
| 197 | +See |
| 198 | +[`clean_jupyter`](https://nbdev.fast.ai/api/clean.html#clean_jupyter) |
| 199 | +and [`nbdev_merge`](https://nbdev.fast.ai/api/merge.html#nbdev_merge) |
| 200 | +for more about how each hook works. |
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