Networkx v2 #133
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Networkx v2 #133
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ericmjl
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Apr 26, 2020
* Add nbstripout * update to networkx v2 API * install ffmpeg from native ubuntu repo * comment out xvfb * change python to 3.8 * switch to py37 * manual listing of notebooks to execute Former-commit-id: 9c0f148
ericmjl
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Apr 26, 2020
* Add nbstripout * update to networkx v2 API * install ffmpeg from native ubuntu repo * comment out xvfb * change python to 3.8 * switch to py37 * manual listing of notebooks to execute Former-commit-id: 25d84cf4c06d9a1a020af53e2e9c2a44e2b4905c
ericmjl
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Jul 8, 2020
* Update numpy from 1.15.3 to 1.15.4 Former-commit-id: afdbd7516dadb529191f8f72e653df42f5b9f710 * Update matplotlib from 3.0.1 to 3.0.2 * Update matplotlib from 3.0.1 to 3.0.2 Former-commit-id: 945d24135d9dc168dbd9d57d79e9f5e274d9862c * Added link to DataCamp course * Added link to DataCamp course Former-commit-id: 7dbcc2e017892a76077dd743d2ebad52c965d4af * Update nxviz from 0.5.0 to 0.6.0 * Update nxviz from 0.5.0 to 0.6.0 Former-commit-id: dbfc8f79de4085a9920744055ae3cf13ef9c17b1 * Update scipy from 1.1.0 to 1.2.0 * Update scipy from 1.1.0 to 1.2.0 Former-commit-id: d2901678efd102004b28c1f47297904a5c1053f3 * Update python-louvain from 0.11 to 0.13 * Update python-louvain from 0.11 to 0.13 Former-commit-id: 7ccd135189168155147f33161122ade916b57314 * Update tqdm from 4.28.1 to 4.29.0 * Update tqdm from 4.28.1 to 4.29.0 Former-commit-id: fea877262946430bf2f927ec4421166bd8d7629f * Update numpy from 1.15.4 to 1.16.0 * Update numpy from 1.15.4 to 1.16.0 Former-commit-id: 5c0268db9f4dcb7d3c895afa537a1d60ae38a211 * Update tqdm from 4.29.0 to 4.29.1 * Update tqdm from 4.29.0 to 4.29.1 Former-commit-id: 0cf5143e3b7e2d3d658593249660841633e55b31 * Update pandas from 0.23.4 to 0.24.0 * Update pandas from 0.23.4 to 0.24.0 Former-commit-id: 578ae3ec5c74e28833035d715810cf3addb66d39 * Update tqdm from 4.29.1 to 4.30.0 * Update tqdm from 4.29.1 to 4.30.0 Former-commit-id: 408c49d7cc389d3f4b42667ecae452454dc7b9ae * Update pandas from 0.24.0 to 0.24.1 * Update pandas from 0.24.0 to 0.24.1 Former-commit-id: b616e16ca71febdb8b382357c09d549a69b587bc * Update numpy from 1.16.0 to 1.16.1 * Update numpy from 1.16.0 to 1.16.1 Former-commit-id: d1228f64ad94a6c21b97c4a06c39e598f216449f * Update scipy from 1.2.0 to 1.2.1 * Update scipy from 1.2.0 to 1.2.1 Former-commit-id: e140df9b9df001d91e1e0e2c179181b0f185225d * Update tqdm from 4.30.0 to 4.31.1 * Update tqdm from 4.30.0 to 4.31.1 Former-commit-id: e9448355422122ecefff7b540563a8cea7ed20ea * Update matplotlib from 3.0.2 to 3.0.3 * Update matplotlib from 3.0.2 to 3.0.3 Former-commit-id: c7364c46e469a333d64c4c6bed498305fd75fdb8 * Update numpy from 1.16.1 to 1.16.2 * Update numpy from 1.16.1 to 1.16.2 Former-commit-id: 9921b3940869fbec98df6875fcd17c94a1d54edc * Update pandas from 0.24.1 to 0.24.2 * Update pandas from 0.24.1 to 0.24.2 Former-commit-id: 4fd0212d46f43bd716fc838eff826817257295e5 * Update networkx from 2.2 to 2.3 * Update networkx from 2.2 to 2.3 Former-commit-id: bd01d180b955c3437d97effee6c323bc03ca890c * Update nxviz from 0.6.0 to 0.6.1 * Update nxviz from 0.6.0 to 0.6.1 Former-commit-id: 8582326fbb92a96162a153905f5b95e22bb4cef6 * Update numpy from 1.16.2 to 1.16.3 * Update numpy from 1.16.2 to 1.16.3 Former-commit-id: 8d486146fb4ef5572b61ba6f227ef8c6f132b371 * Update matplotlib from 3.0.3 to 3.1.0 * Update matplotlib from 3.0.3 to 3.1.0 Former-commit-id: 8755090b30d4b28a43bcd0c001366dda224c3023 * Update scipy from 1.2.1 to 1.3.0 * Update scipy from 1.2.1 to 1.3.0 Former-commit-id: 7e86377f68e88361588622164de07de35d15ec18 * Update tqdm from 4.31.1 to 4.32.1 * Update tqdm from 4.31.1 to 4.32.1 Former-commit-id: cdc8856d52a657fe8279ad885f06a2beb323b227 * Update numpy from 1.16.3 to 1.16.4 * Update numpy from 1.16.3 to 1.16.4 Former-commit-id: 6ad31740e4cf9ff1d0373c0e289ed57d8af1e5fa * Update tqdm from 4.32.1 to 4.32.2 * Update tqdm from 4.32.1 to 4.32.2 Former-commit-id: f41370384743d84976ab4e36bf737b707ce7fb53 * add ffmpeg to env spec * add ffmpeg to env spec Former-commit-id: 7364f0514109402bb7f4bd87041d4d0f57a3b5e7 * Update matplotlib from 3.1.0 to 3.1.1 * Update matplotlib from 3.1.0 to 3.1.1 Former-commit-id: 4da6add03eb96c72faf7016e51154ce234f17652 * Update pandas from 0.24.2 to 0.25.0 * Update pandas from 0.24.2 to 0.25.0 Former-commit-id: ed65351257a790f22f8a8b5055ee004b11ecb878 * Update numpy from 1.16.4 to 1.17.0 * Update numpy from 1.16.4 to 1.17.0 Former-commit-id: dd31704b753578c763e04715112a5d8f688a1676 * Update pandas from 0.25.0 to 0.25.1 * Update pandas from 0.25.0 to 0.25.1 Former-commit-id: 4e71b7c8631a47f28dca7021ae29cb8cbcdbb7d6 * Update scipy from 1.3.0 to 1.3.1 * Update scipy from 1.3.0 to 1.3.1 Former-commit-id: fa838d58cb766361468d8904ee44b6b880382e96 * Update tqdm from 4.32.2 to 4.35.0 * Update tqdm from 4.32.2 to 4.35.0 Former-commit-id: 9e06be8d617400611b165b22c94bdf98c1585281 * Update numpy from 1.17.0 to 1.17.1 * Update numpy from 1.17.0 to 1.17.1 Former-commit-id: 27090871dce3d379289d5dcbe2f8065429218ad3 * Update numpy from 1.17.1 to 1.17.2 * Update numpy from 1.17.1 to 1.17.2 Former-commit-id: 778399db274598ae278fb7e8552d74d18d10dc82 * Networkx v2 (#133) * Add nbstripout * update to networkx v2 API * install ffmpeg from native ubuntu repo * comment out xvfb * change python to 3.8 * switch to py37 * manual listing of notebooks to execute * Networkx v2 (#133) * Add nbstripout * update to networkx v2 API * install ffmpeg from native ubuntu repo * comment out xvfb * change python to 3.8 * switch to py37 * manual listing of notebooks to execute Former-commit-id: 25d84cf4c06d9a1a020af53e2e9c2a44e2b4905c * Moved notebooks into notebooks directory * Moved notebooks into notebooks directory Former-commit-id: 91c3c5f41c4b7731809d284c9a40a1d495a25ce9 * Add @MridulS to copyright * Add @MridulS to copyright Former-commit-id: 7030d8d2e268c68e034b85b76bdd88d2057de06a * Add jupyter-book to environment spec * Add jupyter-book to environment spec Former-commit-id: 69b5484f9ae4272f84a4eb2a4b521a17abfb5d12 * mkdocs first commit * mkdocs first commit Former-commit-id: ae0ea364fe28845a22e1d65bd30ad04c5159fddd * Sneaking in Python gitignore * Sneaking in Python gitignore Former-commit-id: 01e8e31413cd05ed09bd2d00238113d9fcb2e588 * committing data before moving to another computer * committing data before moving to another computer Former-commit-id: 20a91bf69b0a50b7ce023cdd5302926915ac6198 * finished chapter 1 * finished chapter 1 Former-commit-id: 3211f2a7d2453e5f7fc4d2fb948c65f11ae39c48 * added static site pieces * ran bfg cleaner * took out comment line in .buildpacks * Trigger commit for Dokku * fixed config file name * Switching over to Dockerfile-based deploy * fixed copy error * Added command to activate bash * add dockerignore * Add command to source bashrc * change source cmd * change conda activate to . activate * add diagnostic which conda * modify dockerfile * manually configure path * fixed docker install command' * Add entrypoint for Docker container * Add headers for feedback and supporting * restricted initial setup * removed custom source from environment spec file * fixed Dockerfile * ignoring ipynb_checkpoints * commit to move to different computer * midway commit on hubs chapter * finished up degree centrality * finished hubs (degree centrality) notebook * Added style guide * Add style guide * removed 1st level heading * Moved exercises solution info to correct place Was in "exercises" section, should instead be in "solutions" section. * starting pre-commit * Finished chapter on paths * finished chapter on paths * Fixed missing import in paths notebook. * Finished chapter 6 * Docs for structures * Added docstrings to structures.py - Sneaking in black and isort fix on paths.py * Added docstrings to all paths.py functions * Docstrings added to each of the chapter solutions. * Added mkdocstrings to environment spec * Added solutions API docs This is a pretty neat hack! Use functions to house the answers and then expose them all at once in an API docs page. * Added special CSS for API docs * Upgraded docs with API docs for solutions * Added docstrings to all hubs solutions. * Found out that mkdocstrings borks mknotebooks * started graph io notebook * made output HTML also use overflow * Updated with admonition * added chapter on testing * Add page to learn more stuff * whitespace changes * switching to other computer * Updated "learn more" * Minor phrasing change to index * Commented out advanced topics until it is made * Added comments on first PDF compilation attempt * Finished prototype of PDF compiler Still left to do: - Separate out chapters such that they start on new pages. * configured mkdocs to execute notebooks * added hypothes.is * Finished PDF builder prototype * Adding more chapters in * add NB7 and 8 to mkdocs (#140) h/t @MridulS! * Updated gitignore * Changed port for Makefile * Finished up to 2nd exercise of bipartite notebook * EOD commit 6 May 2020 * Finished bipartite first draft * Update devdocs with render_html function * Added a render_html convenience function * Switched to using render_html * Switched to using render_html for answers to questions * Switched to using render_html for answers to questions * Finished linear algebra draft * Got rid of top level header * Fixed up linear algebra chapter * Started drafting statistical inference on graphs section * Changed bipartite graph figure to matplotlib-generated one. * Changed links to inline ones * Added figure generation code * Finished more prototyping - Page breaks recognized! Amazing! - Reconfigured book content. It's time to put this one into action in the Dockerfile. * Add dev container specification * Add updated stats notebook * Add content to chapter on GOT case study (#146) * initial work on GoT * GOT finsh up * fix for docs build * strip nboutput * add load_data method for GOT data * update dataset * More stats content * Minor update * Finished stats notebook * Add preface * Building Markua collection of files * Adding in test manuscript for leanpub * Removed python script * Testing travis deploy * Deploying whole repo * Now inserting top level markdown header * Trying alternative output directory * Trying a different build structure * Add tabulate to environment * fixed latex output for LFM * Fixed inline LaTeX to LFM LaTeX * Converting pandas head() to to_markdown() * Fixed up images LFM compatibility * preprocessing markdown tables * swap image with new custom image instead of using the one from the article * Fixed issue with long outputs * I think I got markdown tables working finally * set logging level to INFO * Getting rid of more HTML * Getting rid of more HTML * restored cell content * more fixes * Added a few more automated validations * Fixed final table output * Add deploy to main branch * Move Dockerfile into scripts * Changed README * Update index page * moved notebooks into archive * moved tutorial proposals to archive * Moved images to archive * Removed nbstripout commands from Makefile * previewing deploy on jupyterbook branch * Targeting deploys from main branch rather than jupyterbook branch Co-authored-by: pyup-bot <github-bot@pyup.io> Co-authored-by: Mridul Seth <seth.mridul+github@gmail.com> Co-authored-by: Mridul Seth <seth.mridul@gmail.com> Co-authored-by: Mridul Seth <mail@mridulseth.com>
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Updated notebooks to use NetworkX v2 API.