From 68b9c78e4095bace19ca1768ee48a87690d9f810 Mon Sep 17 00:00:00 2001 From: Max Jones <14077947+maxrjones@users.noreply.github.com> Date: Thu, 5 Dec 2024 12:10:24 -0700 Subject: [PATCH] Lint the repo (#31) MIME-Version: 1.0 Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: 8bit * Lint the repo * Lint code in comment (tut01) * Apply suggestions from code review Co-authored-by: Yvonne Fröhlich <94163266+yvonnefroehlich@users.noreply.github.com> * Lint again --------- Co-authored-by: yvonnefroelich Co-authored-by: Yvonne Fröhlich <94163266+yvonnefroehlich@users.noreply.github.com> --- .github/workflows/deploy-book.yml | 52 +- README.md | 32 +- book/_config.yml | 8 +- book/_toc.yml | 32 +- book/intro.md | 34 +- book/tut01_firstfigure.ipynb | 119 +- book/tut02_spe_pd_gpd.ipynb | 48 +- book/tut04_geophysics.ipynb | 42 +- conda-lock.yml | 10424 ++++++++++++++-------------- 9 files changed, 5395 insertions(+), 5396 deletions(-) diff --git a/.github/workflows/deploy-book.yml b/.github/workflows/deploy-book.yml index 29d969f..b110ffc 100644 --- a/.github/workflows/deploy-book.yml +++ b/.github/workflows/deploy-book.yml @@ -13,8 +13,8 @@ on: # unrelated files, you can make this run only if a file within that specific # folder has been modified. paths: - - '.github/workflows/deploy-book.yml' - - 'book/**' + - ".github/workflows/deploy-book.yml" + - "book/**" # This job installs dependencies, builds the book, and pushes it to `gh-pages` jobs: @@ -29,30 +29,30 @@ jobs: shell: bash -l {0} steps: - # Checkout current git repository - - name: Checkout - uses: actions/checkout@v4.1.7 + # Checkout current git repository + - name: Checkout + uses: actions/checkout@v4.1.7 - # Install Mambaforge with conda-forge dependencies - - name: Setup Mambaforge - uses: mamba-org/setup-micromamba@v1.9.0 - with: - environment-name: agu24workshop - environment-file: conda-lock.yml - create-args: >- - python=${{ matrix.python-version }} - condarc: | - channels: - - conda-forge - - nodefaults + # Install Mambaforge with conda-forge dependencies + - name: Setup Mambaforge + uses: mamba-org/setup-micromamba@v1.9.0 + with: + environment-name: agu24workshop + environment-file: conda-lock.yml + create-args: >- + python=${{ matrix.python-version }} + condarc: | + channels: + - conda-forge + - nodefaults - # Build the book - - name: Build the book - run: jupyter-book build book/ + # Build the book + - name: Build the book + run: jupyter-book build book/ - # Push the book's HTML to github-pages - - name: GitHub Pages action - uses: peaceiris/actions-gh-pages@v4.0.0 - with: - github_token: ${{ secrets.GITHUB_TOKEN }} - publish_dir: book/_build/html + # Push the book's HTML to github-pages + - name: GitHub Pages action + uses: peaceiris/actions-gh-pages@v4.0.0 + with: + github_token: ${{ secrets.GITHUB_TOKEN }} + publish_dir: book/_build/html diff --git a/README.md b/README.md index 43ae4e6..eb8da52 100644 --- a/README.md +++ b/README.md @@ -9,6 +9,7 @@ pre-conference workshop (PREWS9) at the [AGU24 Annual Meeting](https://www.agu.org/annual-meeting). **Presenters** + - [Wei Ji Leong](https://github.com/weiji14) - [Yvonne Fröhlich](https://github.com/yvonnefroehlich) - [Jing-Hui Tong](https://github.com/jhtong33) @@ -17,6 +18,7 @@ pre-conference workshop (PREWS9) at the - [Andre Luiz Belem](https://github.com/andrebelem) **When** + - Sunday 8 December 2024, 8:30-17:00 (EST) / 13:10-22:00 (UTC) - [Event Time Zone Converter](https://www.timeanddate.com/worldclock/fixedtime.html?msg=AGU24+workshop%3A+Mastering+Geospatial+Visualizations+with+GMT%2FPyGMT&iso=20241208T0830&p1=263&ah=8&am=30) @@ -27,21 +29,20 @@ Washington, DC 20001, United States ## Schedule -| Time (EST) | Topic | -|:-----------:|:-------------------------------------------------------:| -| 08:30-08:40 | Introduction to GMT / PyGMT | -| 08:40-08:55 | Installation | -| 08:55-09:45 | Tutorial 1 - First figure + Subplots / layout | -| 09:45-10:15 | **Break** | -| 10:15-11:00 | Tutorial 2 - Integration with scientific Python ecosystem: pandas / GeoPandas | -| 11:00-11:45 | Tutorial 3 - Integration with scientific Python ecosystem: Xarray (grids) | -| 11:45-12:45 | **Lunch** | -| 12:45-13:30 | Tutorial 4 - Geophysics (Seismology) | -| 13:30-14:15 | Tutorial 5 - 3-D Topography (Planetary / Antarctic maps) | -| 14:15-14:45 | **Break** | -| 14:45-15:30 | Tutorial 6 - Animations with GMT | -| 15:30-17:00 | Final exercises / mini-project | - +| Time (EST) | Topic | +| :---------: | :------------------------------------------------------------------------------------------: | +| 08:30-08:40 | Introduction to GMT / PyGMT | +| 08:40-08:55 | Installation | +| 08:55-09:45 | Tutorial 1 - First figure and Subplots / layout | +| 09:45-10:15 | **Break** | +| 10:15-11:00 | Tutorial 2 - Integration with scientific Python ecosystem: pandas / GeoPandas (tabular data) | +| 11:00-11:45 | Tutorial 3 - Integration with scientific Python ecosystem: Xarray (gridded data) | +| 11:45-12:45 | **Lunch** | +| 12:45-13:30 | Tutorial 4 - Geophysics (Seismology) | +| 13:30-14:15 | Tutorial 5 - 3-D Topography (Planetary / Antarctic maps) | +| 14:15-14:45 | **Break** | +| 14:45-15:30 | Tutorial 6 - Animations with GMT | +| 15:30-17:00 | Final exercises / mini-project | ## Getting started @@ -51,7 +52,6 @@ Launch on regular [Binder](https://mybinder.readthedocs.io/en/latest/index.html) [![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/GenericMappingTools/agu24workshop/main) - ## Code of Conduct All involved individuals must follow the diff --git a/book/_config.yml b/book/_config.yml index 460dac6..8a556c7 100644 --- a/book/_config.yml +++ b/book/_config.yml @@ -9,7 +9,7 @@ logo: logo.webp # See https://jupyterbook.org/content/execute.html execute: execute_notebooks: cache - timeout: 270 # https://jupyterbook.org/en/stable/content/execute.html#setting-execution-timeout + timeout: 270 # https://jupyterbook.org/en/stable/content/execute.html#setting-execution-timeout # Define the name of the latex output file for PDF builds latex: @@ -27,9 +27,9 @@ launch_buttons: # Information about where the book exists on the web repository: - url: https://github.com/GenericMappingTools/agu24workshop # Online location of your book - path_to_book: book # Optional path to your book, relative to the repository root - branch: main # Which branch of the repository should be used when creating links (optional) + url: https://github.com/GenericMappingTools/agu24workshop # Online location of your book + path_to_book: book # Optional path to your book, relative to the repository root + branch: main # Which branch of the repository should be used when creating links (optional) # Add GitHub buttons to your book # See https://jupyterbook.org/customize/config.html#add-a-link-to-your-repository diff --git a/book/_toc.yml b/book/_toc.yml index 87ac730..74c1d6f 100644 --- a/book/_toc.yml +++ b/book/_toc.yml @@ -4,19 +4,19 @@ format: jb-book root: intro parts: -- caption: 🔗 Details - chapters: - - title: AGU24 Homepage - url: https://www.agu.org/annual-meeting - - title: Course materials on GitHub - url: https://github.com/GenericMappingTools/agu24workshop -- caption: 🧑‍🏫 Tutorials - chapters: - - file: tut01_firstfigure - - file: tut02_spe_pd_gpd - - file: tut03_spe_xarray - - file: tut04_geophysics - - file: tut05_topography - - file: tut06_animation - sections: - - file: tut06_animation_extended + - caption: 🔗 Details + chapters: + - title: AGU24 Homepage + url: https://www.agu.org/annual-meeting + - title: Course materials on GitHub + url: https://github.com/GenericMappingTools/agu24workshop + - caption: 🧑‍🏫 Tutorials + chapters: + - file: tut01_firstfigure + - file: tut02_spe_pd_gpd + - file: tut03_spe_xarray + - file: tut04_geophysics + - file: tut05_topography + - file: tut06_animation + sections: + - file: tut06_animation_extended diff --git a/book/intro.md b/book/intro.md index 52b384d..a4f34c6 100644 --- a/book/intro.md +++ b/book/intro.md @@ -8,13 +8,12 @@ tutorials for making maps 🗺️ and animations 🎦 :gutter: 1 :padding: 1 - :::::{grid-item} ::::{grid} 1 1 1 1 :gutter: 1 :::{grid-item-card} Tutorial 1 - First figure 🚀 and Subplots / layout -:img-top: _images/fd70248f75b8b37ee54b3135f77705f98c6d8489eb18b6910184b447d0f0638d.png +:img-top: \_images/fd70248f75b8b37ee54b3135f77705f98c6d8489eb18b6910184b447d0f0638d.png :link: ./tut01_firstfigure.html by [Jing-Hui Tong](https://orcid.org/0009-0002-7195-3071) +++ @@ -29,7 +28,7 @@ by [Jing-Hui Tong](https://orcid.org/0009-0002-7195-3071) ::: :::{grid-item-card} Tutorial 2 - Integration with the scientific Python ecosystem 🐍: pandas and GeoPandas (tabular data 🗒️) -:img-top: _images/7f18327908c8dd210197cc51845e45a933f356b9fd12bd029a4a8cbda080eb2b.png +:img-top: \_images/7f18327908c8dd210197cc51845e45a933f356b9fd12bd029a4a8cbda080eb2b.png :link: ./tut02_spe_pd_gpd.html by [Yvonne Fröhlich](https://orcid.org/0000-0002-8566-0619) +++ @@ -47,13 +46,12 @@ by [Yvonne Fröhlich](https://orcid.org/0000-0002-8566-0619) :::: ::::: - :::::{grid-item} ::::{grid} 1 1 1 1 :gutter: 1 :::{grid-item-card} Tutorial 3 - Integration with the scientific Python ecosystem 🐍: Xarray (gridded data 🌐) -:img-top: _images/a18fcb026fb0d0c83360f2b8382a360e552dd50db6aa2db5311259bf5223d3a2.png +:img-top: \_images/a18fcb026fb0d0c83360f2b8382a360e552dd50db6aa2db5311259bf5223d3a2.png :link: ./tut03_spe_xarray.html by [Max Jones](https://orcid.org/0000-0003-0180-8928) +++ @@ -89,13 +87,12 @@ and [Yvonne Fröhlich](https://orcid.org/0000-0002-8566-0619) :::: ::::: - :::::{grid-item} ::::{grid} 1 1 1 1 :gutter: 1 :::{grid-item-card} Tutorial 5 - 3-D Topography (Planetary / Antarctic maps) -:img-top: _images/0a6fc097b1fcaa99eff8632dab714787757564ed60e07f20825101c6a8e045ae.png +:img-top: \_images/0a6fc097b1fcaa99eff8632dab714787757564ed60e07f20825101c6a8e045ae.png :link: ./tut05_topography.html by [Wei Ji Leong](https://orcid.org/0000-0003-2354-1988) and [André Belém](https://orcid.org/0000-0002-8865-6180) @@ -109,7 +106,7 @@ and [André Belém](https://orcid.org/0000-0002-8865-6180) ::: :::{grid-item-card} Tutorial 6 - Animations with GMT -:img-top: _images/5847818951ca8fbc9b86a6f2c67389b6.png +:img-top: \_images/5847818951ca8fbc9b86a6f2c67389b6.png :link: ./tut06_animation.html by [Federico Esteban](https://orcid.org/0000-0002-0641-7371) +++ @@ -124,15 +121,12 @@ by [Federico Esteban](https://orcid.org/0000-0002-0641-7371) :::: ::::: - :::::: - Each tutorial is rendered on this website for easy viewing 👀, but they are all Jupyter notebooks designed to be ran interactively 💫. See the instructions below on how you can start running the tutorials in no time! 🚀 - # 🌠 Quickstart To run these notebooks in an interactive Jupyter session online, 🖱️ click on the button @@ -181,18 +175,18 @@ Here's the instructions to install the `agu24workshop` environment: 4. Run the following commands on the 🧑‍💻 command-line to create the virtual environment - ```bash - cd /path/to/agu24workshop - conda env create --name agu24workshop --file environment.yml - ``` + ```bash + cd /path/to/agu24workshop + conda env create --name agu24workshop --file environment.yml + ``` 5. Once the installation is completed 🏁, launch [Jupyter Lab](https://jupyterlab.readthedocs.io) as follows: - ```bash - conda activate agu24workshop - jupyter lab - ``` + ```bash + conda activate agu24workshop + jupyter lab + ``` This should open up a page in your default browser. If not, you can click and open the 🔗 link that says `http://localhost:8888/lab?token=...` in your command-line @@ -202,7 +196,7 @@ Here's the instructions to install the `agu24workshop` environment: https://www.generic-mapping-tools.org/agu24workshop/tut01_firstfigure.html) using either the download button on the ↗️ top right (select '.ipynb') or from GitHub at https://github.com/GenericMappingTools/agu24workshop/tree/main/book. Make sure to put - the *.ipynb file(s) inside of the 'agu24workshop' folder. + the \*.ipynb file(s) inside of the 'agu24workshop' folder. 7. Open the Jupyter notebook in the left-pane file browser, e.g. by 🖱️ double-clicking on `first-figure.ipynb`. You are now ready to run through the course materials 🎉! diff --git a/book/tut01_firstfigure.ipynb b/book/tut01_firstfigure.ipynb index f25ebb8..bc3f2cd 100644 --- a/book/tut01_firstfigure.ipynb +++ b/book/tut01_firstfigure.ipynb @@ -121,7 +121,7 @@ "metadata": {}, "outputs": [], "source": [ - "fig=pygmt.Figure()" + "fig = pygmt.Figure()" ] }, { @@ -155,14 +155,12 @@ "metadata": {}, "outputs": [], "source": [ - "region=[-180, -150, 50, 65]\n", + "region = [-180, -150, 50, 65]\n", "\n", - "fig.coast(region=region, \n", - " projection=\"M10c\",\n", - " shorelines=True)\n", + "fig.coast(region=region, projection=\"M10c\", shorelines=True)\n", "\n", "# To see the figure looks like\n", - "fig.show() " + "fig.show()" ] }, { @@ -212,9 +210,7 @@ "metadata": {}, "outputs": [], "source": [ - "fig.coast(water=\"lightblue\", \n", - " land=\"grey\",\n", - " frame=[\"WSne\",\"a10f5g5\"]) \n", + "fig.coast(water=\"lightblue\", land=\"grey\", frame=[\"WSne\", \"a10f5g5\"])\n", "fig.show()" ] }, @@ -249,16 +245,15 @@ "metadata": {}, "outputs": [], "source": [ - "grid=pygmt.datasets.load_earth_relief(resolution=\"03m\", region=region)\n", + "grid = pygmt.datasets.load_earth_relief(resolution=\"03m\", region=region)\n", "\n", "# You also can access then cut the grid\n", - "# and this way can save grid (outgrid) as a file in your folder. \n", + "# and this way can save grid (outgrid) as a file in your folder.\n", "# https://www.generic-mapping-tools.org/remote-datasets/\n", "\n", - "# pygmt.grdcut(grid=\"@earth_relief_03m\", \n", - "# region=region,\n", - "# outgrid=\"Alaska.grd\", \n", - "# ) " + "# pygmt.grdcut(\n", + "# grid=\"@earth_relief_03m\", region=region, outgrid=\"Alaska.grd\"\n", + "# )" ] }, { @@ -300,14 +295,11 @@ "metadata": {}, "outputs": [], "source": [ - "fig=pygmt.Figure()\n", + "fig = pygmt.Figure()\n", "\n", - "fig.grdimage(grid=grid,\n", - " region=region, \n", - " projection=\"M10c\")\n", + "fig.grdimage(grid=grid, region=region, projection=\"M10c\")\n", "\n", - "fig.coast(shorelines=\"1p,black\",\n", - " frame=[\"WSne\", \"a5f2.5\"]) \n", + "fig.coast(shorelines=\"1p,black\", frame=[\"WSne\", \"a5f2.5\"])\n", "\n", "fig.show()" ] @@ -334,12 +326,13 @@ "metadata": {}, "outputs": [], "source": [ - "pygmt.makecpt(cmap=\"geo\", \n", - " series=[-8000, 7000, 500],\n", - " continuous=True,\n", - " # The file name with extension .cpt to store the generated CPT file\n", - " output=\"eleva.cpt\") \n", - " " + "pygmt.makecpt(\n", + " cmap=\"geo\",\n", + " series=[-8000, 7000, 500],\n", + " continuous=True,\n", + " # The file name with extension .cpt to store the generated CPT file\n", + " output=\"eleva.cpt\",\n", + ")" ] }, { @@ -381,19 +374,17 @@ "metadata": {}, "outputs": [], "source": [ - "fig=pygmt.Figure()\n", + "fig = pygmt.Figure()\n", "\n", - "fig.grdimage(grid=grid,\n", - " region=region, \n", - " projection=\"M10c\",\n", - " cmap=\"eleva.cpt\") \n", + "fig.grdimage(grid=grid, region=region, projection=\"M10c\", cmap=\"eleva.cpt\")\n", "\n", - "fig.coast(shorelines=\"1p,black\",\n", - " frame=[\"WSne\", \"a5f2.5\"]) \n", + "fig.coast(shorelines=\"1p,black\", frame=[\"WSne\", \"a5f2.5\"])\n", "\n", - "fig.colorbar(cmap=\"eleva.cpt\", \n", - " frame=\"a2000f500+lElevation (m)\",\n", - " position=\"JBC+w10c/0.4c+mc+h\",) \n", + "fig.colorbar(\n", + " cmap=\"eleva.cpt\",\n", + " frame=\"a2000f500+lElevation (m)\",\n", + " position=\"JBC+w10c/0.4c+mc+h\",\n", + ")\n", "\n", "fig.show()" ] @@ -425,39 +416,45 @@ "metadata": {}, "outputs": [], "source": [ - "fig=pygmt.Figure()\n", + "fig = pygmt.Figure()\n", "\n", - "grid_crust_age=pygmt.datasets.load_earth_age(resolution=\"30m\", region=[-210, -150, 35, 65])\n", + "grid_crust_age = pygmt.datasets.load_earth_age(\n", + " resolution=\"30m\", region=[-210, -150, 35, 65]\n", + ")\n", "\n", - "with fig.subplot(\n", - " nrows=1, ncols=2, figsize=[\"18c\",\"12c\"]\n", - "):\n", + "with fig.subplot(nrows=1, ncols=2, figsize=[\"18c\", \"12c\"]):\n", "\n", " with fig.set_panel(panel=0):\n", "\n", - " fig.grdimage(grid=grid,\n", - " region=region, \n", - " # \"?\" means that map width automatically determined from the subplot width.\n", - " projection=\"M?\", \n", - " cmap=\"eleva.cpt\") \n", - " fig.coast(shorelines=\"1p,black\",\n", - " frame=[\"WSne\", \"a5f2.5\"]) \n", - " fig.colorbar(cmap=\"eleva.cpt\", \n", - " position=\"JBC+w8c/0.3c+mc+h\", \n", - " frame=\"a2000f500+lElevation (m)\") \n", + " fig.grdimage(\n", + " grid=grid,\n", + " region=region,\n", + " # \"?\" means that map width automatically determined from the subplot width.\n", + " projection=\"M?\",\n", + " cmap=\"eleva.cpt\",\n", + " )\n", + " fig.coast(shorelines=\"1p,black\", frame=[\"WSne\", \"a5f2.5\"])\n", + " fig.colorbar(\n", + " cmap=\"eleva.cpt\",\n", + " position=\"JBC+w8c/0.3c+mc+h\",\n", + " frame=\"a2000f500+lElevation (m)\",\n", + " )\n", "\n", " with fig.set_panel(panel=1):\n", "\n", " pygmt.makecpt(cmap=\"@earth_age.cpt\", series=[0, 340])\n", - " fig.grdimage(grid=grid_crust_age,\n", - " region=[-210, -150, 35, 65], \n", - " # changing projection method\n", - " projection=\"L-180/55/35/65/?\",\n", - " frame=[\"a5f2.5\",\"SEnw\"],\n", - " cmap=True) \n", - " \n", - " fig.colorbar(position=\"JBC+w6c/0.3c+mc+h\", \n", - " frame=\"a40f20+lSeafloor crustal asge (Ma)\") \n", + " fig.grdimage(\n", + " grid=grid_crust_age,\n", + " region=[-210, -150, 35, 65],\n", + " # changing projection method\n", + " projection=\"L-180/55/35/65/?\",\n", + " frame=[\"a5f2.5\", \"SEnw\"],\n", + " cmap=True,\n", + " )\n", + "\n", + " fig.colorbar(\n", + " position=\"JBC+w6c/0.3c+mc+h\", frame=\"a40f20+lSeafloor crustal asge (Ma)\"\n", + " )\n", "\n", "fig.show()" ] diff --git a/book/tut02_spe_pd_gpd.ipynb b/book/tut02_spe_pd_gpd.ipynb index 0291e71..3bf96da 100755 --- a/book/tut02_spe_pd_gpd.ipynb +++ b/book/tut02_spe_pd_gpd.ipynb @@ -59,10 +59,8 @@ "metadata": {}, "outputs": [], "source": [ - "import pygmt\n", - "\n", - "import pandas as pd\n", "import geopandas as gpd\n", + "import pygmt\n", "\n", "# Use a resolution of only 150 dpi for the images within the Jupyter notebook, to keep the file small\n", "img_dpi = 150" @@ -114,8 +112,10 @@ "metadata": {}, "outputs": [], "source": [ - "mag_min = df_jp_eqs[\"magnitude\"].min(); print(mag_min)\n", - "mag_max = df_jp_eqs[\"magnitude\"].max(); print(mag_max)" + "mag_min = df_jp_eqs[\"magnitude\"].min()\n", + "print(mag_min)\n", + "mag_max = df_jp_eqs[\"magnitude\"].max()\n", + "print(mag_max)" ] }, { @@ -250,9 +250,9 @@ "outputs": [], "source": [ "gpd_rivers_org = gpd.read_file(\n", - " \"https://www.eea.europa.eu/data-and-maps/data/wise-large-rivers-and-large-lakes/\" + \\\n", - " \"zipped-shapefile-with-wise-large-rivers-vector-line/zipped-shapefile-with-wise-large-rivers-vector-line/\" + \\\n", - " \"at_download/file/wise_large_rivers.zip\"\n", + " \"https://www.eea.europa.eu/data-and-maps/data/wise-large-rivers-and-large-lakes/\"\n", + " + \"zipped-shapefile-with-wise-large-rivers-vector-line/zipped-shapefile-with-wise-large-rivers-vector-line/\"\n", + " + \"at_download/file/wise_large_rivers.zip\"\n", ")\n", "gpd_rivers_org.head()" ] @@ -273,7 +273,7 @@ "outputs": [], "source": [ "gpd_rivers_org.crs\n", - "gpd_rivers = gpd_rivers_org.to_crs('EPSG:4326')\n", + "gpd_rivers = gpd_rivers_org.to_crs(\"EPSG:4326\")\n", "gpd_rivers.head()" ] }, @@ -297,7 +297,7 @@ "fig = pygmt.Figure()\n", "\n", "fig.coast(\n", - " projection=\"M10c\", \n", + " projection=\"M10c\",\n", " region=[-10, 30, 35, 57],\n", " land=\"gray99\",\n", " shorelines=\"1/0.1p,gray50\",\n", @@ -338,7 +338,7 @@ "fig = pygmt.Figure()\n", "\n", "fig.coast(\n", - " projection=\"M10c\", \n", + " projection=\"M10c\",\n", " region=[-10, 35, 35, 58],\n", " land=\"gray99\",\n", " shorelines=\"1/0.1p,gray50\",\n", @@ -346,7 +346,11 @@ ")\n", "\n", "# Plot the subsets differently and specify the text for the legend entries\n", - "fig.plot(data=gpd_rivers_short, pen=\"0.5p,orange\", label=f\"shorter {len_limit} m+Hriver length+f9p\")\n", + "fig.plot(\n", + " data=gpd_rivers_short,\n", + " pen=\"0.5p,orange\",\n", + " label=f\"shorter {len_limit} m+Hriver length+f9p\",\n", + ")\n", "fig.plot(data=gpd_rivers_long, pen=\"0.5p,darkred\", label=f\"longer {len_limit} m\")\n", "\n", "# Place the legend at the Top Left corner with an offset of 0.1 centimeters from the map frame\n", @@ -425,8 +429,10 @@ "metadata": {}, "outputs": [], "source": [ - "popul_min = gdf_airbnb[\"population\"].min(); print(popul_min)\n", - "popul_max = gdf_airbnb[\"population\"].max(); print(popul_max)" + "popul_min = gdf_airbnb[\"population\"].min()\n", + "print(popul_min)\n", + "popul_max = gdf_airbnb[\"population\"].max()\n", + "print(popul_max)" ] }, { @@ -450,9 +456,9 @@ "\n", "# Plot the polygons with color-coding for the population\n", "fig.plot(\n", - " data=gdf_airbnb, \n", - " pen=\"0.2p,gray10\", \n", - " fill=\"+z\", \n", + " data=gdf_airbnb,\n", + " pen=\"0.2p,gray10\",\n", + " fill=\"+z\",\n", " cmap=True,\n", " aspatial=\"Z=population\",\n", ")\n", @@ -496,19 +502,21 @@ "fig = pygmt.Figure()\n", "\n", "fig.coast(\n", - " projection=\"M10c\", \n", + " projection=\"M10c\",\n", " region=[-10, 35, 35, 58],\n", " land=\"gray99\",\n", " shorelines=\"1/0.1p,gray50\",\n", " frame=True,\n", ")\n", "\n", - "pygmt.makecpt(cmap=\"SCM/oslo\",series=[gpd_rivers.Shape_Leng.min(), 1500000], reverse=True)\n", + "pygmt.makecpt(\n", + " cmap=\"SCM/oslo\", series=[gpd_rivers.Shape_Leng.min(), 1500000], reverse=True\n", + ")\n", "fig.colorbar(frame=[\"x+lriver length\", \"y+lm\"], position=\"+ef0.2c\")\n", "\n", "for i_river in range(len(gpd_rivers)):\n", " fig.plot(\n", - " data=gpd_rivers[gpd_rivers.index==i_river],\n", + " data=gpd_rivers[gpd_rivers.index == i_river],\n", " zvalue=gpd_rivers.loc[i_river, \"Shape_Leng\"],\n", " pen=\"0.5p\",\n", " cmap=True,\n", diff --git a/book/tut04_geophysics.ipynb b/book/tut04_geophysics.ipynb index da1c574..66d71d4 100755 --- a/book/tut04_geophysics.ipynb +++ b/book/tut04_geophysics.ipynb @@ -71,9 +71,9 @@ "metadata": {}, "outputs": [], "source": [ - "import pygmt\n", "import numpy as np\n", - "import pandas as pd \n", + "import pandas as pd\n", + "import pygmt\n", "\n", "# Use a resolution of only 150 dpi for the images within the Jupyter notebook, to keep the file small\n", "img_dpi = 150" @@ -128,7 +128,7 @@ "metadata": {}, "outputs": [], "source": [ - "region = [-90, -60, -40, 0] \n", + "region = [-90, -60, -40, 0]\n", "\n", "grid = pygmt.xyz2grd(data=data, spacing=\"5m\", region=region)" ] @@ -215,11 +215,11 @@ "# fig.grdimage(grid=grid, cmap=True, transparency=25, shading=\"+a\")\n", "\n", "fig.grdcontour(\n", - " grid=grid, \n", - " annotation=\"1000+fgray20\", \n", - " levels=1000, \n", - " limit=[-4000, 0], \n", - " pen=\"0.5p,white\"\n", + " grid=grid,\n", + " annotation=\"1000+fgray20\",\n", + " levels=1000,\n", + " limit=[-4000, 0],\n", + " pen=\"0.5p,white\",\n", ")\n", "\n", "fig.show(dpi=img_dpi)" @@ -254,17 +254,17 @@ "start_x = -85 # Longitude in degrees East\n", "start_y = -20 # Latitude in degrees North\n", "end_x = -62\n", - "end_y= -20\n", + "end_y = -20\n", "\n", "# Plot the survey line\n", "fig.plot(x=[start_x, end_x], y=[start_y, end_y], pen=\"1p,red\")\n", "\n", "# Mark start and end points with labels\n", "fig.text(\n", - " x=[start_x, end_x], \n", + " x=[start_x, end_x],\n", " y=[start_y, end_y],\n", " text=[\"A\", \"A'\"],\n", - " offset=\"0c/0.3c\", \n", + " offset=\"0c/0.3c\",\n", " font=\"10p,Helvetica-Bold,white\",\n", " fill=\"red\",\n", ")\n", @@ -294,10 +294,10 @@ "outputs": [], "source": [ "track_df = pygmt.project(\n", - " center=[start_x, start_y], \n", - " endpoint=[end_x, end_y], \n", + " center=[start_x, start_y],\n", + " endpoint=[end_x, end_y],\n", " # Output data in steps of 1 km with setting unit=True\n", - " generate=\"1\", \n", + " generate=\"1\",\n", " unit=True,\n", ")\n", "track_df.head()" @@ -524,7 +524,7 @@ " # Add a connection line between the plotting and event locations\n", " offset=\"+p0.1p,orange+s0.2c\",\n", ")\n", - " \n", + "\n", "fig.show(dpi=img_dpi)" ] }, @@ -662,20 +662,20 @@ "pygmt.makecpt(cmap=\"SCM/acton\", series=[0, 500], reverse=True)\n", "\n", "fig.plot(\n", - " x=df_low_mag[\"lon\"], \n", - " y=df_low_mag[\"lat\"], \n", + " x=df_low_mag[\"lon\"],\n", + " y=df_low_mag[\"lat\"],\n", " style=\"cc\", # Plot circles (fist \"c\") in centimeters (second \"c\")\n", - " size=np.log10(df_low_mag[\"mag\"])/4, # size varies based on magnitude\n", + " size=np.log10(df_low_mag[\"mag\"]) / 4, # size varies based on magnitude\n", " fill=df_low_mag[\"depth\"],\n", " cmap=True,\n", " pen=\"0.1p,black\",\n", ")\n", "\n", "fig.plot(\n", - " x=df_high_mag[\"lon\"], \n", - " y=df_high_mag[\"lat\"], \n", + " x=df_high_mag[\"lon\"],\n", + " y=df_high_mag[\"lat\"],\n", " style=\"ac\", # Plot stars (\"a\") in centimeters (\"c\")\n", - 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