diff --git a/.dockerignore b/.dockerignore index a88ae59..7703a57 100644 --- a/.dockerignore +++ b/.dockerignore @@ -2,9 +2,12 @@ gmt/ **/.ipynb_checkpoints **/*.csv -**/*.txt -**/*.tif +**/*.dbf **/*.grd **/*.npy **/*.nc +**/*.shp +**/*.shx +**/*.txt +**/*.tif **/*.zip diff --git a/.gitignore b/.gitignore index 9016f45..6a615cd 100644 --- a/.gitignore +++ b/.gitignore @@ -2,9 +2,12 @@ gmt/ **/.ipynb_checkpoints **/*.csv -**/*.txt -**/*.tif +**/*.dbf **/*.grd **/*.npy **/*.nc +**/*.shp +**/*.shx +**/*.txt +**/*.tif **/*.zip diff --git a/Pipfile b/Pipfile index 3d5648f..acdf84f 100644 --- a/Pipfile +++ b/Pipfile @@ -22,6 +22,7 @@ pandas = "==0.24.2" pygmt = {editable = true,ref = "0.0.1a0-31-g97c2b4a",git = "https://github.com/weiji14/pygmt.git"} quilt = "==2.9.14" rasterio = "==1.0.13" +rtree = "==0.8.3" scikit-image = "==0.14.2" tqdm = "==4.29.1" diff --git a/Pipfile.lock b/Pipfile.lock index 1601852..5eb25ad 100644 --- a/Pipfile.lock +++ b/Pipfile.lock @@ -1,7 +1,7 @@ { "_meta": { "hash": { - "sha256": "4177625a418bfbe90a47c72ae89465bae298d8e0484f55a3380f15f1b2f712eb" + "sha256": "cf3686e2a767d54689c311f0e6bf8badfedd5932a10313fe590173907dccdaf7" }, "pipfile-spec": 6, "requires": { @@ -788,26 +788,26 @@ }, "protobuf": { "hashes": [ - "sha256:11f2c15439d9829f76b26cae0f84f07a983a8841653f4d1a2e8029ff86daa24f", - "sha256:16086fa92cde5c8d71c92647f262124e4793335babc226ebe207b051cbdb9b01", - "sha256:2f1b6aa87597991ef72c52589a60316fe416164f096f6fb2bec44641e47f4e2d", - "sha256:359813c76c447f74774031dd9fffc7bc596f6294cb4ec3a9d25755a96cb0d1da", - "sha256:3d78230744110a9d842723ca31534bd7a5f47a1507d90f8b1d4b33776ec15cf8", - "sha256:4d738b4587a13ad518140744b80a59fae6d73f0ca2cf20b087f949ccf7366a11", - "sha256:563f2cc30e69e61b2bf114c9308df5dd4c3571865cf1c61e19d6d9a12f4b480a", - "sha256:59a6a5cc058bf0fddbb55c1e30dc70ffadb2bdbc45701973bd9ce0085f266a6a", - "sha256:7e08e561ba1a922dc46cac7a008613cd12641988d1fab2e8c520be9a2628ed49", - "sha256:7e57e7457ca91d9223cdc808c81a47e2da36ccb713dc8629250f247cc5afa1a8", - "sha256:b403309a5a682ced2910c885ee751d643c0aef50c7574171cf965e861c8f4f5a", - "sha256:cbfa8afbed3bb1ecd82106c77b8718e5ed3fc69a140c51bcdec1ebadc915ccbc", - "sha256:d480ed1cd68cdb8571180afbf067cb1dedcdb6bb4e396090e88880a5cd2c3698", - "sha256:da3c8889fc53566a23621739ca08b72628022347b3611ea7b6a7b24a6a61e88f", - "sha256:dedfea055c534258a974362a31e0fd101b16b2a6021ac05fdf5a180cb3d809fb", - "sha256:f0de5a4efd1829be0a30369c7586f24734241e1db4184e8052fc0b69135325e7", - "sha256:f1c167e5952bd703295d82b282b0accd7aa825806181804f3f20d04af93dcb5f", - "sha256:f284f3e662111ff1d79846c214f1780d60e54c4bf7d7c3563b7543fc1bfc9d75" - ], - "version": "==3.8.0rc1" + "sha256:03f43eac9d5b651f976e91cf46a25b75e5779d98f0f4114b0abfed83376d75f8", + "sha256:0c94b21e6de01362f91a86b372555d22a60b59708599ca9d5032ae9fdf8e3538", + "sha256:2d2a9f30f61f4063fadd7fb68a2510a6939b43c0d6ceeec5c4704f22225da28e", + "sha256:34a0b05fca061e4abb77dd180209f68d8637115ff319f51e28a6a9382d69853a", + "sha256:358710fd0db25372edcf1150fa691f48376a134a6c69ce29f38f185eea7699e6", + "sha256:41e47198b94c27ba05a08b4a95160656105745c462af574e4bcb0807164065c0", + "sha256:8c61cc8a76e9d381c665aecc5105fa0f1878cf7db8b5cd17202603bcb386d0fc", + "sha256:a6eebc4db759e58fdac02efcd3028b811effac881d8a5bad1996e4e8ee6acb47", + "sha256:a9c12f7c98093da0a46ba76ec40ace725daa1ac4038c41e4b1466afb5c45bb01", + "sha256:cb95068492ba0859b8c9e61fa8ba206a83c64e5d0916fb4543700b2e2b214115", + "sha256:cd98476ce7bb4dcd6a7b101f5eecdc073dafea19f311e36eb8fba1a349346277", + "sha256:ce64cfbea18c535176bdaa10ba740c0fc4c6d998a3f511c17bedb0ae4b3b167c", + "sha256:dcbb59eac73fd454e8f2c5fba9e3d3320fd4707ed6a9d3ea3717924a6f0903ea", + "sha256:dd67f34458ae716029e2a71ede998e9092493b62a519236ca52e3c5202096c87", + "sha256:e3c96056eb5b7284a20e256cb0bf783c8f36ad82a4ae5434a7b7cd02384144a7", + "sha256:f612d584d7a27e2f39e7b17878430a959c1bc09a74ba09db096b468558e5e126", + "sha256:f6de8a7d6122297b81566e5bd4df37fd5d62bec14f8f90ebff8ede1c9726cd0a", + "sha256:fa529d9261682b24c2aaa683667253175c9acebe0a31105394b221090da75832" + ], + "version": "==3.8.0" }, "ptyprocess": { "hashes": [ @@ -837,10 +837,10 @@ }, "pygments": { "hashes": [ - "sha256:36586500a94cd97f8c2c19d251cdb78868d1a822e0e491bfc1d811766aedb772", - "sha256:b437bc0d04dc36f1f5b3592985b3e0a3d0af46b7c39199231706d19a4ee63344" + "sha256:71e430bc85c88a430f000ac1d9b331d2407f681d6f6aec95e8bcfbc3df5b0127", + "sha256:881c4c157e45f30af185c1ffe8d549d48ac9127433f2c380c24b84572ad66297" ], - "version": "==2.4.1" + "version": "==2.4.2" }, "pygmt": { "editable": true, @@ -1015,6 +1015,15 @@ ], "version": "==2.22.0" }, + "rtree": { + "hashes": [ + "sha256:6cb9cf3000963ea6a3db777a597baee2bc55c4fc891e4f1967f262cc96148649", + "sha256:8526431aa15d8cea1c07b451ce853b62b1da4cf6b74c07810aba5b81d12efe66", + "sha256:a9e67386073f93f22449f396d5993dfe479335169c376f3f7fb04a396391f0dc" + ], + "index": "pypi", + "version": "==0.8.3" + }, "scikit-image": { "hashes": [ "sha256:0bbcb1e8b70a3e908213c6f0cbae5a7c46dfa90a55afa53406b2627bc02642f1", @@ -1102,9 +1111,9 @@ }, "sqlalchemy": { "hashes": [ - "sha256:91c54ca8345008fceaec987e10924bf07dcab36c442925357e5a467b36a38319" + "sha256:c7fef198b43ef31dfd783d094fd5ee435ce8717592e6784c45ba337254998017" ], - "version": "==1.3.3" + "version": "==1.3.4" }, "stevedore": { "hashes": [ @@ -1309,6 +1318,13 @@ ], "version": "==4.4.0" }, + "importlib-metadata": { + "hashes": [ + "sha256:027cfc6524613de726789072f95d2e4cc64dd1dee8096d42d13f2ead5bd302f5", + "sha256:0d05199e1f0b1a8707a1b9c46476d4a49807fb56cb1b0737db1d37feb42fe31d" + ], + "version": "==0.15" + }, "ipykernel": { "hashes": [ "sha256:346189536b88859937b5f4848a6fd85d1ad0729f01724a411de5cae9b618819c", @@ -1418,10 +1434,10 @@ }, "pluggy": { "hashes": [ - "sha256:25a1bc1d148c9a640211872b4ff859878d422bccb59c9965e04eed468a0aa180", - "sha256:964cedd2b27c492fbf0b7f58b3284a09cf7f99b0f715941fb24a439b3af1bd1a" + "sha256:0825a152ac059776623854c1543d65a4ad408eb3d33ee114dff91e57ec6ae6fc", + "sha256:b9817417e95936bf75d85d3f8767f7df6cdde751fc40aed3bb3074cbcb77757c" ], - "version": "==0.11.0" + "version": "==0.12.0" }, "prompt-toolkit": { "hashes": [ @@ -1448,10 +1464,10 @@ }, "pygments": { "hashes": [ - "sha256:36586500a94cd97f8c2c19d251cdb78868d1a822e0e491bfc1d811766aedb772", - "sha256:b437bc0d04dc36f1f5b3592985b3e0a3d0af46b7c39199231706d19a4ee63344" + "sha256:71e430bc85c88a430f000ac1d9b331d2407f681d6f6aec95e8bcfbc3df5b0127", + "sha256:881c4c157e45f30af185c1ffe8d549d48ac9127433f2c380c24b84572ad66297" ], - "version": "==2.4.1" + "version": "==2.4.2" }, "pyrsistent": { "hashes": [ @@ -1536,6 +1552,13 @@ "sha256:f4ebe71925af7b40a864553f761ed559b43544f8f71746c2d756c7fe788ade7c" ], "version": "==0.1.7" + }, + "zipp": { + "hashes": [ + "sha256:8c1019c6aad13642199fbe458275ad6a84907634cc9f0989877ccc4a2840139d", + "sha256:ca943a7e809cc12257001ccfb99e3563da9af99d52f261725e96dfe0f9275bc3" + ], + "version": "==0.5.1" } } } diff --git a/data_list.yml b/data_list.yml index c9a2e5b..29b623a 100644 --- a/data_list.yml +++ b/data_list.yml @@ -199,3 +199,24 @@ filename: Arthern_accumulation_bedmap2_grid1.tif url: https://secure.antarctica.ac.uk/data/bedmap2/resources/Arthern_accumulation/Arthern_accumulation_tif.zip sha256: e6b139801bf4541f1e4989a8aa8b26ab37eca81bb5eaffa8028b744782455db0 +- + citekey: Mouginot2017MEASURES + folder: misc + location: Antarctica + resolution: nan + doi: + dataset: "https://doi.org/10.5067/AXE4121732AD" + literature: "https://doi.org/10.1126/science.1235798" + files: + - + filename: GroundingLine_Antarctica_v2.shp + url: http://data.pgc.umn.edu/gis/packages/quantarctica/Quantarctica3/Glaciology/MEaSUREs%20Antarctic%20Boundaries/GroundingLine_Antarctica_v2.shp + sha256: 2d8f84e301c4e33ad1cb480aa260b8208b3fcaa00df0b68593ffe7d5aa6c9d7e + - + filename: GroundingLine_Antarctica_v2.shx + url: http://data.pgc.umn.edu/gis/packages/quantarctica/Quantarctica3/Glaciology/MEaSUREs%20Antarctic%20Boundaries/GroundingLine_Antarctica_v2.shx + sha256: 01eaff4a35b4cd840a3fb1bdb63f7e51b2792c2ccd92d4621cb5d97cb3e365bc + - + filename: GroundingLine_Antarctica_v2.dbf + url: http://data.pgc.umn.edu/gis/packages/quantarctica/Quantarctica3/Glaciology/MEaSUREs%20Antarctic%20Boundaries/GroundingLine_Antarctica_v2.dbf + sha256: 1cfbe90b262a7fb81cbe61af4f75b23e03213a078ed866e66c6467ab422e017e diff --git a/data_prep.ipynb b/data_prep.ipynb index a2f9454..127c379 100644 --- a/data_prep.ipynb +++ b/data_prep.ipynb @@ -47,10 +47,8 @@ "import sys\n", "import tarfile\n", "import urllib\n", - "import zipfile\n", - "\n", - "import tqdm\n", "import yaml\n", + "import zipfile\n", "\n", "import geopandas as gpd\n", "import pygmt as gmt\n", @@ -65,6 +63,7 @@ "import rasterio.plot\n", "import shapely.geometry\n", "import skimage.util.shape\n", + "import tqdm\n", "import xarray as xr\n", "\n", "print(\"Python :\", sys.version.split(\"\\n\")[0])\n", @@ -380,6 +379,27 @@ " https://secure.antarctica.ac.uk/data/bedmap2/resources/Arthern_accumulation/Arthern_accumulation_tif.zip\n", " e6b139801bf4541f1e4989a8aa8b26ab37eca81bb5eaffa8028b744782455db0\n", " \n", + " \n", + " 30\n", + " misc\n", + " GroundingLine_Antarctica_v2.shp\n", + " http://data.pgc.umn.edu/gis/packages/quantarctica/Quantarctica3/Glaciology/MEaSUREs%20Antarctic%20Boundaries/GroundingLine_Antarctica_v2.shp\n", + " 2d8f84e301c4e33ad1cb480aa260b8208b3fcaa00df0b68593ffe7d5aa6c9d7e\n", + " \n", + " \n", + " 31\n", + " misc\n", + " GroundingLine_Antarctica_v2.shx\n", + " http://data.pgc.umn.edu/gis/packages/quantarctica/Quantarctica3/Glaciology/MEaSUREs%20Antarctic%20Boundaries/GroundingLine_Antarctica_v2.shx\n", + " 01eaff4a35b4cd840a3fb1bdb63f7e51b2792c2ccd92d4621cb5d97cb3e365bc\n", + " \n", + " \n", + " 32\n", + " misc\n", + " GroundingLine_Antarctica_v2.dbf\n", + " http://data.pgc.umn.edu/gis/packages/quantarctica/Quantarctica3/Glaciology/MEaSUREs%20Antarctic%20Boundaries/GroundingLine_Antarctica_v2.dbf\n", + " 1cfbe90b262a7fb81cbe61af4f75b23e03213a078ed866e66c6467ab422e017e\n", + " \n", " " ], "text/plain": [ @@ -1021,27 +1041,59 @@ "cell_type": "markdown", "metadata": {}, "source": [ - "### Show and save tiles" + "### Subset tiles to those within grounding line, plot to show, and save" ] }, { "cell_type": "code", "execution_count": 19, "metadata": {}, + "outputs": [], + "source": [ + "tile_gdf = pd.concat(\n", + " objs=[\n", + " gpd.GeoDataFrame(\n", + " pd.Series(\n", + " data=len(window_bound) * [os.path.basename(filepath)], name=\"grid_name\"\n", + " ),\n", + " crs={\"init\": \"epsg:3031\"},\n", + " geometry=[shapely.geometry.box(*bound) for bound in window_bound],\n", + " )\n", + " for filepath, window_bound in zip(filepaths, window_bounds)\n", + " ]\n", + ").reset_index(drop=True)" + ] + }, + { + "cell_type": "code", + "execution_count": 20, + "metadata": {}, + "outputs": [], + "source": [ + "# Load grounding line polygon and buffer by 10km\n", + "gline = gpd.read_file(\"misc/GroundingLine_Antarctica_v2.shp\")\n", + "gline.crs = {\"init\": \"epsg:3031\"}\n", + "gline.geometry = gline.geometry.buffer(distance=10000)" + ] + }, + { + "cell_type": "code", + "execution_count": 21, + "metadata": {}, "outputs": [ { "data": { "text/plain": [ - "" + "" ] }, - "execution_count": 19, + "execution_count": 21, "metadata": {}, "output_type": "execute_result" }, { "data": { - "image/png": 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mVsDJ0sysgJOlmVkBJ0szswJOlmZmBZwszcwKjClZSvqCpD2S3pfUVYv/O0k7Jb2QP8+vbXtK0l5Ju3L5ZMZnSnpIUo+kpyV11va5KeN7JS2rxZdnrEfS2lp8QfbRk33OGMt5mpmN9cpyN/B54CcD4r8A/iAifp+qds6DA7ZfFRFLcnkzY6uBIxFxFrAOuBNA0iKqMhKLgeXA3ZKmSZoG3AVcDCwCrsy25L7rsq8j2beZ2aiNKVlGxEsRsXeQ+HMR8f/y1z3AxyXNHKa7FcCGXH8YuECSMr4pIo5GxCtAD3B2Lj0RsT8i3gU2AStyn/OzD7LPy0Z/lmZmrXlm+YfATyPiaC3213kL/meZ3ADmAq8DZCnct4HZ9Xg6kLFG8dnAW9lHPW5mNmrDVneU9Bhw+iCbbo6IRwaJ1/ddTHVLfFEtfFVE9Er6beB7wNXAxvJDHl+S1gBrAObPnz9Rh2Fmk9ywyTIiLhxNx5LmAT8AromIfbX+evPnryT9DdXt9EagFzgDOCBpOnAScKgW7zcvYzSIHwJOljQ9ry7r7Qc7v/XAeqiqO47mXM2s/TXlNlzSycBWYG1E/J9afLqkU3P9Y8DnqCaJALZQTQYBXAE8EVWd3i3AypwtXwAsBJ4BngUW5sz3DKpJoC25z5PZB9nnkFfAZmbDGetbhy6XdAD418BWSdty0w3AWcD/GPAWoZnANknPA7uorvjuy33uB2ZL6gH+BFgLEBF7gM3Ai8D/Bq6PiPfyqvEGYBvwErA52wLcCPxJ9jU7+zYzGzVVF2IG1W14d3f3RB+GmbWQpJ0R0TVcO3+Cx8ysgJOlmVkBJ0szswJOlmZmBZwszcwKOFmamRVwsjQzK+BkaWZWwMnSzKyAk6WZWQEnSzOzAk6WZmYFnCzNzAo4WZqZFXCyNDMr4GRpZlZgrN+U/gVJeyS9L6mrFu+U9Ovat6TfW9u2VNILknokfau/uqOkUyRtl/Ry/pyVcWW7HknPS/p0ra9V2f5lSauGG8PMbLTGemW5G/g88JNBtu2LiCW5XFuL3wN8laqWzkJgecbXAo9HxELg8fwd4OJa2zW5P5JOAW4BzqEqenZLf4IdYgwzs1EZU7KMiJciYm9pe0lzgE9ExI4sLLYRuCw3rwA25PqGAfGNUdlBVblxDrAM2B4RhyPiCLAdWD7MGGZmo9LMZ5YLJD0n6ceSzsvYXOBArc2BjAGcFhEHc/3nwGm1fV4fZJ+h4o3G+AhJayR1S+ru6+srPjkzO7EMWzdc0mPA6YNsujkiGpWYPQjMj4hDkpYCP5S0uPSgIiIktaSSmuuGm1mJYZNlRFw40k4j4ihwNNd3StoHfIqq9O28WtN5GQN4Q9KciDiYt9JvZrwXOGOQfXqBzw6IPzXMGGZmo9KU23BJHZKm5fqZVJMs+/M2+5eSzs0Z6muA/qvTLUD/jPaqAfFrclb8XODt7GcbcJGkWTmxcxGwbZgxzMxGZdgry6FIuhz4NtABbJW0KyKWAZ8BbpX0G+B94NqIOJy7XQd8B/g48KNcAO4ANktaDbwGfDHjjwKXAD3AO8CXASLisKTbgGez3a0FY5iZjYqqCWOD6plld3f3RB+GmbWQpJ0R0TVcO3+Cx8ysgJOlmVkBJ0szswJOlmZmBZwszcwKOFmamRVwsjQzK+BkaWZWwMnSzKyAk6WZWQEnSzOzAk6WZmYFnCzNzAo4WZqZFXCyNDMr4GRpZlZgTMlS0hck7ZH0vqSuWvwqSbtqy/uSluS2pyTtrW37ZMZnSnpIUo+kpyV11vq7KeN7JS2rxZdnrEfS2lp8QfbRk33OGMt5mtnU0Ll2a9P6HuuV5W7g88BP6sGI+G5ELImIJcDVwCsRsavW5Kr+7RHRX5hsNXAkIs4C1gF3AkhaBKwEFgPLgbslTcsaP3cBFwOLgCuzLbnvuuzrSPZtZjZqY0qWEfFSROwdptmVwKaC7lYAG3L9YeCCLDi2AtgUEUcj4hWqWjxn59ITEfsj4t0cY0Xuc372QfZ52UjOy8ymplfvuLRpfbfimeWXgL8dEPvrvAX/s0xuAHOB1wEi4hjwNjC7Hk8HMtYoPht4K/uoxwclaY2kbkndfX19ozk/MzsBDJssJT0mafcgy4qCfc8B3omI3bXwVRHx+8B5uVw96qMfBxGxPiK6IqKro6NjIg/FzCaxYZNlRFwYEb83yFJSi3slA64qI6I3f/4K+Buq22mAXuAMAEnTgZOAQ/V4mpexRvFDwMnZRz1uZm2smZM70MTbcEm/RVX7e1MtNl3Sqbn+MeBzVJNEAFuAVbl+BfBEVHV6twArc7Z8AbAQeIaqXvjCnPmeQZWYt+Q+T2YfZJ8lid3MprBmPq8EmD58k8YkXQ58G+gAtkraFRH9b+35DPB6ROyv7TIT2JaJchrwGHBfbrsfeFBSD3CYKvkREXskbQZeBI4B10fEezn+DcC27OuBiNiTfd0IbJJ0O/Bc9m1mNmqqLsQMoKurK7q7uyf6MMyshSTtjIiu4dr5EzxmZgWcLM3MCjhZmpkVcLI0MyvgZGlmVsDJ0sysgJOlmVkBv8+yRlIf8FoThzgV+EUT+2+FdjgHaI/zaIdzgIk/j38eEcN+MYSTZQtJ6i558+tk1g7nAO1xHu1wDjB1zsO34WZmBZwszcwKOFm21vqJPoBx0A7nAO1xHu1wDjBFzsPPLM3MCvjK0sysgJNlgSFK/nZK+nWtrO+9tW1LJb2Q5Xi/1V9rSNIpkrZLejl/zsq4sl2PpOclfbrW16ps/7KkVcONMZJzyG3jUmp4PMsZl5D0dUm9tb//JZPhnFphLH+3cT6OV/M1uEtSd8aa/hpvNEZTRYSXYRbgXwC/CzwFdNXincDuBvs8A5wLCPgRcHHGvwGszfW1wJ25fkm2U+73dMZPAfbnz1m5PmuoMUZ4DouAf6D6YuYFwD6qL1OelutnAjOyzaLcZzOwMtfvBf5Drl8H3JvrK4GHRjtG4b/L14H/Okh8ws6pRa/HMf3dxvlYXgVOHRBr+mu80RjNXHxlWSDKSv5+QNIc4BMRsSOqf82NfFiOt17yd8OA+Mao7KCqIzQHWAZsj4jDEXEE2A4sH2aMkZzDeJYaHpdyxkP8aUtN5Dm1QrP+buOlFa/xRmM0jZPl2C2Q9JykH0s6L2NzqUrw9quX4z0tIg7m+s+B02r7jKTk71BjjMR4lhoer3LGI3FD3tI9ULsVm8hzaoWJHHugAP5e0k5JazLWitd4ozGaZkw1eNqJpMeA0wfZdHM0rmR5EJgfEYckLQV+KGlx6ZgREZLG8+0I50jaPUh8qHOY1Ib6dwHuAW6j+g/2NuCbwFdad3QG/NuI6JX0SWC7pJ/VNzbhNf4RrRgDnCw/EBEXjmKfo8DRXN8paR/wKarSu/NqTevleN+QNCciDuZtxpsZH6rk72cHxJ9qMMb3I+JrIzyNRuPSIP5BqeG80qq37+/rgMrKGTca4wOl/y6S7gP+bpKcU7NN5NjHiQ9LW78p6QdUjwia+Rof7r+j5mn2Q9F2Wvjo5EgH+VCf6mF7L3BKDP5g+pKM/znHP5j+Rq5fyvEPv5+JDx9+v0L14HtWrg85xgjPYTHHT1Tsp5pAmJ7rC/hwEmFx7vO/OH4y5Lpcv57jJ0M2j3aMwn+PObX1/0z1DHFCz6lFr8Mx/d3G8Tj+KfDbtfX/CyxvxWu80RhNPd9W/4Gn4gJcTvW85CjwBrAt438I7AF2AT8F/qC2TxdVTfR9wF/y4QcAZgOPAy9TlQLuf1EIuCvbv8DxCe0rVBMIPcCXhxtjJOeQ227OPvZSm1Gnmr38x9x2cy1+Zr6IezLJzMz4P8nfe3L7maMdo/Df5cH8Wz1PVV9+zmQ4pxa9Jkf9dxvHYziTKlH/Q/53cHOrXuONxmjm4k/wmJkV8Gy4mVkBJ0szswJOlmZmBZwszcwKOFmamRVwsjQzK+BkaWZWwMnSzKzA/wcEjXreDV1cYwAAAABJRU5ErkJggg==\n", + "image/png": 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\n", 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" ] @@ -1053,29 +1105,30 @@ } ], "source": [ - "gdf = pd.concat(\n", - " objs=[\n", - " gpd.GeoDataFrame(\n", - " pd.Series(\n", - " data=len(window_bound) * [os.path.basename(filepath)], name=\"grid_name\"\n", - " ),\n", - " crs={\"init\": \"epsg:3031\"},\n", - " geometry=[shapely.geometry.box(*bound) for bound in window_bound],\n", - " )\n", - " for filepath, window_bound in zip(filepaths, window_bounds)\n", - " ]\n", - ").reset_index(drop=True)\n", + "# Select tiles within the buffered grounding line\n", + "gdf = gpd.sjoin(left_df=tile_gdf, op=\"within\", right_df=gline, how=\"inner\")\n", + "gdf = gdf.reset_index()[[\"grid_name\", \"geometry\"]]\n", "gdf.plot()" ] }, { "cell_type": "code", - "execution_count": 20, + "execution_count": 22, "metadata": { "lines_to_next_cell": 1 }, - "outputs": [], + "outputs": [ + { + "name": "stdout", + "output_type": "stream", + "text": [ + "Saving only 2347 tiles out of 2499\n" + ] + } + ], "source": [ + "# Save subsetted tiles to file in both EPSG 3031 and 4326\n", + "print(f\"Saving only {len(gdf)} tiles out of {len(tile_gdf)}\")\n", "gdf.to_file(filename=\"model/train/tiles_3031.geojson\", driver=\"GeoJSON\")\n", "gdf.to_crs(crs={\"init\": \"epsg:4326\"}).to_file(\n", " filename=\"model/train/tiles_4326.geojson\", driver=\"GeoJSON\"\n", diff --git a/data_prep.py b/data_prep.py index 56a1f33..5eb4f22 100644 --- a/data_prep.py +++ b/data_prep.py @@ -31,10 +31,8 @@ import sys import tarfile import urllib -import zipfile - -import tqdm import yaml +import zipfile import geopandas as gpd import pygmt as gmt @@ -49,6 +47,7 @@ import rasterio.plot import shapely.geometry import skimage.util.shape +import tqdm import xarray as xr print("Python :", sys.version.split("\n")[0]) @@ -521,10 +520,10 @@ def get_window_bounds( print(f"Total number of tiles: {len(window_bounds_concat)}") # %% [markdown] -# ### Show and save tiles +# ### Subset tiles to those within grounding line, plot to show, and save # %% -gdf = pd.concat( +tile_gdf = pd.concat( objs=[ gpd.GeoDataFrame( pd.Series( @@ -536,9 +535,22 @@ def get_window_bounds( for filepath, window_bound in zip(filepaths, window_bounds) ] ).reset_index(drop=True) + +# %% +# Load grounding line polygon and buffer by 10km +gline = gpd.read_file("misc/GroundingLine_Antarctica_v2.shp") +gline.crs = {"init": "epsg:3031"} +gline.geometry = gline.geometry.buffer(distance=10000) + +# %% +# Select tiles within the buffered grounding line +gdf = gpd.sjoin(left_df=tile_gdf, op="within", right_df=gline, how="inner") +gdf = gdf.reset_index()[["grid_name", "geometry"]] gdf.plot() # %% +# Save subsetted tiles to file in both EPSG 3031 and 4326 +print(f"Saving only {len(gdf)} tiles out of {len(tile_gdf)}") gdf.to_file(filename="model/train/tiles_3031.geojson", driver="GeoJSON") gdf.to_crs(crs={"init": "epsg:4326"}).to_file( filename="model/train/tiles_4326.geojson", driver="GeoJSON" diff --git a/environment.yml b/environment.yml index 6718a76..d79d736 100644 --- a/environment.yml +++ b/environment.yml @@ -7,5 +7,6 @@ dependencies: - defaults::cudatoolkit=10.0[md5=4388ad6015992501b042eea5197eb447] - pip=18.1[md5=d68c7e5109ba0bf4b1cfe60f0f47870a] - conda-forge::python=3.6.6[md5=fe9f54422cdaf8779147b6a02cab2dd1] + - conda-forge::libspatialindex=1.9.0[md5=ef8f25a228de3a0dc716566b8d3de593] - pip: - pipenv==2018.11.26 diff --git a/misc/README.md b/misc/README.md index 0b10b47..0354335 100644 --- a/misc/README.md +++ b/misc/README.md @@ -6,5 +6,6 @@ Filename|Location|Resolution|Literature Citation|Data Citation ---|---|---|---|--- Arthern_accumulation_bedmap2_grid1.tif|Antarctica|1000m|[Arthern2006Accumulation](https://doi.org/10.1029/2004JD005667)| lisa750_2013182_2017120_0000_0400_vv_v1.tif|Antarctica|750m|[Fahnestock2019LISA](https://doi.org/10.1016/j.rse.2015.11.023)|[DOI](https://doi.org/10.7265/nxpc-e997) +3 *.dbf files|Antarctica|nan|[Mouginot2017MEASURES](https://doi.org/10.1126/science.1235798)|[DOI](https://doi.org/10.5067/AXE4121732AD) 2 *.tif files|Antarctica|100m|[Noh2018REMA](https://doi.org/10.1016/j.isprsjprs.2017.12.008)|[DOI](https://doi.org/10.7910/DVN/SAIK8B) MEaSUREs_IceFlowSpeed_450m.tif|Antarctica|450m|[Rignot2011MEASURES](https://doi.org/10.1126/science.1208336)|[DOI](https://doi.org/10.5067/D7GK8F5J8M8R) diff --git a/model/train/tiles_3031.geojson b/model/train/tiles_3031.geojson index e37019e..bab24cd 100644 --- a/model/train/tiles_3031.geojson +++ b/model/train/tiles_3031.geojson @@ -536,14 +536,7 @@ { "type": "Feature", "properties": { "grid_name": "201x_Antarctica_Basler.nc" }, "geometry": { "type": "Polygon", "coordinates": [ [ [ -158429.38367, -628252.6195499998285 ], [ -158429.38367, -620252.6195499998285 ], [ -166429.38367, -620252.6195499998285 ], [ -166429.38367, -628252.6195499998285 ], [ -158429.38367, -628252.6195499998285 ] ] ] } }, { "type": "Feature", "properties": { "grid_name": "201x_Antarctica_Basler.nc" }, "geometry": { "type": "Polygon", "coordinates": [ [ [ -159429.38367, 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