From 1290307c11a9bd7f5c3dc54f6b94e99c364eb8ba Mon Sep 17 00:00:00 2001
From: nehajo88 <nehajo88@gmail.com>
Date: Thu, 7 Dec 2023 14:45:16 -0800
Subject: [PATCH] Classifying the world into IPCC Table 4.7
---
.../Boreal/boreal_biomass_in_IPCC.ipynb | 6 +-
.../IPCC_classes_DPS/IPCC_GEDI_Table4.7.ipynb | 12 +-
.../IPCC_classes_DPS/IPCC_GEDI_Table4.7.py | 6 +-
.../IPCC_classes_DPS/NOTES.ipynb | 410 +++++++++++++++++-
4 files changed, 414 insertions(+), 20 deletions(-)
diff --git a/country_summaries/IPCC_classes_DPS/Boreal/boreal_biomass_in_IPCC.ipynb b/country_summaries/IPCC_classes_DPS/Boreal/boreal_biomass_in_IPCC.ipynb
index 4b46b6e..29a4549 100644
--- a/country_summaries/IPCC_classes_DPS/Boreal/boreal_biomass_in_IPCC.ipynb
+++ b/country_summaries/IPCC_classes_DPS/Boreal/boreal_biomass_in_IPCC.ipynb
@@ -5,6 +5,10 @@
"execution_count": 2,
"id": "142b1675-bca8-4bb8-b62a-30e6abef26c9",
"metadata": {
+ "collapsed": true,
+ "jupyter": {
+ "outputs_hidden": true
+ },
"tags": []
},
"outputs": [
@@ -435,7 +439,7 @@
},
{
"cell_type": "code",
- "execution_count": 5,
+ "execution_count": 7,
"id": "a91aad0d-86d8-421f-80a7-5951d3f5b239",
"metadata": {
"tags": []
diff --git a/country_summaries/IPCC_classes_DPS/IPCC_GEDI_Table4.7.ipynb b/country_summaries/IPCC_classes_DPS/IPCC_GEDI_Table4.7.ipynb
index 16f54be..a32162a 100644
--- a/country_summaries/IPCC_classes_DPS/IPCC_GEDI_Table4.7.ipynb
+++ b/country_summaries/IPCC_classes_DPS/IPCC_GEDI_Table4.7.ipynb
@@ -351,7 +351,7 @@
},
{
"cell_type": "code",
- "execution_count": 6,
+ "execution_count": 8,
"id": "82dba01f-ac52-4ded-a0ae-bbd06d12f241",
"metadata": {
"tags": []
@@ -360,10 +360,10 @@
{
"data": {
"text/plain": [
- "'{\"code\": 200, \"message\": {\"id\": \"3d66c817c7beef75efdb509e0b0d5df3ca027693\", \"short_id\": \"3d66c817\", \"created_at\": \"2023-12-07T05:37:03.000+00:00\", \"parent_ids\": [\"86803e6ece77a1aeb60537c885bdd0dca2d60e9f\"], \"title\": \"Registering algorithm: run_IPCC_classes_ADE\", \"message\": \"Registering algorithm: run_IPCC_classes_ADE\", \"author_name\": \"root\", \"author_email\": \"root@e49d5cea4b76\", \"authored_date\": \"2023-12-07T05:37:03.000+00:00\", \"committer_name\": \"root\", \"committer_email\": \"root@e49d5cea4b76\", \"committed_date\": \"2023-12-07T05:37:03.000+00:00\", \"trailers\": {}, \"web_url\": \"https://repo.maap-project.org/root/register-job-hysds-v4/-/commit/3d66c817c7beef75efdb509e0b0d5df3ca027693\", \"stats\": {\"additions\": 0, \"deletions\": 0, \"total\": 0}, \"status\": \"pending\", \"project_id\": 3, \"last_pipeline\": {\"id\": 10354, \"iid\": 621, \"project_id\": 3, \"sha\": \"3d66c817c7beef75efdb509e0b0d5df3ca027693\", \"ref\": \"main\", \"status\": \"pending\", \"source\": \"push\", \"created_at\": \"2023-12-07T05:37:05.149Z\", \"updated_at\": \"2023-12-07T05:37:05.679Z\", \"web_url\": \"https://repo.maap-project.org/root/register-job-hysds-v4/-/pipelines/10354\"}, \"job_web_url\": \"https://repo.maap-project.org/root/register-job-hysds-v4/-/jobs/10606\", \"job_log_url\": \"https://repo.maap-project.org/root/register-job-hysds-v4/-/jobs/10606/raw\"}}\\n'"
+ "'{\"code\": 200, \"message\": {\"id\": \"d0b94d6f444a26386aa6f156e82470fa7f87f520\", \"short_id\": \"d0b94d6f\", \"created_at\": \"2023-12-07T06:00:08.000+00:00\", \"parent_ids\": [\"3d66c817c7beef75efdb509e0b0d5df3ca027693\"], \"title\": \"Registering algorithm: run_IPCC_classes_ADE\", \"message\": \"Registering algorithm: run_IPCC_classes_ADE\", \"author_name\": \"root\", \"author_email\": \"root@e49d5cea4b76\", \"authored_date\": \"2023-12-07T06:00:08.000+00:00\", \"committer_name\": \"root\", \"committer_email\": \"root@e49d5cea4b76\", \"committed_date\": \"2023-12-07T06:00:08.000+00:00\", \"trailers\": {}, \"web_url\": \"https://repo.maap-project.org/root/register-job-hysds-v4/-/commit/d0b94d6f444a26386aa6f156e82470fa7f87f520\", \"stats\": {\"additions\": 0, \"deletions\": 0, \"total\": 0}, \"status\": \"pending\", \"project_id\": 3, \"last_pipeline\": {\"id\": 10355, \"iid\": 622, \"project_id\": 3, \"sha\": \"d0b94d6f444a26386aa6f156e82470fa7f87f520\", \"ref\": \"main\", \"status\": \"pending\", \"source\": \"push\", \"created_at\": \"2023-12-07T06:00:09.665Z\", \"updated_at\": \"2023-12-07T06:00:10.127Z\", \"web_url\": \"https://repo.maap-project.org/root/register-job-hysds-v4/-/pipelines/10355\"}, \"job_web_url\": \"https://repo.maap-project.org/root/register-job-hysds-v4/-/jobs/10607\", \"job_log_url\": \"https://repo.maap-project.org/root/register-job-hysds-v4/-/jobs/10607/raw\"}}\\n'"
]
},
- "execution_count": 6,
+ "execution_count": 8,
"metadata": {},
"output_type": "execute_result"
}
@@ -383,7 +383,7 @@
},
{
"cell_type": "code",
- "execution_count": 7,
+ "execution_count": 11,
"id": "f108f96f-3601-4d23-a159-108287110eb2",
"metadata": {
"tags": []
@@ -394,7 +394,7 @@
"output_type": "stream",
"text": [
"submitting 00N_000E\n",
- "020b04e1-d333-4207-8955-df0b05c94091\n"
+ "349b68ff-805d-4e53-8b56-e1b09ab2ac79\n"
]
}
],
@@ -419,7 +419,7 @@
" algo_id=\"run_IPCC_classes_ADE\",\n",
" version=\"IPCC_classes_ADE_v7\",\n",
" username=\"nehajo88\",\n",
- " queue=\"maap-dps-worker-16gb\",#\"maap-dps-worker-32gb\",\n",
+ " queue=\"maap-dps-worker-32vcpu-64gb\",#\"maap-dps-worker-32gb\",maap-dps-worker-32vcpu-64gb\n",
" FOREST_HEIGHT_2000=\"https://glad.umd.edu/users/Potapov/GLCLUC2020/Forest_height_2000/2000_\" + TILE + \".tif\",\n",
" FOREST_HEIGHT_2020=\"https://glad.umd.edu/users/Potapov/GLCLUC2020/Forest_height_2020/2020_\" + TILE + \".tif\",\n",
" FOREST_LOSS=\"https://glad.umd.edu/users/Potapov/GLCLUC2020/Forest_height_loss_2000_2020/netloss_\" + TILE + \".tif\",\n",
diff --git a/country_summaries/IPCC_classes_DPS/IPCC_GEDI_Table4.7.py b/country_summaries/IPCC_classes_DPS/IPCC_GEDI_Table4.7.py
index 35e80c6..8595f41 100644
--- a/country_summaries/IPCC_classes_DPS/IPCC_GEDI_Table4.7.py
+++ b/country_summaries/IPCC_classes_DPS/IPCC_GEDI_Table4.7.py
@@ -238,7 +238,8 @@ def generate_output():
mem,
args.output_file,
dst_profile,
- in_memory=False
+ in_memory=True,
+ allow_intermediate_compression=True
)
with MemoryFile() as memfile1:
@@ -250,7 +251,8 @@ def generate_output():
mem1,
args.output_mask,
dst_profile,
- in_memory=False
+ in_memory=True,
+ allow_intermediate_compression=True
)
if __name__ == "__main__":
diff --git a/country_summaries/IPCC_classes_DPS/NOTES.ipynb b/country_summaries/IPCC_classes_DPS/NOTES.ipynb
index f6e3dbe..9c1f8f2 100644
--- a/country_summaries/IPCC_classes_DPS/NOTES.ipynb
+++ b/country_summaries/IPCC_classes_DPS/NOTES.ipynb
@@ -18,7 +18,7 @@
},
{
"cell_type": "code",
- "execution_count": 3,
+ "execution_count": 2,
"id": "925dfbb2-d2a6-4503-8603-70f30acde654",
"metadata": {
"tags": []
@@ -241,6 +241,10 @@
"execution_count": null,
"id": "553757c5-f7d8-4946-8563-56b23e0cc5d0",
"metadata": {
+ "collapsed": true,
+ "jupyter": {
+ "outputs_hidden": true
+ },
"tags": []
},
"outputs": [
@@ -567,6 +571,366 @@
"metadata": {},
"output_type": "display_data"
},
+ {
+ "data": {
+ "text/plain": [
+ "NULL"
+ ]
+ },
+ "metadata": {},
+ "output_type": "display_data"
+ },
+ {
+ "data": {
+ "text/plain": [
+ "NULL"
+ ]
+ },
+ "metadata": {},
+ "output_type": "display_data"
+ },
+ {
+ "data": {
+ "text/plain": [
+ "NULL"
+ ]
+ },
+ "metadata": {},
+ "output_type": "display_data"
+ },
+ {
+ "data": {
+ "text/plain": [
+ "NULL"
+ ]
+ },
+ "metadata": {},
+ "output_type": "display_data"
+ },
+ {
+ "data": {
+ "text/plain": [
+ "NULL"
+ ]
+ },
+ "metadata": {},
+ "output_type": "display_data"
+ },
+ {
+ "data": {
+ "text/plain": [
+ "NULL"
+ ]
+ },
+ "metadata": {},
+ "output_type": "display_data"
+ },
+ {
+ "data": {
+ "text/plain": [
+ "NULL"
+ ]
+ },
+ "metadata": {},
+ "output_type": "display_data"
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+ {
+ "data": {
+ "text/plain": [
+ "NULL"
+ ]
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+ "metadata": {},
+ "output_type": "display_data"
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+ {
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+ "NULL"
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+ "output_type": "display_data"
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+ "output_type": "display_data"
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+ "NULL"
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+ "output_type": "display_data"
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+ "NULL"
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+ },
+ "metadata": {},
+ "output_type": "display_data"
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+ {
+ "data": {
+ "text/plain": [
+ "NULL"
+ ]
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+ "metadata": {},
+ "output_type": "display_data"
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+ {
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+ "NULL"
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+ "output_type": "display_data"
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+ "output_type": "display_data"
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+ "output_type": "display_data"
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+ "output_type": "display_data"
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+ "output_type": "display_data"
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+ "output_type": "display_data"
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+ "output_type": "display_data"
+ },
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+ "metadata": {},
+ "output_type": "display_data"
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{
"data": {
"text/plain": [
@@ -586,7 +950,6 @@
"gdalUtils::gdalwarp('/projects/my-public-bucket/Data/Harris_et_al_PAPER/JRC_TFM/JRC_TMST_00N_040W.tif','/projects/my-public-bucket/Data/Harris_et_al_PAPER/JRC_TFM/00N_040W_JRC_Transition_Map.tif',tr=c(0.00025,0.00025),a_nodata=0.0,te=c(-40,-10,-30,0),r=\"near\",co=c(\"COMPRESS=DEFLATE\",\"PREDICTOR=2\",\"ZLEVEL=9\"))\n",
"gdalUtils::gdalwarp('/projects/my-public-bucket/Data/Harris_et_al_PAPER/JRC_TFM/JRC_TMST_00N_050W.tif','/projects/my-public-bucket/Data/Harris_et_al_PAPER/JRC_TFM/00N_050W_JRC_Transition_Map.tif',tr=c(0.00025,0.00025),a_nodata=0.0,te=c(-50,-10,-40,0),r=\"near\",co=c(\"COMPRESS=DEFLATE\",\"PREDICTOR=2\",\"ZLEVEL=9\"))\n",
"gdalUtils::gdalwarp('/projects/my-public-bucket/Data/Harris_et_al_PAPER/JRC_TFM/JRC_TMST_00N_060W.tif','/projects/my-public-bucket/Data/Harris_et_al_PAPER/JRC_TFM/00N_060W_JRC_Transition_Map.tif',tr=c(0.00025,0.00025),a_nodata=0.0,te=c(-60,-10,-50,0),r=\"near\",co=c(\"COMPRESS=DEFLATE\",\"PREDICTOR=2\",\"ZLEVEL=9\"))\n",
- "gdalUtils::gdalwarp('/projects/my-public-bucket/Data/Harris_et_al_PAPER/JRC_TFM/JRC_TMST_00N_060W.tif','/projects/my-public-bucket/Data/Harris_et_al_PAPER/JRC_TFM/00N_060W_JRC_Transition_Map.tif',tr=c(0.00025,0.00025),a_nodata=0.0,te=c(-60,-10,-50,0),r=\"near\",co=c(\"COMPRESS=DEFLATE\",\"PREDICTOR=2\",\"ZLEVEL=9\"))\n",
"gdalUtils::gdalwarp('/projects/my-public-bucket/Data/Harris_et_al_PAPER/JRC_TFM/JRC_TMST_00N_070W.tif','/projects/my-public-bucket/Data/Harris_et_al_PAPER/JRC_TFM/00N_070W_JRC_Transition_Map.tif',tr=c(0.00025,0.00025),a_nodata=0.0,te=c(-70,-10,-60,0),r=\"near\",co=c(\"COMPRESS=DEFLATE\",\"PREDICTOR=2\",\"ZLEVEL=9\"))\n",
"gdalUtils::gdalwarp('/projects/my-public-bucket/Data/Harris_et_al_PAPER/JRC_TFM/JRC_TMST_00N_080W.tif','/projects/my-public-bucket/Data/Harris_et_al_PAPER/JRC_TFM/00N_080W_JRC_Transition_Map.tif',tr=c(0.00025,0.00025),a_nodata=0.0,te=c(-80,-10,-70,0),r=\"near\",co=c(\"COMPRESS=DEFLATE\",\"PREDICTOR=2\",\"ZLEVEL=9\"))\n",
"gdalUtils::gdalwarp('/projects/my-public-bucket/Data/Harris_et_al_PAPER/JRC_TFM/JRC_TMST_00N_090E.tif','/projects/my-public-bucket/Data/Harris_et_al_PAPER/JRC_TFM/00N_090E_JRC_Transition_Map.tif',tr=c(0.00025,0.00025),a_nodata=0.0,te=c(90,-10,100,0),r=\"near\",co=c(\"COMPRESS=DEFLATE\",\"PREDICTOR=2\",\"ZLEVEL=9\"))\n",
@@ -667,6 +1030,27 @@
"gdalUtils::gdalwarp('/projects/my-public-bucket/Data/Harris_et_al_PAPER/JRC_TFM/JRC_TMST_30S_150E.tif','/projects/my-public-bucket/Data/Harris_et_al_PAPER/JRC_TFM/30S_150E_JRC_Transition_Map.tif',tr=c(0.00025,0.00025),a_nodata=0.0,te=c(150,-40,160,-30),r=\"near\",co=c(\"COMPRESS=DEFLATE\",\"PREDICTOR=2\",\"ZLEVEL=9\"))"
]
},
+ {
+ "cell_type": "code",
+ "execution_count": 3,
+ "id": "545098a3-173d-4e2a-a499-504bf7d1dac3",
+ "metadata": {
+ "tags": []
+ },
+ "outputs": [],
+ "source": [
+ "####### CREATE FAKE JRC LAYERS (only 0 values) FOR MISSING TILES ###########\n",
+ "Blank = rasterio.open(\"/projects/my-public-bucket/Data/Harris_et_al_PAPER/JRC_TFM/00N_010E_JRC_Transition_Map.tif\").read(1)\n",
+ "Blank = Blank*0\n",
+ "kwargs = rasterio.open(\"/projects/my-public-bucket/Data/Harris_et_al_PAPER/JRC_TFM/00N_010E_JRC_Transition_Map.tif\").meta\n",
+ "kwargs.update(dtype=rasterio.int16,count=1,compress='lzw') \n",
+ "\n",
+ "TILES = [\"00N_000E\",\"00N_010E\",\"00N_020E\",\"00N_030E\",\"00N_040E\",\"00N_040W\",\"00N_050E\",\"00N_050W\",\"00N_060W\",\"00N_070E\",\"00N_070W\",\"00N_080W\",\"00N_090E\",\"00N_090W\",\"00N_100E\",\"00N_100W\",\"00N_110E\",\"00N_120E\",\"00N_130E\",\"00N_140E\",\"00N_150E\",\"00N_160E\",\"00N_170E\",\"10N_000E\",\"10N_010E\",\"10N_010W\",\"10N_020E\",\"10N_020W\",\"10N_030E\",\"10N_040E\",\"10N_050E\",\"10N_050W\",\"10N_060W\",\"10N_070E\",\"10N_070W\",\"10N_080E\",\"10N_080W\",\"10N_090E\",\"10N_090W\",\"10N_100E\",\"10N_100W\",\"10N_110E\",\"10N_120E\",\"10N_130E\",\"10N_150E\",\"10N_160E\",\"10N_170E\",\"10S_010E\",\"10S_020E\",\"10S_030E\",\"10S_040E\",\"10S_040W\",\"10S_050E\",\"10S_050W\",\"10S_060W\",\"10S_070W\",\"10S_080W\",\"10S_110E\",\"10S_120E\",\"10S_130E\",\"10S_140E\",\"10S_150E\",\"10S_160E\",\"10S_170E\",\"10S_180W\",\"20N_000E\",\"20N_010E\",\"20N_010W\",\"20N_020E\",\"20N_020W\",\"20N_030E\",\"20N_030W\",\"20N_040E\",\"20N_050E\",\"20N_060W\",\"20N_070E\",\"20N_070W\",\"20N_080E\",\"20N_080W\",\"20N_090E\",\"20N_090W\",\"20N_100E\",\"20N_100W\",\"20N_110E\",\"20N_110W\",\"20N_120E\",\"20N_120W\",\"20N_160W\",\"20S_010E\",\"20S_020E\",\"20S_030E\",\"20S_040E\",\"20S_050E\",\"20S_050W\",\"20S_060W\",\"20S_070W\",\"20S_080W\",\"20S_110E\",\"20S_120E\",\"20S_130E\",\"20S_140E\",\"20S_150E\",\"20S_160E\",\"20S_180W\",\"30N_000E\",\"30N_010E\",\"30N_010W\",\"30N_020E\",\"30N_020W\",\"30N_030E\",\"30N_040E\",\"30N_050E\",\"30N_060E\",\"30N_070E\",\"30N_080E\",\"30N_080W\",\"30N_090E\",\"30N_090W\",\"30N_100E\",\"30N_100W\",\"30N_110E\",\"30N_110W\",\"30N_120E\",\"30N_120W\",\"30N_130E\",\"30N_160W\",\"30N_170W\",\"30S_010E\",\"30S_020E\",\"30S_030E\",\"30S_060W\",\"30S_070W\",\"30S_080W\",\"30S_110E\",\"30S_120E\",\"30S_130E\",\"30S_140E\",\"30S_150E\",\"30S_170E\",\"40N_000E\",\"40N_010E\",\"40N_010W\",\"40N_020E\",\"40N_020W\",\"40N_030E\",\"40N_040E\",\"40N_050E\",\"40N_060E\",\"40N_070E\",\"40N_070W\",\"40N_080E\",\"40N_080W\",\"40N_090E\",\"40N_090W\",\"40N_100E\",\"40N_100W\",\"40N_110E\",\"40N_110W\",\"40N_120E\",\"40N_120W\",\"40N_130E\",\"40N_130W\",\"40N_140E\",\"40S_070W\",\"40S_080W\",\"40S_140E\",\"40S_160E\",\"40S_170E\",\"50N_000E\",\"50N_010E\",\"50N_010W\",\"50N_020E\",\"50N_030E\",\"50N_040E\",\"50N_050E\",\"50N_060E\",\"50N_060W\",\"50N_070E\",\"50N_070W\",\"50N_080E\",\"50N_080W\",\"50N_090E\",\"50N_090W\",\"50N_100E\",\"50N_100W\",\"50N_110E\",\"50N_110W\",\"50N_120E\",\"50N_120W\",\"50N_130E\",\"50N_130W\",\"50N_140E\",\"50N_150E\",\"50S_060W\",\"50S_070W\",\"50S_080W\",\"60N_000E\",\"60N_010E\",\"60N_010W\",\"60N_020E\",\"60N_020W\",\"60N_030E\",\"60N_040E\",\"60N_050E\",\"60N_060E\",\"60N_060W\",\"60N_070E\",\"60N_070W\",\"60N_080E\",\"60N_080W\",\"60N_090E\",\"60N_090W\",\"60N_100E\",\"60N_100W\",\"60N_110E\",\"60N_110W\",\"60N_120E\",\"60N_120W\",\"60N_130E\",\"60N_130W\",\"60N_140E\",\"60N_140W\",\"60N_150E\",\"60N_150W\",\"60N_160E\",\"60N_160W\",\"60N_170E\",\"60N_170W\",\"60N_180W\",\"70N_000E\",\"70N_010E\",\"70N_020E\",\"70N_030E\",\"70N_040E\",\"70N_050E\",\"70N_060E\",\"70N_070E\",\"70N_070W\",\"70N_080E\",\"70N_080W\",\"70N_090E\",\"70N_090W\",\"70N_100E\",\"70N_100W\",\"70N_110E\",\"70N_110W\",\"70N_120E\",\"70N_120W\",\"70N_130E\",\"70N_130W\",\"70N_140E\",\"70N_140W\",\"70N_150E\",\"70N_150W\",\"70N_160E\",\"70N_160W\",\"70N_170E\",\"70N_170W\",\"70N_180W\",\"80N_010E\",\"80N_020E\",\"80N_030E\",\"80N_070E\",\"80N_080E\",\"80N_090E\",\"80N_100E\",\"80N_110E\",\"80N_120E\",\"80N_130E\",\"80N_130W\",\"80N_140E\",\"80N_140W\",\"80N_150E\",\"80N_150W\",\"80N_160E\",\"80N_160W\",\"80N_170E\",\"80N_170W\"]\n",
+ "for TILE in TILES: \n",
+ " if not os.path.exists(\"/projects/my-public-bucket/Data/Harris_et_al_PAPER/JRC_TFM/\"+TILE+\"_JRC_Transition_Map.tif\"):\n",
+ " with rasterio.open(\"/projects/my-public-bucket/Data/Harris_et_al_PAPER/JRC_TFM/\"+TILE+\"_JRC_Transition_Map.tif\", 'w', **kwargs) as dst: dst.write_band(1, Blank.astype(rasterio.int16)) "
+ ]
+ },
{
"cell_type": "markdown",
"id": "6a182133-00a4-4f4a-bd1a-b7d7b7b386e1",
@@ -7290,17 +7674,21 @@
],
"metadata": {
"kernelspec": {
- "display_name": "R",
- "language": "R",
- "name": "ir"
+ "display_name": "Python 3 (ipykernel)",
+ "language": "python",
+ "name": "python3"
},
"language_info": {
- "codemirror_mode": "r",
- "file_extension": ".r",
- "mimetype": "text/x-r-source",
- "name": "R",
- "pygments_lexer": "r",
- "version": "4.2.3"
+ "codemirror_mode": {
+ "name": "ipython",
+ "version": 3
+ },
+ "file_extension": ".py",
+ "mimetype": "text/x-python",
+ "name": "python",
+ "nbconvert_exporter": "python",
+ "pygments_lexer": "ipython3",
+ "version": "3.10.13"
}
},
"nbformat": 4,
--
GitLab