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MBcode/www-hydroshare-org_hsapi_resource_4d527e8cdfaf4c3f8b428064d6b25866.ipynb Secret

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www-hydroshare-org_hsapi_resource_4d527e8cdfaf4c3f8b428064d6b25866.ipynb
{
"nbformat": 4,
"nbformat_minor": 5,
"metadata": {
"celltoolbar": "Tags",
"kernelspec": {
"display_name": "Python 3",
"language": "python",
"name": "python3"
},
"language_info": {
"codemirror_mode": {
"name": "ipython",
"version": 3
},
"file_extension": ".py",
"mimetype": "text/x-python",
"name": "python",
"nbconvert_exporter": "python",
"pygments_lexer": "ipython3",
"version": "3.8.10"
},
"papermill": {
"default_parameters": {},
"environment_variables": {},
"input_path": "template.ipynb",
"output_path": "https/www.hydroshare.org_hsapi_resource_4d527e8cdfaf4c3f8b428064d6b25866.ipynb",
"parameters": {
"ext": "application/zip",
"url": "https://www.hydroshare.org/hsapi/resource/4d527e8cdfaf4c3f8b428064d6b25866",
"urn": null
},
"version": "2.3.3"
},
"colab": {
"name": "www-hydroshare-org_hsapi_resource_4d527e8cdfaf4c3f8b428064d6b25866.ipynb",
"provenance": [],
"collapsed_sections": [],
"include_colab_link": true
}
},
"cells": [
{
"cell_type": "markdown",
"metadata": {
"id": "view-in-github",
"colab_type": "text"
},
"source": [
"<a href=\"https://colab.research.google.com/gist/MBcode/c7f2fc504aa61e3a4c0560ff18ed57d5/www-hydroshare-org_hsapi_resource_4d527e8cdfaf4c3f8b428064d6b25866.ipynb\" target=\"_parent\"><img src=\"https://colab.research.google.com/assets/colab-badge.svg\" alt=\"Open In Colab\"/></a>"
]
},
{
"cell_type": "code",
"metadata": {
"papermill": {},
"tags": [
"parameters"
],
"id": "295763df"
},
"source": [
"#github.com/nteract/papermill'parameters'tag used to inject them into template then post a gist runable by colab\n",
"url,ext,urn=None,None,None"
],
"id": "295763df",
"execution_count": null,
"outputs": []
},
{
"cell_type": "code",
"metadata": {
"tags": [
"injected-parameters"
],
"id": "9ba87445"
},
"source": [
"# Parameters\n",
"url = \"https://www.hydroshare.org/hsapi/resource/4d527e8cdfaf4c3f8b428064d6b25866\"\n",
"ext = \"application/zip\"\n",
"urn = \"/hydroshare/fee3c61e1e37c2825a086d5bcf27d19239d30253.jsonld\"\n"
],
"id": "9ba87445",
"execution_count": 2,
"outputs": []
},
{
"cell_type": "code",
"metadata": {
"papermill": {},
"tags": [],
"colab": {
"base_uri": "https://localhost:8080/",
"height": 52
},
"id": "e133f902",
"outputId": "11d42d40-539d-4755-ef15-da080d9e3d5e"
},
"source": [
"#%load_ext rpy2.ipython\n",
"#%load_ext google.colab.data_table\n",
"import httpimport\n",
"with httpimport.github_repo('MBcode', 'ec'):\n",
" import ec\n",
"ec.wget_rdf(urn)\n",
"#!ls -l or FilePaneBrowser on left, to see it\n",
"df=ec.read_file(url,ext)\n",
"df"
],
"id": "e133f902",
"execution_count": 3,
"outputs": [
{
"output_type": "execute_result",
"data": {
"application/vnd.google.colaboratory.intrinsic+json": {
"type": "string"
},
"text/plain": [
"'can not read zip w/o knowing what is in it, doing:[!wget $url ],to see:[ !ls -l ]size:40816640 or FileExplorerPane on the left'"
]
},
"metadata": {
"tags": []
},
"execution_count": 3
}
]
},
{
"cell_type": "code",
"metadata": {
"papermill": {},
"tags": [],
"colab": {
"base_uri": "https://localhost:8080/"
},
"id": "d6eea62a",
"outputId": "261eb9ad-bffb-43bc-fc46-851cde5cf9b3"
},
"source": [
"!ls -la "
],
"id": "d6eea62a",
"execution_count": 4,
"outputs": [
{
"output_type": "stream",
"text": [
"total 39952\n",
"drwxr-xr-x 1 root root 4096 Aug 13 17:04 .\n",
"drwxr-xr-x 1 root root 4096 Aug 13 17:01 ..\n",
"drwxr-xr-x 3 root root 4096 Aug 13 17:04 4d527e8cdfaf4c3f8b428064d6b25866\n",
"-rw-r--r-- 1 root root 40816640 Aug 13 17:04 4d527e8cdfaf4c3f8b428064d6b25866.zip\n",
"drwxr-xr-x 4 root root 4096 Jul 16 13:19 .config\n",
"-rw-r--r-- 1 root root 7126 Aug 13 15:35 fee3c61e1e37c2825a086d5bcf27d19239d30253.nt\n",
"-rw-r--r-- 1 root root 62408 Aug 13 17:04 log\n",
"drwxr-xr-x 1 root root 4096 Jul 16 13:20 sample_data\n"
],
"name": "stdout"
}
]
},
{
"cell_type": "code",
"metadata": {
"colab": {
"base_uri": "https://localhost:8080/",
"height": 1000
},
"id": "MIkHwFZEX28E",
"outputId": "6ba67db5-b57d-44c2-af9a-54b210207196"
},
"source": [
"fnt=ec.path_leaf(urn).replace(\".jsonld\",\".nt\")\n",
"ec.nt_viz(fnt)"
],
"id": "MIkHwFZEX28E",
"execution_count": 5,
"outputs": [
{
"output_type": "display_data",
"data": {
"text/plain": [
"<IPython.core.display.SVG object>"
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}
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"fnt"
],
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{
"output_type": "stream",
"text": [
"total 40040\n",
"drwxr-xr-x 1 root root 4096 Aug 13 17:04 .\n",
"drwxr-xr-x 1 root root 4096 Aug 13 17:01 ..\n",
"drwxr-xr-x 3 root root 4096 Aug 13 17:04 4d527e8cdfaf4c3f8b428064d6b25866\n",
"-rw-r--r-- 1 root root 40816640 Aug 13 17:04 4d527e8cdfaf4c3f8b428064d6b25866.zip\n",
"-rw-r--r-- 1 root root 7126 Aug 13 17:04 .all.nt\n",
"drwxr-xr-x 4 root root 4096 Jul 16 13:19 .config\n",
"-rw-r--r-- 1 root root 13536 Aug 13 17:04 fee3c61e1e37c2825a086d5bcf27d19239d30253.dot\n",
"-rw-r--r-- 1 root root 7126 Aug 13 15:35 fee3c61e1e37c2825a086d5bcf27d19239d30253.nt\n",
"-rw-r--r-- 1 root root 63271 Aug 13 17:04 fee3c61e1e37c2825a086d5bcf27d19239d30253.svg\n",
"-rw-r--r-- 1 root root 62408 Aug 13 17:04 log\n",
"drwxr-xr-x 1 root root 4096 Jul 16 13:20 sample_data\n"
],
"name": "stdout"
},
{
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"source": [
"def rdfxml_viz(fnb):\n",
" ec.xml2nt(fnb)\n",
" ec.nt_viz(fnb)"
],
"id": "2BiKyAwwZwmz",
"execution_count": 7,
"outputs": []
},
{
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"rdfxml_viz(\"/content/4d527e8cdfaf4c3f8b428064d6b25866/data/contents/contours_meta.xml\")"
],
"id": "LAJUWQASZ5em",
"execution_count": 8,
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{
"output_type": "stream",
"text": [
"/usr/local/lib/python3.7/dist-packages/rdflib/plugins/serializers/nt.py:28: UserWarning: NTSerializer does not use custom encoding.\n",
" warnings.warn(\"NTSerializer does not use custom encoding.\")\n"
],
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},
"metadata": {
"tags": []
}
}
]
},
{
"cell_type": "code",
"metadata": {
"colab": {
"base_uri": "https://localhost:8080/"
},
"id": "vD-i5FO-akOB",
"outputId": "829d3e96-5c63-4fe6-bd64-687ae694f7b4"
},
"source": [
"!find . -name *.nt -print"
],
"id": "vD-i5FO-akOB",
"execution_count": 12,
"outputs": [
{
"output_type": "stream",
"text": [
"./fee3c61e1e37c2825a086d5bcf27d19239d30253.nt\n"
],
"name": "stdout"
}
]
},
{
"cell_type": "code",
"metadata": {
"colab": {
"base_uri": "https://localhost:8080/"
},
"id": "FZRgHf_DbIMt",
"outputId": "857caa7a-1339-488c-f855-edd7b5c7a538"
},
"source": [
"!ls -l /content/4d527e8cdfaf4c3f8b428064d6b25866/data/*.nt /content/4d527e8cdfaf4c3f8b428064d6b25866/data/contents/*.nt"
],
"id": "FZRgHf_DbIMt",
"execution_count": 13,
"outputs": [
{
"output_type": "stream",
"text": [
"-rw-r--r-- 1 root root 5127 Aug 13 17:05 /content/4d527e8cdfaf4c3f8b428064d6b25866/data/contents/contours_meta.nt\n",
"-rw-r--r-- 1 root root 7188 Aug 13 17:05 /content/4d527e8cdfaf4c3f8b428064d6b25866/data/contents/contours_resmap.nt\n",
"-rw-r--r-- 1 root root 5441 Aug 13 17:05 /content/4d527e8cdfaf4c3f8b428064d6b25866/data/resourcemap.nt\n",
"-rw-r--r-- 1 root root 3804 Aug 13 17:05 /content/4d527e8cdfaf4c3f8b428064d6b25866/data/resourcemetadata.nt\n"
],
"name": "stdout"
}
]
},
{
"cell_type": "code",
"metadata": {
"id": "_UjoX_DDeife",
"outputId": "6a40a45c-4cf2-4ea9-de4c-e3c2762e7f22",
"colab": {
"base_uri": "https://localhost:8080/",
"height": 1000
}
},
"source": [
"#now nt_viz will take .all.nt and put all of above together\n",
"!ls -la\n",
"ec.nt_viz()"
],
"id": "_UjoX_DDeife",
"execution_count": 15,
"outputs": [
{
"output_type": "stream",
"text": [
"total 40064\n",
"drwxr-xr-x 1 root root 4096 Aug 13 17:04 .\n",
"drwxr-xr-x 1 root root 4096 Aug 13 17:01 ..\n",
"drwxr-xr-x 3 root root 4096 Aug 13 17:04 4d527e8cdfaf4c3f8b428064d6b25866\n",
"-rw-r--r-- 1 root root 40816640 Aug 13 17:04 4d527e8cdfaf4c3f8b428064d6b25866.zip\n",
"-rw-r--r-- 1 root root 28686 Aug 13 17:05 .all.nt\n",
"drwxr-xr-x 4 root root 4096 Jul 16 13:19 .config\n",
"-rw-r--r-- 1 root root 13536 Aug 13 17:04 fee3c61e1e37c2825a086d5bcf27d19239d30253.dot\n",
"-rw-r--r-- 1 root root 7126 Aug 13 15:35 fee3c61e1e37c2825a086d5bcf27d19239d30253.nt\n",
"-rw-r--r-- 1 root root 63271 Aug 13 17:04 fee3c61e1e37c2825a086d5bcf27d19239d30253.svg\n",
"-rw-r--r-- 1 root root 62408 Aug 13 17:04 log\n",
"drwxr-xr-x 1 root root 4096 Jul 16 13:20 sample_data\n"
],
"name": "stdout"
},
{
"output_type": "display_data",
"data": {
"text/plain": [
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]
}
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