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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,236 @@ | ||
| { | ||
| "cells": [ | ||
| { | ||
| "cell_type": "code", | ||
| "execution_count": 1, | ||
| "id": "8aa370ef-3ab8-4cf3-bf13-96a783e342f9", | ||
| "metadata": {}, | ||
| "outputs": [ | ||
| { | ||
| "ename": "ModuleNotFoundError", | ||
| "evalue": "No module named 'netcdf4'", | ||
| "output_type": "error", | ||
| "traceback": [ | ||
| "\u001b[0;31m---------------------------------------------------------------------------\u001b[0m", | ||
| "\u001b[0;31mModuleNotFoundError\u001b[0m Traceback (most recent call last)", | ||
| "Cell \u001b[0;32mIn[1], line 1\u001b[0m\n\u001b[0;32m----> 1\u001b[0m \u001b[38;5;28;01mimport\u001b[39;00m \u001b[38;5;21;01mnetcdf4\u001b[39;00m\n", | ||
| "\u001b[0;31mModuleNotFoundError\u001b[0m: No module named 'netcdf4'" | ||
| ] | ||
| } | ||
| ], | ||
| "source": [ | ||
| "import netcdf4" | ||
| ] | ||
| }, | ||
| { | ||
| "cell_type": "code", | ||
| "execution_count": null, | ||
| "id": "2228ec14-bbdb-429b-b19a-49d273c67dbd", | ||
| "metadata": { | ||
| "tags": [] | ||
| }, | ||
| "outputs": [], | ||
| "source": [ | ||
| "import xarray as xr\n", | ||
| "import s3fs\n", | ||
| "\n", | ||
| "def loadData(zarrDir):\n", | ||
| " fs = s3fs.S3FileSystem(anon=True)\n", | ||
| " zarr_store = fs.get_mapper(zarrDir)\n", | ||
| " ds = xr.open_zarr(zarr_store, consolidated=True)\n", | ||
| " return ds\n", | ||
| "\n", | ||
| "#zarrFile = 'ooi-data/CE04OSPS-SF01B-2A-CTDPFA107-streamed-ctdpf_sbe43_sample'\n", | ||
| "#zarrFile = 'ooi-data/RS01SBPS-SF01A-2A-CTDPFA102-streamed-ctdpf_sbe43_sample'\n", | ||
| "zarrFile = 'ooi-data/RS03AXPS-SF03A-2A-CTDPFA302-streamed-ctdpf_sbe43_sample'" | ||
| ] | ||
| }, | ||
| { | ||
| "cell_type": "code", | ||
| "execution_count": null, | ||
| "id": "c57ef9be-6c75-4d0f-8c9a-a554283e2185", | ||
| "metadata": {}, | ||
| "outputs": [], | ||
| "source": [ | ||
| "fs = s3fs.S3FileSystem(anon=True)" | ||
| ] | ||
| }, | ||
| { | ||
| "cell_type": "code", | ||
| "execution_count": null, | ||
| "id": "61658874-bc3f-45b0-918e-4eef06312e17", | ||
| "metadata": {}, | ||
| "outputs": [], | ||
| "source": [ | ||
| "fs.listdir('ooi-data', detail = False)" | ||
| ] | ||
| }, | ||
| { | ||
| "cell_type": "code", | ||
| "execution_count": null, | ||
| "id": "82406a7f-1ccf-4c5f-a759-393fb3199919", | ||
| "metadata": {}, | ||
| "outputs": [], | ||
| "source": [ | ||
| "# use ds.sel( to narrow the time window dim" | ||
| ] | ||
| }, | ||
| { | ||
| "cell_type": "code", | ||
| "execution_count": null, | ||
| "id": "a56bc2c6-e16d-49ee-b3cc-8166935f0c42", | ||
| "metadata": { | ||
| "tags": [] | ||
| }, | ||
| "outputs": [], | ||
| "source": [ | ||
| "siteData = loadData(zarrFile)\n", | ||
| "siteData" | ||
| ] | ||
| }, | ||
| { | ||
| "cell_type": "code", | ||
| "execution_count": null, | ||
| "id": "6d82a0a7-c1a0-48dc-ae14-f32a41356e99", | ||
| "metadata": {}, | ||
| "outputs": [], | ||
| "source": [ | ||
| "siteData.time[-1]" | ||
| ] | ||
| }, | ||
| { | ||
| "cell_type": "markdown", | ||
| "id": "6b15a656-09fa-4a70-b3d6-434ecd8e1fc3", | ||
| "metadata": {}, | ||
| "source": [ | ||
| "```\n", | ||
| "['ooi-data/CE02SHBP-LJ01D-05-ADCPTB104-streamed-adcp_velocity_beam',\r\n", | ||
| " 'ooi-data/CE02SHBP-LJ01D-06-CTDBPN106-streamed-ctdbp_no_sample',\r\n", | ||
| " 'ooi-data/CE02SHBP-LJ01D-07-VEL3DC108-streamed-vel3d_cd_velocity_data',\r\n", | ||
| " 'ooi-data/CE02SHBP-LJ01D-09-PCO2WB103-streamed-pco2w_b_sami_data_record',\r\n", | ||
| " 'ooi-data/CE02SHBP-LJ01D-10-PHSEND103-streamed-phsen_data_record',\r\n", | ||
| " 'ooi-data/CE04OSBP-LJ01C-05-ADCPSI103-streamed-adcp_velocity_beam',\r\n", | ||
| " 'ooi-data/CE04OSBP-LJ01C-06-CTDBPO108-streamed-ctdbp_no_sample',\r\n", | ||
| " 'ooi-data/CE04OSBP-LJ01C-07-VEL3DC107-streamed-vel3d_cd_velocity_data',\r\n", | ||
| " 'ooi-data/CE04OSBP-LJ01C-09-PCO2WB104-streamed-pco2w_b_sami_data_record',\r\n", | ||
| " 'ooi-data/CE04OSBP-LJ01C-10-PHSEND107-streamed-phsen_data_record',\r\n", | ||
| " 'ooi-data/CE04OSPS-PC01B-4A-CTDPFA109-streamed-ctdpf_optode_sample',\r\n", | ||
| " 'ooi-data/CE04OSPS-PC01B-4A-CTDPFA109-streamed-ctdpf_sbe43_sample',\r\n", | ||
| " 'ooi-data/CE04OSPS-PC01B-4B-PHSENA106-streamed-phsen_data_record',\r\n", | ||
| " 'ooi-data/CE04OSPS-PC01B-4D-PCO2WA105-streamed-pco2w_a_sami_data_record',\r\n", | ||
| " 'ooi-data/CE04OSPS-SF01B-2A-CTDPFA107-streamed-ctdpf_sbe43_sample',\r\n", | ||
| " 'ooi-data/CE04OSPS-SF01B-2B-PHSENA108-streamed-phsen_data_record',\r\n", | ||
| " 'ooi-data/CE04OSPS-SF01B-3A-FLORTD104-streamed-flort_d_data_record',\r\n", | ||
| " 'ooi-data/CE04OSPS-SF01B-3C-PARADA102-streamed-parad_sa_sample',\r\n", | ||
| " 'ooi-data/CE04OSPS-SF01B-3D-SPKIRA102-streamed-spkir_data_record',\r\n", | ||
| " 'ooi-data/CE04OSPS-SF01B-4A-NUTNRA102-streamed-nutnr_a_dark_sample',\r\n", | ||
| " 'ooi-data/CE04OSPS-SF01B-4A-NUTNRA102-streamed-nutnr_a_sample',\r\n", | ||
| " 'ooi-data/CE04OSPS-SF01B-4B-VELPTD106-streamed-velpt_velocity_data',\r\n", | ||
| " 'ooi-data/CE04OSPS-SF01B-4F-PCO2WA102-streamed-pco2w_a_sami_data_record',\r\n", | ||
| " 'ooi-data/RS01SBPS-PC01A-05-ADCPTD102-streamed-adcp_velocity_beam',\r\n", | ||
| " 'ooi-data/RS01SBPS-PC01A-06-VADCPA101-streamed-vadcp_velocity_beam',\r\n", | ||
| " 'ooi-data/RS01SBPS-PC01A-06-VADCPA101-streamed-vadcp_velocity_beam_5',\r\n", | ||
| " 'ooi-data/RS01SBPS-PC01A-4A-CTDPFA103-streamed-ctdpf_optode_sample',\r\n", | ||
| " 'ooi-data/RS01SBPS-PC01A-4A-CTDPFA103-streamed-ctdpf_sbe43_sample',\r\n", | ||
| " 'ooi-data/RS01SBPS-PC01A-4B-PHSENA102-streamed-phsen_data_record',\r\n", | ||
| " 'ooi-data/RS01SBPS-PC01A-4C-FLORDD103-streamed-flort_d_data_record',\r\n", | ||
| " 'ooi-data/RS01SBPS-SF01A-2A-CTDPFA102-streamed-ctdpf_sbe43_sample',\r\n", | ||
| " 'ooi-data/RS01SBPS-SF01A-2D-PHSENA101-streamed-phsen_data_record',\r\n", | ||
| " 'ooi-data/RS01SBPS-SF01A-3A-FLORTD101-streamed-flort_d_data_record',\r\n", | ||
| " 'ooi-data/RS01SBPS-SF01A-3C-PARADA101-streamed-parad_sa_sample',\r\n", | ||
| " 'ooi-data/RS01SBPS-SF01A-3D-SPKIRA101-streamed-spkir_data_record',\r\n", | ||
| " 'ooi-data/RS01SBPS-SF01A-4A-NUTNRA101-streamed-nutnr_a_dark_sample',\r\n", | ||
| " 'ooi-data/RS01SBPS-SF01A-4A-NUTNRA101-streamed-nutnr_a_sample',\r\n", | ||
| " 'ooi-data/RS01SBPS-SF01A-4B-VELPTD102-streamed-velpt_velocity_data',\r\n", | ||
| " 'ooi-data/RS01SBPS-SF01A-4F-PCO2WA101-streamed-pco2w_a_sami_data_record',\r\n", | ||
| " 'ooi-data/RS01SLBS-LJ01A-05-HPIESA101-streamed-echo_sounding',\r\n", | ||
| " 'ooi-data/RS01SLBS-LJ01A-10-ADCPTE101-streamed-adcp_velocity_beam',\r\n", | ||
| " 'ooi-data/RS01SLBS-LJ01A-12-CTDPFB101-streamed-ctdpf_optode_sample',\r\n", | ||
| " 'ooi-data/RS01SLBS-MJ01A-06-PRESTA101-streamed-prest_real_time',\r\n", | ||
| " 'ooi-data/RS01SLBS-MJ01A-12-VEL3DB101-streamed-vel3d_b_sample',\r\n", | ||
| " 'ooi-data/RS01SUM1-LJ01B-12-VEL3DB104-streamed-vel3d_b_sample',\r\n", | ||
| " 'ooi-data/RS01SUM2-MJ01B-12-ADCPSK101-streamed-adcp_velocity_beam',\r\n", | ||
| " 'ooi-data/RS03ASHS-MJ03B-07-TMPSFA301-streamed-tmpsf_sample',\r\n", | ||
| " 'ooi-data/RS03ASHS-MJ03B-09-BOTPTA304-streamed-botpt_nano_sample_15s',\r\n", | ||
| " 'ooi-data/RS03ASHS-MJ03B-10-CTDPFB304-streamed-ctdpf_optode_sample',\r\n", | ||
| " 'ooi-data/RS03AXBS-LJ03A-05-HPIESA301-streamed-echo_sounding',\r\n", | ||
| " 'ooi-data/RS03AXBS-LJ03A-10-ADCPTE303-streamed-adcp_velocity_beam',\r\n", | ||
| " 'ooi-data/RS03AXBS-LJ03A-11-OPTAAC303-streamed-optaa_sample',\r\n", | ||
| " 'ooi-data/RS03AXBS-LJ03A-12-CTDPFB301-streamed-ctdpf_optode_sample',\r\n", | ||
| " 'ooi-data/RS03AXBS-MJ03A-06-PRESTA301-streamed-prest_real_time',\r\n", | ||
| " 'ooi-data/RS03AXBS-MJ03A-12-VEL3DB301-streamed-vel3d_b_sample',\r\n", | ||
| " 'ooi-data/RS03AXPS-PC03A-05-ADCPTD302-streamed-adcp_velocity_beam',\r\n", | ||
| " 'ooi-data/RS03AXPS-PC03A-06-VADCPA301-streamed-vadcp_velocity_beam',\r\n", | ||
| " 'ooi-data/RS03AXPS-PC03A-06-VADCPA301-streamed-vadcp_velocity_beam_5',\r\n", | ||
| " 'ooi-data/RS03AXPS-PC03A-4A-CTDPFA303-streamed-ctdpf_optode_sample',\r\n", | ||
| " 'ooi-data/RS03AXPS-PC03A-4B-PHSENA302-streamed-phsen_data_record',\r\n", | ||
| " 'ooi-data/RS03AXPS-PC03A-4C-FLORDD303-streamed-flort_d_data_record',\r\n", | ||
| " 'ooi-data/RS03AXPS-SF03A-2A-CTDPFA302-streamed-ctdpf_sbe43_sample',\r\n", | ||
| " 'ooi-data/RS03AXPS-SF03A-2D-PHSENA301-streamed-phsen_data_record',\r\n", | ||
| " 'ooi-data/RS03AXPS-SF03A-3A-FLORTD301-streamed-flort_d_data_record',\r\n", | ||
| " 'ooi-data/RS03AXPS-SF03A-3B-OPTAAD301-streamed-optaa_sample',\r\n", | ||
| " 'ooi-data/RS03AXPS-SF03A-3C-PARADA301-streamed-parad_sa_sample',\r\n", | ||
| " 'ooi-data/RS03AXPS-SF03A-3D-SPKIRA301-streamed-spkir_data_record',\r\n", | ||
| " 'ooi-data/RS03AXPS-SF03A-4A-NUTNRA301-streamed-nutnr_a_dark_sample',\r\n", | ||
| " 'ooi-data/RS03AXPS-SF03A-4A-NUTNRA301-streamed-nutnr_a_sample',\r\n", | ||
| " 'ooi-data/RS03AXPS-SF03A-4B-VELPTD302-streamed-velpt_velocity_data',\r\n", | ||
| " 'ooi-data/RS03AXPS-SF03A-4F-PCO2WA301-streamed-pco2w_a_sami_data_record',\r\n", | ||
| " 'ooi-data/RS03CCAL-MJ03F-12-CTDPFB305-streamed-ctdpf_optode_sample',\r\n", | ||
| " 'ooi-data/RS03ECAL-MJ03E-12-CTDPFB306-streamed-ctdpf_optode_sample',\r\n", | ||
| " 'ooi-data/RS03INT1-MJ03C-07-D1000A301-streamed-d1000_sample',\r\n", | ||
| " 'ooi-data/RS03INT1-MJ03C-09-TRHPHA302-streamed-trhph_sample',\r\n", | ||
| " 'ooi-data/RS03INT1-MJ03C-10-TRHPHA301-streamed-trhph_sample',\r\n", | ||
| " 'ooi-data/RS03INT2-MJ03D-12-VEL3DB304-streamed-vel3d_b_sample',\r\n", | ||
| " 'ooi-data/annotations',\r\n", | ||
| " 'ooi-data/index.json',\r\n", | ||
| " 'ooi-data/stats.json']\n", | ||
| "```" | ||
| ] | ||
| }, | ||
| { | ||
| "cell_type": "code", | ||
| "execution_count": null, | ||
| "id": "e08e785a-5741-45e5-9f4c-cb497fa83eed", | ||
| "metadata": { | ||
| "tags": [] | ||
| }, | ||
| "outputs": [], | ||
| "source": [ | ||
| "type(siteData)" | ||
| ] | ||
| }, | ||
| { | ||
| "cell_type": "code", | ||
| "execution_count": null, | ||
| "id": "5646cad3-6c2a-4898-9092-59cfdc88eb60", | ||
| "metadata": { | ||
| "tags": [] | ||
| }, | ||
| "outputs": [], | ||
| "source": [ | ||
| "siteData.to_netcdf(\"~/RS03AXPS-SF03A-2A-CTDPFA302-streamed-ctdpf_sbe43_sample.nc\")" | ||
| ] | ||
| } | ||
| ], | ||
| "metadata": { | ||
| "kernelspec": { | ||
| "display_name": "Python 3 (ipykernel)", | ||
| "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": "3.12.3" | ||
| } | ||
| }, | ||
| "nbformat": 4, | ||
| "nbformat_minor": 5 | ||
| } |
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