Timon
458b8247be
- Fixed CI calculation: changed from NDVI (NIR-Red)/(NIR+Red) to correct NIR/Green-1 formula in: * process_single_tile() function * create_ci_band() utility function * Updated create_mask_and_crop() documentation - Renamed numbered shell scripts for clarity (matching R script numbering): * 01_run_planet_download -> 10_planet_download.sh * 02_run_ci_extraction -> 20_ci_extraction.sh * 03_run_growth_model -> 30_growth_model.sh * 04_run_mosaic_creation -> 40_mosaic_creation.sh * 09_run_calculate_kpis -> 80_calculate_kpis.sh * 10_run_kpi_report -> 90_kpi_report.sh - Archived obsolete shell scripts to old_sh/: * build_mosaic.sh, build_report.sh, interpolate_growth_model.sh * 05_run_dashboard_report.sh, 06_run_crop_messaging.sh * 11_run_yield_prediction.sh/ps1 * runcane.sh, runpython.sh, smartcane.sh, update_RDS.sh - Deleted test/debug files and temporary outputs: * analyze_*.R, benchmark_gpu_vs_cpu.py, convert_angata_harvest.py * debug_mosaic.R, examine_kpi_results.R, generate_sar_report.R * inspect_8band_structure.R, inspect_tif_bands.R * old_working_utils.R, predict_harvest_operational.R * run_kpi_calculation.R, run_report.R, simple_sar_test.R * data_validation_tool/, harvest_ci_pattern_analysis.png, kpi_debug.out - Enhanced harvest prediction: Added threshold tuning (0.40-0.45) and field type handling - Enhanced mosaic creation: Improved tile detection and routing logic
57 lines
2 KiB
Bash
57 lines
2 KiB
Bash
#!/bin/bash
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# Run CI report with KPIs (10_CI_report_with_kpis_simple.Rmd)
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# Usage: ./10_run_kpi_report.sh --filename=<output.docx> --report_date=<YYYY-MM-DD> --mail_day=<day> --data_dir=<project> --borders=<TRUE|FALSE> --ci_plot_type=<both|absolute|cumulative> --colorblind_friendly=<TRUE|FALSE> --facet_by_season=<TRUE|FALSE> --x_axis_unit=<days|weeks>
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filename="CI_report_with_kpis.docx"
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report_date="$(date +%Y-%m-%d)"
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mail_day="Monday"
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data_dir="aura"
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borders="FALSE"
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ci_plot_type="both"
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colorblind_friendly="TRUE"
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facet_by_season="FALSE"
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x_axis_unit="days"
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for arg in "$@"; do
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case $arg in
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--filename=*)
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filename="${arg#*=}"
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;;
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--report_date=*)
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report_date="${arg#*=}"
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;;
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--mail_day=*)
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mail_day="${arg#*=}"
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;;
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--data_dir=*)
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data_dir="${arg#*=}"
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;;
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--borders=*)
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borders="${arg#*=}"
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;;
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--ci_plot_type=*)
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ci_plot_type="${arg#*=}"
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;;
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--colorblind_friendly=*)
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colorblind_friendly="${arg#*=}"
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;;
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--facet_by_season=*)
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facet_by_season="${arg#*=}"
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;;
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--x_axis_unit=*)
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x_axis_unit="${arg#*=}"
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;;
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*)
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echo "Unknown option: $arg"
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exit 1
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;;
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esac
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shift
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done
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echo "Running CI report with KPIs for $data_dir, report date $report_date, mail day $mail_day."
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echo "Parameters: borders=$borders, ci_plot_type=$ci_plot_type, colorblind=$colorblind_friendly, facet_by_season=$facet_by_season, x_axis_unit=$x_axis_unit"
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cd ../r_app
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Rscript -e "rmarkdown::render('90_CI_report_with_kpis_simple.Rmd', output_file='$filename', params=list(report_date='$report_date', mail_day='$mail_day', data_dir='$data_dir', borders='$borders', ci_plot_type='$ci_plot_type', colorblind_friendly='$colorblind_friendly', facet_by_season='$facet_by_season', x_axis_unit='$x_axis_unit'))"
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cd ..
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