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Further update for test file
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echopop/test_survey.py

Lines changed: 19 additions & 1 deletion
Original file line numberDiff line numberDiff line change
@@ -22,7 +22,7 @@
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# CURRENT SURVEY YEAR BEING TESTED: 2019
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####################################################################################################
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# Define current survey year
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SURVEY_YEAR = 2017
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SURVEY_YEAR = 2013
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# Initialization configuration
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init_config_path = f"C:/Users/Brandyn/Documents/GitHub/echopop/config_files/initialization_\
@@ -65,23 +65,41 @@
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for excl in parameters["exclude_age1"]:
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# ---- Transect analysis
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survey.transect_analysis(exclude_age1=excl, stratum=stratum, verbose=False)
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print(
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f"{SURVEY_YEAR} transect analysis [{counter}/8] success!"
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)
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# ---- Stratified analysis (transect analysis)
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survey.stratified_analysis(bootstrap_ci_method=parameters["bootstrap_ci_method"],
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transect_replicates=parameters["transect_replicates"],
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verbose=False)
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print(
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f"{SURVEY_YEAR} stratified analysis (transect) [{counter}/8] success!"
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)
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# ---- Fit variogram
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survey.fit_variogram(verbose=False)
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print(
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f"{SURVEY_YEAR} variogram fitting [{counter}/8] success!"
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)
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# ---- Iterate across different extrapolation schema
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for extrap in parameters["extrapolate"]:
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# ---- Kriging analysis (no variogram fitting)
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survey.kriging_analysis(extrapolate=extrap, verbose=False)
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print(
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f"{SURVEY_YEAR} kriging analysis (default variogram) [{counter}/8] success!"
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)
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# ---- Apply best-fit variogram
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survey.kriging_analysis(best_fit_variogram=True, extrapolate=extrap, verbose=False)
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print(
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f"{SURVEY_YEAR} kriging analysis (best-fit variogram) [{counter}/8] success!"
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)
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# ---- Stratified analysis (kriging analysis)
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survey.stratified_analysis(dataset="kriging",
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bootstrap_ci_method=parameters["bootstrap_ci_method"],
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transect_replicates=parameters["transect_replicates"],
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verbose=False)
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print(
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f"{SURVEY_YEAR} stratified analysis (kriging) [{counter}/8] success!"
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)
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# ---- Test reports
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survey.generate_reports(reports=["aged_length_haul_counts",
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"kriging_input",

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