comparison insect_phenology_model.xml @ 50:927321ed0322 draft

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49:1b6864c5b50a

    <command detect_errors="exit_code"><![CDATA[
#import os
#set output_data_dir = "output_data_dir"
#set output_plots_dir = "output_plots_dir"
#set error_file = $os.path.join($output_data_dir, "04_combined_generations.csv")
#set custom_date_interval = $custom_date_interval_cond.custom_date_interval
#set life_stages = list()
#set plot_adult_life_stage = $plot_adult_life_stage_cond.plot_adult_life_stage
#set plot_nymph_life_stage = $plot_nymph_life_stage_cond.plot_nymph_life_stage
#if str($plot_egg_life_stage) == "yes":
    $life_stages.append("Egg")

--oviposition $oviposition
--photoperiod $photoperiod
--plot_generations_separately $plot_generations_separately
--plot_std_error $plot_std_error
--replications $replications
#if str($custom_date_interval) == "yes":
    --start_date '$custom_date_interval_cond.start_date'
    --end_date '$custom_date_interval_cond.end_date'
#end if
--young_nymph_accumulation $young_nymph_accumulation
&>ipm_log.txt;
if [[ $? -ne 0 ]]; then
    cp ipm_log.txt '$error_file';
    exit 1;

        <param name="min_clutch_size" type="integer" value="0" min="0" label="Adjustment of minimum clutch size"/>
        <param name="max_clutch_size" type="integer" value="0" min="0" label="Adjustment of maximum clutch size"/>
        <param name="young_nymph_accumulation" type="integer" value="0" min="0" label="Adjustment of degree-days accumulation (egg->young nymph)"/>
        <param name="old_nymph_accumulation" type="integer" value="0" min="0" label="Adjustment of degree-days accumulation (young nymph->old nymph)"/>
        <param name="adult_accumulation" type="integer" value="0" min="0" label="Adjustment of degree-days accumulation (old nymph->adult)"/>
        <conditional name="custom_date_interval_cond">
            <param name="custom_date_interval" type="select" label="Set date interval for plots?" help="Scales the x axis in plots from weeks to days">
                <option value="no" selected="true">No</option>
                <option value="yes">Yes</option>
            </param>
            <when value="no"/>
            <when value="yes">
                <param name="start_date" type="text" value="" label="Start date" help="Format must be yyyy-mm-dd">
                    <validator type="expression" message="Date must have the format yyyy-mm-dd">len(value.split('-')[0])==4 and int(value.split('-')[0]) and len(value.split('-')[1])==2 and int(value.split('-')[1]) and len(value.split('-')[2])==2 and int(value.split('-')[2])</validator>
                </param>
                <param name="end_date" type="text" value="" label="End date" help="Format must be yyyy-mm-dd">
                    <validator type="expression" message="Date must have the format yyyy-mm-dd">len(value.split('-')[0])==4 and int(value.split('-')[0]) and len(value.split('-')[1])==2 and int(value.split('-')[1]) and len(value.split('-')[2])==2 and int(value.split('-')[2])</validator>
                </param>
            </when>
        </conditional>
        <param name="plot_generations_separately" type="select" label="Plot generations separately?">
            <option value="yes" selected="True">Yes</option>
            <option value="no">No</option>
        </param>
        <param name="plot_egg_life_stage" type="select" label="Plot egg life stage?">

50:927321ed0322

    <command detect_errors="exit_code"><![CDATA[
#import os
#set output_data_dir = "output_data_dir"
#set output_plots_dir = "output_plots_dir"
#set error_file = $os.path.join($output_data_dir, "04_combined_generations.csv")
#set life_stages = list()
#set plot_adult_life_stage = $plot_adult_life_stage_cond.plot_adult_life_stage
#set plot_nymph_life_stage = $plot_nymph_life_stage_cond.plot_nymph_life_stage
#if str($plot_egg_life_stage) == "yes":
    $life_stages.append("Egg")

--oviposition $oviposition
--photoperiod $photoperiod
--plot_generations_separately $plot_generations_separately
--plot_std_error $plot_std_error
--replications $replications
--script_dir '$__tool_directory__'
--young_nymph_accumulation $young_nymph_accumulation
&>ipm_log.txt;
if [[ $? -ne 0 ]]; then
    cp ipm_log.txt '$error_file';
    exit 1;

        <param name="min_clutch_size" type="integer" value="0" min="0" label="Adjustment of minimum clutch size"/>
        <param name="max_clutch_size" type="integer" value="0" min="0" label="Adjustment of maximum clutch size"/>
        <param name="young_nymph_accumulation" type="integer" value="0" min="0" label="Adjustment of degree-days accumulation (egg->young nymph)"/>
        <param name="old_nymph_accumulation" type="integer" value="0" min="0" label="Adjustment of degree-days accumulation (young nymph->old nymph)"/>
        <param name="adult_accumulation" type="integer" value="0" min="0" label="Adjustment of degree-days accumulation (old nymph->adult)"/>
        <param name="plot_generations_separately" type="select" label="Plot generations separately?">
            <option value="yes" selected="True">Yes</option>
            <option value="no">No</option>
        </param>
        <param name="plot_egg_life_stage" type="select" label="Plot egg life stage?">