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comparison insect_phenology_model.xml @ 48:99e1c1300fcd draft

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author greg
date Tue, 05 Jun 2018 07:52:51 -0400
parents c61d3d9d44db
children 927321ed0322
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47:58a823b1d940 48:99e1c1300fcd
6 <command detect_errors="exit_code"><![CDATA[ 6 <command detect_errors="exit_code"><![CDATA[
7 #import os 7 #import os
8 #set output_data_dir = "output_data_dir" 8 #set output_data_dir = "output_data_dir"
9 #set output_plots_dir = "output_plots_dir" 9 #set output_plots_dir = "output_plots_dir"
10 #set error_file = $os.path.join($output_data_dir, "04_combined_generations.csv") 10 #set error_file = $os.path.join($output_data_dir, "04_combined_generations.csv")
11 #set custom_date_interval = $custom_date_interval_cond.custom_date_interval
11 #set life_stages = list() 12 #set life_stages = list()
12 #set plot_adult_life_stage = $plot_adult_life_stage_cond.plot_adult_life_stage 13 #set plot_adult_life_stage = $plot_adult_life_stage_cond.plot_adult_life_stage
13 #set plot_nymph_life_stage = $plot_nymph_life_stage_cond.plot_nymph_life_stage 14 #set plot_nymph_life_stage = $plot_nymph_life_stage_cond.plot_nymph_life_stage
14 #if str($plot_egg_life_stage) == "yes": 15 #if str($plot_egg_life_stage) == "yes":
15 $life_stages.append("Egg") 16 $life_stages.append("Egg")
49 --min_clutch_size $min_clutch_size 50 --min_clutch_size $min_clutch_size
50 --nymph_mortality $nymph_mortality 51 --nymph_mortality $nymph_mortality
51 --old_nymph_accumulation $old_nymph_accumulation 52 --old_nymph_accumulation $old_nymph_accumulation
52 --oviposition $oviposition 53 --oviposition $oviposition
53 --photoperiod $photoperiod 54 --photoperiod $photoperiod
54 --replications $replications
55 --plot_generations_separately $plot_generations_separately 55 --plot_generations_separately $plot_generations_separately
56 --plot_std_error $plot_std_error 56 --plot_std_error $plot_std_error
57 --replications $replications
58 #if str($custom_date_interval) == "yes":
59 --start_date '$custom_date_interval_cond.start_date'
60 --end_date '$custom_date_interval_cond.end_date'
61 #end if
57 --young_nymph_accumulation $young_nymph_accumulation 62 --young_nymph_accumulation $young_nymph_accumulation
58 &>ipm_log.txt; 63 &>ipm_log.txt;
59 if [[ $? -ne 0 ]]; then 64 if [[ $? -ne 0 ]]; then
60 cp ipm_log.txt '$error_file'; 65 cp ipm_log.txt '$error_file';
61 exit 1; 66 exit 1;
90 <param name="min_clutch_size" type="integer" value="0" min="0" label="Adjustment of minimum clutch size"/> 95 <param name="min_clutch_size" type="integer" value="0" min="0" label="Adjustment of minimum clutch size"/>
91 <param name="max_clutch_size" type="integer" value="0" min="0" label="Adjustment of maximum clutch size"/> 96 <param name="max_clutch_size" type="integer" value="0" min="0" label="Adjustment of maximum clutch size"/>
92 <param name="young_nymph_accumulation" type="integer" value="0" min="0" label="Adjustment of degree-days accumulation (egg->young nymph)"/> 97 <param name="young_nymph_accumulation" type="integer" value="0" min="0" label="Adjustment of degree-days accumulation (egg->young nymph)"/>
93 <param name="old_nymph_accumulation" type="integer" value="0" min="0" label="Adjustment of degree-days accumulation (young nymph->old nymph)"/> 98 <param name="old_nymph_accumulation" type="integer" value="0" min="0" label="Adjustment of degree-days accumulation (young nymph->old nymph)"/>
94 <param name="adult_accumulation" type="integer" value="0" min="0" label="Adjustment of degree-days accumulation (old nymph->adult)"/> 99 <param name="adult_accumulation" type="integer" value="0" min="0" label="Adjustment of degree-days accumulation (old nymph->adult)"/>
100 <conditional name="custom_date_interval_cond">
101 <param name="custom_date_interval" type="select" label="Set date interval for plots?" help="Scales the x axis in plots from weeks to days">
102 <option value="no" selected="true">No</option>
103 <option value="yes">Yes</option>
104 </param>
105 <when value="no"/>
106 <when value="yes">
107 <param name="start_date" type="text" value="" label="Start date" help="Format must be yyyy-mm-dd">
108 <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>
109 </param>
110 <param name="end_date" type="text" value="" label="End date" help="Format must be yyyy-mm-dd">
111 <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>
112 </param>
113 </when>
114 </conditional>
95 <param name="plot_generations_separately" type="select" label="Plot generations separately?"> 115 <param name="plot_generations_separately" type="select" label="Plot generations separately?">
96 <option value="yes" selected="True">Yes</option> 116 <option value="yes" selected="True">Yes</option>
97 <option value="no">No</option> 117 <option value="no">No</option>
98 </param> 118 </param>
99 <param name="plot_egg_life_stage" type="select" label="Plot egg life stage?"> 119 <param name="plot_egg_life_stage" type="select" label="Plot egg life stage?">