Updating to LANDIS-II Core v8

Deploy/Installation Files/plug-ins-installer-files/Forest Roads Simulation 2.0.txt

@@ -0,0 +1,9 @@
+LandisData   Extension
+
+Name         "Forest Roads Simulation"
+Version      "2.0.0"
+Type         disturbance:roads
+Assembly     Landis.Extension.ForestRoadsSimulation
+Class        Landis.Extension.ForestRoadsSimulation.PlugIn
+Description  "Simulate the construction of forest roads for harvesting"
+CoreVersion  8.0

Deploy/Installer Inno Setup script.iss

@@ -1,17 +1,17 @@
 ; LANDIS-II Extension infomation
-#define CoreRelease "LANDIS-II-V7"
+#define CoreRelease "LANDIS-II-V8"
 #define ExtensionName "Forest Road Simulation module"
-#define AppVersion "1.3.1"
+#define AppVersion "2.0.0"
 #define AppPublisher "Clément Hardy"
 #define AppURL "https://github.com/Klemet/LANDIS-II-Forest-Roads-Simulation-module"
 
 ; Build directory
 #define BuildDir "..\bin\Release"
 
 ; LANDIS-II installation directories
-#define ExtDir "C:\Program Files\LANDIS-II-v7\extensions"
-#define AppDir "C:\Program Files\LANDIS-II-v7"
-#define LandisPlugInDir "C:\Program Files\LANDIS-II-v7\plug-ins-installer-files"
+#define ExtDir "C:\Program Files\LANDIS-II-v8\extensions"
+#define AppDir "C:\Program Files\LANDIS-II-v8"
+#define LandisPlugInDir "C:\Program Files\LANDIS-II-v8\plug-ins-installer-files"
 #define ExtensionsCmd AppDir + "\commands\landis-ii-extensions.cmd"
 
 [Setup]
@@ -50,24 +50,23 @@ Source: {#BuildDir}\Landis.Extension.ForestRoadsSimulation.dll; DestDir: {#ExtDi
 ; Requisite auxiliary libraries
 ; NB. These libraries are used by other extensions and thus are never uninstalled.
 Source: {#BuildDir}\Landis.Landscapes.dll; DestDir: {#ExtDir}; Flags: uninsneveruninstall ignoreversion
-Source: {#BuildDir}\Landis.Library.AgeOnlyCohorts-v3.dll; DestDir: {#ExtDir}; Flags: uninsneveruninstall ignoreversion
-Source: {#BuildDir}\Landis.Library.Cohorts-v2.dll; DestDir: {#ExtDir}; Flags: uninsneveruninstall ignoreversion
-Source: {#BuildDir}\Landis.Library.HarvestManagement-v3.dll; DestDir: {#ExtDir}; Flags: uninsneveruninstall ignoreversion
+Source: {#BuildDir}\Landis.Library.UniversalCohorts-v1.dll; DestDir: {#ExtDir}; Flags: uninsneveruninstall ignoreversion
+Source: {#BuildDir}\Landis.Library.HarvestManagement-v4.dll; DestDir: {#ExtDir}; Flags: uninsneveruninstall ignoreversion
 Source: {#BuildDir}\Landis.Library.Metadata-v2.dll; DestDir: {#ExtDir}; Flags: uninsneveruninstall ignoreversion
 Source: {#BuildDir}\Landis.Library.SiteHarvest-v2.dll; DestDir: {#ExtDir}; Flags: uninsneveruninstall ignoreversion
-Source: {#BuildDir}\Landis.Library.Succession-v7.dll; DestDir: {#ExtDir}; Flags: uninsneveruninstall ignoreversion
+Source: {#BuildDir}\Landis.Library.Succession-v9.dll; DestDir: {#ExtDir}; Flags: uninsneveruninstall ignoreversion
 Source: {#BuildDir}\Landis.SpatialModeling.dll; DestDir: {#ExtDir}; Flags: uninsneveruninstall ignoreversion
 Source: {#BuildDir}\Landis.Utilities.dll; DestDir: {#ExtDir}; Flags: uninsneveruninstall ignoreversion
 Source: {#BuildDir}\Priority Queue.dll; DestDir: {#ExtDir}; Flags: uninsneveruninstall ignoreversion
 Source: {#BuildDir}\Supercluster.KDTree.dll; DestDir: {#ExtDir}; Flags: uninsneveruninstall ignoreversion
 
 
 ; Complete example for testing the extension
-Source: "..\Examples\*"; DestDir: {#AppDir}\examples\{#ExtensionName}; Flags: ignoreversion
+Source: "..\Examples\Core_v8_Example\*"; DestDir: {#AppDir}\examples\{#ExtensionName}; Flags: ignoreversion
 
 ; LANDIS-II identifies the extension with the info in this .txt file
 ; NB. New releases must modify the name of this file and the info in it
-#define InfoTxt "Forest Roads Simulation 1.3.1.txt"
+#define InfoTxt "Forest Roads Simulation 2.0.txt"
 Source: .\Installation Files\plug-ins-installer-files\{#InfoTxt}; DestDir: {#LandisPlugInDir}
 ; NOTE: Don't use "Flags: ignoreversion" on any shared system files
 

DijkstraSearch.cs

@@ -1,6 +1,6 @@
 // Author: Clément Hardy
 
-using Landis.Library.AgeOnlyCohorts;
+using Landis.Library.UniversalCohorts;
 using Landis.Core;
 using Landis.SpatialModeling;
 using System.Collections.Generic;

ElevationCostRanges.cs

@@ -1,6 +1,6 @@
 // Author: Clément Hardy
 
-using Landis.Library.AgeOnlyCohorts;
+using Landis.Library.UniversalCohorts;
 using Landis.Core;
 using Landis.SpatialModeling;
 using System.Collections.Generic;

Examples/Core_v8_Example/BatchFile.bat

@@ -0,0 +1,7 @@
+rem Batch File to Run a Scenario 
+rem The 'rem' keyword indicates that this is a remark
+
+call landis-ii-8 scenario.txt
+
+pause
+

Examples/Core_v8_Example/README.txt

@@ -0,0 +1,21 @@
+This example scenario has been tested with the following extensions installed : 
+
+
+    <Extension Name="Biomass Harvest" Version="4.7.1">
+      <Type>disturbance:harvest</Type>
+      <Assembly>Landis.Extension.BiomassHarvest-v4</Assembly>
+      <Class>Landis.Extension.BiomassHarvest.PlugIn</Class>
+      <Description>Harvesting for biomass cohorts</Description>
+    </Extension>
+    <Extension Name="Biomass Succession" Version="7.0.0">
+      <Type>succession</Type>
+      <Assembly>Landis.Extension.Succession.Biomass-v7</Assembly>
+      <Class>Landis.Extension.Succession.Biomass.PlugIn</Class>
+      <Description>Succession with biomass cohorts</Description>
+    </Extension>
+    <Extension Name="Forest Roads Simulation" Version="2.0.0">
+      <Type>disturbance:roads</Type>
+      <Assembly>Landis.Extension.ForestRoadsSimulation</Assembly>
+      <Class>Landis.Extension.ForestRoadsSimulation.PlugIn</Class>
+      <Description>Simulate the construction of forest roads for harvesting</Description>
+    </Extension>

Examples/Core_v8_Example/SpeciesData.csv

@@ -0,0 +1,16 @@
+SpeciesCode,LeafLongevity,WoodDecayRate,MortalityCurve,GrowthCurve,LeafLignin,ShadeTolerance,FireTolerance
+abiebals   ,3,0.1,10,0.25,0.252,5,1
+acerrubr   ,1,0.1,10,0.25,0.183,3,1
+acersacc   ,1,0.1,10,0.25,0.175,5,1
+betualle   ,1,0.1,10,0.25,0.219,3,2
+betupapy   ,1,0.1,10,0.25,0.201,2,2
+fraxamer,1,0.1,10,0.25,0.144,4,2
+piceglau   ,3,0.1,10,0.25,0.249,4,2
+pinubank   ,2,0.1,10,0.25,0.266,1,3
+pinuresi   ,3,0.1,10,0.25,0.266,2,4
+pinustro   ,2,0.1,10,0.25,0.263,3,3
+poputrem   ,1,0.1,10,0.25,0.256,1,2
+querrubr   ,1,0.1,10,0.25,0.249,3,2
+querelli   ,1,0.1,10,0.25,0.149,2,3
+thujocci ,3,0.1,10,0.25,0.262,4,1
+tiliamer   ,1,0.1,10,0.25,0.17,4,2

Examples/Core_v8_Example/SppEcoregionData.csv

@@ -0,0 +1,31 @@
+Year,EcoregionName,SpeciesCode,ProbEstablish,ProbMortality,ANPPmax,BiomassMax
+0,101,abiebals,0.9,0.95,886,26000
+0,101,acerrubr,1,0.95,1175,26000
+0,101,acersacc,0.82,0.95,1106,26000
+0,101,betualle,0.64,0.95,1202,26000
+0,101,betupapy,1,0.95,1202,26000
+0,101,fraxamer,0.18,0.95,1202,26000
+0,101,piceglau,0.58,0.95,969,26000
+0,101,pinubank,1,0.95,1130,26000
+0,101,pinuresi,0.56,0.95,1017,26000
+0,101,pinustro,0.72,0.95,1090,26000
+0,101,poputrem,1,0.95,1078,26000
+0,101,querelli,0.96,0.95,1096,26000
+0,101,querrubr,0.66,0.95,1017,26000
+0,101,thujocci,0.76,0.95,1090,26000
+0,101,tiliamer,0.54,0.95,1078,26000
+0,102,abiebals,0.9,0,886,26000
+0,102,acerrubr,1,0,1175,26000
+0,102,acersacc,0.82,0,1106,26000
+0,102,betualle,0.64,0,1202,26000
+0,102,betupapy,1,0,1202,26000
+0,102,fraxamer,0.18,0,1202,26000
+0,102,piceglau,0.58,0,969,26000
+0,102,pinubank,1,0,1130,26000
+0,102,pinuresi,0.56,0,1017,26000
+0,102,pinustro,0.72,0,1090,26000
+0,102,poputrem,1,0,1078,26000
+0,102,querelli,0.96,0,1096,26000
+0,102,querrubr,0.66,0,1017,26000
+0,102,thujocci,0.76,0,1090,26000
+0,102,tiliamer,0.54,0,1078,26000

Examples/Core_v8_Example/biomass-harvest_SetUp_s2e1.txt

@@ -0,0 +1,47 @@
+LandisData  "Biomass Harvest"
+
+
+>>----------------
+>> REQUIRED INPUTS
+>>-----------------
+Timestep		5
+
+ManagementAreas 	./biomass-harvest_Management_s2e1.gis
+
+Stands     		./biomass-harvest_Stand_s2e1.gis
+
+
+
+>> -------------------------
+>> HARVESTING PRESCRIPTIONS
+>> -------------------------
+
+>>---- PRESCRIPTION_1 ---------------------------------------
+Prescription MaxAgeClearcut
+    StandRanking 	MaxCohortAge
+    SiteSelection 	Complete
+    CohortsRemoved 	ClearCut
+
+	MultipleRepeat 20
+
+
+
+>> ----------------------------------
+>> HARVESTING IMPLEMENTATION 
+>> ---------------------------------
+
+    HarvestImplementations
+>>	Mgmt Area	Prescription		Harvest Area	BeginTime	EndTime
+>> 	---------   	------------   		------------   	---------- 	--------
+	1		MaxAgeClearcut		10%		5  	    	6
+
+
+
+>> ------------
+>> OUTPUTS
+>> ----------
+
+PrescriptionMaps    harvest/biomass-harvest-prescripts-{timestep}.img
+BiomassMaps         harvest/biomass-removed-{timestep}.img
+EventLog            harvest/biomass-harvest-event-log.csv
+SummaryLog	    harvest/biomass-harvest-summary-log.csv

Examples/Core_v8_Example/biomass-succession_ClimateGenerator.txt

@@ -0,0 +1,11 @@
+LandisData "Climate Config"				
+
+ClimateTimeSeries			Monthly_AverageAllYears
+ClimateFile				PRISM_data_AFRI_4.18.13.csv
+ClimateFileFormat			Monthly_Temp-C_Precip-mmMonth
+
+SpinUpClimateTimeSeries			Monthly_AverageAllYears
+SpinUpClimateFile			PRISM_data_AFRI_4.18.13.csv
+SpinUpClimateFileFormat			Monthly_Temp-C_Precip-mmMonth
+
+>> UsingClimateFire	yes  << Optional parameter; default is no.

Examples/Core_v8_Example/biomass-succession_DynamicInputs_s2e1.txt

@@ -0,0 +1,40 @@
+LandisData  "Dynamic Input Data"
+
+>> Year Ecoregion Species ProbEst MaxANPP MaxB
+>> --- ---------  ------- ------  ------  -----
+
+0 101  abiebals       0.9	886	26000	
+0 101  acerrubr       1.0  	1175	26000	
+0 101  acersacc       0.82 	1106	26000	
+0 101  betualle       0.64 	1202	26000	
+0 101  betupapy       1.0  	1202	26000	
+0 101  fraxamer       0.18 	1202	26000	
+0 101  piceglau       0.58 	969	26000	
+0 101  pinubank       1.0  	1130	26000	
+0 101  pinuresi       0.56 	1017	26000	
+0 101  pinustro       0.72 	1090	26000	
+0 101  poputrem       1.0  	1078	26000	
+0 101  querelli       0.66 	1017	26000	
+0 101  querrubr       0.66 	1017	26000	
+0 101  thujocci       0.76 	1090	26000	
+0 101  tiliamer       0.54 	1078	26000	
+0 102  abiebals       0.05	801	26000 	
+0 102  acerrubr       0.6 	1058	26000 
+0 102  acersacc       0.3 	1003	26000	
+0 102  betualle       0.24 	1052	26000	
+0 102  betupapy       0.75 	1052	26000	
+0 102  fraxamer       0.1 	1052	26000	
+0 102  piceglau       0.5 	875	26000	
+0 102  pinubank       0.8 	1015	26000	
+0 102  pinuresi       0.78 	916	26000	
+0 102  pinustro       0.70 	980	26000	
+0 102  poputrem       0.8 	968	26000	
+0 102  querelli       0.66 	1017	26000	
+0 102  querrubr       0.43 	916	26000	
+0 102  thujocci       0.002 	980	26000	
+0 102  tiliamer       0.06 	968	26000	
+
+
+
+
+

Examples/Core_v8_Example/biomass-succession_InitialCommunities_s2e1.csv

@@ -0,0 +1,92 @@
+MapCode,SpeciesName,CohortAge,CohortBiomass
+0,acerrubr,30,250
+0,pinubank,80,1000
+0,pinubank,90,2000
+0,pinuresi,110,8000
+0,pinuresi,140,8000
+0,pinuresi,110,8000
+0,pinuresi,140,8000
+0,querelli,40,500
+0,querelli,120,1000
+1,pinubank,30,250
+1,pinubank,50,500
+1,querelli,10,250
+1,querelli,40,500
+1,querelli,70,1000
+2,poputrem,10,250
+2,poputrem,20,250
+3,acerrubr,10,250
+3,acerrubr,30,250
+3,betualle,10,250
+3,betualle,40,500
+3,betupapy,80,1000
+3,betupapy,90,1000
+3,fraxamer,10,250
+3,fraxamer,50,500
+3,poputrem,90,1000
+3,poputrem,100,1000
+3,pinustro,240,3000
+3,querrubr,20,250
+3,querrubr,50,500
+3,thujocci,60,500
+3,tiliamer,10,250
+4,abiebals,10,250
+4,acerrubr,20,250
+4,acerrubr,40,500
+4,acersacc,10,250
+4,acersacc,20,250
+4,betualle,40,500
+4,betualle,70,1000
+4,betupapy,90,1000
+4,fraxamer,30,250
+4,fraxamer,40,500
+4,fraxamer,60,500
+4,poputrem,90,1000,
+4,querrubr,40,500
+4,querrubr,80,1000
+4,thujocci,30,250
+4,thujocci,80,1000
+4,tiliamer,10,250
+4,tiliamer,30,500
+4,tiliamer,50,500
+5,abiebals,10,250,
+5,abiebals,60,500
+5,abiebals,120,1000
+5,acerrubr,90,1000
+5,acerrubr,120,1000
+5,acersacc,20,250
+5,acersacc,50,500
+5,acersacc,150,1000
+5,acersacc,200,1000
+5,betualle,40,500
+5,betualle,140,1000
+5,betualle,200,1000
+5,fraxamer,10,250
+5,fraxamer,100,1000
+5,fraxamer,130,1000
+5,fraxamer,180,1000
+5,piceglau,180,1000
+5,querrubr,100,1000
+5,querrubr,160,1000
+5,querrubr,180,1000
+5,thujocci,200,1000
+5,thujocci,240,1000
+5,thujocci,260,1000
+5,tiliamer,20,250
+5,tiliamer,80,500
+5,tiliamer,110,1000
+5,tiliamer,150,1000
+6,abiebals,10,250
+6,abiebals,50,500
+6,abiebals,80,500
+6,piceglau,100,1000
+6,piceglau,140,1000
+6,piceglau,180,1000
+6,piceglau,200,1000
+6,piceglau,220,1000
+6,pinuresi,140,1000
+6,pinuresi,160,1000
+6,pinuresi,180,1000
+6,pinustro,200,1000
+6,pinustro,280,1000
+6,pinustro,350,1000