/// <summary>
/// Reads in all initialisation files and copies them to the output directory for future reference
/// </summary>
/// <param name="initialisationFile">The name of the initialization file with information on the simulations to be run</param>
/// <param name="outputPath">The path to folder in which outputs will be stored</param>
/// <todo>Need to adjust this file to deal with incorrect inputs, extra columns etc by throwing an error</todo>
/// <todo>Also need to strip leading spaces</todo>
public void ReadAndCopyInitialisationFiles(string simulationInitialisationFilename, string definitionsFilename, string outputsFilename, string outputPath)
{
// Construct file names
string SimulationFileString = "msds:csv?file=input/Model setup/" + simulationInitialisationFilename + "&openMode=readOnly";
string DefinitionsFileString = "msds:csv?file=input/Model setup/" + definitionsFilename + "&openMode=readOnly";
string OutputsFileString = "msds:csv?file=input/Model setup/" + outputsFilename + "&openMode=readOnly";
// Copy the initialisation files to the output directory
System.IO.File.Copy("input/Model setup/" + simulationInitialisationFilename, outputPath + simulationInitialisationFilename, true);
System.IO.File.Copy("input/Model setup/" + definitionsFilename, outputPath + definitionsFilename, true);
System.IO.File.Copy("input/Model setup/" + outputsFilename, outputPath + outputsFilename, true);
// Read in the definitions data
InternalData = DataSet.Open(DefinitionsFileString);
// Get the names of parameters in the initialization file
VarParameters = InternalData.Variables[1].GetData();
// Get the values for the parameters
VarValues = InternalData.Variables[0].GetData();
#endif
// Loop over the parameters
for (int row = 0; row < VarParameters.Length; row++)
{
// Switch based on the name of the parameter, and write the value to the appropriate field
switch (VarParameters.GetValue(row).ToString().ToLower())
{
case "mass bin filename":
// Set up the mass bins as specified in the initialization file
#if true
_ModelMassBins.SetUpMassBins(VarValues.GetValue(row).ToString(), outputPath, inputPath);
#else
_ModelMassBins.SetUpMassBins(VarValues.GetValue(row).ToString(), outputPath);
#endif
break;
}
}
InternalData.Dispose();
// Read in the outputs data
InternalData = DataSet.Open(OutputsFileString);
// Get the names of parameters in the initialization file
VarParameters = InternalData.Variables[1].GetData();
// Get the values for the parameters
VarValues = InternalData.Variables[0].GetData();
// Loop over the parameters
for (int row = 0; row < VarParameters.Length; row++)
{
// Switch based on the name of the parameter, and write the value to the appropriate field
switch (VarParameters.GetValue(row).ToString().ToLower())
{
case "track processes":
switch (VarValues.GetValue(row).ToString().ToLower())
{
case "yes":
_TrackProcesses = true;
break;
case "no":
_TrackProcesses = false;
break;
}
break;
case "track cross cell processes":
switch (VarValues.GetValue(row).ToString().ToLower())
{
case "yes":
_TrackCrossCellProcesses = true;
break;
case "no":
_TrackCrossCellProcesses = false;
break;
}
break;
case "track global processes":
switch (VarValues.GetValue(row).ToString().ToLower())
{
case "yes":
_TrackGlobalProcesses = true;
break;
case "no":
_TrackGlobalProcesses = false;
break;
}
break;
case "new cohorts filename":
_ProcessTrackingOutputs.Add("NewCohortsOutput", VarValues.GetValue(row).ToString());
break;
case "maturity filename":
_ProcessTrackingOutputs.Add("MaturityOutput", VarValues.GetValue(row).ToString());
break;
case "biomasses eaten filename":
_ProcessTrackingOutputs.Add("BiomassesEatenOutput", VarValues.GetValue(row).ToString());
break;
case "trophic flows filename":
_ProcessTrackingOutputs.Add("TrophicFlowsOutput", VarValues.GetValue(row).ToString());
break;
case "growth filename":
_ProcessTrackingOutputs.Add("GrowthOutput", VarValues.GetValue(row).ToString());
break;
case "metabolism filename":
_ProcessTrackingOutputs.Add("MetabolismOutput", VarValues.GetValue(row).ToString());
break;
case "npp output filename":
_ProcessTrackingOutputs.Add("NPPOutput", VarValues.GetValue(row).ToString());
break;
case "predation flows filename":
_ProcessTrackingOutputs.Add("PredationFlowsOutput", VarValues.GetValue(row).ToString());
break;
case "herbivory flows filename":
_ProcessTrackingOutputs.Add("HerbivoryFlowsOutput", VarValues.GetValue(row).ToString());
break;
case "mortality filename":
_ProcessTrackingOutputs.Add("MortalityOutput", VarValues.GetValue(row).ToString());
break;
case "extinction filename":
_ProcessTrackingOutputs.Add("ExtinctionOutput", VarValues.GetValue(row).ToString());
break;
case "output detail":
_InitialisationFileStrings.Add("OutputDetail", VarValues.GetValue(row).ToString());
break;
case "live outputs":
if (VarValues.GetValue(row).ToString() == "yes")
{
_LiveOutputs = true;
}
else
{
_LiveOutputs = false;
}
break;
case "track marine specifics":
if (VarValues.GetValue(row).ToString() == "yes")
{
_TrackMarineSpecifics = true;
}
else
{
_TrackMarineSpecifics = false;
}
break;
case "output metrics":
if (VarValues.GetValue(row).ToString() == "yes")
{
_OutputMetrics = true;
}
else
{
_OutputMetrics = false;
}
break;
case "output model state timesteps":
if (VarValues.GetValue(row).ToString() != "no")
{
string[] OutputStateTimesSteps = VarValues.GetValue(row).ToString().Split(new char[] { ';' });
foreach (string t in OutputStateTimesSteps)
{
if (t.Split(new char[] { '-' }).Length > 1)
{
string[] range = t.Split(new char[] { '-' });
for (uint i = Convert.ToUInt32(range[0]); i <= Convert.ToUInt32(range[1]); i++)
{
_OutputStateTimestep.Add(i);
}
}
else
{
_OutputStateTimestep.Add(Convert.ToUInt32(Convert.ToInt32(t)));
}
}
}
break;
}
}
InternalData.Dispose();
}
void SetVariableValuesFromIDEState(IVariableValueSetter var_value_setter, VSMultiInstanceInfo multi_instance_info)
{
VarValues var_values = new VarValues();
try
{
GetVariableValues(var_values);
}
catch (System.Exception ex)
{
var_values.exceptions.Add(ex);
}
if (var_values.exceptions.Count > 0 && m_Package.IsDebugEnabled())
{
DebugOutput.WriteLine("----- Exceptions: GetVariableValues:");
foreach (Exception ex in var_values.exceptions)
DebugOutput.WriteLine("EX: " + ex.ToString());
}
AddFilePathVars(var_value_setter, ref var_values.sln_path, SlashPathSeparator, "sln_");
var_value_setter.SetVariable("sln_open", var_values.sln_path.Length > 0);
var_value_setter.SetVariable("sln_dirty", var_values.sln_dirty ? "*" : "");
AddFilePathVars(var_value_setter, ref var_values.doc_path, SlashPathSeparator, "doc_");
var_value_setter.SetVariable("doc_open", var_values.doc_path.Length > 0);
var_value_setter.SetVariable("doc_dirty", var_values.doc_dirty ? "*" : "");
var_value_setter.SetVariable("any_doc_dirty", var_values.any_doc_dirty ? "*" : "");
AddFilePathVars(var_value_setter, ref var_values.startup_proj_path, SlashPathSeparator, "startup_proj_");
var_value_setter.SetVariable("startup_proj", var_values.startup_proj);
var_value_setter.SetVariable("startup_proj_dirty", var_values.startup_proj_dirty ? "*" : "");
var_value_setter.SetVariable("any_proj_dirty", var_values.any_proj_dirty ? "*" : "");
var_value_setter.SetVariable("anything_dirty", (var_values.sln_dirty || var_values.any_proj_dirty || var_values.any_doc_dirty) ? "*" : "");
var_value_setter.SetVariable("wnd_minimized", var_values.wnd_minimized);
var_value_setter.SetVariable("wnd_foreground", var_values.wnd_foreground);
var_value_setter.SetVariable("app_active", var_values.app_active);
bool debugging = false;
string debug_mode = "";
switch (var_values.dbgmode)
{
case DBGMODE.DBGMODE_Run:
debugging = true;
debug_mode = "running";
break;
case DBGMODE.DBGMODE_Break:
debugging = true;
debug_mode = "debugging";
break;
}
var_value_setter.SetVariable("debugging", debugging);
var_value_setter.SetVariable("debug_mode", debug_mode);
var_value_setter.SetVariable("configuration", var_values.configuration);
var_value_setter.SetVariable("platform", var_values.platform);
var_value_setter.SetVariable("orig_title", var_values.orig_title);
var_value_setter.SetVariable("multi_instances", multi_instance_info.multiple_instances);
var_value_setter.SetVariable("multi_instances_same_ver", multi_instance_info.multiple_instances_same_version);
var_value_setter.SetVariable("active_wnd_title", var_values.active_wnd_title);
var_value_setter.SetVariable("active_wnd_class", var_values.active_wnd_class);
var_value_setter.SetVariable("cmdline", var_values.cmdline);
}
void SetVariableValuesFromIDEState(IVariableValueSetter var_value_setter, VSMultiInstanceInfo multi_instance_info)
{
VarValues var_values = new VarValues();
try
{
GetVariableValues(var_values);
}
catch (System.Exception ex)
{
var_values.exceptions.Add(ex);
}
if (var_values.exceptions.Count > 0 && m_Package.IsDebugEnabled())
{
DebugOutput.WriteLine("----- Exceptions: GetVariableValues:");
foreach (Exception ex in var_values.exceptions)
{
DebugOutput.WriteLine("EX: " + ex.ToString());
}
}
AddFilePathVars(var_value_setter, ref var_values.sln_path, SlashPathSeparator, "sln_");
var_value_setter.SetVariable("sln_open", var_values.sln_path.Length > 0);
var_value_setter.SetVariable("sln_dirty", var_values.sln_dirty ? "*" : "");
AddFilePathVars(var_value_setter, ref var_values.doc_path, SlashPathSeparator, "doc_");
var_value_setter.SetVariable("doc_open", var_values.doc_path.Length > 0);
var_value_setter.SetVariable("doc_dirty", var_values.doc_dirty ? "*" : "");
var_value_setter.SetVariable("any_doc_dirty", var_values.any_doc_dirty ? "*" : "");
AddFilePathVars(var_value_setter, ref var_values.startup_proj_path, SlashPathSeparator, "startup_proj_");
var_value_setter.SetVariable("startup_proj", var_values.startup_proj);
var_value_setter.SetVariable("startup_proj_dirty", var_values.startup_proj_dirty ? "*" : "");
var_value_setter.SetVariable("any_proj_dirty", var_values.any_proj_dirty ? "*" : "");
var_value_setter.SetVariable("anything_dirty", (var_values.sln_dirty || var_values.any_proj_dirty || var_values.any_doc_dirty) ? "*" : "");
var_value_setter.SetVariable("wnd_minimized", var_values.wnd_minimized);
var_value_setter.SetVariable("wnd_foreground", var_values.wnd_foreground);
var_value_setter.SetVariable("app_active", var_values.app_active);
bool debugging = false;
string debug_mode = "";
switch (var_values.dbgmode)
{
case DBGMODE.DBGMODE_Run:
debugging = true;
debug_mode = "running";
break;
case DBGMODE.DBGMODE_Break:
debugging = true;
debug_mode = "debugging";
break;
}
var_value_setter.SetVariable("debugging", debugging);
var_value_setter.SetVariable("debug_mode", debug_mode);
var_value_setter.SetVariable("configuration", var_values.configuration);
var_value_setter.SetVariable("platform", var_values.platform);
var_value_setter.SetVariable("orig_title", var_values.orig_title);
var_value_setter.SetVariable("multi_instances", multi_instance_info.multiple_instances);
var_value_setter.SetVariable("multi_instances_same_ver", multi_instance_info.multiple_instances_same_version);
var_value_setter.SetVariable("active_wnd_title", var_values.active_wnd_title);
var_value_setter.SetVariable("active_wnd_class", var_values.active_wnd_class);
var_value_setter.SetVariable("cmdline", var_values.cmdline);
}
void GetVariableValues(VarValues var_values)
{
DTE2 dte = (DTE2)m_Package.GetInterface(typeof(DTE));
IVsSolution vs_solution = (IVsSolution)m_Package.GetInterface(typeof(IVsSolution));
string temp_solution_dir, temp_solution_options;
if (VSConstants.S_OK != vs_solution.GetSolutionInfo(out temp_solution_dir, out var_values.sln_path, out temp_solution_options) || var_values.sln_path == null)
var_values.sln_path = "";
IVsDebugger debugger = (IVsDebugger)m_Package.GetInterface(typeof(IVsDebugger));
DBGMODE[] adbgmode = new DBGMODE[] { DBGMODE.DBGMODE_Design };
if (VSConstants.S_OK != debugger.GetMode(adbgmode))
adbgmode[0] = DBGMODE.DBGMODE_Design;
var_values.dbgmode = adbgmode[0] & ~DBGMODE.DBGMODE_EncMask;
var_values.sln_dirty = !dte.Solution.Saved;
try
{
SolutionConfiguration2 active_cfg = (SolutionConfiguration2)dte.Solution.SolutionBuild.ActiveConfiguration;
if (active_cfg != null)
{
var_values.configuration = active_cfg.Name == null ? "" : active_cfg.Name; ;
var_values.platform = active_cfg.PlatformName == null ? "" : active_cfg.PlatformName;
}
}
catch (System.Exception ex)
{
var_values.exceptions.Add(ex);
}
try
{
Project startup_project = GetStartupProject(dte.Solution);
if (startup_project != null)
{
var_values.startup_proj = startup_project.Name;
var_values.startup_proj_path = startup_project.FullName;
var_values.startup_proj_dirty = !startup_project.Saved;
}
}
catch (System.Exception ex)
{
var_values.exceptions.Add(ex);
}
try
{
Document active_document = dte.ActiveDocument;
if (active_document != null)
{
var_values.doc_path = active_document.FullName;
var_values.doc_dirty = !active_document.Saved;
}
}
catch (System.Exception ex)
{
var_values.exceptions.Add(ex);
}
try
{
foreach (Document doc in dte.Documents)
{
if (!doc.Saved)
{
var_values.any_doc_dirty = true;
break;
}
}
}
catch (System.Exception ex)
{
var_values.exceptions.Add(ex);
}
try
{
foreach (Project proj in dte.Solution.Projects)
{
if (!proj.Saved)
{
var_values.any_proj_dirty = true;
break;
}
}
}
catch (System.Exception ex)
{
var_values.exceptions.Add(ex);
}
try
{
var_values.wnd_minimized = m_Package.VSMainWindow.Minimized;
var_values.wnd_foreground = m_Package.VSMainWindow.IsForegroundWindow();
var_values.app_active = m_Package.VSMainWindow.IsAppActive;
}
catch (System.Exception ex)
{
var_values.exceptions.Add(ex);
}
IntPtr active_wnd = GetActiveWindow();
if (active_wnd != IntPtr.Zero)
{
var_values.active_wnd_title = GetWindowText(active_wnd);
var_values.active_wnd_class = GetWindowClassName(active_wnd);
}
var_values.orig_title = m_Package.VSMainWindow.OriginalTitle;
try
{
var_values.cmdline = Marshal.PtrToStringAuto(GetCommandLine());
}
catch (System.Exception ex)
{
var_values.exceptions.Add(ex);
}
}
void GetVariableValues(VarValues var_values)
{
DTE2 dte = (DTE2)m_Package.GetInterface(typeof(DTE));
IVsSolution vs_solution = (IVsSolution)m_Package.GetInterface(typeof(IVsSolution));
string temp_solution_dir, temp_solution_options;
if (VSConstants.S_OK != vs_solution.GetSolutionInfo(out temp_solution_dir, out var_values.sln_path, out temp_solution_options) || var_values.sln_path == null)
{
var_values.sln_path = "";
}
IVsDebugger debugger = (IVsDebugger)m_Package.GetInterface(typeof(IVsDebugger));
DBGMODE[] adbgmode = new DBGMODE[] { DBGMODE.DBGMODE_Design };
if (VSConstants.S_OK != debugger.GetMode(adbgmode))
{
adbgmode[0] = DBGMODE.DBGMODE_Design;
}
var_values.dbgmode = adbgmode[0] & ~DBGMODE.DBGMODE_EncMask;
var_values.sln_dirty = !dte.Solution.Saved;
try
{
SolutionConfiguration2 active_cfg = (SolutionConfiguration2)dte.Solution.SolutionBuild.ActiveConfiguration;
if (active_cfg != null)
{
var_values.configuration = active_cfg.Name == null ? "" : active_cfg.Name;;
var_values.platform = active_cfg.PlatformName == null ? "" : active_cfg.PlatformName;
}
}
catch (System.Exception ex)
{
var_values.exceptions.Add(ex);
}
try
{
Project startup_project = GetStartupProject(dte.Solution);
if (startup_project != null)
{
var_values.startup_proj = startup_project.Name;
var_values.startup_proj_path = startup_project.FullName;
var_values.startup_proj_dirty = !startup_project.Saved;
}
}
catch (System.Exception ex)
{
var_values.exceptions.Add(ex);
}
try
{
Document active_document = dte.ActiveDocument;
if (active_document != null)
{
var_values.doc_path = active_document.FullName;
var_values.doc_dirty = !active_document.Saved;
}
}
catch (System.Exception ex)
{
var_values.exceptions.Add(ex);
}
try
{
foreach (Document doc in dte.Documents)
{
if (!doc.Saved)
{
var_values.any_doc_dirty = true;
break;
}
}
}
catch (System.Exception ex)
{
var_values.exceptions.Add(ex);
}
try
{
foreach (Project proj in dte.Solution.Projects)
{
if (!proj.Saved)
{
var_values.any_proj_dirty = true;
break;
}
}
}
catch (System.Exception ex)
{
var_values.exceptions.Add(ex);
}
try
{
var_values.wnd_minimized = m_Package.VSMainWindow.Minimized;
var_values.wnd_foreground = m_Package.VSMainWindow.IsForegroundWindow();
var_values.app_active = m_Package.VSMainWindow.IsAppActive;
}
catch (System.Exception ex)
{
var_values.exceptions.Add(ex);
}
IntPtr active_wnd = GetActiveWindow();
if (active_wnd != IntPtr.Zero)
{
var_values.active_wnd_title = GetWindowText(active_wnd);
var_values.active_wnd_class = GetWindowClassName(active_wnd);
}
var_values.orig_title = m_Package.VSMainWindow.OriginalTitle;
try
{
var_values.cmdline = Marshal.PtrToStringAuto(GetCommandLine());
}
catch (System.Exception ex)
{
var_values.exceptions.Add(ex);
}
}