void CPreferences::LoadPreferences() {
#ifdef _DEBUG
MessageBox(0, "Loading preferences", "Info", 0);
#endif
InitDefaults();
ReadPreferences();
}
void CPreferences::LoadPreferences()
{
_preferences_heading = "Preferences";
InitDefaults();
ReadPreferences();
CheckForOutdatedICMConfig();
}
void CPreferences::LoadPreferences(bool registry)
{
if (registry)
_preferences_heading.Empty();
else
_preferences_heading = "Preferences";
ReadPreferences();
}
MainWindow::MainWindow(wxFrame *frame, wxWindowID id, const wxString& title,
const wxPoint& pos, const wxSize& size, long style):
wxFrame(frame, id, title, pos, size, style)
{
m_corners[0] = m_corners[1] = m_corners[2] = m_corners[3] = NULL;
ReadPreferences();
CreateFonts();
SetIcon(wxICON(wxpoem));
m_corners[0] = new wxIcon( corner1_xpm );
m_corners[1] = new wxIcon( corner2_xpm );
m_corners[2] = new wxIcon( corner3_xpm );
m_corners[3] = new wxIcon( corner4_xpm );
}
void
Renamer_Extension::AttachedToWindow()
{
BMessage msg;
ReadPreferences("ren_extension", msg);
bool boolean;
if (msg.FindBool("replace", &boolean) == B_OK)
fReplaceOldCheckBox->SetValue(boolean);
else
fReplaceOldCheckBox->SetValue(B_CONTROL_OFF); // default
if (msg.FindBool("upperlower", &boolean) == B_OK) {
if (boolean)
fLowerCase->SetValue(B_CONTROL_ON);
else
fUpperCase->SetValue(B_CONTROL_ON);
} else
fLowerCase->SetValue(B_CONTROL_ON); // default
}
void _THyPhy::InitTHyPhy (_ProgressCancelHandler* mHandler, const char* baseDirPath, long cpuCount)
{
char dirSlash = GetPlatformDirectoryChar ();
systemCPUCount = cpuCount;
SetCallbackHandler (mHandler);
checkPointer (currentResultHolder = new _THyPhyString);
askFID = -1;
if (baseDirPath)
// set base directory
{
baseDirectory = baseDirPath;
if (baseDirectory.getChar(baseDirectory.sLength-1) != dirSlash) {
baseDirectory = baseDirectory & dirSlash;
}
baseDirectoryInstance = new _THyPhyString (baseDirectory.sData);
baseDirectory = baseDirectoryInstance->sData;
pathNames && &baseDirectory;
ReadPreferences ();
}
#ifdef _HYPHY_LIBDIRECTORY_
libDirectory = _HYPHY_LIBDIRECTORY_;
if (libDirectory.getChar(libDirectory.sLength-1) != dirSlash) {
libDirectory = libDirectory & dirSlash;
}
pathNames && &libDirectory;
#else
if (baseDirectory)
libDirectory = baseDirectory;
#endif
GlobalStartup();
errors = nil;
warnings = nil;
textout = nil;
globalInterfaceInstance = this;
}
void
Renamer_Remove::AttachedToWindow()
{
BMessage msg;
ReadPreferences("ren_remove", msg);
BString string = "";
int32 integer = 0;
bool boolean = 0;
if (msg.FindInt32("pos1", &integer) == B_OK)
fPosition1->SetValue(integer);
if (msg.FindInt32("pos2", &integer) == B_OK)
fPosition2->SetValue(integer);
if (msg.FindBool("direction1", &boolean) == B_OK) {
BMenu* menu = fDirection1->Menu();
for (int i = 0; i < 2; ++i)
menu->ItemAt(i)->SetMarked(i == (int)boolean);
}
if (msg.FindBool("direction2", &boolean) == B_OK) {
BMenu* menu = fDirection2->Menu();
for (int i = 0; i < 2; ++i)
menu->ItemAt(i)->SetMarked(i == (int)boolean);
}
}
void CPreferences::LoadPreferences()
{
_preferences_heading = "Preferences";
InitDefaults();
ReadPreferences();
}
int main( int argc, char *argv[] )
#endif
{
#ifdef WIN32
if (IsDebuggerPresent())
{
// turn on floating-point exceptions
unsigned int prev;
_controlfp_s(&prev, 0, /*_EM_ZERODIVIDE|*/_EM_INVALID);
// enable debug heap in a debug build
_CrtSetDbgFlag( _CRTDBG_ALLOC_MEM_DF|_CRTDBG_CHECK_EVERY_1024_DF|_CRTDBG_CHECK_CRT_DF|_CRTDBG_LEAK_CHECK_DF );
_CrtSetReportMode(_CRT_WARN, _CRTDBG_MODE_FILE | _CRTDBG_MODE_DEBUG);
_CrtSetReportFile(_CRT_WARN, _CRTDBG_FILE_STDOUT);
// default to output debug
DEBUGPRINT_OUTPUTDEBUG = true;
}
#endif
// read preferences
ReadPreferences("preferences.xml");
#if !defined(USE_SDL) && defined(WIN32)
int argc = 1;
char *argv[64] = { NULL };
int argsize = strlen(lpCmdLine) + 1;
char *argdata = static_cast<char *>(_alloca(argsize));
memcpy(argdata, lpCmdLine, argsize);
{
for (char *ptr = strtok(argdata, " \t"); ptr != NULL; ptr = strtok(NULL, " \t"))
{
argv[argc++] = ptr;
}
}
#endif
// process command-line arguments
for (int i = 1; i < argc; ++i)
{
// if the argument is a command...
if (argv[i][0] == '-' || argv[i][0] == '/')
{
// get command hash
unsigned int command = Hash(argv[i]+1);
// scan for next command
int count = 0;
for (int j = i+1; j < argc; j++)
{
if (argv[j][0] == '-' || argv[j][0] == '/')
{
break;
}
++count;
}
ProcessCommand(command, argv+i+1, count);
i += count;
}
}
// initialize
if( !Init() )
return 1;
// run game state machine
while (GameStateUpdate());
// clean up
Done();
// done
return 0;
}
QtStyleManager::QtStyleManager()
{
AddDefaultStyle();
ReadPreferences();
}
int main( int argc, char *argv[] )
{
#ifdef __HYPHYMPI__
int rank,
size;
MPI_Init (&argc, &argv);
MPI_Comm_rank(MPI_COMM_WORLD, &rank);
MPI_Comm_size(MPI_COMM_WORLD, &size);
_hy_mpi_node_rank = rank;
setParameter (mpiNodeID, (_Parameter)rank);
setParameter (mpiNodeCount, (_Parameter)size);
if (rank == 0)
#endif
gtk_init (&argc, &argv);
/* set up globals */
char curWd[4096];
getcwd (curWd,4096);
_String baseDir (curWd);
baseDir=baseDir&'/';
pathNames&& &baseDir;
baseDirectory = baseDir;
for (long i=1; i<argc;i++)
{
_String thisArg (argv[i]);
if (thisArg.beginswith ("BASEPATH="))
{
baseDirectory = thisArg.Cut(9,-1);
if (baseDirectory.sLength)
{
if (baseDirectory.sData[baseDirectory.sLength-1]!='/')
baseDirectory = baseDirectory&"/";
}
}
else
if (thisArg.beginswith ("USEPATH="))
{
_String baseArgDir (thisArg,8,-1);
errorFileName = baseArgDir & errorFileName;
messageFileName = baseArgDir & messageFileName;
pathNames.Delete (0);
pathNames&& &baseDir;
}
else
if (thisArg.beginswith ("CPU="))
{
#ifdef __MP__
_String cpus = thisArg.Cut(4,-1);
systemCPUCount = cpus.toNum();
if (systemCPUCount<1)
systemCPUCount = 1;
#ifdef __MP2__
pthread_setconcurrency (systemCPUCount+1);
#endif
#endif
}
#ifdef __HYPHYMPI__
else
if (thisArg == _String("MPIOPTIMIZER"))
{
mpiParallelOptimizer = true;
setParameter (mpiNodeCount, 0.0);
}
else
if (thisArg == _String("MPIPARTITIONS"))
{
mpiPartitionOptimizer = true;
setParameter (mpiNodeCount, 0.0);
}
#endif
}
#ifdef __HYPHYMPI__
if (rank == 0)
#endif
{
baseDir = baseDirectory & "GTKResources";
_List scanRes;
ScanDirectoryForFileNames(baseDir,scanRes,false);
if (scanRes.lLength == 0)
{
GtkWidget * noRez = gtk_message_dialog_new (NULL, GTK_DIALOG_MODAL, GTK_MESSAGE_ERROR, GTK_BUTTONS_OK, "HYPHY_GTK was unable to find a required GTKResources directory in %s. Please use BASEPATH= command line option to specify where the installation directory of HyPhy can be found.", baseDirectory.sData);
gtk_dialog_run (GTK_DIALOG (noRez));
gtk_widget_destroy (noRez);
return 1;
}
_String rcPath = baseDir & "/theme/theme.rc";
//printf ("Loading res files from %s\n", rcPath.sData);
gtk_rc_parse (rcPath.sData);
}
GlobalStartup();
#ifdef __HYPHYMPI__
if (rank == 0)
{
#endif
GdkDisplay * defDisplay = gdk_screen_get_display (gdk_screen_get_default());
hSizeCursor = gdk_cursor_new_for_display (defDisplay,GDK_SB_H_DOUBLE_ARROW);
pickUpCursor = gdk_cursor_new_for_display (defDisplay,GDK_TARGET);
dropOffCursor = gdk_cursor_new_for_display (defDisplay,GDK_TCROSS);
screenPContext = gdk_pango_context_get_for_screen (gdk_screen_get_default());
tablePDMenuIcon = (GdkPixbuf*)ProcureIconResource(4020);
/*{
GdkScreen * defD = gdk_screen_get_default();
fontConversionFactor = 72.27 / (gdk_screen_get_height (defD) *25.4 / gdk_screen_get_height_mm(defD));
printf ("Pango conversion factor computed at: %g\n", fontConversionFactor);
}*/
ReadInTemplateFiles ();
hyphyConsoleWindow = new _HYConsoleWindow ("HYPHY Console");
ReadPreferences ();
SetStatusLine ("None","Idle","00:00:00");
while (gtk_events_pending())
gtk_main_iteration();
SetPreferences ();
ReadGeneticCodes ();
ReadModelTemplates ();
ReadTreeProcessors ();
MoveConsoleWindow (consolePositionRectangle);
StringToConsole (hyphyCiteString);
hyphyConsoleWindow->BringToFront();
#ifdef __HYPHYMPI__
{
char statBuffer[1024];
sprintf (statBuffer,"MPI version of HyPhy running on %d nodes (a master and %d compute nodes) in %s mode\n",
size,
size-1,
mpiPartitionOptimizer?"partition":(mpiParallelOptimizer?"rate heterogeneity":"normal"));
BufferToConsole (statBuffer);
}
#endif
g_timeout_add (100,GlobalQueueTimer,nil);
g_timeout_add (1000,progressTimerFunction,nil);
gtk_main ();
WritePreferences();
#ifdef __HYPHYMPI__
}
else // slave node
{
if (mpiParallelOptimizer || mpiPartitionOptimizer)
mpiOptimizerLoop (rank, size);
else
mpiNormalLoop (rank, size, baseDir);
}
#endif
GlobalShutdown();
return 0;
}
void CPreferences::LoadPreferences()
{
_preferences_heading = "Preferences";
ReadPreferences();
}