File: spelling-errors.patch

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Description: Fix some spelling errors.
Author: Yavor Doganov <yavor@gnu.org>
Forwarded: no
Last-Update: 2020-06-16
---

--- adun.app.orig/Kernel/AdunKernel/CoreAdditions/AdunFileSystemSimulationStorage.m
+++ adun.app/Kernel/AdunKernel/CoreAdditions/AdunFileSystemSimulationStorage.m
@@ -60,7 +60,7 @@
 		
 		NSWarnLog(@"Only %d bytes in archive",
 			  [trajectoryData length]);
-		NSWarnLog(@"Either an error occured during the simulation which generated this data or no coordinate data was collected");
+		NSWarnLog(@"Either an error occurred during the simulation which generated this data or no coordinate data was collected");
 		//If there was some corrupted data in the file delete it
 		//trajectoryHandle is always created before this method is called.
 		if([trajectoryData length] != 0)
@@ -471,7 +471,7 @@
 {
 	if(isTemporary)
 		if(![self destroyStoredData])
-			NSWarnLog(@"Could not destory temporary storage at %@",
+			NSWarnLog(@"Could not destroy temporary storage at %@",
 					storagePath);
 
 	[trajectoryHandle closeFile];
--- adun.app.orig/Kernel/AdunKernel/CoreAdditions/AdunIOManager.m
+++ adun.app/Kernel/AdunKernel/CoreAdditions/AdunIOManager.m
@@ -374,7 +374,7 @@
 		{
 			*error = AdCreateError(AdunCoreErrorDomain,
 				AdCoreArgumentsError,
-				@"Invalid arguement detected",
+				@"Invalid argument detected",
 				[NSString stringWithFormat: @"Invalid value for RunMode supplies - %@", value],
 				@"Type 'AdunCore' without arguments to see the valid values");
 			return NO;	
@@ -404,9 +404,9 @@
 		{
 			*error = AdCreateError(AdunCoreErrorDomain,
 				AdCoreArgumentsError,
-				@"Missing required arguement",
-			 	@"Template arguement required when running from command line",
-				@"Type 'AdunCore' for arguement help.");
+				@"Missing required argument",
+			 	@"Template argument required when running from command line",
+				@"Type 'AdunCore' for argument help.");
 			return NO;	
 		}	
 	}
@@ -451,7 +451,7 @@
 	//Only create the log files if requested to do so.
 	if([userDefaults boolForKey: @"CreateLogFiles"] == NO)
 	{
-		GSPrintf(stdout, @"Log file creation supressed\n");
+		GSPrintf(stdout, @"Log file creation suppressed\n");
 		return YES;
 	}	
 	
@@ -1092,7 +1092,7 @@
 	SEL commandSelector;
 	id result;
 
-	NSDebugLLog(@"Execute", @"Recieved %@", commandDict);
+	NSDebugLLog(@"Execute", @"Received %@", commandDict);
 
 	if((command = [commandDict objectForKey: @"command"]) == nil)
 		[NSException raise: NSInvalidArgumentException
--- adun.app.orig/Kernel/AdunKernel/CoreAdditions/AdunSimulationData.m
+++ adun.app/Kernel/AdunKernel/CoreAdditions/AdunSimulationData.m
@@ -156,7 +156,7 @@
 	//check the data store is accesible
 	if(![dataStorage isAccessible])
 	{
-		NSWarnLog(@"Simulation data is not accesible raising exception");
+		NSWarnLog(@"Simulation data is not accessible raising exception");
 		error = [dataStorage accessError];
 		exception = [NSException exceptionWithName: NSInternalInconsistencyException
 				reason: @"Unable to access data storage"
@@ -443,7 +443,7 @@
 	end = NSMaxRange(range);
 	if(end > (int)[frames numberOfRows])
 		[NSException raise: NSInvalidArgumentException
-			format: @"Specfied range (%d,%d) falls outside the available frames %d",
+			format: @"Specified range (%d,%d) falls outside the available frames %d",
 			range.location, range.length, [frames numberOfRows]];
 	
 	NSDebugLLog(@"AdSimulationData", 
@@ -456,7 +456,7 @@
 		if(NSLocationInRange(value, range))
 		{
 			NSDebugLLog(@"AdSimulationData", 
-				@"Topology checkpoint %d is in the specfied range", i);
+				@"Topology checkpoint %d is in the specified range", i);
 			//This checkpoint is in the range.
 			//Now we must check it contains the required data.
 			dataSource = [self dataSourceForSystem: system
@@ -748,7 +748,7 @@
 - (void) openFrame: (NSNumber*) value
 {
 	NSDebugLLog(@"AdSimulationDataWriter",
-		@"Recieved open frame request");
+		@"Received open frame request");
 	NSDebugLLog(@"AdSimulationDataWriter",
 		@"Frame open? - %d", frameOpen);
 	NSDebugLLog(@"AdSimulationDataWriter",
--- adun.app.orig/Kernel/AdunKernel/CoreAdditions/AdunTemplateProcessor.m
+++ adun.app/Kernel/AdunKernel/CoreAdditions/AdunTemplateProcessor.m
@@ -214,7 +214,7 @@
 		}
 		[externalObjects setObject: object forKey: objectName];
 		NSDebugLLog(@"AdTemplateProcessor", 
-			@"Object succesfully processed");
+			@"Object successfully processed");
 	}
 	//Add all external objects to buildDict
 	[buildDict addEntriesFromDictionary: externalObjects];	
@@ -280,7 +280,7 @@
 	testTemplate = *objectPointer;
 
 	NSDebugLLog(@"AdTemplateProcessor",
-		@"Begining validation");
+		@"Beginning validation");
 
 	if(testTemplate == nil)
 	{
@@ -443,7 +443,7 @@
 			{
 				*error = AdCreateError(AdunCoreErrorDomain,
 						AdCoreInvalidTemplateError,
-						@"Invalid termplate.",
+						@"Invalid template.",
 						[NSString stringWithFormat: @"Invalid object used for class name - %@", className],
 						@"All class names must be strings.");
 			}	
@@ -454,7 +454,7 @@
 
 
 	NSDebugLLog(@"AdTemplateProcessor",
-		@"Template succesfully validated");
+		@"Template successfully validated");
 
 	return YES;
 }
@@ -768,7 +768,7 @@
 		if([object validateValue: &keyObject forKey: key error: NULL])
 		{
 			NSDebugLLog(@"AdTemplateProcessor", 
-				@"Validation succesful - Adding to properies dictionary");
+				@"Validation successful - Adding to properties dictionary");
 			[properties setObject: keyObject forKey: key];
 		}	
 		else
--- adun.app.orig/Kernel/AdunKernel/CoreAdditions/AdunTrajectory.m
+++ adun.app/Kernel/AdunKernel/CoreAdditions/AdunTrajectory.m
@@ -100,7 +100,7 @@
 	//check the data store is accesible
 	if(![dataStorage isAccessible])
 	{
-		NSWarnLog(@"Simulation data is not accesible raising exception");
+		NSWarnLog(@"Simulation data is not accessible raising exception");
 		error = [dataStorage accessError];
 		exception = [NSException exceptionWithName: NSInternalInconsistencyException
 						    reason: @"Unable to access data storage"
@@ -494,7 +494,7 @@
 	end = NSMaxRange(range);
 	if(end > (int)[frames numberOfRows])
 		[NSException raise: NSInvalidArgumentException
-			    format: @"Specfied range (%d,%d) falls outside the available frames %d",
+			    format: @"Specified range (%d,%d) falls outside the available frames %d",
 		 range.location, range.length, [frames numberOfRows]];
 	
 	NSDebugLLog(@"AdTrajectory", 
@@ -507,7 +507,7 @@
 		if(NSLocationInRange(value, range))
 		{
 			NSDebugLLog(@"AdTrajectory", 
-				    @"Topology checkpoint %d is in the specfied range", i);
+				    @"Topology checkpoint %d is in the specified range", i);
 			//This checkpoint is in the range.
 			//Now we must check it contains the required data.
 			dataSource = [self dataSourceForSystem: system
@@ -785,7 +785,7 @@
 - (void) openFrame: (NSNumber*) value
 {
 	NSDebugLLog(@"AdMutableTrajectory",
-		    @"Recieved open frame request");
+		    @"Received open frame request");
 	NSDebugLLog(@"AdMutableTrajectory",
 		    @"Frame open? - %d", frameOpen);
 	NSDebugLLog(@"AdMutableTrajectory",
--- adun.app.orig/Kernel/AdunKernel/CoreAdditions/Commands/AdEndSimulationCommand.m
+++ adun.app/Kernel/AdunKernel/CoreAdditions/Commands/AdEndSimulationCommand.m
@@ -30,9 +30,9 @@
 	//the controllers main loop to exit
 	//and everything to terminate gracefully
 	
-	GSPrintf(stderr, @"Recieved end simulation command. Implementing\n");
+	GSPrintf(stderr, @"Received end simulation command. Implementing\n");
 	[controller stopSimulation: self];
-	GSPrintf(stderr, @"Simulation stopped. Begining core clean up.\n");
+	GSPrintf(stderr, @"Simulation stopped. Beginning core clean up.\n");
 
 	return nil;
 }
--- adun.app.orig/Kernel/AdunKernel/Framework/AdunAmberForceField.m
+++ adun.app/Kernel/AdunKernel/Framework/AdunAmberForceField.m
@@ -281,7 +281,7 @@
 	forces = forceMatrix->matrix;
 
 	NSDebugLLog(@"SimulationLoop",
-		@"Begining force calculation for %@", 
+		@"Beginning force calculation for %@",
 		[system systemName]);
 
 	if(nonbonded && nonbondedTerm != nil)
--- adun.app.orig/Kernel/AdunKernel/Framework/AdunCharmmForceField.m
+++ adun.app/Kernel/AdunKernel/Framework/AdunCharmmForceField.m
@@ -373,7 +373,7 @@
 	forces = forceMatrix->matrix;
 
 	NSDebugLLog(@"SimulationLoop",
-		@"Begining force calculation for %@", 
+		@"Beginning force calculation for %@",
 		[system systemName]);
 
 	if(nonbonded && nonbondedTerm != nil)
--- adun.app.orig/Kernel/AdunKernel/Framework/AdunConfigurationGenerator.m
+++ adun.app/Kernel/AdunKernel/Framework/AdunConfigurationGenerator.m
@@ -65,7 +65,7 @@
 		[errorInfo setObject: @"This error indicates infinities entering the simulation.\n\
 This is likely an indication of the simulation exploding due to excessive forces.\nUnrelaxed starting structures are\
 a possible explanation.\nIn this case it is recommended you run an initial simulation with a smaller time step to relax\
-the molecule.\nIt is also recommened that you examine the data collected so far which will provide more information on\
+the molecule.\nIt is also recommended that you examine the data collected so far which will provide more information on\
 the cause.\n)"
 			forKey: @"NSRecoverySuggestionKey"];
 		error = [NSError errorWithDomain: AdunKernelErrorDomain
@@ -108,10 +108,10 @@
 	if(raised & FE_UNDERFLOW)
 	{
 		NSWarnLog(@"Detected an underflow exception.");
-		NSWarnLog(@"This could be the result of extremly small forces and/or energies being calculated.");
+		NSWarnLog(@"This could be the result of extremely small forces and/or energies being calculated.");
 		NSWarnLog(@"Such events are not uncommon but will lead to a loss of precision.");
 		NSWarnLog(@"It is possible that underflows could lead to zeros entering the calculation and\
-'divide by zero' errors as a result\n. However these will be caught independantly if they occur");
+'divide by zero' errors as a result\n. However these will be caught independently if they occur");
 		NSWarnLog(@"Continuing simulation");
 		feclearexcept(FE_ALL_EXCEPT);
 	}
--- adun.app.orig/Kernel/AdunKernel/Framework/AdunDataMatrix.m
+++ adun.app/Kernel/AdunKernel/Framework/AdunDataMatrix.m
@@ -2244,7 +2244,7 @@
 {
 	if(columnIndex >= numberOfColumns)
 		[NSException raise: NSInvalidArgumentException
-			format: @"Column doesnt exist"];
+			format: @"Column doesn't exist"];
 			
 	[columnHeaders replaceObjectAtIndex: columnIndex
 		withObject: string];
--- adun.app.orig/Kernel/AdunKernel/Framework/AdunDynamics.m
+++ adun.app/Kernel/AdunKernel/Framework/AdunDynamics.m
@@ -77,7 +77,7 @@
 
 - (void) _retrieveCoordinates
 {
-	NSDebugLLog(@"AdDynamics", @"Accesing data source for coordinates");
+	NSDebugLLog(@"AdDynamics", @"Accessing data source for coordinates");
 	coordinates = [[dataSource elementConfiguration]
 			cRepresentation];
 	numberOfElements = coordinates->no_rows;
@@ -87,7 +87,7 @@
 
 - (void) _retrieveAtomTypes
 {
-	NSDebugLLog(@"AdDynamics", @"Accesing data source for elementTypes");
+	NSDebugLLog(@"AdDynamics", @"Accessing data source for elementTypes");
 	elementTypes = [[[dataSource elementProperties] 
 			columnWithHeader: @"ForceFieldName"] copy];
 }
--- adun.app.orig/Kernel/AdunKernel/Framework/AdunEnzymixForceField.m
+++ adun.app/Kernel/AdunKernel/Framework/AdunEnzymixForceField.m
@@ -274,7 +274,7 @@
 	forces = forceMatrix->matrix;
 
 	NSDebugLLog(@"SimulationLoop",
-		@"Begining force calculation for %@", 
+		@"Beginning force calculation for %@",
 		[system systemName]);
 
 	if(nonbonded && nonbondedTerm != nil)
--- adun.app.orig/Kernel/AdunKernel/Framework/AdunGRFNonbondedTerm.m
+++ adun.app/Kernel/AdunKernel/Framework/AdunGRFNonbondedTerm.m
@@ -152,7 +152,7 @@
 	b1 += 1;
 	b1 /= pow(cutoff,3);
 
-	NSDebugLLog(@"GRFNonbondedCalculator", @"B0 initial value %lf. B1 inital value %lf", b0, b1);
+	NSDebugLLog(@"GRFNonbondedCalculator", @"B0 initial value %lf. B1 initial value %lf", b0, b1);
 }
 
 - (void) _determineLJType
@@ -284,7 +284,7 @@
 			if(![self _checkMatrix: elementProperties containsParametersForType: lennardJonesType])
 			{
 				[self release];
-				NSWarnLog(@"Requried properties not present in - %@", [elementProperties columnHeaders]);
+				NSWarnLog(@"Required properties not present in - %@", [elementProperties columnHeaders]);
 				[NSException raise: NSInvalidArgumentException
 					format: @"Properites matrix does not contain correct parameters for LJ type %@"
 					,lennardJonesType];
--- adun.app.orig/Kernel/AdunKernel/Framework/AdunMatrixStructureCoder.m
+++ adun.app/Kernel/AdunKernel/Framework/AdunMatrixStructureCoder.m
@@ -121,7 +121,7 @@
 #ifdef GNUSTEP
 		type = [self _gnustep64Fix: type];
 #endif		
-		NSDebugLLog(@"AdMatrixStructureCoder", @"Key type encoding - %@. Checking aginst %@ and %@",
+		NSDebugLLog(@"AdMatrixStructureCoder", @"Key type encoding - %@. Checking against %@ and %@",
 			type, AdMatrixPointerTypeEncoding, GSLMatrixPointerTypeEncoding);
 		
 		if([type isEqual: AdMatrixPointerTypeEncoding] 
@@ -183,7 +183,7 @@
 		initWithCString: [signature methodReturnType] 
 		encoding: NSUTF8StringEncoding];
 	
-	NSDebugLLog(@"AdMatrixStructureCoder", @"Key type encoding - %@. Checking aginst %@ and %@",
+	NSDebugLLog(@"AdMatrixStructureCoder", @"Key type encoding - %@. Checking against %@ and %@",
 		    type, AdMatrixPointerTypeEncoding, GSLMatrixPointerTypeEncoding);
 		    	
 	if([type isEqual: AdMatrixPointerTypeEncoding])
--- adun.app.orig/Kernel/AdunKernel/Framework/AdunMinimiser.m
+++ adun.app/Kernel/AdunKernel/Framework/AdunMinimiser.m
@@ -299,7 +299,7 @@
 		if(status) 
 		{
 			GSPrintf(stdout, @"Error during iteration\n");
-			GSPrintf(stdout, @"Decription - %s\n", gsl_strerror(status));
+			GSPrintf(stdout, @"Description - %s\n", gsl_strerror(status));
 			NSWarnLog(@"Error during iteration");
 			NSWarnLog(@"Description - %s", gsl_strerror(status));
 			break;
--- adun.app.orig/Kernel/AdunKernel/Framework/AdunMolecularMechanicsForceField.m
+++ adun.app/Kernel/AdunKernel/Framework/AdunMolecularMechanicsForceField.m
@@ -791,7 +791,7 @@
 	AdDataMatrix *groups, *parameters;
 
 	NSDebugLLog(@"AdMolecularMechanicsForceField", 
-		@"Begining system initialisation");
+		@"Beginning system initialisation");
 
 	no_of_atoms = [system numberOfElements];
 
--- adun.app.orig/Kernel/AdunKernel/Framework/AdunPureNonbondedTerm.m
+++ adun.app/Kernel/AdunKernel/Framework/AdunPureNonbondedTerm.m
@@ -256,7 +256,7 @@
 			if(![self _checkMatrix: elementProperties containsParametersForType: lennardJonesType])
 			{
 				[self release];
-				NSWarnLog(@"Requried properties not present in - %@", [elementProperties columnHeaders]);
+				NSWarnLog(@"Required properties not present in - %@", [elementProperties columnHeaders]);
 				[NSException raise: NSInvalidArgumentException
 					format: @"Properites matrix does not contain correct parameters for LJ type %@"
 					,lennardJonesType];
--- adun.app.orig/Kernel/AdunKernel/Framework/AdunShiftedNonbondedTerm.m
+++ adun.app/Kernel/AdunKernel/Framework/AdunShiftedNonbondedTerm.m
@@ -261,7 +261,7 @@
 			if(![self _checkMatrix: elementProperties containsParametersForType: lennardJonesType])
 			{
 				[self release];
-				NSWarnLog(@"Requried properties not present in - %@", [elementProperties columnHeaders]);
+				NSWarnLog(@"Required properties not present in - %@", [elementProperties columnHeaders]);
 				[NSException raise: NSInvalidArgumentException
 					format: @"Properites matrix does not contain correct parameters for LJ type %@"
 					,lennardJonesType];
--- adun.app.orig/Kernel/AdunKernel/Framework/AdunSmoothedGBTerm.m
+++ adun.app/Kernel/AdunKernel/Framework/AdunSmoothedGBTerm.m
@@ -245,7 +245,7 @@
 	NSDebugLLog(@"AdSmoothedGBTerm", @"Updating Born Radii and self energies");
 	//FIXME: Possibly can combine this into Derivative calc
 	[self _calculateBornRadiiAndCFATerms];
-	NSDebugLLog(@"AdSmoothedGBTerm", @"Updateing SASA and non-polar energy");
+	NSDebugLLog(@"AdSmoothedGBTerm", @"Updating SASA and non-polar energy");
 	[self _calculateSASA];
 	NSDebugLLog(@"AdSmoothedGBTerm", @"Done");
 }
--- adun.app.orig/Kernel/Base/AdHarmonicBond.c
+++ adun.app/Kernel/Base/AdHarmonicBond.c
@@ -37,7 +37,7 @@
 {
 	fprintf(stderr, "\nHarmonic bond debug on\n");
 	fprintf(stderr, "Energy Info - Atom one, Atom two");
-	fprintf(stderr, " Bond constant, Equilibrium Separation, Calulated Separation, Cumulative Potential\n\n");
+	fprintf(stderr, " Bond constant, Equilibrium Separation, Calculated Separation, Cumulative Potential\n\n");
 }
 
 void AdHarmonicBondEnergy(double* bond, double **coordinates, double* bnd_pot)
--- adun.app.orig/Kernel/Base/AdHarmonicImproperTorsion.c
+++ adun.app/Kernel/Base/AdHarmonicImproperTorsion.c
@@ -31,7 +31,7 @@
 {
 	fprintf(stderr, "\nHarmonic improper torsion debug on\n");
 	fprintf(stderr, "Energy Info - Atom one, Atom two, Atom three, Atom four");
-	fprintf(stderr, " Torsion constant, Equilibrium Angle, Calulated Angle, Cumulative Potential\n\n");
+	fprintf(stderr, " Torsion constant, Equilibrium Angle, Calculated Angle, Cumulative Potential\n\n");
 }
 
 double AdCalculateImproperTorsionEnergy(double angle, double equilibriumAngle, double torsionConstant)
--- adun.app.orig/Kernel/main.m
+++ adun.app/Kernel/main.m
@@ -48,7 +48,7 @@
 	GSPrintf(stdout, @"\t%25@%-@\n", @"", @"The main thread then enters a run loop and can serve external requests.");
 	GSPrintf(stdout, @"\t%25@%-@\n", @"", @"If NO then interaction is not possible with the simulation.");
 	GSPrintf(stdout, @"\t%25@%-@\n", @"", @"Default value: NO\n");
-	GSPrintf(stdout, @"\t%-25@%-@\n", @"-ConnectToAdServer", @"If YES the simulation registers its existance with a local AdServer daemon.");
+	GSPrintf(stdout, @"\t%-25@%-@\n", @"-ConnectToAdServer", @"If YES the simulation registers its existence with a local AdServer daemon.");
 	GSPrintf(stdout, @"\t%25@%-@\n", @"", @"This allows the simulation to be viewed and controlled from the Adun GUI.");
 	GSPrintf(stdout, @"\t%25@%-@\n", @"", @"Default value: NO\n");
 	GSPrintf(stdout, @"\n  Template Optional Arguments: (Only compatible with -Template)\n");
@@ -130,9 +130,9 @@
 	GSPrintf(stdout, @"Floating Point Parameters for DOUBLE type.\n\n");
 	GSPrintf(stdout, @"\tMantissa precision (base 2)  : %d.\n", DBL_MANT_DIG); 
 	GSPrintf(stdout, @"\tMantissa precision (base 10) : %d.\n", DBL_DIG); 
-	GSPrintf(stdout, @"\tMinumum exponent: %d -  Corresponds to %d in base 10.\n", DBL_MIN_EXP, DBL_MIN_10_EXP);
+	GSPrintf(stdout, @"\tMinimum exponent: %d -  Corresponds to %d in base 10.\n", DBL_MIN_EXP, DBL_MIN_10_EXP);
 	GSPrintf(stdout, @"\tMaximum exponent: %d -  Corresponds to %d in base 10.\n", DBL_MAX_EXP, DBL_MAX_10_EXP);
-	GSPrintf(stdout, @"\tMinumum floating point number %E\n", DBL_MIN);
+	GSPrintf(stdout, @"\tMinimum floating point number %E\n", DBL_MIN);
 	GSPrintf(stdout, @"\tMaximum floating point number %E\n", DBL_MAX);
 	GSPrintf(stdout, @"\tEpsilon: %E.\n", DBL_EPSILON);
 	GSPrintf(stdout, @"\tEpsilon is the smallest number such that '1.0 + epsilon != 1.0' is true.\n\n");
--- adun.app.orig/UL/AdunServer/AdServer.m
+++ adun.app/UL/AdunServer/AdServer.m
@@ -319,7 +319,7 @@
 	id task;
 	NSMutableDictionary* userInfo;
 
-	NSDebugLLog(@"AdunServer", @"Recieved a start simulation message");
+	NSDebugLLog(@"AdunServer", @"Received a start simulation message");
 	NSDebugLLog(@"AdunServer", @"Process Object is %@", [process description]);
 	NSDebugLLog(@"AdunServer", @"Found Adun Core Executable at %@", adunCorePath);
 	NSDebugLLog(@"AdunServer", @"Process arguments %@", [process arguments]);
@@ -350,7 +350,7 @@
 	{
 		userInfo = [NSMutableDictionary dictionaryWithCapacity: 1];
 		[userInfo setObject: 
-			[NSString stringWithFormat: @"Unable to lauch simulation - %@", [localException reason]]
+			[NSString stringWithFormat: @"Unable to launch simulation - %@", [localException reason]]
 			forKey: NSLocalizedDescriptionKey];
 		[process setProcessStatus: @"Error"];		
 
@@ -452,7 +452,7 @@
 	id interface;
 	id returnVal;
 
-	NSDebugLLog(@"AdunServer", @"Recieved command request for process %@", process);
+	NSDebugLLog(@"AdunServer", @"Received command request for process %@", process);
 	pid = [NSNumber numberWithInt: [process processIdentifier]];
 	interface = [interfaces objectForKey:  pid];
 	if(interface == nil)
--- adun.app.orig/UL/ULAnalyserGnuplotExtensions.m
+++ adun.app/UL/ULAnalyserGnuplotExtensions.m
@@ -69,7 +69,7 @@
 				@"Unable to launch gnuplot from %@\n", [gnuplot launchPath]];
 			NSWarnLog(@"%@", errorString);	
 			[errorString appendString:
-				@"Either gnuplot is not installed or the exectuable is in another location\n"];
+				@"Either gnuplot is not installed or the executable is in another location\n"];
 			[errorString appendString:
 				@"If the latter specify the directory containing the exectutable using"];
 			[errorString appendString:
--- adun.app.orig/UL/ULFramework/PDBConfigurationBuilder.m
+++ adun.app/UL/ULFramework/PDBConfigurationBuilder.m
@@ -137,7 +137,7 @@
 	NSString* currentResidue;
 	NSMutableArray* residueAtoms, *newAtomNames;
 
-	[buildString appendString: @"\t\tChecking hydrogen naming and correcting if neccessary\n"];
+	[buildString appendString: @"\t\tChecking hydrogen naming and correcting if necessary\n"];
 	
 	newAtomNames = [NSMutableArray array];
 	startAtom = endAtom = 0;
@@ -613,7 +613,7 @@
 	else if([[[path pathExtension] lowercaseString] isEqual: @"pdb"])
 	{
 		//\note change this to structureForCurrentMolecule
-		NSDebugLLog(@"PDBConfigurationBuilder", @"Creating stucture for %@", path);
+		NSDebugLLog(@"PDBConfigurationBuilder", @"Creating structure for %@", path);
 		[structure release];
 		structure = [self _structureObjectForPDB: path];
 		[structure retain];
@@ -921,7 +921,7 @@
 	MTAtom* atom;
 	
 	[outputString setString: @""];
-	[outputString appendString: @"Modifing structure for Enzymix\n\n"];
+	[outputString appendString: @"Modifying structure for Enzymix\n\n"];
 	
 	chainEnum = [aStructure allChains];
 	while((chain = [chainEnum nextObject]))
@@ -1211,7 +1211,7 @@
 	MTAtom* atom;
 	
 	[outputString setString: @""];
-	[outputString appendString: @"Modifing structure for Charmm\n\n"];
+	[outputString appendString: @"Modifying structure for Charmm\n\n"];
 	
 	chainEnum = [aStructure allChains];
 	while((chain = [chainEnum nextObject]))
--- adun.app.orig/UL/ULFramework/ULAnalysisManager.m
+++ adun.app/UL/ULFramework/ULAnalysisManager.m
@@ -58,7 +58,7 @@
 
 	NSDebugLLog(@"ULAnalysisManager", @"Plugin Bundle is %@", pluginBundle);
 	NSDebugLLog(@"ULAnalysisManager", 
-		@"Dynamicaly Loading Plugin (if neccessary) from Directory: %@.\n\n",
+		@"Dynamicaly Loading Plugin (if necessary) from Directory: %@.\n\n",
 		[pluginBundle bundlePath]);
 
 	if((pluginClass = [pluginBundle principalClass]))
@@ -484,7 +484,7 @@
 		}
 
 		
-		NSDebugLLog(@"ULAnalysisManager", @"Mininum required number %@ maximum number %@", 
+		NSDebugLLog(@"ULAnalysisManager", @"Minimum required number %@ maximum number %@",
 			minimumNumber, 
 			maximumNumber);
 		
@@ -611,7 +611,7 @@
 		pluginClass = [self loadBundle: name fromDir: directory];	
 		if(pluginClass == nil)
 			[NSException raise: NSInvalidArgumentException
-				    format: @"Cannot load plugin %@ - Doesnt exist",
+				    format: @"Cannot load plugin %@ - Doesn't exist",
 			 name];
 		
 		holder = [pluginClass new];
@@ -627,7 +627,7 @@
 			[currentPluginName release];
 			currentPluginName = nil;
 			currentPlugin = nil;
-			NSWarnLog(@"Plugin doesnt not conform to ULAnalysisPlugin protocol");
+			NSWarnLog(@"Plugin does not conform to ULAnalysisPlugin protocol");
 			[NSException raise: NSInternalInconsistencyException 
 				    format: @"Specified plugins (%@) principal class does not conform to ULAnalysisPlugin protocol", 
 			 [pluginClass description]];
--- adun.app.orig/UL/ULFramework/ULFileSystemDatabaseBackend.m
+++ adun.app/UL/ULFramework/ULFileSystemDatabaseBackend.m
@@ -483,7 +483,7 @@
 	{
 		//We may need to use this message so create it now
 		//for convenience
-		string = @"Cannot perfrom read operation";
+		string = @"Cannot perform read operation";
 		if(connectionState != ULDatabaseClientConnected)
 		{
 			operationError = AdCreateError(ULFrameworkErrorDomain,
@@ -510,7 +510,7 @@
 	{
 		//We may need to use this message so create it now
 		//for convenience
-		string = @"Cannot perfrom write operation";
+		string = @"Cannot perform write operation";
 		if(connectionState != ULDatabaseClientConnected)
 		{
 			operationError = AdCreateError(ULFrameworkErrorDomain,
--- adun.app.orig/UL/ULFramework/ULIOManager.m
+++ adun.app/UL/ULFramework/ULIOManager.m
@@ -264,7 +264,7 @@
 	
 	if(![fileManager fileExistsAtPath: dir isDirectory: &isDir])
 	{
-		reason = [NSString stringWithFormat: @"The specfied directory (%@) does not exist", dir];
+		reason = [NSString stringWithFormat: @"The specified directory (%@) does not exist", dir];
 		[userInfo setObject: reason forKey: NSLocalizedDescriptionKey];
 		*error = [NSError errorWithDomain: @"ULErrorDomain"
 				code: 1
--- adun.app.orig/UL/ULFramework/ULInteractionsBuilder.m
+++ adun.app/UL/ULFramework/ULInteractionsBuilder.m
@@ -1299,7 +1299,7 @@
 	NSMutableDictionary* userInfo;
 
 	[errorString insertString: @" and have been omitted.\n" atIndex: 0];
-	[errorString insertString: @"The following interactions were missing paramters\n"
+	[errorString insertString: @"The following interactions were missing parameters\n"
 		atIndex: 0];
 
 	userInfo = [NSMutableDictionary dictionary];
--- adun.app.orig/UL/ULFramework/ULMerger.m
+++ adun.app/UL/ULFramework/ULMerger.m
@@ -174,7 +174,7 @@
 	frameAtomList = [frame valueForKey:@"AtomNames"];
 	confAtomList = [conf valueForKey:@"AtomNames"];
 
-	[buildString appendString: @"\nBegining merge of expected topology and configuration from the \
+	[buildString appendString: @"\nBeginning merge of expected topology and configuration from the \
 coordinates file.\n"];
 	[buildString appendFormat: @"Expecting %d atoms based on topology.\nThere are %d atoms in the molecule file.\n",
 			[frameAtomList count], [confAtomList count]];
--- adun.app.orig/UL/ULFramework/ULProcess.m
+++ adun.app/UL/ULFramework/ULProcess.m
@@ -208,7 +208,7 @@
 - (void) setControllerResults: (NSArray*) results
 {
 	NSDebugLLog(@"ULProcess", 
-		@"Recieved controller data %@", results);
+		@"Received controller data %@", results);
 
 	[dataSets release];
 	dataSets = [results retain];
@@ -257,7 +257,7 @@
 	NSString* length;
 	NSMutableDictionary* userInfo;
 
-	NSDebugLLog(@"ULProcess", @"Recieved termination message");
+	NSDebugLLog(@"ULProcess", @"Received termination message");
 	
 	isFinished = YES;
 	[self setValue: @"Finished" forKey: @"processStatus"];
--- adun.app.orig/UL/ULFramework/ULServerManager.m
+++ adun.app/UL/ULFramework/ULServerManager.m
@@ -179,7 +179,7 @@
 	if(![knownHosts containsObject: hostname])
 	{
 		[NSException raise: NSInvalidArgumentException
-			    format: @"Cannot close connection to unkown host %@", hostname];
+			    format: @"Cannot close connection to unknown host %@", hostname];
 	}
 	
 	//Check if a connection exists
@@ -448,7 +448,7 @@
 	if(![knownHosts containsObject: hostname])
 	{
 		[NSException raise: NSInvalidArgumentException
-			    format: @"Cannot close connection to unkown host %@", hostname];
+			    format: @"Cannot close connection to unknown host %@", hostname];
 	}
 	
 	//Check if we are connected
--- adun.app.orig/UL/ULFramework/ULSystemController.m
+++ adun.app/UL/ULFramework/ULSystemController.m
@@ -45,7 +45,7 @@
 				forceField: nil];
 	}	
 
-	NSDebugLLog(@"ULSystemController", @"System Controller intialised");
+	NSDebugLLog(@"ULSystemController", @"System Controller initialised");
 
 	return self;
 }
--- adun.app.orig/UL/ULProgressPanel.m
+++ adun.app/UL/ULProgressPanel.m
@@ -194,7 +194,7 @@
 		
 	if(aNumber == nil)
 	{
-		NSWarnLog(@"Progess notification user info does not contain ULProgressOperationCompletedSteps");
+		NSWarnLog(@"Progress notification user info does not contain ULProgressOperationCompletedSteps");
 		aNumber = 0;
 	}		
 	else
@@ -207,7 +207,7 @@
 		
 	if(aNumber == nil)
 	{
-		NSWarnLog(@"Progess notification user info does not contain ULProgressOperationTotalSteps");
+		NSWarnLog(@"Progress notification user info does not contain ULProgressOperationTotalSteps");
 		totalSteps=100;
 	}		
 	else
--- adun.app.orig/UL/ULSystemViewController.m
+++ adun.app/UL/ULSystemViewController.m
@@ -128,13 +128,13 @@
 	{
 		[progressBar setDoubleValue: 0.0];
 		[progressIndicator setStringValue: @"Beginning Build"];
-		NSDebugLLog(@"ULSystemViewController", @"Recieved %@", [aNotification name]);
+		NSDebugLLog(@"ULSystemViewController", @"Received %@", [aNotification name]);
 	}
 	else if([[aNotification name] isEqual: @"ULSystemBuildSectionCompleted"])
 	{
 		[progressBar incrementBy: 25];
 		[progressIndicator setStringValue: [aNotification object]];
-		NSDebugLLog(@"ULSystemViewController", @"Recieved %@", [aNotification name]);
+		NSDebugLLog(@"ULSystemViewController", @"Received %@", [aNotification name]);
 
 		[self _insertString: [aNotification object] fontType: @"Bold"];
 		buildInfo = [NSMutableString stringWithCapacity: 1];
--- adun.app.orig/UL/ViewController.m
+++ adun.app/UL/ViewController.m
@@ -444,7 +444,7 @@
 		NS_HANDLER
 		{
 			NSRunAlertPanel(@"Alert",
-				[NSString stringWithFormat: @"Unable to lauch AdunServer - %@",
+				[NSString stringWithFormat: @"Unable to launch AdunServer - %@",
 					[localException reason]],
 				@"Dismiss", 
 				nil,
--- adun.app.orig/Kernel/AdunKernel/CoreAdditions/AdunCore.m
+++ adun.app/Kernel/AdunKernel/CoreAdditions/AdunCore.m
@@ -589,7 +589,7 @@
 
 	error = AdCreateError(AdunCoreErrorDomain,
 			AdCoreCommandError,
-			@"A command error has occured",
+			@"A command error has occurred",
 			description,
 			nil);
 	
--- adun.app.orig/UL/Extensions/ULApplicationScripting/ULScriptManager.m
+++ adun.app/UL/Extensions/ULApplicationScripting/ULScriptManager.m
@@ -454,7 +454,7 @@
 
 - (oneway void) stopScript 
 {
-	NSDebugLLog(@"ULScriptManager", @"Recevied stopScript message");
+	NSDebugLLog(@"ULScriptManager", @"Received stopScript message");
 	[NSThread exit];
 }