Index: sm/trunk-jpl/examples/UncertaintyQuantification/ErrorContour.exp
===================================================================
--- /issm/trunk-jpl/examples/UncertaintyQuantification/ErrorContour.exp	(revision 20738)
+++ 	(revision )
@@ -1,24 +1,0 @@
-## Name:ErrorContour
-## Icon:0
-# Points Count Value
-18 1.000000
-# X pos Y pos
--1642090.6657102096 -328038.7002928721
--1665417.0018035804 -319119.8070807009
--1681882.6508106657 -304712.3641995014
--1666103.0705122089 -245710.4552574461
--1632485.7037894099 -232675.1497935036
--1616020.0547823247 -224442.3252899610
--1598182.2683579824 -200429.9204879618
--1596810.1309407253 -181219.9966463624
--1615333.9860736963 -160637.9353875059
--1559762.4206747836 -147602.6299235635
--1527517.1913692418 -188080.6837326479
--1566623.1077610692 -218953.7756209326
--1533691.8097468987 -229244.8062503609
--1523400.7791174706 -309514.8451599012
--1533691.8097468987 -350678.9676776142
--1594751.9248148398 -371261.0289364707
--1636602.1160411814 -349306.8302603571
--1642090.6657102096 -328038.7002928721
-
Index: /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/ErrorContour.exp
===================================================================
--- /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/ErrorContour.exp	(revision 20739)
+++ /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/ErrorContour.exp	(revision 20739)
@@ -0,0 +1,24 @@
+## Name:ErrorContour
+## Icon:0
+# Points Count Value
+18 1.000000
+# X pos Y pos
+-1642090.6657102096 -328038.7002928721
+-1665417.0018035804 -319119.8070807009
+-1681882.6508106657 -304712.3641995014
+-1666103.0705122089 -245710.4552574461
+-1632485.7037894099 -232675.1497935036
+-1616020.0547823247 -224442.3252899610
+-1598182.2683579824 -200429.9204879618
+-1596810.1309407253 -181219.9966463624
+-1615333.9860736963 -160637.9353875059
+-1559762.4206747836 -147602.6299235635
+-1527517.1913692418 -188080.6837326479
+-1566623.1077610692 -218953.7756209326
+-1533691.8097468987 -229244.8062503609
+-1523400.7791174706 -309514.8451599012
+-1533691.8097468987 -350678.9676776142
+-1594751.9248148398 -371261.0289364707
+-1636602.1160411814 -349306.8302603571
+-1642090.6657102096 -328038.7002928721
+
Index: /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux1.exp
===================================================================
--- /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux1.exp	(revision 20739)
+++ /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux1.exp	(revision 20739)
@@ -0,0 +1,22 @@
+## Name:MassFlux1
+## Icon:0
+# Points Count Value
+16 1.000000
+# X pos Y pos
+-1638344.3538415846 -328022.1178486745
+-1636175.0592654669 -328022.1178486745
+-1634647.1933393457 -327710.7373731936
+-1631836.4701132313 -326087.2311287920
+-1629847.9500851235 -324428.7567974643
+-1626413.2336729371 -321756.7703747695
+-1622074.6445207016 -320098.2960434417
+-1618278.3790124957 -319637.6087291840
+-1614210.9516822749 -319729.7461920356
+-1609601.2007080249 -320466.8458948479
+-1604539.5133637502 -322954.5573918396
+-1602370.2187876324 -324613.0317231673
+-1599206.6641974607 -326824.3308316044
+-1595681.5605112694 -327008.6057573075
+-1593150.7168391321 -327653.5679972683
+-1590710.2604409996 -330786.2417342208
+
Index: /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux10.exp
===================================================================
--- /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux10.exp	(revision 20739)
+++ /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux10.exp	(revision 20739)
@@ -0,0 +1,8 @@
+## Name:MassFlux11
+## Icon:0
+# Points Count Value
+2 1.000000
+# X pos Y pos
+-1539536.1089629673 -171232.8272031187
+-1540384.1546699132 -200614.0179257037
+
Index: /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux11.exp
===================================================================
--- /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux11.exp	(revision 20739)
+++ /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux11.exp	(revision 20739)
@@ -0,0 +1,8 @@
+## Name:MassFlux12
+## Icon:0
+# Points Count Value
+2 1.000000
+# X pos Y pos
+-1559431.5986180613 -236969.7272119786
+-1549112.1094185982 -261719.2194756830
+
Index: /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux12.exp
===================================================================
--- /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux12.exp	(revision 20739)
+++ /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux12.exp	(revision 20739)
@@ -0,0 +1,8 @@
+## Name:MassFlux13
+## Icon:0
+# Points Count Value
+2 1.000000
+# X pos Y pos
+-1572656.1032135738 -292391.9615161452
+-1573651.1418990945 -315407.7936937447
+
Index: /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux13.exp
===================================================================
--- /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux13.exp	(revision 20739)
+++ /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux13.exp	(revision 20739)
@@ -0,0 +1,8 @@
+## Name:MassFlux14
+## Icon:0
+# Points Count Value
+2 1.000000
+# X pos Y pos
+-1579674.9916810417 -321516.2892665596
+-1587436.3185859676 -337140.9687259690
+
Index: /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux14.exp
===================================================================
--- /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux14.exp	(revision 20739)
+++ /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux14.exp	(revision 20739)
@@ -0,0 +1,8 @@
+## Name:MassFlux14
+## Icon:0
+# Points Count Value
+2 1.000000
+# X pos Y pos
+-1579674.9916810417 -321516.2892665596
+-1587436.3185859676 -337140.9687259690
+
Index: /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux15.exp
===================================================================
--- /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux15.exp	(revision 20739)
+++ /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux15.exp	(revision 20739)
@@ -0,0 +1,127 @@
+## Name:
+## Icon:0
+# Points Count Value
+121 25000.000000
+# X pos Y pos
+-1712012.0818103175 -348661.1275967784
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+
Index: /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux2.exp
===================================================================
--- /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux2.exp	(revision 20739)
+++ /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux2.exp	(revision 20739)
@@ -0,0 +1,171 @@
+## Name:MassFlux2
+## Icon:0
+# Points Count Value
+165 1.000000
+# X pos Y pos
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+-1581509.7673500001 -270333.0670180000
+-1581219.2841570000 -270536.4655450000
+-1581132.1994910000 -271030.3472650000
+-1580841.7162990000 -271233.7457930000
+-1580551.2331060001 -271437.1443200000
+-1580507.6907730000 -271684.0851800000
+-1580217.2075799999 -271887.4837080000
+-1580173.6652470001 -272134.4245680000
+-1579839.6397220001 -272584.7639550000
+-1579796.0973890000 -272831.7048160000
+-1579505.6141959999 -273035.1033430000
+-1579462.0718640001 -273282.0442030000
+-1579418.5295309999 -273528.9850630000
+-1579128.0463380001 -273732.3835910000
+-1579084.5040050000 -273979.3244510000
+-1578750.4784800000 -274429.6638380000
+-1578706.9361469999 -274676.6046980000
+
Index: /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux3.exp
===================================================================
--- /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux3.exp	(revision 20739)
+++ /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux3.exp	(revision 20739)
@@ -0,0 +1,10 @@
+## Name:MassFlux4
+## Icon:0
+# Points Count Value
+4 1.000000
+# X pos Y pos
+-1605390.0162510793 -209047.7381093690
+-1592454.5133393104 -208141.0538114636
+-1574086.0992045982 -208918.2117810968
+-1560891.8862345938 -210472.5277203633
+
Index: /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux4.exp
===================================================================
--- /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux4.exp	(revision 20739)
+++ /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux4.exp	(revision 20739)
@@ -0,0 +1,8 @@
+## Name:MassFlux5
+## Icon:0
+# Points Count Value
+2 1.000000
+# X pos Y pos
+-1660144.8928561222 -319887.0521198768
+-1630434.8468677206 -298387.4931837295
+
Index: /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux5.exp
===================================================================
--- /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux5.exp	(revision 20739)
+++ /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux5.exp	(revision 20739)
@@ -0,0 +1,8 @@
+## Name:MassFlux6
+## Icon:0
+# Points Count Value
+2 1.000000
+# X pos Y pos
+-1635925.9455644884 -157610.4872330402
+-1625288.0602165582 -120861.2411445094
+
Index: /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux6.exp
===================================================================
--- /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux6.exp	(revision 20739)
+++ /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux6.exp	(revision 20739)
@@ -0,0 +1,8 @@
+## Name:MassFlux7
+## Icon:0
+# Points Count Value
+2 1.000000
+# X pos Y pos
+-1642052.5574172530 -95522.7999921589
+-1610982.9267521810 -78949.7704229522
+
Index: /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux7.exp
===================================================================
--- /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux7.exp	(revision 20739)
+++ /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux7.exp	(revision 20739)
@@ -0,0 +1,8 @@
+## Name:MassFlux8
+## Icon:0
+# Points Count Value
+2 1.000000
+# X pos Y pos
+-1605014.5365509845 -81707.1563440522
+-1566756.1417461073 -82763.2940976564
+
Index: /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux8.exp
===================================================================
--- /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux8.exp	(revision 20739)
+++ /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux8.exp	(revision 20739)
@@ -0,0 +1,8 @@
+## Name:MassFlux9
+## Icon:0
+# Points Count Value
+2 1.000000
+# X pos Y pos
+-1555378.1885604258 -45179.9925785796
+-1550583.9034971579 -68415.0231578706
+
Index: /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux9.exp
===================================================================
--- /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux9.exp	(revision 20739)
+++ /issm/trunk-jpl/examples/UncertaintyQuantification/Exp/MassFluxes/MassFlux9.exp	(revision 20739)
@@ -0,0 +1,8 @@
+## Name:MassFlux10
+## Icon:0
+# Points Count Value
+2 1.000000
+# X pos Y pos
+-1565010.6613481115 -111795.8673475993
+-1537474.3225972611 -138442.9656094175
+
Index: /issm/trunk-jpl/examples/UncertaintyQuantification/runme.m
===================================================================
--- /issm/trunk-jpl/examples/UncertaintyQuantification/runme.m	(revision 20738)
+++ /issm/trunk-jpl/examples/UncertaintyQuantification/runme.m	(revision 20739)
@@ -11,16 +11,16 @@
 
 	for i=1:13,
-		contour=expread(['./MassFluxes/MassFlux' num2str(i) '.exp']);
+		contour=expread(['./Exp/MassFluxes/MassFlux' num2str(i) '.exp']);
 		textpositions{i}=[contour.x(end) contour.y(end)];
 	end
 
 	plotmodel(md,'data',md.results.StressbalanceSolution.Vel,'log',10,'expdisp',...
-		{'MassFluxes/MassFlux1.exp','MassFluxes/MassFlux2.exp',...
-		'MassFluxes/MassFlux3.exp','MassFluxes/MassFlux4.exp',...
-		'MassFluxes/MassFlux5.exp','MassFluxes/MassFlux6.exp',...
-		'MassFluxes/MassFlux7.exp','MassFluxes/MassFlux8.exp',...
-		'MassFluxes/MassFlux9.exp','MassFluxes/MassFlux10.exp',...
-		'MassFluxes/MassFlux11.exp','MassFluxes/MassFlux12.exp',...
-		'MassFluxes/MassFlux13.exp'},...
+		{'Exp/MassFluxes/MassFlux1.exp','Exp/MassFluxes/MassFlux2.exp',...
+		'Exp/MassFluxes/MassFlux3.exp','Exp/MassFluxes/MassFlux4.exp',...
+		'Exp/MassFluxes/MassFlux5.exp','Exp/MassFluxes/MassFlux6.exp',...
+		'Exp/MassFluxes/MassFlux7.exp','Exp/MassFluxes/MassFlux8.exp',...
+		'Exp/MassFluxes/MassFlux9.exp','Exp/MassFluxes/MassFlux10.exp',...
+		'Exp/MassFluxes/MassFlux11.exp','Exp/MassFluxes/MassFlux12.exp',...
+		'Exp/MassFluxes/MassFlux13.exp'},...
 		'expstyle',{'k-','k-','k-','k-','k-','k-','k-',...
 		'k-','k-','k-','k-','k-','k-'},'linewidth',2,...
@@ -45,5 +45,5 @@
 
 	%filter out unrealistic error ranges
-	flags=ContourToNodes(md.mesh.x,md.mesh.y,'ErrorContour.exp',1);
+	flags=ContourToNodes(md.mesh.x,md.mesh.y,'Exp/ErrorContour.exp',1);
 	pos=find(~flags); DeltaHH(pos)=0; 
 
@@ -123,5 +123,5 @@
 	                           'MassFlux12.exp',...
 	                           'MassFlux13.exp'};
-	md.qmu.mass_flux_profile_directory='../MassFluxes/';
+	md.qmu.mass_flux_profile_directory='../Exp/MassFluxes/';
 
 	%%  sampling analysis
@@ -144,6 +144,6 @@
 	md.verbose=verbose(0);
 	
-	%solve
-	md.qmu.isdakota=1; md.inversion.iscontrol=0;
+	%Here, we choose to run with 4 processors, 3 for DAKOTA
+	% while one serves as the master
 	md.cluster=generic('name',oshostname,'np',4);
 
@@ -153,4 +153,6 @@
 	md.qmu.params.processors_per_evaluation=md.cluster.np-1;
 
+	%Turn dakota on
+	md.qmu.isdakota=1; md.inversion.iscontrol=0;
 	md=solve(md,StressbalanceSolutionEnum,'overwrite','y');
 
@@ -206,5 +208,5 @@
 	                           'MassFlux12.exp',...
 	                           'MassFlux13.exp'};
-	md.qmu.mass_flux_profile_directory='../MassFluxes/';
+	md.qmu.mass_flux_profile_directory='../Exp/MassFluxes/';
 
 	%method: local reliability
@@ -221,15 +223,17 @@
 
 	md.stressbalance.restol=10^-5; %tighten for qmu analyses
-	
-	%solve
-	md.qmu.isdakota=1; 
-	md.inversion.iscontrol=0;
+
+	%Here, we choose to run with 2 processors, 1 for DAKOTA
+	% while one serves as the master
 	md.cluster=generic('name',oshostname,'np',2);
-
+	
 	%Dakota runs in parallel with a master/slave configuration.
 	% At least 2 cpu's are needed to run the UQ
 	md.qmu.params.evaluation_scheduling='master';
-	md.qmu.params.processors_per_evaluation=md.cluster.np-1
-
+	md.qmu.params.processors_per_evaluation=md.cluster.np-1;
+
+	%Clear results and turn dakota on
+	md.results=[];
+	md.qmu.isdakota=1; md.inversion.iscontrol=0;
 	md.verbose=verbose('qmu',true);
 	md=solve(md,StressbalanceSolutionEnum,'overwrite','y');
@@ -243,7 +247,7 @@
 	md = loadmodel('./Models/PIG.Sampling');
 	
-	plotmodel(md,'data','mesh','partitionedges','on','meshlinewidth',1.5,...
+	plotmodel(md,'data','mesh','partitionedges','on',...
 	'linewidth',2, 'axis#all','image','unit','km','colorbar','off',...
-	'title','','meshcolor','b','grid','on');
+	'title','Partition Edges on ISSM mesh','grid','on');
 
 end 
@@ -284,10 +288,11 @@
 
 	plotmodel(md,'data',sh,'data',sa,'data',sb,'expdisp#all',...
-		['MassFluxes/MassFlux' num2str(index) '.exp'],...
+		['Exp/MassFluxes/MassFlux' num2str(index) '.exp'],...
 		'expstyle#all','b-','linewidth#all',2,...
 		'nlines',3,'ncols',1, 'axis#all','image',...
 		'colorbar#all','on','colorbarfontsize#all',10,...
 		'colorbartitle#1','S_{H}', 'colorbartitle#2','S_{\alpha}',...
-		'colorbartitle#3','S_{B}','unit#all','km','figure',1);
+		'colorbartitle#3','S_{B}','unit#all','km','figure',1,...
+		'title','Sensitivities: H, \alpha, B');
 
 	%To plot importance factors
@@ -297,10 +302,11 @@
 
 	plotmodel(md,'data',ifh,'data',ifa,'data',ifb,'expdisp#all',...
-		['MassFluxes/MassFlux' num2str(index) '.exp'],...
+		['Exp/MassFluxes/MassFlux' num2str(index) '.exp'],...
 		'expstyle#all','b-','linewidth#all',2,'log#all',10,...
 		'nlines',3,'ncols',1, 'axis#all','image','caxis#all',[1e-10 1],...
 		'colorbar#all','on','colorbarfontsize#all',10,...
 		'colorbartitle#1','If_{H}', 'colorbartitle#2','If_{\alpha}',...
-		'colorbartitle#3','If_{B}','unit#all','km','figure',2);
-
-end
+		'colorbartitle#3','If_{B}','unit#all','km','figure',2,...
+		'title','Importance Factors: H, \alpha, B');
+
+end