From 7aacb90f511280bcb1982d2994c0e701b178869c Mon Sep 17 00:00:00 2001
From: David Mayerich <mayerich@uh.edu>
Date: Wed, 19 Aug 2015 09:30:34 -0500
Subject: [PATCH] updated examples, added the correct repo location

---
 CMakeLists.txt   |   4 ++++
 data/blue_gt.txt | 418 +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
 main.cpp         |  40 ++++++++++++++++++++--------------------
 3 files changed, 233 insertions(+), 229 deletions(-)

diff --git a/CMakeLists.txt b/CMakeLists.txt
index eabe14b..e389c37 100644
--- a/CMakeLists.txt
+++ b/CMakeLists.txt
@@ -16,6 +16,9 @@ find_package(ANN REQUIRED)
 #find the pthreads package
 find_package(Threads)
 
+#find the X11 package
+find_package(X11)
+
 include_directories(
 					${STIM_INCLUDE_DIRS}
 					${ANN_INCLUDE_DIR}
@@ -35,6 +38,7 @@ add_executable(pointmets
 target_link_libraries(pointmets
 					  ${CMAKE_THREAD_LIBS_INIT} 
 					  ${ANN_LIBRARY}
+					  ${X11_LIBRARIES}
 		  )
 
 #copy an OBJ test case
diff --git a/data/blue_gt.txt b/data/blue_gt.txt
index 7d0c82e..a9697b8 100644
--- a/data/blue_gt.txt
+++ b/data/blue_gt.txt
@@ -1,210 +1,210 @@
-3	686
-19	537
-46	587
-57	785
-73	465
-99	367
-103	657
-109	1038
-115	304
-149	665
-175	984
-187	324
-191	1069
-200	628
-205	566
-218	388
-242	494
-242	633
-249	288
-249	745
-259	442
-270	193
-292	984
-297	539
-297	688
-313	463
-322	342
-329	842
-337	304
-342	407
-380	517
-382	1003
-394	306
-398	372
-400	1071
-401	658
-410	236
-419	585
-421	421
-433	101
-433	182
-433	793
-435	492
-471	341
-474	515
-479	244
-480	1012
-484	310
-485	873
-489	95
-498	174
-501	443
-501	772
-504	388
-524	338
-529	239
-531	488
-544	556
-558	411
-561	99
-562	276
-566	728
-574	624
-574	1044
-578	220
-580	146
-586	44
-605	326
-606	385
-611	536
-620	95
-625	692
-636	458
-642	213
-645	578
-650	37
-653	283
-656	735
-659	387
-669	106
-698	528
-700	460
-703	10
-708	1073
-711	382
-713	884
-715	292
-715	667
-721	197
-724	735
-731	233
-736	57
-737	582
-746	638
-748	158
-763	483
-775	706
-777	202
-779	531
-779	950
-787	599
-793	102
-793	322
-794	1074
-797	368
-816	278
-829	478
-831	648
-836	191
-840	730
-847	106
-847	938
-849	559
-850	377
-854	814
-874	676
-875	215
-877	329
-879	174
-896	438
-897	22
-904	868
-906	733
-909	217
-910	265
-918	589
-930	645
-931	143
-937	492
-937	690
-945	824
-947	234
-949	408
-965	310
-970	88
-979	135
-979	450
-979	539
-981	290
-999	213
-999	937
-1003	1007
-1004	380
-1019	832
-1029	183
-1029	312
-1035	744
-1036	68
-1063	556
-1083	165
-1083	423
-1092	729
-1099	11
-1099	344
-1104	241
-1117	106
-1118	827
-1129	666
-1133	485
-1149	19
-1157	152
-1159	570
-1160	410
-1176	325
-1179	244
-1185	702
-1189	778
-1192	472
-1217	559
-1222	202
-1244	95
-1245	310
-1251	255
-1252	142
-1253	422
-1278	474
-1280	567
-1304	177
-1309	710
-1338	329
-1339	255
-1339	413
-1363	555
-1363	678
-1364	489
-1367	180
-1369	107
-1384	774
-1405	339
-1447	624
-1453	426
-1461	133
-1462	357
-1473	853
-1488	500
-1488	766
-1516	642
-1551	484
-1578	837
-1588	331
-1603	741
-1632	628
-1635	367
-1641	472
-1654	566
-1686	924
-1704	819
-1754	694
-1777	785
+3	686
+19	537
+46	587
+57	785
+73	465
+99	367
+103	657
+109	1038
+115	304
+149	665
+175	984
+187	324
+191	1069
+200	628
+205	566
+218	388
+242	494
+242	633
+249	288
+249	745
+259	442
+270	193
+292	984
+297	539
+297	688
+313	463
+322	342
+329	842
+337	304
+342	407
+380	517
+382	1003
+394	306
+398	372
+400	1071
+401	658
+410	236
+419	585
+421	421
+433	101
+433	182
+433	793
+435	492
+471	341
+474	515
+479	244
+480	1012
+484	310
+485	873
+489	95
+498	174
+501	443
+501	772
+504	388
+524	338
+529	239
+531	488
+544	556
+558	411
+561	99
+562	276
+566	728
+574	624
+574	1044
+578	220
+580	146
+586	44
+605	326
+606	385
+611	536
+620	95
+625	692
+636	458
+642	213
+645	578
+650	37
+653	283
+656	735
+659	387
+669	106
+698	528
+700	460
+703	10
+708	1073
+711	382
+713	884
+715	292
+715	667
+721	197
+724	735
+731	233
+736	57
+737	582
+746	638
+748	158
+763	483
+775	706
+777	202
+779	531
+779	950
+787	599
+793	102
+793	322
+794	1074
+797	368
+816	278
+829	478
+831	648
+836	191
+840	730
+847	106
+847	938
+849	559
+850	377
+854	814
+874	676
+875	215
+877	329
+879	174
+896	438
+897	22
+904	868
+906	733
+909	217
+910	265
+918	589
+930	645
+931	143
+937	492
+937	690
+945	824
+947	234
+949	408
+965	310
+970	88
+979	135
+979	450
+979	539
+981	290
+999	213
+999	937
+1003	1007
+1004	380
+1019	832
+1029	183
+1029	312
+1035	744
+1036	68
+1063	556
+1083	165
+1083	423
+1092	729
+1099	11
+1099	344
+1104	241
+1117	106
+1118	827
+1129	666
+1133	485
+1149	19
+1157	152
+1159	570
+1160	410
+1176	325
+1179	244
+1185	702
+1189	778
+1192	472
+1217	559
+1222	202
+1244	95
+1245	310
+1251	255
+1252	142
+1253	422
+1278	474
+1280	567
+1304	177
+1309	710
+1338	329
+1339	255
+1339	413
+1363	555
+1363	678
+1364	489
+1367	180
+1369	107
+1384	774
+1405	339
+1447	624
+1453	426
+1461	133
+1462	357
+1473	853
+1488	500
+1488	766
+1516	642
+1551	484
+1578	837
+1588	331
+1603	741
+1632	628
+1635	367
+1641	472
+1654	566
+1686	924
+1704	819
+1754	694
+1777	785
 1852	381
\ No newline at end of file
diff --git a/main.cpp b/main.cpp
index 1fffda0..569607c 100644
--- a/main.cpp
+++ b/main.cpp
@@ -107,14 +107,14 @@ void calc_hitlist(std::vector< unsigned int >& hits,
 
 int main(int argc, char** argv){
 
-	//output advertisement
-	std::cout<<std::endl<<std::endl;
-	std::cout<<"========================================================================="<<std::endl;
-	std::cout<<"Thank you for using the PointMets validation tool!"<<std::endl;
-	std::cout<<"Scalable Tissue Imaging and Modeling (STIM) Lab, University of Houston"<<std::endl;
-	std::cout<<"Developers: David Mayerich"<<std::endl;
-	std::cout<<"Source: https://github.com/stimlab/hsiproc.git"<<std::endl;
-	std::cout<<"========================================================================="<<std::endl<<std::endl;
+	//output advertisement
+	std::cout<<std::endl<<std::endl;
+	std::cout<<"========================================================================="<<std::endl;
+	std::cout<<"Thank you for using the PointMets validation tool!"<<std::endl;
+	std::cout<<"Scalable Tissue Imaging and Modeling (STIM) Lab, University of Houston"<<std::endl;
+	std::cout<<"Developers: David Mayerich"<<std::endl;
+	std::cout<<"Source: https://git.stim.ee.uh.edu/validation/pointmets"<<std::endl;
+	std::cout<<"========================================================================="<<std::endl<<std::endl;
 
 
 	stim::arglist args;
@@ -131,20 +131,20 @@ int main(int argc, char** argv){
 	args.parse(argc, argv);
 
 	//display the help text if requested
-	if(args["help"].is_set()){				
-		std::cout<<std::endl<<"usage: pointmets ground_truth test_case --option [A B C ...]"<<std::endl;
-		std::cout<<std::endl<<std::endl
-				  << "examples: pointmets blue_gt.txt blue_t.txt"<<std::endl;
-		std::cout << "          pointmets blue_gt.bmp blue_t.bmp" << std::endl;
-		std::cout<<std::endl<<std::endl;
-		std::cout<<args.str()<<std::endl;
-		exit(1);
+	if(args["help"].is_set()){				
+		std::cout<<std::endl<<"usage: pointmets ground_truth test_case --option [A B C ...]"<<std::endl;
+		std::cout<<std::endl<<std::endl
+				  << "examples: pointmets blue_gt.txt blue_t.txt"<<std::endl;
+		std::cout << "          pointmets blue_gt.bmp blue_t.bmp" << std::endl;
+		std::cout<<std::endl<<std::endl;
+		std::cout<<args.str()<<std::endl;
+		exit(1);
 	}
 
-	//if the input and output files aren't specified, throw an error and exit
-	if(args.nargs() < 2){
-		std::cout<<"ERROR: Two files must be specified for comparison, enter pointmets --help for options."<<std::endl<<std::endl;
-		exit(1);
+	//if the input and output files aren't specified, throw an error and exit
+	if(args.nargs() < 2){
+		std::cout<<"ERROR: Two files must be specified for comparison, enter pointmets --help for options."<<std::endl<<std::endl;
+		exit(1);
 	}
 
 	//get the ground truth and test file
--
libgit2 0.21.4