X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=Mothur.xcodeproj%2Fproject.pbxproj;h=6770cecbd4a72f81f5f1a3a69910ab3b0b97d266;hb=bc4c4d63e983a3e91e74b5038bfec6705e1a3a2e;hp=5b5981b1608c62ffbc486921d3c1f3e5cdc8dcb8;hpb=5a86e9e5a5a9e061e17b3ae64fb8881f14e53b8a;p=mothur.git

diff --git a/Mothur.xcodeproj/project.pbxproj b/Mothur.xcodeproj/project.pbxproj
index 5b5981b..6770cec 100644
--- a/Mothur.xcodeproj/project.pbxproj
+++ b/Mothur.xcodeproj/project.pbxproj
@@ -7,8 +7,21 @@
 	objects = {
 
 /* Begin PBXFileReference section */
+		7EA299BA11E384940022D8D3 /* sensspeccommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sensspeccommand.h; sourceTree = "<group>"; };
+		7EA299BB11E384940022D8D3 /* sensspeccommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sensspeccommand.cpp; sourceTree = "<group>"; };
+		7EC61A0911BEA6AF00F668D9 /* weightedlinkage.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = weightedlinkage.cpp; sourceTree = "<group>"; };
 		A703FE931194645F002C397E /* makegroupcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = makegroupcommand.h; sourceTree = SOURCE_ROOT; };
 		A703FE941194645F002C397E /* makegroupcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = makegroupcommand.cpp; sourceTree = SOURCE_ROOT; };
+		A7118EE511CFCAC000CFDE03 /* degapseqscommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = degapseqscommand.h; sourceTree = "<group>"; };
+		A7118EE611CFCAC000CFDE03 /* degapseqscommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = degapseqscommand.cpp; sourceTree = "<group>"; };
+		A7118F0F11CFD5DC00CFDE03 /* getrelabundcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = getrelabundcommand.h; sourceTree = "<group>"; };
+		A7118F1011CFD5DC00CFDE03 /* getrelabundcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = getrelabundcommand.cpp; sourceTree = "<group>"; };
+		A71D924211AEB42400D00CBC /* clustersplitcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = clustersplitcommand.cpp; sourceTree = "<group>"; };
+		A71D924311AEB42400D00CBC /* clustersplitcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = clustersplitcommand.h; sourceTree = "<group>"; };
+		A71D924411AEB42400D00CBC /* splitabundcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = splitabundcommand.cpp; sourceTree = "<group>"; };
+		A71D924511AEB42400D00CBC /* splitabundcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = splitabundcommand.h; sourceTree = "<group>"; };
+		A71D924611AEB42400D00CBC /* splitmatrix.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = splitmatrix.cpp; sourceTree = "<group>"; };
+		A71D924711AEB42400D00CBC /* splitmatrix.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = splitmatrix.h; sourceTree = "<group>"; };
 		A72B3A62118B37FD004B9F8D /* phylodiversitycommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = phylodiversitycommand.h; sourceTree = "<group>"; };
 		A72B3A63118B37FD004B9F8D /* phylodiversitycommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = phylodiversitycommand.cpp; sourceTree = "<group>"; };
 		A72B3A7B118B4D1B004B9F8D /* phylodiversity.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = phylodiversity.h; sourceTree = "<group>"; };
@@ -30,6 +43,8 @@
 		A7825503116519F70002E2DD /* chimerabellerophoncommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = chimerabellerophoncommand.cpp; sourceTree = "<group>"; };
 		A78434881162224F00100BE0 /* chimeraccodecommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = chimeraccodecommand.h; sourceTree = "<group>"; };
 		A78434891162224F00100BE0 /* chimeraccodecommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = chimeraccodecommand.cpp; sourceTree = "<group>"; };
+		A7BBDA7B11B5694E006E6551 /* classifyotucommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = classifyotucommand.h; sourceTree = "<group>"; };
+		A7BBDA7C11B5694E006E6551 /* classifyotucommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = classifyotucommand.cpp; sourceTree = "<group>"; };
 		A7D215C811996C6E00F13F13 /* clearcutcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = clearcutcommand.h; sourceTree = "<group>"; };
 		A7D215C911996C6E00F13F13 /* clearcutcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = clearcutcommand.cpp; sourceTree = "<group>"; };
 		A7D216061199C47F00F13F13 /* catchallcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = catchallcommand.h; sourceTree = "<group>"; };
@@ -632,6 +647,7 @@
 				A7DA2170113FECD400BF472F /* uvest.h */,
 				A7DA2179113FECD400BF472F /* weighted.cpp */,
 				A7DA217A113FECD400BF472F /* weighted.h */,
+				7EC61A0911BEA6AF00F668D9 /* weightedlinkage.cpp */,
 				A7DA217B113FECD400BF472F /* whittaker.cpp */,
 				A7DA217C113FECD400BF472F /* whittaker.h */,
 			);
@@ -641,22 +657,24 @@
 		A7CB593E11402F110010EB83 /* commands */ = {
 			isa = PBXGroup;
 			children = (
+				7EA299BA11E384940022D8D3 /* sensspeccommand.h */,
+				7EA299BB11E384940022D8D3 /* sensspeccommand.cpp */,
 				A7DA202B113FECD400BF472F /* command.hpp */,
 				A7DA1FEF113FECD400BF472F /* aligncommand.h */,
 				A7DA1FEE113FECD400BF472F /* aligncommand.cpp */,
-				A7DA1FFD113FECD400BF472F /* binsequencecommand.cpp */,
 				A7DA1FFE113FECD400BF472F /* binsequencecommand.h */,
+				A7DA1FFD113FECD400BF472F /* binsequencecommand.cpp */,
 				A7DA2007113FECD400BF472F /* bootstrapsharedcommand.cpp */,
 				A7DA2008113FECD400BF472F /* bootstrapsharedcommand.h */,
 				A7D216061199C47F00F13F13 /* catchallcommand.h */,
 				A7D216071199C47F00F13F13 /* catchallcommand.cpp */,
 				A7DA2017113FECD400BF472F /* chimeraseqscommand.cpp */,
-				A78434881162224F00100BE0 /* chimeraccodecommand.h */,
 				A7DA2018113FECD400BF472F /* chimeraseqscommand.h */,
 				A7825502116519F70002E2DD /* chimerabellerophoncommand.h */,
 				A7825503116519F70002E2DD /* chimerabellerophoncommand.cpp */,
 				A747E79B1163442A00FB9042 /* chimeracheckcommand.h */,
 				A747E79C1163442A00FB9042 /* chimeracheckcommand.cpp */,
+				A78434881162224F00100BE0 /* chimeraccodecommand.h */,
 				A78434891162224F00100BE0 /* chimeraccodecommand.cpp */,
 				A78254461164D7790002E2DD /* chimerapintailcommand.h */,
 				A78254471164D7790002E2DD /* chimerapintailcommand.cpp */,
@@ -666,16 +684,22 @@
 				A73953DB11987ED100B0B160 /* chopseqscommand.cpp */,
 				A7DA201E113FECD400BF472F /* classifyseqscommand.h */,
 				A7DA201D113FECD400BF472F /* classifyseqscommand.cpp */,
+				A7BBDA7B11B5694E006E6551 /* classifyotucommand.h */,
+				A7BBDA7C11B5694E006E6551 /* classifyotucommand.cpp */,
 				A7D215C811996C6E00F13F13 /* clearcutcommand.h */,
 				A7D215C911996C6E00F13F13 /* clearcutcommand.cpp */,
 				A7DA2021113FECD400BF472F /* clustercommand.cpp */,
 				A7DA2022113FECD400BF472F /* clustercommand.h */,
+				A71D924311AEB42400D00CBC /* clustersplitcommand.h */,
+				A71D924211AEB42400D00CBC /* clustersplitcommand.cpp */,
 				A7DA2025113FECD400BF472F /* collectcommand.cpp */,
 				A7DA2026113FECD400BF472F /* collectcommand.h */,
 				A7DA2029113FECD400BF472F /* collectsharedcommand.cpp */,
 				A7DA202A113FECD400BF472F /* collectsharedcommand.h */,
 				A7DA2031113FECD400BF472F /* consensuscommand.cpp */,
 				A7DA2032113FECD400BF472F /* consensuscommand.h */,
+				A7118EE511CFCAC000CFDE03 /* degapseqscommand.h */,
+				A7118EE611CFCAC000CFDE03 /* degapseqscommand.cpp */,
 				A7DA203A113FECD400BF472F /* deconvolutecommand.cpp */,
 				A7DA203B113FECD400BF472F /* deconvolutecommand.h */,
 				A7DA203E113FECD400BF472F /* distancecommand.cpp */,
@@ -686,12 +710,14 @@
 				A7DA205B113FECD400BF472F /* getgroupcommand.h */,
 				A7DA205C113FECD400BF472F /* getlabelcommand.cpp */,
 				A7DA205D113FECD400BF472F /* getlabelcommand.h */,
-				A7DA205E113FECD400BF472F /* getlistcountcommand.cpp */,
 				A7DA205F113FECD400BF472F /* getlistcountcommand.h */,
-				A7DA2060113FECD400BF472F /* getoturepcommand.cpp */,
+				A7DA205E113FECD400BF472F /* getlistcountcommand.cpp */,
 				A7DA2061113FECD400BF472F /* getoturepcommand.h */,
+				A7DA2060113FECD400BF472F /* getoturepcommand.cpp */,
 				A7DA2062113FECD400BF472F /* getrabundcommand.cpp */,
 				A7DA2063113FECD400BF472F /* getrabundcommand.h */,
+				A7118F0F11CFD5DC00CFDE03 /* getrelabundcommand.h */,
+				A7118F1011CFD5DC00CFDE03 /* getrelabundcommand.cpp */,
 				A7DA2064113FECD400BF472F /* getsabundcommand.cpp */,
 				A7DA2065113FECD400BF472F /* getsabundcommand.h */,
 				A7DA2067113FECD400BF472F /* getseqscommand.h */,
@@ -764,6 +790,8 @@
 				A76C4A1111876BAF0009460B /* setlogfilecommand.cpp */,
 				A7DA2110113FECD400BF472F /* sharedcommand.h */,
 				A7DA210F113FECD400BF472F /* sharedcommand.cpp */,
+				A71D924511AEB42400D00CBC /* splitabundcommand.h */,
+				A71D924411AEB42400D00CBC /* splitabundcommand.cpp */,
 				A7DA2155113FECD400BF472F /* summarycommand.h */,
 				A7DA2154113FECD400BF472F /* summarycommand.cpp */,
 				A7DA2159113FECD400BF472F /* summarysharedcommand.h */,
@@ -915,6 +943,8 @@
 				A7DA20ED113FECD400BF472F /* readphylip.h */,
 				A7DA20EE113FECD400BF472F /* readtree.cpp */,
 				A7DA20EF113FECD400BF472F /* readtree.h */,
+				A71D924711AEB42400D00CBC /* splitmatrix.h */,
+				A71D924611AEB42400D00CBC /* splitmatrix.cpp */,
 			);
 			name = read;
 			sourceTree = "<group>";
@@ -942,6 +972,7 @@
 			isa = PBXProject;
 			attributes = {
 				BuildIndependentTargetsInParallel = YES;
+				ORGANIZATIONNAME = "Schloss Lab";
 			};
 			buildConfigurationList = 1DEB919308733D9F0010E9CD /* Build configuration list for PBXProject "Mothur" */;
 			compatibilityVersion = "Xcode 3.0";
@@ -979,7 +1010,7 @@
 				GCC_WARN_UNUSED_VARIABLE = YES;
 				LINK_WITH_STANDARD_LIBRARIES = YES;
 				PREBINDING = NO;
-				SDKROOT = "$(DEVELOPER_SDK_DIR)/MacOSX10.5.sdk";
+				SDKROOT = "$(DEVELOPER_SDK_DIR)/MacOSX10.6.sdk";
 			};
 			name = Release;
 		};