X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=Mothur.xcodeproj%2Fproject.pbxproj;h=2721d0897cc58238a0281b1c3aeb147f1194389b;hb=61798fe609675abfedf511e542cc48c56a531199;hp=81623b1dd64b8139d8c81aeb5a5c8c63930897a7;hpb=0fb6d165c8dc8dc7153a101513a05f457431d0bc;p=mothur.git

diff --git a/Mothur.xcodeproj/project.pbxproj b/Mothur.xcodeproj/project.pbxproj
index 81623b1..2721d08 100644
--- a/Mothur.xcodeproj/project.pbxproj
+++ b/Mothur.xcodeproj/project.pbxproj
@@ -7,8 +7,20 @@
 	objects = {
 
 /* Begin PBXFileReference section */
+		7E4EBD43122018FB00D85E7B /* simpsoneven.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = simpsoneven.h; sourceTree = "<group>"; };
+		7E4EBD44122018FB00D85E7B /* simpsoneven.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = simpsoneven.cpp; sourceTree = "<group>"; };
+		7E5B28DC121FEFCC0005339C /* shannoneven.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = shannoneven.h; sourceTree = "<group>"; };
+		7E5B28DD121FEFCC0005339C /* shannoneven.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = shannoneven.cpp; sourceTree = "<group>"; };
+		7E5B2917121FF53C0005339C /* heip.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = heip.h; sourceTree = "<group>"; };
+		7E5B2918121FF53C0005339C /* heip.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = heip.cpp; sourceTree = "<group>"; };
+		7E5B294A121FFADC0005339C /* smithwilson.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = smithwilson.h; sourceTree = "<group>"; };
+		7E5B294B121FFADC0005339C /* smithwilson.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = smithwilson.cpp; sourceTree = "<group>"; };
+		7E84528511EF4BEB00564975 /* seqerrorcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = seqerrorcommand.h; sourceTree = "<group>"; };
+		7E84528611EF4BEB00564975 /* seqerrorcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = seqerrorcommand.cpp; sourceTree = "<group>"; };
 		7E85BD1C11EB5E9B00FD37C0 /* qualityscores.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = qualityscores.h; sourceTree = "<group>"; };
 		7E85BD1D11EB5E9B00FD37C0 /* qualityscores.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = qualityscores.cpp; sourceTree = "<group>"; };
+		7E962A40121F76B1007464B5 /* invsimpson.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = invsimpson.h; sourceTree = "<group>"; };
+		7E962A41121F76B1007464B5 /* invsimpson.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = invsimpson.cpp; sourceTree = "<group>"; };
 		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>"; };
@@ -18,6 +30,7 @@
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 		A7118F1011CFD5DC00CFDE03 /* getrelabundcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = getrelabundcommand.cpp; sourceTree = "<group>"; };
+		A71BA75F1225694E00C57506 /* clearcut.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = clearcut.cpp; sourceTree = "<group>"; };
 		A71D924211AEB42400D00CBC /* clustersplitcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = clustersplitcommand.cpp; sourceTree = "<group>"; };
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 		A71D924411AEB42400D00CBC /* splitabundcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = splitabundcommand.cpp; sourceTree = "<group>"; };
@@ -36,7 +49,10 @@
 		A747E79C1163442A00FB9042 /* chimeracheckcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = chimeracheckcommand.cpp; sourceTree = "<group>"; };
 		A747E81C116365E000FB9042 /* chimeraslayercommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = chimeraslayercommand.h; sourceTree = "<group>"; };
 		A747E81D116365E000FB9042 /* chimeraslayercommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = chimeraslayercommand.cpp; sourceTree = "<group>"; };
+		A74A9C03124B72DB000D5D25 /* clusterfragmentscommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = clusterfragmentscommand.h; sourceTree = "<group>"; };
+		A74A9C04124B72DB000D5D25 /* clusterfragmentscommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = clusterfragmentscommand.cpp; sourceTree = "<group>"; };
 		A7639F8D1175DF35008F5578 /* makefile */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.make; path = makefile; sourceTree = "<group>"; };
+		A768D95D1248FEAA008AB1D0 /* mothur */ = {isa = PBXFileReference; lastKnownFileType = "compiled.mach-o.executable"; path = mothur; sourceTree = "<group>"; };
 		A76AAD02117F322B003D8DA1 /* phylosummary.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = phylosummary.h; sourceTree = "<group>"; };
 		A76AAD03117F322B003D8DA1 /* phylosummary.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = phylosummary.cpp; sourceTree = "<group>"; };
 		A76C4A1011876BAF0009460B /* setlogfilecommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = setlogfilecommand.h; sourceTree = SOURCE_ROOT; };
@@ -48,6 +64,10 @@
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 		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>"; };
+		A798626D1240D91B005FC847 /* normalizesharedcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = normalizesharedcommand.h; sourceTree = "<group>"; };
+		A798626E1240D91B005FC847 /* normalizesharedcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = normalizesharedcommand.cpp; sourceTree = "<group>"; };
+		A7AE6302121C3408001DE6FC /* sharedrabundfloatvector.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedrabundfloatvector.h; sourceTree = "<group>"; };
+		A7AE6303121C3408001DE6FC /* sharedrabundfloatvector.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedrabundfloatvector.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>"; };
@@ -452,14 +472,38 @@
 		A7DA217A113FECD400BF472F /* weighted.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = weighted.h; sourceTree = "<group>"; };
 		A7DA217B113FECD400BF472F /* whittaker.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = whittaker.cpp; sourceTree = "<group>"; };
 		A7DA217C113FECD400BF472F /* whittaker.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = whittaker.h; sourceTree = "<group>"; };
+		A7DF0AD4121EBB14004A03EA /* clearcut.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = clearcut.h; sourceTree = "<group>"; };
+		A7DF0AD5121EBB14004A03EA /* cmdargs.cpp */ = {isa = PBXFileReference; explicitFileType = sourcecode.cpp.cpp; fileEncoding = 4; path = cmdargs.cpp; sourceTree = "<group>"; };
+		A7DF0AD6121EBB14004A03EA /* cmdargs.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = cmdargs.h; sourceTree = "<group>"; };
+		A7DF0AD7121EBB14004A03EA /* common.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = common.h; sourceTree = "<group>"; };
+		A7DF0AD8121EBB14004A03EA /* dayhoff.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = dayhoff.h; sourceTree = "<group>"; };
+		A7DF0AD9121EBB14004A03EA /* distclearcut.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = distclearcut.cpp; sourceTree = "<group>"; };
+		A7DF0ADA121EBB14004A03EA /* distclearcut.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = distclearcut.h; sourceTree = "<group>"; };
+		A7DF0ADB121EBB14004A03EA /* dmat.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = dmat.cpp; sourceTree = "<group>"; };
+		A7DF0ADC121EBB14004A03EA /* dmat.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = dmat.h; sourceTree = "<group>"; };
+		A7DF0ADD121EBB14004A03EA /* fasta.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = fasta.cpp; sourceTree = "<group>"; };
+		A7DF0ADE121EBB14004A03EA /* fasta.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = fasta.h; sourceTree = "<group>"; };
+		A7DF0ADF121EBB14004A03EA /* getopt_long.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = getopt_long.cpp; sourceTree = "<group>"; };
+		A7DF0AE0121EBB14004A03EA /* getopt_long.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = getopt_long.h; sourceTree = "<group>"; };
+		A7DF0AE1121EBB14004A03EA /* prng.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = prng.cpp; sourceTree = "<group>"; };
+		A7DF0AE2121EBB14004A03EA /* prng.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = prng.h; sourceTree = "<group>"; };
 		A7E8338B115BBDAA00739EC4 /* parsesffcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = parsesffcommand.cpp; sourceTree = "<group>"; };
 		A7E8338C115BBDAA00739EC4 /* parsesffcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = parsesffcommand.h; sourceTree = "<group>"; };
+		A7F139481247C3CB0033324C /* splitgroupscommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = splitgroupscommand.h; sourceTree = "<group>"; };
+		A7F139491247C3CB0033324C /* splitgroupscommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = splitgroupscommand.cpp; sourceTree = "<group>"; };
+		A7F6C8E1124229F900299875 /* fisher2.c */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.c; path = fisher2.c; sourceTree = "<group>"; };
+		A7F6C8E2124229F900299875 /* fisher2.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = fisher2.h; sourceTree = "<group>"; };
+		A7F6C8E3124229F900299875 /* metastats2.c */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.c; path = metastats2.c; sourceTree = "<group>"; };
+		A7F6C8EA12423C0300299875 /* metastatscommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = metastatscommand.h; sourceTree = "<group>"; };
+		A7F6C8EB12423C0300299875 /* metastatscommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = metastatscommand.cpp; sourceTree = "<group>"; };
+		A7F6C9D512425D4600299875 /* metastats.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = metastats.h; sourceTree = "<group>"; };
 /* End PBXFileReference section */
 
 /* Begin PBXGroup section */
 		08FB7794FE84155DC02AAC07 /* mothur */ = {
 			isa = PBXGroup;
 			children = (
+				A768D95D1248FEAA008AB1D0 /* mothur */,
 				A7639F8D1175DF35008F5578 /* makefile */,
 				A7DA1FF0113FECD400BF472F /* alignment.cpp */,
 				A7DA1FF1113FECD400BF472F /* alignment.hpp */,
@@ -471,6 +515,7 @@
 				A7CB593B11402EF90010EB83 /* calculators */,
 				A7CB594A11402FB40010EB83 /* chimeras */,
 				A7CB594511402F6E0010EB83 /* classifers */,
+				A7DF0AE5121EBC26004A03EA /* clearcutsource */,
 				A7CB593E11402F110010EB83 /* commands */,
 				A7CB594211402F430010EB83 /* containers */,
 				A7DA2023113FECD400BF472F /* collect.cpp */,
@@ -504,6 +549,7 @@
 				A7DA2082113FECD400BF472F /* inputdata.h */,
 				A7DA208B113FECD400BF472F /* libshuff.cpp */,
 				A7DA208C113FECD400BF472F /* libshuff.h */,
+				A7F6C8DC1242299300299875 /* metastatsource */,
 				A7DA209E113FECD400BF472F /* mothur.cpp */,
 				A7DA209F113FECD400BF472F /* mothur.h */,
 				A7DA20A0113FECD400BF472F /* mothurout.cpp */,
@@ -575,7 +621,11 @@
 				A7DA2059113FECD400BF472F /* geom.h */,
 				A7DA206C113FECD400BF472F /* goodscoverage.cpp */,
 				A7DA206D113FECD400BF472F /* goodscoverage.h */,
+				7E5B2917121FF53C0005339C /* heip.h */,
+				7E5B2918121FF53C0005339C /* heip.cpp */,
 				A7DA2080113FECD400BF472F /* ignoregaps.h */,
+				7E962A40121F76B1007464B5 /* invsimpson.h */,
+				7E962A41121F76B1007464B5 /* invsimpson.cpp */,
 				A7DA2083113FECD400BF472F /* jackknife.cpp */,
 				A7DA2084113FECD400BF472F /* jackknife.h */,
 				A7DA2093113FECD400BF472F /* logsd.cpp */,
@@ -593,6 +643,8 @@
 				A7DA20CF113FECD400BF472F /* qstat.h */,
 				A7DA2104113FECD400BF472F /* shannon.cpp */,
 				A7DA2105113FECD400BF472F /* shannon.h */,
+				7E5B28DC121FEFCC0005339C /* shannoneven.h */,
+				7E5B28DD121FEFCC0005339C /* shannoneven.cpp */,
 				A7DA2106113FECD400BF472F /* sharedace.cpp */,
 				A7DA2107113FECD400BF472F /* sharedace.h */,
 				A7DA2108113FECD400BF472F /* sharedanderberg.h */,
@@ -641,6 +693,10 @@
 				A7DA213D113FECD400BF472F /* sharedthetayc.h */,
 				A7DA2140113FECD400BF472F /* shen.cpp */,
 				A7DA2141113FECD400BF472F /* shen.h */,
+				7E4EBD43122018FB00D85E7B /* simpsoneven.h */,
+				7E4EBD44122018FB00D85E7B /* simpsoneven.cpp */,
+				7E5B294A121FFADC0005339C /* smithwilson.h */,
+				7E5B294B121FFADC0005339C /* smithwilson.cpp */,
 				A7DA2142113FECD400BF472F /* simpson.cpp */,
 				A7DA2143113FECD400BF472F /* simpson.h */,
 				A7DA2149113FECD400BF472F /* sobs.h */,
@@ -694,10 +750,12 @@
 				A7D215C911996C6E00F13F13 /* clearcutcommand.cpp */,
 				A7DA2021113FECD400BF472F /* clustercommand.cpp */,
 				A7DA2022113FECD400BF472F /* clustercommand.h */,
+				A74A9C03124B72DB000D5D25 /* clusterfragmentscommand.h */,
+				A74A9C04124B72DB000D5D25 /* clusterfragmentscommand.cpp */,
 				A71D924311AEB42400D00CBC /* clustersplitcommand.h */,
 				A71D924211AEB42400D00CBC /* clustersplitcommand.cpp */,
-				A7DA2025113FECD400BF472F /* collectcommand.cpp */,
 				A7DA2026113FECD400BF472F /* collectcommand.h */,
+				A7DA2025113FECD400BF472F /* collectcommand.cpp */,
 				A7DA2029113FECD400BF472F /* collectsharedcommand.cpp */,
 				A7DA202A113FECD400BF472F /* collectsharedcommand.h */,
 				A7DA2031113FECD400BF472F /* consensuscommand.cpp */,
@@ -736,8 +794,8 @@
 				A7DA207D113FECD400BF472F /* heatmapsimcommand.h */,
 				A7DA207E113FECD400BF472F /* helpcommand.cpp */,
 				A7DA207F113FECD400BF472F /* helpcommand.h */,
-				A7DA208D113FECD400BF472F /* libshuffcommand.cpp */,
 				A7DA208E113FECD400BF472F /* libshuffcommand.h */,
+				A7DA208D113FECD400BF472F /* libshuffcommand.cpp */,
 				A7DA2090113FECD400BF472F /* listseqscommand.h */,
 				A7DA208F113FECD400BF472F /* listseqscommand.cpp */,
 				A703FE931194645F002C397E /* makegroupcommand.h */,
@@ -746,10 +804,14 @@
 				A7DA2099113FECD400BF472F /* matrixoutputcommand.h */,
 				A7DA209A113FECD400BF472F /* mergefilecommand.cpp */,
 				A7DA209B113FECD400BF472F /* mergefilecommand.h */,
+				A7F6C8EA12423C0300299875 /* metastatscommand.h */,
+				A7F6C8EB12423C0300299875 /* metastatscommand.cpp */,
 				A7DA209C113FECD400BF472F /* mgclustercommand.cpp */,
 				A7DA209D113FECD400BF472F /* mgclustercommand.h */,
 				A7DA20AC113FECD400BF472F /* nocommands.cpp */,
 				A7DA20AD113FECD400BF472F /* nocommands.h */,
+				A798626D1240D91B005FC847 /* normalizesharedcommand.h */,
+				A798626E1240D91B005FC847 /* normalizesharedcommand.cpp */,
 				A7DA20B8113FECD400BF472F /* otuhierarchycommand.cpp */,
 				A7DA20B9113FECD400BF472F /* otuhierarchycommand.h */,
 				A7DA20BC113FECD400BF472F /* parselistscommand.cpp */,
@@ -788,6 +850,8 @@
 				A7DA20FA113FECD400BF472F /* secondarystructurecommand.cpp */,
 				7EA299BA11E384940022D8D3 /* sensspeccommand.h */,
 				7EA299BB11E384940022D8D3 /* sensspeccommand.cpp */,
+				7E84528511EF4BEB00564975 /* seqerrorcommand.h */,
+				7E84528611EF4BEB00564975 /* seqerrorcommand.cpp */,
 				A7DA20FD113FECD400BF472F /* seqsummarycommand.h */,
 				A7DA20FC113FECD400BF472F /* seqsummarycommand.cpp */,
 				A7DA2103113FECD400BF472F /* setdircommand.h */,
@@ -800,6 +864,8 @@
 				A7DA210F113FECD400BF472F /* sharedcommand.cpp */,
 				A71D924511AEB42400D00CBC /* splitabundcommand.h */,
 				A71D924411AEB42400D00CBC /* splitabundcommand.cpp */,
+				A7F139481247C3CB0033324C /* splitgroupscommand.h */,
+				A7F139491247C3CB0033324C /* splitgroupscommand.cpp */,
 				A7DA2155113FECD400BF472F /* summarycommand.h */,
 				A7DA2154113FECD400BF472F /* summarycommand.cpp */,
 				A7DA2159113FECD400BF472F /* summarysharedcommand.h */,
@@ -823,8 +889,6 @@
 		A7CB594211402F430010EB83 /* containers */ = {
 			isa = PBXGroup;
 			children = (
-				7E85BD1C11EB5E9B00FD37C0 /* qualityscores.h */,
-				7E85BD1D11EB5E9B00FD37C0 /* qualityscores.cpp */,
 				A7DA1FF3113FECD400BF472F /* alignmentcell.hpp */,
 				A7DA1FF2113FECD400BF472F /* alignmentcell.cpp */,
 				A7DA1FF4113FECD400BF472F /* alignmentdb.cpp */,
@@ -852,8 +916,10 @@
 				A7DA20A3113FECD400BF472F /* nameassignment.hpp */,
 				A7DA20B6113FECD400BF472F /* ordervector.cpp */,
 				A7DA20B7113FECD400BF472F /* ordervector.hpp */,
-				A7DA20D2113FECD400BF472F /* rabundvector.cpp */,
+				7E85BD1C11EB5E9B00FD37C0 /* qualityscores.h */,
+				7E85BD1D11EB5E9B00FD37C0 /* qualityscores.cpp */,
 				A7DA20D3113FECD400BF472F /* rabundvector.hpp */,
+				A7DA20D2113FECD400BF472F /* rabundvector.cpp */,
 				A7DA20F6113FECD400BF472F /* sabundvector.cpp */,
 				A7DA20F7113FECD400BF472F /* sabundvector.hpp */,
 				A7DA20FE113FECD400BF472F /* sequence.cpp */,
@@ -866,8 +932,10 @@
 				A7DA212B113FECD400BF472F /* sharedordervector.h */,
 				A7DA212C113FECD400BF472F /* sharedrabundvector.cpp */,
 				A7DA212D113FECD400BF472F /* sharedrabundvector.h */,
-				A7DA212E113FECD400BF472F /* sharedsabundvector.cpp */,
+				A7AE6302121C3408001DE6FC /* sharedrabundfloatvector.h */,
+				A7AE6303121C3408001DE6FC /* sharedrabundfloatvector.cpp */,
 				A7DA212F113FECD400BF472F /* sharedsabundvector.h */,
+				A7DA212E113FECD400BF472F /* sharedsabundvector.cpp */,
 				A7DA214C113FECD400BF472F /* sparsematrix.cpp */,
 				A7DA214D113FECD400BF472F /* sparsematrix.hpp */,
 				A7DA214E113FECD400BF472F /* suffixdb.cpp */,
@@ -959,6 +1027,40 @@
 			name = read;
 			sourceTree = "<group>";
 		};
+		A7DF0AE5121EBC26004A03EA /* clearcutsource */ = {
+			isa = PBXGroup;
+			children = (
+				A7DF0AD4121EBB14004A03EA /* clearcut.h */,
+				A71BA75F1225694E00C57506 /* clearcut.cpp */,
+				A7DF0AD7121EBB14004A03EA /* common.h */,
+				A7DF0AD8121EBB14004A03EA /* dayhoff.h */,
+				A7DF0AD6121EBB14004A03EA /* cmdargs.h */,
+				A7DF0AD5121EBB14004A03EA /* cmdargs.cpp */,
+				A7DF0AD9121EBB14004A03EA /* distclearcut.cpp */,
+				A7DF0ADA121EBB14004A03EA /* distclearcut.h */,
+				A7DF0ADB121EBB14004A03EA /* dmat.cpp */,
+				A7DF0ADC121EBB14004A03EA /* dmat.h */,
+				A7DF0ADD121EBB14004A03EA /* fasta.cpp */,
+				A7DF0ADE121EBB14004A03EA /* fasta.h */,
+				A7DF0ADF121EBB14004A03EA /* getopt_long.cpp */,
+				A7DF0AE0121EBB14004A03EA /* getopt_long.h */,
+				A7DF0AE2121EBB14004A03EA /* prng.h */,
+				A7DF0AE1121EBB14004A03EA /* prng.cpp */,
+			);
+			name = clearcutsource;
+			sourceTree = "<group>";
+		};
+		A7F6C8DC1242299300299875 /* metastatsource */ = {
+			isa = PBXGroup;
+			children = (
+				A7F6C8E2124229F900299875 /* fisher2.h */,
+				A7F6C8E1124229F900299875 /* fisher2.c */,
+				A7F6C9D512425D4600299875 /* metastats.h */,
+				A7F6C8E3124229F900299875 /* metastats2.c */,
+			);
+			name = metastatsource;
+			sourceTree = "<group>";
+		};
 /* End PBXGroup section */
 
 /* Begin PBXLegacyTarget section */