9 /* Begin PBXBuildFile section */
10 211C38320F961DD400FEE541 /* sharedutilities.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 211C38300F961DD400FEE541 /* sharedutilities.cpp */; };
11 211C38380F961E1F00FEE541 /* treegroupscommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 211C38360F961E1F00FEE541 /* treegroupscommand.cpp */; };
12 21DDC01B0F97A8FE0060691C /* bootstrapsharedcommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 21DDC01A0F97A8FE0060691C /* bootstrapsharedcommand.cpp */; };
13 21E859D80FC4632E005E1A48 /* matrixoutputcommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 21E859D70FC4632E005E1A48 /* matrixoutputcommand.cpp */; };
14 370B88070F8A4EE4005AB382 /* getoturepcommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 370B88060F8A4EE4005AB382 /* getoturepcommand.cpp */; };
15 371B30B40FD7EE67000414CA /* screenseqscommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 371B30B20FD7EE67000414CA /* screenseqscommand.cpp */; };
16 372E12700F26365B0095CF7E /* readotucommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 372E126F0F26365B0095CF7E /* readotucommand.cpp */; };
17 372E12960F263D5A0095CF7E /* readdistcommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 372E12950F263D5A0095CF7E /* readdistcommand.cpp */; };
18 372E12ED0F264D320095CF7E /* commandfactory.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 372E12EC0F264D320095CF7E /* commandfactory.cpp */; };
19 373C68A40FC1C07D00137ACD /* alignment.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 373C68A00FC1C07D00137ACD /* alignment.cpp */; };
20 373C68A50FC1C07D00137ACD /* alignmentcell.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 373C68A20FC1C07D00137ACD /* alignmentcell.cpp */; };
21 373C68BC0FC1C1A600137ACD /* gotohoverlap.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 373C68BA0FC1C1A600137ACD /* gotohoverlap.cpp */; };
22 373C68C50FC1C25F00137ACD /* overlap.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 373C68C30FC1C25F00137ACD /* overlap.cpp */; };
23 373C68CF0FC1C2D900137ACD /* needlemanoverlap.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 373C68CD0FC1C2D900137ACD /* needlemanoverlap.cpp */; };
24 373C68DD0FC1C38D00137ACD /* blastalign.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 373C68DB0FC1C38D00137ACD /* blastalign.cpp */; };
25 373C68E50FC1C4A500137ACD /* noalign.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 373C68E30FC1C4A500137ACD /* noalign.cpp */; };
26 373C68F90FC1C6A800137ACD /* suffixdb.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 373C68F30FC1C6A800137ACD /* suffixdb.cpp */; };
27 373C68FA0FC1C6A800137ACD /* suffixnodes.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 373C68F50FC1C6A800137ACD /* suffixnodes.cpp */; };
28 373C68FB0FC1C6A800137ACD /* suffixtree.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 373C68F70FC1C6A800137ACD /* suffixtree.cpp */; };
29 373C69180FC1C8AF00137ACD /* blastdb.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 373C69160FC1C8AF00137ACD /* blastdb.cpp */; };
30 373C691F0FC1C98600137ACD /* nast.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 373C691D0FC1C98600137ACD /* nast.cpp */; };
31 373C692B0FC1C9EB00137ACD /* nastreport.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 373C69290FC1C9EB00137ACD /* nastreport.cpp */; };
32 373C699A0FC1E63600137ACD /* boneh.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 373C69940FC1E63600137ACD /* boneh.cpp */; };
33 373C699B0FC1E63600137ACD /* efron.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 373C69960FC1E63600137ACD /* efron.cpp */; };
34 373C699C0FC1E63600137ACD /* solow.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 373C69980FC1E63600137ACD /* solow.cpp */; };
35 374610780F40645300460C57 /* unifracweightedcommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 374610770F40645300460C57 /* unifracweightedcommand.cpp */; };
36 3746107E0F4064D100460C57 /* weighted.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 3746107D0F4064D100460C57 /* weighted.cpp */; };
37 374610830F40652400460C57 /* unweighted.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 374610820F40652400460C57 /* unweighted.cpp */; };
38 3746109D0F40657600460C57 /* unifracunweightedcommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 3746109C0F40657600460C57 /* unifracunweightedcommand.cpp */; };
39 3749271D0FD58C840031C06B /* getsabundcommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 3749271C0FD58C840031C06B /* getsabundcommand.cpp */; };
40 3749273F0FD5956B0031C06B /* getrabundcommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 3749273E0FD5956B0031C06B /* getrabundcommand.cpp */; };
41 37519A6B0F80E6EB00FED5E8 /* sharedanderbergs.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37519A6A0F80E6EB00FED5E8 /* sharedanderbergs.cpp */; };
42 37519AA10F810D0200FED5E8 /* venncommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37519AA00F810D0200FED5E8 /* venncommand.cpp */; };
43 37519AB50F810FAE00FED5E8 /* venn.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37519AB40F810FAE00FED5E8 /* venn.cpp */; };
44 375873EC0F7D64520040F377 /* fullmatrix.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 375873EB0F7D64520040F377 /* fullmatrix.cpp */; };
45 375873EF0F7D646F0040F377 /* heatmap.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 375873EE0F7D646F0040F377 /* heatmap.cpp */; };
46 375873F20F7D64800040F377 /* heatmapcommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 375873F00F7D64800040F377 /* heatmapcommand.cpp */; };
47 375873F50F7D648F0040F377 /* libshuffcommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 375873F30F7D648F0040F377 /* libshuffcommand.cpp */; };
48 375873F80F7D649C0040F377 /* nocommands.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 375873F60F7D649C0040F377 /* nocommands.cpp */; };
49 375873FD0F7D64DA0040F377 /* sharedbraycurtis.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 375873FC0F7D64DA0040F377 /* sharedbraycurtis.cpp */; };
50 375874040F7D64EF0040F377 /* sharedkulczynski.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 375873FE0F7D64EF0040F377 /* sharedkulczynski.cpp */; };
51 375874050F7D64EF0040F377 /* sharedlennon.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 375873FF0F7D64EF0040F377 /* sharedlennon.cpp */; };
52 375874060F7D64EF0040F377 /* sharedkulczynskicody.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 375874020F7D64EF0040F377 /* sharedkulczynskicody.cpp */; };
53 3758740C0F7D64FC0040F377 /* sharedmorisitahorn.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 375874080F7D64FC0040F377 /* sharedmorisitahorn.cpp */; };
54 3758740D0F7D64FC0040F377 /* sharedochiai.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 3758740B0F7D64FC0040F377 /* sharedochiai.cpp */; };
55 375AA1390F9E433D008EF9B8 /* readcolumn.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 375AA1330F9E433D008EF9B8 /* readcolumn.cpp */; };
56 375AA13A0F9E433D008EF9B8 /* readotu.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 375AA1350F9E433D008EF9B8 /* readotu.cpp */; };
57 375AA13B0F9E433D008EF9B8 /* readphylip.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 375AA1370F9E433D008EF9B8 /* readphylip.cpp */; };
58 377326650FAF16E0007ABB8B /* concensuscommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 377326630FAF16E0007ABB8B /* concensuscommand.cpp */; };
59 378598660FDD497000EF9D03 /* heatmapsimcommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 378598650FDD497000EF9D03 /* heatmapsimcommand.cpp */; };
60 378598740FDD4C1500EF9D03 /* heatmapsim.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 378598730FDD4C1500EF9D03 /* heatmapsim.cpp */; };
61 378599100FDD7E8E00EF9D03 /* optionparser.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 3785990F0FDD7E8E00EF9D03 /* optionparser.cpp */; };
62 378C1B030FB0644E004D63F5 /* filterseqscommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 378C1AEE0FB0644D004D63F5 /* filterseqscommand.cpp */; };
63 378C1B040FB0644E004D63F5 /* goodscoverage.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 378C1AF00FB0644D004D63F5 /* goodscoverage.cpp */; };
64 378C1B0A0FB0644E004D63F5 /* sequencedb.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 378C1AFD0FB0644D004D63F5 /* sequencedb.cpp */; };
65 378C1B0B0FB0644E004D63F5 /* sharedjackknife.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 378C1AFF0FB0644D004D63F5 /* sharedjackknife.cpp */; };
66 378C1B0C0FB0644E004D63F5 /* sharedmarczewski.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 378C1B010FB0644D004D63F5 /* sharedmarczewski.cpp */; };
67 378DC5CF0FBDE1C8003B8607 /* aligncommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 378DC5CE0FBDE1C8003B8607 /* aligncommand.cpp */; };
68 379293C30F2DE73400B9034A /* treemap.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 379293C20F2DE73400B9034A /* treemap.cpp */; };
69 379294700F2E191800B9034A /* parsimonycommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 3792946F0F2E191800B9034A /* parsimonycommand.cpp */; };
70 3792948A0F2E258500B9034A /* parsimony.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 379294890F2E258500B9034A /* parsimony.cpp */; };
71 3799A9500FD6A58C00E33EDE /* distancedb.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 3799A94C0FD6A58C00E33EDE /* distancedb.cpp */; };
72 3799A9510FD6A58C00E33EDE /* seqsummarycommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 3799A94E0FD6A58C00E33EDE /* seqsummarycommand.cpp */; };
73 37AD4CE40F28AEA300AA2D49 /* sharedlistvector.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37AD4CE30F28AEA300AA2D49 /* sharedlistvector.cpp */; };
74 37AD4DBB0F28E2FE00AA2D49 /* tree.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37AD4DBA0F28E2FE00AA2D49 /* tree.cpp */; };
75 37AD4DCA0F28F3DD00AA2D49 /* readtree.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37AD4DC90F28F3DD00AA2D49 /* readtree.cpp */; };
76 37AFC71F0F445386005F492D /* sharedsobscollectsummary.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37AFC71E0F445386005F492D /* sharedsobscollectsummary.cpp */; };
77 37B28F680F27590100808A62 /* deconvolutecommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37B28F670F27590100808A62 /* deconvolutecommand.cpp */; };
78 37C1D9730F86506E0059E3F0 /* binsequencecommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37C1D9720F86506E0059E3F0 /* binsequencecommand.cpp */; };
79 37C753CE0FB3415200DBD02E /* distancecommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37C753CD0FB3415200DBD02E /* distancecommand.cpp */; };
80 37D928550F21331F001D4494 /* ace.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D927B80F21331F001D4494 /* ace.cpp */; };
81 37D928560F21331F001D4494 /* averagelinkage.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D927BA0F21331F001D4494 /* averagelinkage.cpp */; };
82 37D928570F21331F001D4494 /* bootstrap.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D927BB0F21331F001D4494 /* bootstrap.cpp */; };
83 37D928580F21331F001D4494 /* calculator.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D927BD0F21331F001D4494 /* calculator.cpp */; };
84 37D928590F21331F001D4494 /* chao1.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D927BF0F21331F001D4494 /* chao1.cpp */; };
85 37D9285A0F21331F001D4494 /* cluster.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D927C10F21331F001D4494 /* cluster.cpp */; };
86 37D9285B0F21331F001D4494 /* clustercommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D927C30F21331F001D4494 /* clustercommand.cpp */; };
87 37D9285C0F21331F001D4494 /* collect.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D927C50F21331F001D4494 /* collect.cpp */; };
88 37D9285D0F21331F001D4494 /* collectcommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D927C70F21331F001D4494 /* collectcommand.cpp */; };
89 37D9285E0F21331F001D4494 /* collectsharedcommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D927CB0F21331F001D4494 /* collectsharedcommand.cpp */; };
90 37D928600F21331F001D4494 /* commandoptionparser.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D927D00F21331F001D4494 /* commandoptionparser.cpp */; };
91 37D928610F21331F001D4494 /* completelinkage.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D927D20F21331F001D4494 /* completelinkage.cpp */; };
92 37D928620F21331F001D4494 /* database.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D927D30F21331F001D4494 /* database.cpp */; };
93 37D928630F21331F001D4494 /* engine.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D927D70F21331F001D4494 /* engine.cpp */; };
94 37D928650F21331F001D4494 /* fastamap.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D927DB0F21331F001D4494 /* fastamap.cpp */; };
95 37D928660F21331F001D4494 /* fileoutput.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D927DD0F21331F001D4494 /* fileoutput.cpp */; };
96 37D928670F21331F001D4494 /* globaldata.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D927DF0F21331F001D4494 /* globaldata.cpp */; };
97 37D928680F21331F001D4494 /* groupmap.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D927E10F21331F001D4494 /* groupmap.cpp */; };
98 37D928690F21331F001D4494 /* helpcommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D927E30F21331F001D4494 /* helpcommand.cpp */; };
99 37D9286A0F21331F001D4494 /* inputdata.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D927E50F21331F001D4494 /* inputdata.cpp */; };
100 37D9286B0F21331F001D4494 /* jackknife.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D927E70F21331F001D4494 /* jackknife.cpp */; };
101 37D9286C0F21331F001D4494 /* kmer.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D927E90F21331F001D4494 /* kmer.cpp */; };
102 37D9286D0F21331F001D4494 /* kmerdb.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D927EB0F21331F001D4494 /* kmerdb.cpp */; };
103 37D9286E0F21331F001D4494 /* listvector.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D927ED0F21331F001D4494 /* listvector.cpp */; };
104 37D9286F0F21331F001D4494 /* mothur.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D927EF0F21331F001D4494 /* mothur.cpp */; };
105 37D928700F21331F001D4494 /* nameassignment.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D927F00F21331F001D4494 /* nameassignment.cpp */; };
106 37D928720F21331F001D4494 /* npshannon.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D927F40F21331F001D4494 /* npshannon.cpp */; };
107 37D928730F21331F001D4494 /* ordervector.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D927F70F21331F001D4494 /* ordervector.cpp */; };
108 37D928740F21331F001D4494 /* parselistcommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D927F90F21331F001D4494 /* parselistcommand.cpp */; };
109 37D928750F21331F001D4494 /* progress.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D927FB0F21331F001D4494 /* progress.cpp */; };
110 37D928760F21331F001D4494 /* quitcommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D927FD0F21331F001D4494 /* quitcommand.cpp */; };
111 37D928770F21331F001D4494 /* rabundvector.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D927FF0F21331F001D4494 /* rabundvector.cpp */; };
112 37D928780F21331F001D4494 /* rarecalc.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D928010F21331F001D4494 /* rarecalc.cpp */; };
113 37D928790F21331F001D4494 /* raredisplay.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D928030F21331F001D4494 /* raredisplay.cpp */; };
114 37D9287A0F21331F001D4494 /* rarefact.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D928050F21331F001D4494 /* rarefact.cpp */; };
115 37D9287B0F21331F001D4494 /* rarefactcommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D928070F21331F001D4494 /* rarefactcommand.cpp */; };
116 37D9287C0F21331F001D4494 /* rarefactsharedcommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D9280A0F21331F001D4494 /* rarefactsharedcommand.cpp */; };
117 37D928840F21331F001D4494 /* sabundvector.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D9281A0F21331F001D4494 /* sabundvector.cpp */; };
118 37D928850F21331F001D4494 /* sequence.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D9281C0F21331F001D4494 /* sequence.cpp */; };
119 37D928860F21331F001D4494 /* shannon.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D9281E0F21331F001D4494 /* shannon.cpp */; };
120 37D928870F21331F001D4494 /* shared.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D928200F21331F001D4494 /* shared.cpp */; };
121 37D928880F21331F001D4494 /* sharedace.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D928220F21331F001D4494 /* sharedace.cpp */; };
122 37D928890F21331F001D4494 /* sharedchao1.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D928240F21331F001D4494 /* sharedchao1.cpp */; };
123 37D9288A0F21331F001D4494 /* sharedcommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D928260F21331F001D4494 /* sharedcommand.cpp */; };
124 37D9288B0F21331F001D4494 /* sharedjabund.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D928280F21331F001D4494 /* sharedjabund.cpp */; };
125 37D9288C0F21331F001D4494 /* sharedjclass.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D9282A0F21331F001D4494 /* sharedjclass.cpp */; };
126 37D9288D0F21331F001D4494 /* sharedjest.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D9282C0F21331F001D4494 /* sharedjest.cpp */; };
127 37D9288E0F21331F001D4494 /* sharedordervector.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D9282E0F21331F001D4494 /* sharedordervector.cpp */; };
128 37D9288F0F21331F001D4494 /* sharedrabundvector.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D928300F21331F001D4494 /* sharedrabundvector.cpp */; };
129 37D928900F21331F001D4494 /* sharedsabundvector.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D928320F21331F001D4494 /* sharedsabundvector.cpp */; };
130 37D928910F21331F001D4494 /* sharedsobs.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D928340F21331F001D4494 /* sharedsobs.cpp */; };
131 37D928920F21331F001D4494 /* sharedsorabund.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D928360F21331F001D4494 /* sharedsorabund.cpp */; };
132 37D928930F21331F001D4494 /* sharedsorclass.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D928380F21331F001D4494 /* sharedsorclass.cpp */; };
133 37D928940F21331F001D4494 /* sharedsorest.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D9283A0F21331F001D4494 /* sharedsorest.cpp */; };
134 37D928950F21331F001D4494 /* sharedthetan.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D9283C0F21331F001D4494 /* sharedthetan.cpp */; };
135 37D928960F21331F001D4494 /* sharedthetayc.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D9283E0F21331F001D4494 /* sharedthetayc.cpp */; };
136 37D928970F21331F001D4494 /* simpson.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D928400F21331F001D4494 /* simpson.cpp */; };
137 37D928980F21331F001D4494 /* singlelinkage.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D928420F21331F001D4494 /* singlelinkage.cpp */; };
138 37D928990F21331F001D4494 /* sparsematrix.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D928440F21331F001D4494 /* sparsematrix.cpp */; };
139 37D9289A0F21331F001D4494 /* summarycommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D928460F21331F001D4494 /* summarycommand.cpp */; };
140 37D9289B0F21331F001D4494 /* summarysharedcommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D9284A0F21331F001D4494 /* summarysharedcommand.cpp */; };
141 37D9289C0F21331F001D4494 /* uvest.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D9284D0F21331F001D4494 /* uvest.cpp */; };
142 37D9289D0F21331F001D4494 /* validcalculator.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D9284F0F21331F001D4494 /* validcalculator.cpp */; };
143 37D9289F0F21331F001D4494 /* validparameter.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37D928530F21331F001D4494 /* validparameter.cpp */; };
144 37E5F3E30F29FD4200F8D827 /* treenode.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37E5F3E20F29FD4200F8D827 /* treenode.cpp */; };
145 37E5F4920F2A3DA800F8D827 /* readtreecommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 37E5F4910F2A3DA800F8D827 /* readtreecommand.cpp */; };
146 7E09C5140FDA79C5002ECAE5 /* reversecommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 7E09C5130FDA79C5002ECAE5 /* reversecommand.cpp */; };
147 7E09C5360FDA7F65002ECAE5 /* trimseqscommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 7E09C5350FDA7F65002ECAE5 /* trimseqscommand.cpp */; };
148 7E412F490F8D21B600381DD0 /* slibshuff.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 7E412F480F8D21B600381DD0 /* slibshuff.cpp */; };
149 7E412FEA0F8D3E2C00381DD0 /* libshuff.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 7E412FE90F8D3E2C00381DD0 /* libshuff.cpp */; };
150 7E4130F80F8E58FA00381DD0 /* dlibshuff.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 7E4130F60F8E58FA00381DD0 /* dlibshuff.cpp */; };
151 7E5A17AF0FE57292003C6A03 /* mergefilecommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 7E5A17AE0FE57292003C6A03 /* mergefilecommand.cpp */; };
152 7EC3D4550FA0FFF900338DA5 /* coverage.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 7EC3D4500FA0FFF900338DA5 /* coverage.cpp */; };
153 7EC3D4560FA0FFF900338DA5 /* whittaker.cpp in Sources */ = {isa = PBXBuildFile; fileRef = 7EC3D4530FA0FFF900338DA5 /* whittaker.cpp */; };
154 8DD76F6A0486A84900D96B5E /* Mothur.1 in CopyFiles */ = {isa = PBXBuildFile; fileRef = C6859E8B029090EE04C91782 /* Mothur.1 */; };
155 A70B53AA0F4CD7AD0064797E /* getgroupcommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A70B53A40F4CD7AD0064797E /* getgroupcommand.cpp */; };
156 A70B53AB0F4CD7AD0064797E /* getlabelcommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A70B53A60F4CD7AD0064797E /* getlabelcommand.cpp */; };
157 A70B53AC0F4CD7AD0064797E /* getlinecommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A70B53A80F4CD7AD0064797E /* getlinecommand.cpp */; };
158 EB1216880F619B83004A865F /* bergerparker.cpp in Sources */ = {isa = PBXBuildFile; fileRef = EB1216870F619B83004A865F /* bergerparker.cpp */; };
159 EB1216E50F61ACFB004A865F /* bstick.cpp in Sources */ = {isa = PBXBuildFile; fileRef = EB1216E40F61ACFB004A865F /* bstick.cpp */; };
160 EB1217230F61C9AC004A865F /* sharedkstest.cpp in Sources */ = {isa = PBXBuildFile; fileRef = EB1217220F61C9AC004A865F /* sharedkstest.cpp */; };
161 EB6E68190F5F1C780044E17B /* qstat.cpp in Sources */ = {isa = PBXBuildFile; fileRef = EB6E68180F5F1C780044E17B /* qstat.cpp */; };
162 EB72FE260FC1F5CA0051AC11 /* shen.cpp in Sources */ = {isa = PBXBuildFile; fileRef = EB72FE240FC1F5CA0051AC11 /* shen.cpp */; };
163 EB9303EB0F534D9400E8EF26 /* logsd.cpp in Sources */ = {isa = PBXBuildFile; fileRef = EB9303EA0F534D9400E8EF26 /* logsd.cpp */; };
164 EB9303F90F53517300E8EF26 /* geom.cpp in Sources */ = {isa = PBXBuildFile; fileRef = EB9303F80F53517300E8EF26 /* geom.cpp */; };
165 /* End PBXBuildFile section */
167 /* Begin PBXCopyFilesBuildPhase section */
168 8DD76F690486A84900D96B5E /* CopyFiles */ = {
169 isa = PBXCopyFilesBuildPhase;
171 dstPath = /usr/share/man/man1/;
172 dstSubfolderSpec = 0;
174 8DD76F6A0486A84900D96B5E /* Mothur.1 in CopyFiles */,
176 runOnlyForDeploymentPostprocessing = 1;
178 /* End PBXCopyFilesBuildPhase section */
180 /* Begin PBXFileReference section */
181 211C38300F961DD400FEE541 /* sharedutilities.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedutilities.cpp; sourceTree = SOURCE_ROOT; };
182 211C38310F961DD400FEE541 /* sharedutilities.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedutilities.h; sourceTree = SOURCE_ROOT; };
183 211C38360F961E1F00FEE541 /* treegroupscommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = treegroupscommand.cpp; sourceTree = SOURCE_ROOT; };
184 211C38370F961E1F00FEE541 /* treegroupscommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = treegroupscommand.h; sourceTree = SOURCE_ROOT; };
185 21DDC0190F97A8FE0060691C /* bootstrapsharedcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = bootstrapsharedcommand.h; sourceTree = SOURCE_ROOT; };
186 21DDC01A0F97A8FE0060691C /* bootstrapsharedcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = bootstrapsharedcommand.cpp; sourceTree = SOURCE_ROOT; };
187 21E859D60FC4632E005E1A48 /* matrixoutputcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = matrixoutputcommand.h; sourceTree = SOURCE_ROOT; };
188 21E859D70FC4632E005E1A48 /* matrixoutputcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = matrixoutputcommand.cpp; sourceTree = SOURCE_ROOT; };
189 370B88050F8A4EE4005AB382 /* getoturepcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = getoturepcommand.h; sourceTree = SOURCE_ROOT; };
190 370B88060F8A4EE4005AB382 /* getoturepcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = getoturepcommand.cpp; sourceTree = SOURCE_ROOT; };
191 371B30B20FD7EE67000414CA /* screenseqscommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = screenseqscommand.cpp; sourceTree = SOURCE_ROOT; };
192 371B30B30FD7EE67000414CA /* screenseqscommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = screenseqscommand.h; sourceTree = SOURCE_ROOT; };
193 372E126E0F26365B0095CF7E /* readotucommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = readotucommand.h; sourceTree = SOURCE_ROOT; };
194 372E126F0F26365B0095CF7E /* readotucommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = readotucommand.cpp; sourceTree = SOURCE_ROOT; };
195 372E12940F263D5A0095CF7E /* readdistcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = readdistcommand.h; sourceTree = SOURCE_ROOT; };
196 372E12950F263D5A0095CF7E /* readdistcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = readdistcommand.cpp; sourceTree = SOURCE_ROOT; };
197 372E12EC0F264D320095CF7E /* commandfactory.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = commandfactory.cpp; sourceTree = SOURCE_ROOT; };
198 373C68A00FC1C07D00137ACD /* alignment.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = alignment.cpp; sourceTree = SOURCE_ROOT; };
199 373C68A10FC1C07D00137ACD /* alignment.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = alignment.hpp; sourceTree = SOURCE_ROOT; };
200 373C68A20FC1C07D00137ACD /* alignmentcell.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = alignmentcell.cpp; sourceTree = SOURCE_ROOT; };
201 373C68A30FC1C07D00137ACD /* alignmentcell.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = alignmentcell.hpp; sourceTree = SOURCE_ROOT; };
202 373C68BA0FC1C1A600137ACD /* gotohoverlap.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = gotohoverlap.cpp; sourceTree = SOURCE_ROOT; };
203 373C68BB0FC1C1A600137ACD /* gotohoverlap.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = gotohoverlap.hpp; sourceTree = SOURCE_ROOT; };
204 373C68C30FC1C25F00137ACD /* overlap.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = overlap.cpp; sourceTree = SOURCE_ROOT; };
205 373C68C40FC1C25F00137ACD /* overlap.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = overlap.hpp; sourceTree = SOURCE_ROOT; };
206 373C68CD0FC1C2D900137ACD /* needlemanoverlap.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = needlemanoverlap.cpp; sourceTree = SOURCE_ROOT; };
207 373C68CE0FC1C2D900137ACD /* needlemanoverlap.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = needlemanoverlap.hpp; sourceTree = SOURCE_ROOT; };
208 373C68DB0FC1C38D00137ACD /* blastalign.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = blastalign.cpp; sourceTree = SOURCE_ROOT; };
209 373C68DC0FC1C38D00137ACD /* blastalign.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = blastalign.hpp; sourceTree = SOURCE_ROOT; };
210 373C68E30FC1C4A500137ACD /* noalign.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = noalign.cpp; sourceTree = SOURCE_ROOT; };
211 373C68E40FC1C4A500137ACD /* noalign.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = noalign.hpp; sourceTree = SOURCE_ROOT; };
212 373C68F30FC1C6A800137ACD /* suffixdb.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = suffixdb.cpp; sourceTree = SOURCE_ROOT; };
213 373C68F40FC1C6A800137ACD /* suffixdb.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = suffixdb.hpp; sourceTree = SOURCE_ROOT; };
214 373C68F50FC1C6A800137ACD /* suffixnodes.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = suffixnodes.cpp; sourceTree = SOURCE_ROOT; };
215 373C68F60FC1C6A800137ACD /* suffixnodes.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = suffixnodes.hpp; sourceTree = SOURCE_ROOT; };
216 373C68F70FC1C6A800137ACD /* suffixtree.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = suffixtree.cpp; sourceTree = SOURCE_ROOT; };
217 373C68F80FC1C6A800137ACD /* suffixtree.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = suffixtree.hpp; sourceTree = SOURCE_ROOT; };
218 373C69160FC1C8AF00137ACD /* blastdb.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = blastdb.cpp; sourceTree = SOURCE_ROOT; };
219 373C69170FC1C8AF00137ACD /* blastdb.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = blastdb.hpp; sourceTree = SOURCE_ROOT; };
220 373C691D0FC1C98600137ACD /* nast.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = nast.cpp; sourceTree = SOURCE_ROOT; };
221 373C691E0FC1C98600137ACD /* nast.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = nast.hpp; sourceTree = SOURCE_ROOT; };
222 373C69290FC1C9EB00137ACD /* nastreport.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = nastreport.cpp; sourceTree = SOURCE_ROOT; };
223 373C692A0FC1C9EB00137ACD /* nastreport.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = nastreport.hpp; sourceTree = SOURCE_ROOT; };
224 373C69940FC1E63600137ACD /* boneh.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = boneh.cpp; sourceTree = SOURCE_ROOT; };
225 373C69950FC1E63600137ACD /* boneh.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = boneh.h; sourceTree = SOURCE_ROOT; };
226 373C69960FC1E63600137ACD /* efron.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = efron.cpp; sourceTree = SOURCE_ROOT; };
227 373C69970FC1E63600137ACD /* efron.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = efron.h; sourceTree = SOURCE_ROOT; };
228 373C69980FC1E63600137ACD /* solow.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = solow.cpp; sourceTree = SOURCE_ROOT; };
229 373C69990FC1E63600137ACD /* solow.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = solow.h; sourceTree = SOURCE_ROOT; };
230 374610760F40645300460C57 /* unifracweightedcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = unifracweightedcommand.h; sourceTree = SOURCE_ROOT; };
231 374610770F40645300460C57 /* unifracweightedcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = unifracweightedcommand.cpp; sourceTree = SOURCE_ROOT; };
232 3746107C0F4064D100460C57 /* weighted.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = weighted.h; sourceTree = SOURCE_ROOT; };
233 3746107D0F4064D100460C57 /* weighted.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = weighted.cpp; sourceTree = SOURCE_ROOT; };
234 374610810F40652400460C57 /* unweighted.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = unweighted.h; sourceTree = SOURCE_ROOT; };
235 374610820F40652400460C57 /* unweighted.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = unweighted.cpp; sourceTree = SOURCE_ROOT; };
236 3746109B0F40657600460C57 /* unifracunweightedcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = unifracunweightedcommand.h; sourceTree = SOURCE_ROOT; };
237 3746109C0F40657600460C57 /* unifracunweightedcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = unifracunweightedcommand.cpp; sourceTree = SOURCE_ROOT; };
238 3749271B0FD58C840031C06B /* getsabundcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = getsabundcommand.h; sourceTree = SOURCE_ROOT; };
239 3749271C0FD58C840031C06B /* getsabundcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = getsabundcommand.cpp; sourceTree = SOURCE_ROOT; };
240 3749273D0FD5956B0031C06B /* getrabundcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = getrabundcommand.h; sourceTree = SOURCE_ROOT; };
241 3749273E0FD5956B0031C06B /* getrabundcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = getrabundcommand.cpp; sourceTree = SOURCE_ROOT; };
242 37519A690F80E6EB00FED5E8 /* sharedanderbergs.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedanderbergs.h; sourceTree = SOURCE_ROOT; };
243 37519A6A0F80E6EB00FED5E8 /* sharedanderbergs.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedanderbergs.cpp; sourceTree = SOURCE_ROOT; };
244 37519A9F0F810D0200FED5E8 /* venncommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = venncommand.h; sourceTree = SOURCE_ROOT; };
245 37519AA00F810D0200FED5E8 /* venncommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = venncommand.cpp; sourceTree = SOURCE_ROOT; };
246 37519AB30F810FAE00FED5E8 /* venn.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = venn.h; sourceTree = SOURCE_ROOT; };
247 37519AB40F810FAE00FED5E8 /* venn.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = venn.cpp; sourceTree = SOURCE_ROOT; };
248 375873EA0F7D64520040F377 /* fullmatrix.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = fullmatrix.h; sourceTree = SOURCE_ROOT; };
249 375873EB0F7D64520040F377 /* fullmatrix.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = fullmatrix.cpp; sourceTree = SOURCE_ROOT; };
250 375873ED0F7D646F0040F377 /* heatmap.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = heatmap.h; sourceTree = SOURCE_ROOT; };
251 375873EE0F7D646F0040F377 /* heatmap.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = heatmap.cpp; sourceTree = SOURCE_ROOT; };
252 375873F00F7D64800040F377 /* heatmapcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = heatmapcommand.cpp; sourceTree = SOURCE_ROOT; };
253 375873F10F7D64800040F377 /* heatmapcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = heatmapcommand.h; sourceTree = SOURCE_ROOT; };
254 375873F30F7D648F0040F377 /* libshuffcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = libshuffcommand.cpp; sourceTree = SOURCE_ROOT; };
255 375873F40F7D648F0040F377 /* libshuffcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = libshuffcommand.h; sourceTree = SOURCE_ROOT; };
256 375873F60F7D649C0040F377 /* nocommands.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = nocommands.cpp; sourceTree = SOURCE_ROOT; };
257 375873F70F7D649C0040F377 /* nocommands.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = nocommands.h; sourceTree = SOURCE_ROOT; };
258 375873F90F7D64AB0040F377 /* nseqs.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = nseqs.h; sourceTree = SOURCE_ROOT; };
259 375873FB0F7D64DA0040F377 /* sharedbraycurtis.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedbraycurtis.h; sourceTree = SOURCE_ROOT; };
260 375873FC0F7D64DA0040F377 /* sharedbraycurtis.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedbraycurtis.cpp; sourceTree = SOURCE_ROOT; };
261 375873FE0F7D64EF0040F377 /* sharedkulczynski.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedkulczynski.cpp; sourceTree = SOURCE_ROOT; };
262 375873FF0F7D64EF0040F377 /* sharedlennon.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedlennon.cpp; sourceTree = SOURCE_ROOT; };
263 375874000F7D64EF0040F377 /* sharedkulczynski.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedkulczynski.h; sourceTree = SOURCE_ROOT; };
264 375874010F7D64EF0040F377 /* sharedlennon.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedlennon.h; sourceTree = SOURCE_ROOT; };
265 375874020F7D64EF0040F377 /* sharedkulczynskicody.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedkulczynskicody.cpp; sourceTree = SOURCE_ROOT; };
266 375874030F7D64EF0040F377 /* sharedkulczynskicody.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedkulczynskicody.h; sourceTree = SOURCE_ROOT; };
267 375874070F7D64FC0040F377 /* sharedmorisitahorn.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedmorisitahorn.h; sourceTree = SOURCE_ROOT; };
268 375874080F7D64FC0040F377 /* sharedmorisitahorn.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedmorisitahorn.cpp; sourceTree = SOURCE_ROOT; };
269 375874090F7D64FC0040F377 /* sharedochiai.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedochiai.h; sourceTree = SOURCE_ROOT; };
270 3758740A0F7D64FC0040F377 /* sharednseqs.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharednseqs.h; sourceTree = SOURCE_ROOT; };
271 3758740B0F7D64FC0040F377 /* sharedochiai.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedochiai.cpp; sourceTree = SOURCE_ROOT; };
272 375AA1330F9E433D008EF9B8 /* readcolumn.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = readcolumn.cpp; sourceTree = SOURCE_ROOT; };
273 375AA1340F9E433D008EF9B8 /* readcolumn.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = readcolumn.h; sourceTree = SOURCE_ROOT; };
274 375AA1350F9E433D008EF9B8 /* readotu.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = readotu.cpp; sourceTree = SOURCE_ROOT; };
275 375AA1360F9E433D008EF9B8 /* readotu.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = readotu.h; sourceTree = SOURCE_ROOT; };
276 375AA1370F9E433D008EF9B8 /* readphylip.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = readphylip.cpp; sourceTree = SOURCE_ROOT; };
277 375AA1380F9E433D008EF9B8 /* readphylip.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = readphylip.h; sourceTree = SOURCE_ROOT; };
278 377326630FAF16E0007ABB8B /* concensuscommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = concensuscommand.cpp; sourceTree = SOURCE_ROOT; };
279 377326640FAF16E0007ABB8B /* concensuscommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = concensuscommand.h; sourceTree = SOURCE_ROOT; };
280 378598640FDD497000EF9D03 /* heatmapsimcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = heatmapsimcommand.h; sourceTree = SOURCE_ROOT; };
281 378598650FDD497000EF9D03 /* heatmapsimcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = heatmapsimcommand.cpp; sourceTree = SOURCE_ROOT; };
282 378598720FDD4C1500EF9D03 /* heatmapsim.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = heatmapsim.h; sourceTree = SOURCE_ROOT; };
283 378598730FDD4C1500EF9D03 /* heatmapsim.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = heatmapsim.cpp; sourceTree = SOURCE_ROOT; };
284 3785990E0FDD7E8E00EF9D03 /* optionparser.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = optionparser.h; sourceTree = SOURCE_ROOT; };
285 3785990F0FDD7E8E00EF9D03 /* optionparser.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = optionparser.cpp; sourceTree = SOURCE_ROOT; };
286 378C1AEE0FB0644D004D63F5 /* filterseqscommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = filterseqscommand.cpp; sourceTree = SOURCE_ROOT; };
287 378C1AEF0FB0644D004D63F5 /* filterseqscommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = filterseqscommand.h; sourceTree = SOURCE_ROOT; };
288 378C1AF00FB0644D004D63F5 /* goodscoverage.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = goodscoverage.cpp; sourceTree = SOURCE_ROOT; };
289 378C1AF10FB0644D004D63F5 /* goodscoverage.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = goodscoverage.h; sourceTree = SOURCE_ROOT; };
290 378C1AFD0FB0644D004D63F5 /* sequencedb.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sequencedb.cpp; sourceTree = SOURCE_ROOT; };
291 378C1AFE0FB0644D004D63F5 /* sequencedb.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sequencedb.h; sourceTree = SOURCE_ROOT; };
292 378C1AFF0FB0644D004D63F5 /* sharedjackknife.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedjackknife.cpp; sourceTree = SOURCE_ROOT; };
293 378C1B000FB0644D004D63F5 /* sharedjackknife.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedjackknife.h; sourceTree = SOURCE_ROOT; };
294 378C1B010FB0644D004D63F5 /* sharedmarczewski.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedmarczewski.cpp; sourceTree = SOURCE_ROOT; };
295 378C1B020FB0644D004D63F5 /* sharedmarczewski.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedmarczewski.h; sourceTree = SOURCE_ROOT; };
296 378DC5CD0FBDE1C8003B8607 /* aligncommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = aligncommand.h; sourceTree = SOURCE_ROOT; };
297 378DC5CE0FBDE1C8003B8607 /* aligncommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = aligncommand.cpp; sourceTree = SOURCE_ROOT; };
298 379293C10F2DE73400B9034A /* treemap.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = treemap.h; sourceTree = SOURCE_ROOT; };
299 379293C20F2DE73400B9034A /* treemap.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = treemap.cpp; sourceTree = SOURCE_ROOT; };
300 3792946E0F2E191800B9034A /* parsimonycommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = parsimonycommand.h; sourceTree = SOURCE_ROOT; };
301 3792946F0F2E191800B9034A /* parsimonycommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = parsimonycommand.cpp; sourceTree = SOURCE_ROOT; };
302 379294880F2E258500B9034A /* parsimony.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = parsimony.h; sourceTree = SOURCE_ROOT; };
303 379294890F2E258500B9034A /* parsimony.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = parsimony.cpp; sourceTree = SOURCE_ROOT; };
304 3792948D0F2E271100B9034A /* treecalculator.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = treecalculator.h; sourceTree = SOURCE_ROOT; };
305 3799A94C0FD6A58C00E33EDE /* distancedb.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = distancedb.cpp; sourceTree = SOURCE_ROOT; };
306 3799A94D0FD6A58C00E33EDE /* distancedb.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = distancedb.hpp; sourceTree = SOURCE_ROOT; };
307 3799A94E0FD6A58C00E33EDE /* seqsummarycommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = seqsummarycommand.cpp; sourceTree = SOURCE_ROOT; };
308 3799A94F0FD6A58C00E33EDE /* seqsummarycommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = seqsummarycommand.h; sourceTree = SOURCE_ROOT; };
309 37AD4CE20F28AEA300AA2D49 /* sharedlistvector.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedlistvector.h; sourceTree = SOURCE_ROOT; };
310 37AD4CE30F28AEA300AA2D49 /* sharedlistvector.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedlistvector.cpp; sourceTree = SOURCE_ROOT; };
311 37AD4DB90F28E2FE00AA2D49 /* tree.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = tree.h; sourceTree = SOURCE_ROOT; };
312 37AD4DBA0F28E2FE00AA2D49 /* tree.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = tree.cpp; sourceTree = SOURCE_ROOT; };
313 37AD4DC80F28F3DD00AA2D49 /* readtree.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = readtree.h; sourceTree = SOURCE_ROOT; };
314 37AD4DC90F28F3DD00AA2D49 /* readtree.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = readtree.cpp; sourceTree = SOURCE_ROOT; };
315 37AFC71D0F445386005F492D /* sharedsobscollectsummary.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedsobscollectsummary.h; sourceTree = SOURCE_ROOT; };
316 37AFC71E0F445386005F492D /* sharedsobscollectsummary.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedsobscollectsummary.cpp; sourceTree = SOURCE_ROOT; };
317 37B28F660F27590100808A62 /* deconvolutecommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = deconvolutecommand.h; sourceTree = SOURCE_ROOT; };
318 37B28F670F27590100808A62 /* deconvolutecommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = deconvolutecommand.cpp; sourceTree = SOURCE_ROOT; };
319 37C1D9710F86506E0059E3F0 /* binsequencecommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = binsequencecommand.h; sourceTree = SOURCE_ROOT; };
320 37C1D9720F86506E0059E3F0 /* binsequencecommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = binsequencecommand.cpp; sourceTree = SOURCE_ROOT; };
321 37C753CC0FB3415200DBD02E /* distancecommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = distancecommand.h; sourceTree = SOURCE_ROOT; };
322 37C753CD0FB3415200DBD02E /* distancecommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = distancecommand.cpp; sourceTree = SOURCE_ROOT; };
323 37C753DF0FB3492400DBD02E /* dist.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = dist.h; sourceTree = SOURCE_ROOT; };
324 37C753ED0FB34A5700DBD02E /* ignoregaps.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = ignoregaps.h; sourceTree = SOURCE_ROOT; };
325 37C753F00FB34AE800DBD02E /* eachgapdist.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = eachgapdist.h; sourceTree = SOURCE_ROOT; };
326 37C753F10FB34B4700DBD02E /* onegapdist.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = onegapdist.h; sourceTree = SOURCE_ROOT; };
327 37C753F30FB34BBF00DBD02E /* onegapignore.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = onegapignore.h; sourceTree = SOURCE_ROOT; };
328 37C753F40FB34C0300DBD02E /* eachgapignore.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = eachgapignore.h; sourceTree = SOURCE_ROOT; };
329 37D927B80F21331F001D4494 /* ace.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = ace.cpp; sourceTree = SOURCE_ROOT; };
330 37D927B90F21331F001D4494 /* ace.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = ace.h; sourceTree = SOURCE_ROOT; };
331 37D927BA0F21331F001D4494 /* averagelinkage.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = averagelinkage.cpp; sourceTree = SOURCE_ROOT; };
332 37D927BB0F21331F001D4494 /* bootstrap.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = bootstrap.cpp; sourceTree = SOURCE_ROOT; };
333 37D927BC0F21331F001D4494 /* bootstrap.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = bootstrap.h; sourceTree = SOURCE_ROOT; };
334 37D927BD0F21331F001D4494 /* calculator.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = calculator.cpp; sourceTree = SOURCE_ROOT; };
335 37D927BE0F21331F001D4494 /* calculator.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = calculator.h; sourceTree = SOURCE_ROOT; };
336 37D927BF0F21331F001D4494 /* chao1.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = chao1.cpp; sourceTree = SOURCE_ROOT; };
337 37D927C00F21331F001D4494 /* chao1.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = chao1.h; sourceTree = SOURCE_ROOT; };
338 37D927C10F21331F001D4494 /* cluster.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = cluster.cpp; sourceTree = SOURCE_ROOT; };
339 37D927C20F21331F001D4494 /* cluster.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = cluster.hpp; sourceTree = SOURCE_ROOT; };
340 37D927C30F21331F001D4494 /* clustercommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = clustercommand.cpp; sourceTree = SOURCE_ROOT; };
341 37D927C40F21331F001D4494 /* clustercommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = clustercommand.h; sourceTree = SOURCE_ROOT; };
342 37D927C50F21331F001D4494 /* collect.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = collect.cpp; sourceTree = SOURCE_ROOT; };
343 37D927C60F21331F001D4494 /* collect.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = collect.h; sourceTree = SOURCE_ROOT; };
344 37D927C70F21331F001D4494 /* collectcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = collectcommand.cpp; sourceTree = SOURCE_ROOT; };
345 37D927C80F21331F001D4494 /* collectcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = collectcommand.h; sourceTree = SOURCE_ROOT; };
346 37D927C90F21331F001D4494 /* collectdisplay.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = collectdisplay.h; sourceTree = SOURCE_ROOT; };
347 37D927CA0F21331F001D4494 /* collectorscurvedata.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = collectorscurvedata.h; sourceTree = SOURCE_ROOT; };
348 37D927CB0F21331F001D4494 /* collectsharedcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = collectsharedcommand.cpp; sourceTree = SOURCE_ROOT; };
349 37D927CC0F21331F001D4494 /* collectsharedcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = collectsharedcommand.h; sourceTree = SOURCE_ROOT; };
350 37D927CD0F21331F001D4494 /* command.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = command.hpp; sourceTree = SOURCE_ROOT; };
351 37D927CF0F21331F001D4494 /* commandfactory.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = commandfactory.hpp; sourceTree = SOURCE_ROOT; };
352 37D927D00F21331F001D4494 /* commandoptionparser.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = commandoptionparser.cpp; sourceTree = SOURCE_ROOT; };
353 37D927D10F21331F001D4494 /* commandoptionparser.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = commandoptionparser.hpp; sourceTree = SOURCE_ROOT; };
354 37D927D20F21331F001D4494 /* completelinkage.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = completelinkage.cpp; sourceTree = SOURCE_ROOT; };
355 37D927D30F21331F001D4494 /* database.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = database.cpp; sourceTree = SOURCE_ROOT; };
356 37D927D40F21331F001D4494 /* database.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = database.hpp; sourceTree = SOURCE_ROOT; };
357 37D927D50F21331F001D4494 /* datavector.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = datavector.hpp; sourceTree = SOURCE_ROOT; };
358 37D927D60F21331F001D4494 /* display.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = display.h; sourceTree = SOURCE_ROOT; };
359 37D927D70F21331F001D4494 /* engine.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = engine.cpp; sourceTree = SOURCE_ROOT; };
360 37D927D80F21331F001D4494 /* engine.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = engine.hpp; sourceTree = SOURCE_ROOT; };
361 37D927DB0F21331F001D4494 /* fastamap.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = fastamap.cpp; sourceTree = SOURCE_ROOT; };
362 37D927DC0F21331F001D4494 /* fastamap.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = fastamap.h; sourceTree = SOURCE_ROOT; };
363 37D927DD0F21331F001D4494 /* fileoutput.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = fileoutput.cpp; sourceTree = SOURCE_ROOT; };
364 37D927DE0F21331F001D4494 /* fileoutput.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = fileoutput.h; sourceTree = SOURCE_ROOT; };
365 37D927DF0F21331F001D4494 /* globaldata.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = globaldata.cpp; sourceTree = SOURCE_ROOT; };
366 37D927E00F21331F001D4494 /* globaldata.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = globaldata.hpp; sourceTree = SOURCE_ROOT; };
367 37D927E10F21331F001D4494 /* groupmap.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = groupmap.cpp; sourceTree = SOURCE_ROOT; };
368 37D927E20F21331F001D4494 /* groupmap.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = groupmap.h; sourceTree = SOURCE_ROOT; };
369 37D927E30F21331F001D4494 /* helpcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = helpcommand.cpp; sourceTree = SOURCE_ROOT; };
370 37D927E40F21331F001D4494 /* helpcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = helpcommand.h; sourceTree = SOURCE_ROOT; };
371 37D927E50F21331F001D4494 /* inputdata.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = inputdata.cpp; sourceTree = SOURCE_ROOT; };
372 37D927E60F21331F001D4494 /* inputdata.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = inputdata.h; sourceTree = SOURCE_ROOT; };
373 37D927E70F21331F001D4494 /* jackknife.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = jackknife.cpp; sourceTree = SOURCE_ROOT; };
374 37D927E80F21331F001D4494 /* jackknife.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = jackknife.h; sourceTree = SOURCE_ROOT; };
375 37D927E90F21331F001D4494 /* kmer.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = kmer.cpp; sourceTree = SOURCE_ROOT; };
376 37D927EA0F21331F001D4494 /* kmer.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = kmer.hpp; sourceTree = SOURCE_ROOT; };
377 37D927EB0F21331F001D4494 /* kmerdb.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = kmerdb.cpp; sourceTree = SOURCE_ROOT; };
378 37D927EC0F21331F001D4494 /* kmerdb.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = kmerdb.hpp; sourceTree = SOURCE_ROOT; };
379 37D927ED0F21331F001D4494 /* listvector.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = listvector.cpp; sourceTree = SOURCE_ROOT; };
380 37D927EE0F21331F001D4494 /* listvector.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = listvector.hpp; sourceTree = SOURCE_ROOT; };
381 37D927EF0F21331F001D4494 /* mothur.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = mothur.cpp; sourceTree = SOURCE_ROOT; };
382 37D927F00F21331F001D4494 /* nameassignment.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = nameassignment.cpp; sourceTree = SOURCE_ROOT; };
383 37D927F10F21331F001D4494 /* nameassignment.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = nameassignment.hpp; sourceTree = SOURCE_ROOT; };
384 37D927F40F21331F001D4494 /* npshannon.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = npshannon.cpp; sourceTree = SOURCE_ROOT; };
385 37D927F50F21331F001D4494 /* npshannon.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = npshannon.h; sourceTree = SOURCE_ROOT; };
386 37D927F60F21331F001D4494 /* observable.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = observable.h; sourceTree = SOURCE_ROOT; };
387 37D927F70F21331F001D4494 /* ordervector.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = ordervector.cpp; sourceTree = SOURCE_ROOT; };
388 37D927F80F21331F001D4494 /* ordervector.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = ordervector.hpp; sourceTree = SOURCE_ROOT; };
389 37D927F90F21331F001D4494 /* parselistcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = parselistcommand.cpp; sourceTree = SOURCE_ROOT; };
390 37D927FA0F21331F001D4494 /* parselistcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = parselistcommand.h; sourceTree = SOURCE_ROOT; };
391 37D927FB0F21331F001D4494 /* progress.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = progress.cpp; sourceTree = SOURCE_ROOT; };
392 37D927FC0F21331F001D4494 /* progress.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = progress.hpp; sourceTree = SOURCE_ROOT; };
393 37D927FD0F21331F001D4494 /* quitcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = quitcommand.cpp; sourceTree = SOURCE_ROOT; };
394 37D927FE0F21331F001D4494 /* quitcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = quitcommand.h; sourceTree = SOURCE_ROOT; };
395 37D927FF0F21331F001D4494 /* rabundvector.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = rabundvector.cpp; sourceTree = SOURCE_ROOT; };
396 37D928000F21331F001D4494 /* rabundvector.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = rabundvector.hpp; sourceTree = SOURCE_ROOT; };
397 37D928010F21331F001D4494 /* rarecalc.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = rarecalc.cpp; sourceTree = SOURCE_ROOT; };
398 37D928020F21331F001D4494 /* rarecalc.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = rarecalc.h; sourceTree = SOURCE_ROOT; };
399 37D928030F21331F001D4494 /* raredisplay.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = raredisplay.cpp; sourceTree = SOURCE_ROOT; };
400 37D928040F21331F001D4494 /* raredisplay.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = raredisplay.h; sourceTree = SOURCE_ROOT; };
401 37D928050F21331F001D4494 /* rarefact.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = rarefact.cpp; sourceTree = SOURCE_ROOT; };
402 37D928060F21331F001D4494 /* rarefact.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = rarefact.h; sourceTree = SOURCE_ROOT; };
403 37D928070F21331F001D4494 /* rarefactcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = rarefactcommand.cpp; sourceTree = SOURCE_ROOT; };
404 37D928080F21331F001D4494 /* rarefactcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = rarefactcommand.h; sourceTree = SOURCE_ROOT; };
405 37D928090F21331F001D4494 /* rarefactioncurvedata.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = rarefactioncurvedata.h; sourceTree = SOURCE_ROOT; };
406 37D9280A0F21331F001D4494 /* rarefactsharedcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = rarefactsharedcommand.cpp; sourceTree = SOURCE_ROOT; };
407 37D9280B0F21331F001D4494 /* rarefactsharedcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = rarefactsharedcommand.h; sourceTree = SOURCE_ROOT; };
408 37D928130F21331F001D4494 /* readmatrix.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = readmatrix.hpp; sourceTree = SOURCE_ROOT; };
409 37D9281A0F21331F001D4494 /* sabundvector.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sabundvector.cpp; sourceTree = SOURCE_ROOT; };
410 37D9281B0F21331F001D4494 /* sabundvector.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = sabundvector.hpp; sourceTree = SOURCE_ROOT; };
411 37D9281C0F21331F001D4494 /* sequence.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sequence.cpp; sourceTree = SOURCE_ROOT; };
412 37D9281D0F21331F001D4494 /* sequence.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = sequence.hpp; sourceTree = SOURCE_ROOT; };
413 37D9281E0F21331F001D4494 /* shannon.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = shannon.cpp; sourceTree = SOURCE_ROOT; };
414 37D9281F0F21331F001D4494 /* shannon.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = shannon.h; sourceTree = SOURCE_ROOT; };
415 37D928200F21331F001D4494 /* shared.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = shared.cpp; sourceTree = SOURCE_ROOT; };
416 37D928210F21331F001D4494 /* shared.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = shared.h; sourceTree = SOURCE_ROOT; };
417 37D928220F21331F001D4494 /* sharedace.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedace.cpp; sourceTree = SOURCE_ROOT; };
418 37D928230F21331F001D4494 /* sharedace.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedace.h; sourceTree = SOURCE_ROOT; };
419 37D928240F21331F001D4494 /* sharedchao1.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedchao1.cpp; sourceTree = SOURCE_ROOT; };
420 37D928250F21331F001D4494 /* sharedchao1.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedchao1.h; sourceTree = SOURCE_ROOT; };
421 37D928260F21331F001D4494 /* sharedcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedcommand.cpp; sourceTree = SOURCE_ROOT; };
422 37D928270F21331F001D4494 /* sharedcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedcommand.h; sourceTree = SOURCE_ROOT; };
423 37D928280F21331F001D4494 /* sharedjabund.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedjabund.cpp; sourceTree = SOURCE_ROOT; };
424 37D928290F21331F001D4494 /* sharedjabund.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedjabund.h; sourceTree = SOURCE_ROOT; };
425 37D9282A0F21331F001D4494 /* sharedjclass.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedjclass.cpp; sourceTree = SOURCE_ROOT; };
426 37D9282B0F21331F001D4494 /* sharedjclass.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedjclass.h; sourceTree = SOURCE_ROOT; };
427 37D9282C0F21331F001D4494 /* sharedjest.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedjest.cpp; sourceTree = SOURCE_ROOT; };
428 37D9282D0F21331F001D4494 /* sharedjest.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedjest.h; sourceTree = SOURCE_ROOT; };
429 37D9282E0F21331F001D4494 /* sharedordervector.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedordervector.cpp; sourceTree = SOURCE_ROOT; };
430 37D9282F0F21331F001D4494 /* sharedordervector.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedordervector.h; sourceTree = SOURCE_ROOT; };
431 37D928300F21331F001D4494 /* sharedrabundvector.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedrabundvector.cpp; sourceTree = SOURCE_ROOT; };
432 37D928310F21331F001D4494 /* sharedrabundvector.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedrabundvector.h; sourceTree = SOURCE_ROOT; };
433 37D928320F21331F001D4494 /* sharedsabundvector.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedsabundvector.cpp; sourceTree = SOURCE_ROOT; };
434 37D928330F21331F001D4494 /* sharedsabundvector.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedsabundvector.h; sourceTree = SOURCE_ROOT; };
435 37D928340F21331F001D4494 /* sharedsobs.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedsobs.cpp; sourceTree = SOURCE_ROOT; };
436 37D928350F21331F001D4494 /* sharedsobs.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedsobs.h; sourceTree = SOURCE_ROOT; };
437 37D928360F21331F001D4494 /* sharedsorabund.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedsorabund.cpp; sourceTree = SOURCE_ROOT; };
438 37D928370F21331F001D4494 /* sharedsorabund.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedsorabund.h; sourceTree = SOURCE_ROOT; };
439 37D928380F21331F001D4494 /* sharedsorclass.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedsorclass.cpp; sourceTree = SOURCE_ROOT; };
440 37D928390F21331F001D4494 /* sharedsorclass.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedsorclass.h; sourceTree = SOURCE_ROOT; };
441 37D9283A0F21331F001D4494 /* sharedsorest.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedsorest.cpp; sourceTree = SOURCE_ROOT; };
442 37D9283B0F21331F001D4494 /* sharedsorest.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedsorest.h; sourceTree = SOURCE_ROOT; };
443 37D9283C0F21331F001D4494 /* sharedthetan.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedthetan.cpp; sourceTree = SOURCE_ROOT; };
444 37D9283D0F21331F001D4494 /* sharedthetan.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedthetan.h; sourceTree = SOURCE_ROOT; };
445 37D9283E0F21331F001D4494 /* sharedthetayc.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedthetayc.cpp; sourceTree = SOURCE_ROOT; };
446 37D9283F0F21331F001D4494 /* sharedthetayc.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedthetayc.h; sourceTree = SOURCE_ROOT; };
447 37D928400F21331F001D4494 /* simpson.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = simpson.cpp; sourceTree = SOURCE_ROOT; };
448 37D928410F21331F001D4494 /* simpson.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = simpson.h; sourceTree = SOURCE_ROOT; };
449 37D928420F21331F001D4494 /* singlelinkage.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = singlelinkage.cpp; sourceTree = SOURCE_ROOT; };
450 37D928430F21331F001D4494 /* sobs.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sobs.h; sourceTree = SOURCE_ROOT; };
451 37D928440F21331F001D4494 /* sparsematrix.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sparsematrix.cpp; sourceTree = SOURCE_ROOT; };
452 37D928450F21331F001D4494 /* sparsematrix.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = sparsematrix.hpp; sourceTree = SOURCE_ROOT; };
453 37D928460F21331F001D4494 /* summarycommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = summarycommand.cpp; sourceTree = SOURCE_ROOT; };
454 37D928470F21331F001D4494 /* summarycommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = summarycommand.h; sourceTree = SOURCE_ROOT; };
455 37D928480F21331F001D4494 /* summarydata.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = summarydata.h; sourceTree = SOURCE_ROOT; };
456 37D928490F21331F001D4494 /* summarydisplay.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = summarydisplay.h; sourceTree = SOURCE_ROOT; };
457 37D9284A0F21331F001D4494 /* summarysharedcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = summarysharedcommand.cpp; sourceTree = SOURCE_ROOT; };
458 37D9284B0F21331F001D4494 /* summarysharedcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = summarysharedcommand.h; sourceTree = SOURCE_ROOT; };
459 37D9284D0F21331F001D4494 /* uvest.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = uvest.cpp; sourceTree = SOURCE_ROOT; };
460 37D9284E0F21331F001D4494 /* uvest.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = uvest.h; sourceTree = SOURCE_ROOT; };
461 37D9284F0F21331F001D4494 /* validcalculator.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = validcalculator.cpp; sourceTree = SOURCE_ROOT; };
462 37D928500F21331F001D4494 /* validcalculator.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = validcalculator.h; sourceTree = SOURCE_ROOT; };
463 37D928530F21331F001D4494 /* validparameter.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = validparameter.cpp; sourceTree = SOURCE_ROOT; };
464 37D928540F21331F001D4494 /* validparameter.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = validparameter.h; sourceTree = SOURCE_ROOT; };
465 37E3ED800F4D9D0D00B5DF02 /* mothur.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = mothur.h; sourceTree = SOURCE_ROOT; };
466 37E5F3E10F29FD4200F8D827 /* treenode.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = treenode.h; sourceTree = SOURCE_ROOT; };
467 37E5F3E20F29FD4200F8D827 /* treenode.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = treenode.cpp; sourceTree = SOURCE_ROOT; };
468 37E5F4900F2A3DA800F8D827 /* readtreecommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = readtreecommand.h; sourceTree = SOURCE_ROOT; };
469 37E5F4910F2A3DA800F8D827 /* readtreecommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = readtreecommand.cpp; sourceTree = SOURCE_ROOT; };
470 7E09C5120FDA79C5002ECAE5 /* reversecommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = reversecommand.h; sourceTree = SOURCE_ROOT; };
471 7E09C5130FDA79C5002ECAE5 /* reversecommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = reversecommand.cpp; sourceTree = SOURCE_ROOT; };
472 7E09C5340FDA7F65002ECAE5 /* trimseqscommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = trimseqscommand.h; sourceTree = SOURCE_ROOT; };
473 7E09C5350FDA7F65002ECAE5 /* trimseqscommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = trimseqscommand.cpp; sourceTree = SOURCE_ROOT; };
474 7E412F420F8D213C00381DD0 /* libshuff.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = libshuff.h; sourceTree = SOURCE_ROOT; };
475 7E412F470F8D21B600381DD0 /* slibshuff.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = slibshuff.h; sourceTree = SOURCE_ROOT; };
476 7E412F480F8D21B600381DD0 /* slibshuff.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = slibshuff.cpp; sourceTree = SOURCE_ROOT; };
477 7E412FE90F8D3E2C00381DD0 /* libshuff.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = libshuff.cpp; sourceTree = SOURCE_ROOT; };
478 7E4130F60F8E58FA00381DD0 /* dlibshuff.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = dlibshuff.cpp; sourceTree = SOURCE_ROOT; };
479 7E4130F70F8E58FA00381DD0 /* dlibshuff.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = dlibshuff.h; sourceTree = SOURCE_ROOT; };
480 7E5A17AD0FE57292003C6A03 /* mergefilecommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = mergefilecommand.h; sourceTree = SOURCE_ROOT; };
481 7E5A17AE0FE57292003C6A03 /* mergefilecommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = mergefilecommand.cpp; sourceTree = SOURCE_ROOT; };
482 7EC3D4500FA0FFF900338DA5 /* coverage.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = coverage.cpp; sourceTree = SOURCE_ROOT; };
483 7EC3D4510FA0FFF900338DA5 /* coverage.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = coverage.h; sourceTree = SOURCE_ROOT; };
484 7EC3D4520FA0FFF900338DA5 /* sharedanderberg.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedanderberg.h; sourceTree = SOURCE_ROOT; };
485 7EC3D4530FA0FFF900338DA5 /* whittaker.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = whittaker.cpp; sourceTree = SOURCE_ROOT; };
486 7EC3D4540FA0FFF900338DA5 /* whittaker.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = whittaker.h; sourceTree = SOURCE_ROOT; };
487 8DD76F6C0486A84900D96B5E /* mothur */ = {isa = PBXFileReference; explicitFileType = "compiled.mach-o.executable"; includeInIndex = 0; path = mothur; sourceTree = BUILT_PRODUCTS_DIR; };
488 A70B53A40F4CD7AD0064797E /* getgroupcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = getgroupcommand.cpp; sourceTree = SOURCE_ROOT; };
489 A70B53A50F4CD7AD0064797E /* getgroupcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = getgroupcommand.h; sourceTree = SOURCE_ROOT; };
490 A70B53A60F4CD7AD0064797E /* getlabelcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = getlabelcommand.cpp; sourceTree = SOURCE_ROOT; };
491 A70B53A70F4CD7AD0064797E /* getlabelcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = getlabelcommand.h; sourceTree = SOURCE_ROOT; };
492 A70B53A80F4CD7AD0064797E /* getlinecommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = getlinecommand.cpp; sourceTree = SOURCE_ROOT; };
493 A70B53A90F4CD7AD0064797E /* getlinecommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = getlinecommand.h; sourceTree = SOURCE_ROOT; };
494 C6859E8B029090EE04C91782 /* Mothur.1 */ = {isa = PBXFileReference; lastKnownFileType = text.man; path = Mothur.1; sourceTree = "<group>"; };
495 EB1216860F619B83004A865F /* bergerparker.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = bergerparker.h; sourceTree = SOURCE_ROOT; };
496 EB1216870F619B83004A865F /* bergerparker.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = bergerparker.cpp; sourceTree = SOURCE_ROOT; };
497 EB1216E30F61ACFB004A865F /* bstick.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = bstick.h; sourceTree = SOURCE_ROOT; };
498 EB1216E40F61ACFB004A865F /* bstick.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = bstick.cpp; sourceTree = SOURCE_ROOT; };
499 EB1217210F61C9AC004A865F /* sharedkstest.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedkstest.h; sourceTree = SOURCE_ROOT; };
500 EB1217220F61C9AC004A865F /* sharedkstest.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedkstest.cpp; sourceTree = SOURCE_ROOT; };
501 EB6E68170F5F1C780044E17B /* qstat.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = qstat.h; sourceTree = SOURCE_ROOT; };
502 EB6E68180F5F1C780044E17B /* qstat.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = qstat.cpp; sourceTree = SOURCE_ROOT; };
503 EB72FE240FC1F5CA0051AC11 /* shen.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = shen.cpp; sourceTree = SOURCE_ROOT; };
504 EB72FE250FC1F5CA0051AC11 /* shen.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = shen.h; sourceTree = SOURCE_ROOT; };
505 EB9303E90F534D9400E8EF26 /* logsd.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = logsd.h; sourceTree = SOURCE_ROOT; };
506 EB9303EA0F534D9400E8EF26 /* logsd.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = logsd.cpp; sourceTree = SOURCE_ROOT; };
507 EB9303F70F53517300E8EF26 /* geom.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = geom.h; sourceTree = SOURCE_ROOT; };
508 EB9303F80F53517300E8EF26 /* geom.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = geom.cpp; sourceTree = SOURCE_ROOT; };
509 /* End PBXFileReference section */
511 /* Begin PBXFrameworksBuildPhase section */
512 8DD76F660486A84900D96B5E /* Frameworks */ = {
513 isa = PBXFrameworksBuildPhase;
514 buildActionMask = 2147483647;
517 runOnlyForDeploymentPostprocessing = 0;
519 /* End PBXFrameworksBuildPhase section */
521 /* Begin PBXGroup section */
522 08FB7794FE84155DC02AAC07 /* Mothur */ = {
525 08FB7795FE84155DC02AAC07 /* Source */,
526 C6859E8C029090F304C91782 /* Documentation */,
527 1AB674ADFE9D54B511CA2CBB /* Products */,
530 sourceTree = "<group>";
532 08FB7795FE84155DC02AAC07 /* Source */ = {
535 37D927BA0F21331F001D4494 /* averagelinkage.cpp */,
536 373C68DC0FC1C38D00137ACD /* blastalign.hpp */,
537 373C68DB0FC1C38D00137ACD /* blastalign.cpp */,
538 37D928A60F2133C0001D4494 /* calculators */,
539 37D927C20F21331F001D4494 /* cluster.hpp */,
540 37D927C10F21331F001D4494 /* cluster.cpp */,
541 37D928A90F2133E5001D4494 /* commands */,
542 37D927C60F21331F001D4494 /* collect.h */,
543 37D927C50F21331F001D4494 /* collect.cpp */,
544 37D927C90F21331F001D4494 /* collectdisplay.h */,
545 37D928AC0F213420001D4494 /* containers */,
546 37D927CA0F21331F001D4494 /* collectorscurvedata.h */,
547 37D927CF0F21331F001D4494 /* commandfactory.hpp */,
548 372E12EC0F264D320095CF7E /* commandfactory.cpp */,
549 37D927D10F21331F001D4494 /* commandoptionparser.hpp */,
550 37D927D00F21331F001D4494 /* commandoptionparser.cpp */,
551 37D927D20F21331F001D4494 /* completelinkage.cpp */,
552 7E4130F70F8E58FA00381DD0 /* dlibshuff.h */,
553 7E4130F60F8E58FA00381DD0 /* dlibshuff.cpp */,
554 37D927D60F21331F001D4494 /* display.h */,
555 37D927D80F21331F001D4494 /* engine.hpp */,
556 37D927D70F21331F001D4494 /* engine.cpp */,
557 37D928B10F213472001D4494 /* errorcheckor */,
558 37D927DE0F21331F001D4494 /* fileoutput.h */,
559 37D927DD0F21331F001D4494 /* fileoutput.cpp */,
560 37D927E00F21331F001D4494 /* globaldata.hpp */,
561 37D927DF0F21331F001D4494 /* globaldata.cpp */,
562 373C68BB0FC1C1A600137ACD /* gotohoverlap.hpp */,
563 373C68BA0FC1C1A600137ACD /* gotohoverlap.cpp */,
564 375873ED0F7D646F0040F377 /* heatmap.h */,
565 375873EE0F7D646F0040F377 /* heatmap.cpp */,
566 378598720FDD4C1500EF9D03 /* heatmapsim.h */,
567 378598730FDD4C1500EF9D03 /* heatmapsim.cpp */,
568 37D927E60F21331F001D4494 /* inputdata.h */,
569 37D927E50F21331F001D4494 /* inputdata.cpp */,
570 7E412F420F8D213C00381DD0 /* libshuff.h */,
571 7E412FE90F8D3E2C00381DD0 /* libshuff.cpp */,
572 37E3ED800F4D9D0D00B5DF02 /* mothur.h */,
573 37D927EF0F21331F001D4494 /* mothur.cpp */,
574 37D927F10F21331F001D4494 /* nameassignment.hpp */,
575 37D927F00F21331F001D4494 /* nameassignment.cpp */,
576 373C691E0FC1C98600137ACD /* nast.hpp */,
577 373C691D0FC1C98600137ACD /* nast.cpp */,
578 373C692A0FC1C9EB00137ACD /* nastreport.hpp */,
579 373C69290FC1C9EB00137ACD /* nastreport.cpp */,
580 373C68CE0FC1C2D900137ACD /* needlemanoverlap.hpp */,
581 373C68CD0FC1C2D900137ACD /* needlemanoverlap.cpp */,
582 373C68E40FC1C4A500137ACD /* noalign.hpp */,
583 373C68E30FC1C4A500137ACD /* noalign.cpp */,
584 37D927F60F21331F001D4494 /* observable.h */,
585 3785990E0FDD7E8E00EF9D03 /* optionparser.h */,
586 3785990F0FDD7E8E00EF9D03 /* optionparser.cpp */,
587 373C68C40FC1C25F00137ACD /* overlap.hpp */,
588 373C68C30FC1C25F00137ACD /* overlap.cpp */,
589 37D927FC0F21331F001D4494 /* progress.hpp */,
590 37D927FB0F21331F001D4494 /* progress.cpp */,
591 37D928040F21331F001D4494 /* raredisplay.h */,
592 37D928030F21331F001D4494 /* raredisplay.cpp */,
593 37D928060F21331F001D4494 /* rarefact.h */,
594 37D928050F21331F001D4494 /* rarefact.cpp */,
595 37D928090F21331F001D4494 /* rarefactioncurvedata.h */,
596 3796441D0FB9B9650081FDB6 /* read */,
597 37D928210F21331F001D4494 /* shared.h */,
598 37D928200F21331F001D4494 /* shared.cpp */,
599 211C38310F961DD400FEE541 /* sharedutilities.h */,
600 211C38300F961DD400FEE541 /* sharedutilities.cpp */,
601 37D928420F21331F001D4494 /* singlelinkage.cpp */,
602 7E412F470F8D21B600381DD0 /* slibshuff.h */,
603 7E412F480F8D21B600381DD0 /* slibshuff.cpp */,
604 37D928480F21331F001D4494 /* summarydata.h */,
605 37D928490F21331F001D4494 /* summarydisplay.h */,
606 37519AB30F810FAE00FED5E8 /* venn.h */,
607 37519AB40F810FAE00FED5E8 /* venn.cpp */,
610 sourceTree = "<group>";
612 1AB674ADFE9D54B511CA2CBB /* Products */ = {
615 8DD76F6C0486A84900D96B5E /* mothur */,
618 sourceTree = "<group>";
620 3796441D0FB9B9650081FDB6 /* read */ = {
623 375AA1340F9E433D008EF9B8 /* readcolumn.h */,
624 375AA1330F9E433D008EF9B8 /* readcolumn.cpp */,
625 37D928130F21331F001D4494 /* readmatrix.hpp */,
626 375AA1360F9E433D008EF9B8 /* readotu.h */,
627 375AA1350F9E433D008EF9B8 /* readotu.cpp */,
628 375AA1380F9E433D008EF9B8 /* readphylip.h */,
629 375AA1370F9E433D008EF9B8 /* readphylip.cpp */,
630 37AD4DC80F28F3DD00AA2D49 /* readtree.h */,
631 37AD4DC90F28F3DD00AA2D49 /* readtree.cpp */,
634 sourceTree = "<group>";
636 37D928A60F2133C0001D4494 /* calculators */ = {
639 37D927BE0F21331F001D4494 /* calculator.h */,
640 37D927BD0F21331F001D4494 /* calculator.cpp */,
641 3792948D0F2E271100B9034A /* treecalculator.h */,
642 37D927B90F21331F001D4494 /* ace.h */,
643 37D927B80F21331F001D4494 /* ace.cpp */,
644 EB1216860F619B83004A865F /* bergerparker.h */,
645 EB1216870F619B83004A865F /* bergerparker.cpp */,
646 373C69950FC1E63600137ACD /* boneh.h */,
647 373C69940FC1E63600137ACD /* boneh.cpp */,
648 37D927BC0F21331F001D4494 /* bootstrap.h */,
649 37D927BB0F21331F001D4494 /* bootstrap.cpp */,
650 EB1216E30F61ACFB004A865F /* bstick.h */,
651 EB1216E40F61ACFB004A865F /* bstick.cpp */,
652 37D927C00F21331F001D4494 /* chao1.h */,
653 37D927BF0F21331F001D4494 /* chao1.cpp */,
654 7EC3D4510FA0FFF900338DA5 /* coverage.h */,
655 7EC3D4500FA0FFF900338DA5 /* coverage.cpp */,
656 37C753DF0FB3492400DBD02E /* dist.h */,
657 37C753F00FB34AE800DBD02E /* eachgapdist.h */,
658 37C753F40FB34C0300DBD02E /* eachgapignore.h */,
659 373C69960FC1E63600137ACD /* efron.cpp */,
660 373C69970FC1E63600137ACD /* efron.h */,
661 EB9303F70F53517300E8EF26 /* geom.h */,
662 EB9303F80F53517300E8EF26 /* geom.cpp */,
663 378C1AF10FB0644D004D63F5 /* goodscoverage.h */,
664 378C1AF00FB0644D004D63F5 /* goodscoverage.cpp */,
665 37C753ED0FB34A5700DBD02E /* ignoregaps.h */,
666 37D927E80F21331F001D4494 /* jackknife.h */,
667 37D927E70F21331F001D4494 /* jackknife.cpp */,
668 EB9303E90F534D9400E8EF26 /* logsd.h */,
669 EB9303EA0F534D9400E8EF26 /* logsd.cpp */,
670 375873F90F7D64AB0040F377 /* nseqs.h */,
671 37D927F50F21331F001D4494 /* npshannon.h */,
672 37D927F40F21331F001D4494 /* npshannon.cpp */,
673 37C753F10FB34B4700DBD02E /* onegapdist.h */,
674 37C753F30FB34BBF00DBD02E /* onegapignore.h */,
675 379294880F2E258500B9034A /* parsimony.h */,
676 379294890F2E258500B9034A /* parsimony.cpp */,
677 EB6E68170F5F1C780044E17B /* qstat.h */,
678 EB6E68180F5F1C780044E17B /* qstat.cpp */,
679 37D928020F21331F001D4494 /* rarecalc.h */,
680 37D928010F21331F001D4494 /* rarecalc.cpp */,
681 37D9281F0F21331F001D4494 /* shannon.h */,
682 37D9281E0F21331F001D4494 /* shannon.cpp */,
683 37D928230F21331F001D4494 /* sharedace.h */,
684 37D928220F21331F001D4494 /* sharedace.cpp */,
685 37519A690F80E6EB00FED5E8 /* sharedanderbergs.h */,
686 37519A6A0F80E6EB00FED5E8 /* sharedanderbergs.cpp */,
687 7EC3D4520FA0FFF900338DA5 /* sharedanderberg.h */,
688 375873FB0F7D64DA0040F377 /* sharedbraycurtis.h */,
689 375873FC0F7D64DA0040F377 /* sharedbraycurtis.cpp */,
690 37D928250F21331F001D4494 /* sharedchao1.h */,
691 37D928240F21331F001D4494 /* sharedchao1.cpp */,
692 37D928290F21331F001D4494 /* sharedjabund.h */,
693 37D928280F21331F001D4494 /* sharedjabund.cpp */,
694 378C1B000FB0644D004D63F5 /* sharedjackknife.h */,
695 378C1AFF0FB0644D004D63F5 /* sharedjackknife.cpp */,
696 37D9282B0F21331F001D4494 /* sharedjclass.h */,
697 37D9282A0F21331F001D4494 /* sharedjclass.cpp */,
698 37D9282D0F21331F001D4494 /* sharedjest.h */,
699 37D9282C0F21331F001D4494 /* sharedjest.cpp */,
700 EB1217210F61C9AC004A865F /* sharedkstest.h */,
701 EB1217220F61C9AC004A865F /* sharedkstest.cpp */,
702 375874000F7D64EF0040F377 /* sharedkulczynski.h */,
703 375873FE0F7D64EF0040F377 /* sharedkulczynski.cpp */,
704 375874030F7D64EF0040F377 /* sharedkulczynskicody.h */,
705 375874020F7D64EF0040F377 /* sharedkulczynskicody.cpp */,
706 375874010F7D64EF0040F377 /* sharedlennon.h */,
707 375873FF0F7D64EF0040F377 /* sharedlennon.cpp */,
708 378C1B020FB0644D004D63F5 /* sharedmarczewski.h */,
709 378C1B010FB0644D004D63F5 /* sharedmarczewski.cpp */,
710 375874070F7D64FC0040F377 /* sharedmorisitahorn.h */,
711 375874080F7D64FC0040F377 /* sharedmorisitahorn.cpp */,
712 375874090F7D64FC0040F377 /* sharedochiai.h */,
713 3758740B0F7D64FC0040F377 /* sharedochiai.cpp */,
714 3758740A0F7D64FC0040F377 /* sharednseqs.h */,
715 37D928350F21331F001D4494 /* sharedsobs.h */,
716 37D928340F21331F001D4494 /* sharedsobs.cpp */,
717 37AFC71D0F445386005F492D /* sharedsobscollectsummary.h */,
718 37AFC71E0F445386005F492D /* sharedsobscollectsummary.cpp */,
719 37D928370F21331F001D4494 /* sharedsorabund.h */,
720 37D928360F21331F001D4494 /* sharedsorabund.cpp */,
721 37D928390F21331F001D4494 /* sharedsorclass.h */,
722 37D928380F21331F001D4494 /* sharedsorclass.cpp */,
723 37D9283B0F21331F001D4494 /* sharedsorest.h */,
724 37D9283A0F21331F001D4494 /* sharedsorest.cpp */,
725 37D9283D0F21331F001D4494 /* sharedthetan.h */,
726 37D9283C0F21331F001D4494 /* sharedthetan.cpp */,
727 37D9283F0F21331F001D4494 /* sharedthetayc.h */,
728 37D9283E0F21331F001D4494 /* sharedthetayc.cpp */,
729 EB72FE250FC1F5CA0051AC11 /* shen.h */,
730 EB72FE240FC1F5CA0051AC11 /* shen.cpp */,
731 37D928410F21331F001D4494 /* simpson.h */,
732 37D928400F21331F001D4494 /* simpson.cpp */,
733 37D928430F21331F001D4494 /* sobs.h */,
734 373C69980FC1E63600137ACD /* solow.cpp */,
735 373C69990FC1E63600137ACD /* solow.h */,
736 374610810F40652400460C57 /* unweighted.h */,
737 374610820F40652400460C57 /* unweighted.cpp */,
738 37D9284E0F21331F001D4494 /* uvest.h */,
739 37D9284D0F21331F001D4494 /* uvest.cpp */,
740 3746107C0F4064D100460C57 /* weighted.h */,
741 3746107D0F4064D100460C57 /* weighted.cpp */,
742 7EC3D4540FA0FFF900338DA5 /* whittaker.h */,
743 7EC3D4530FA0FFF900338DA5 /* whittaker.cpp */,
746 sourceTree = "<group>";
748 37D928A90F2133E5001D4494 /* commands */ = {
751 37D927CD0F21331F001D4494 /* command.hpp */,
752 378DC5CD0FBDE1C8003B8607 /* aligncommand.h */,
753 378DC5CE0FBDE1C8003B8607 /* aligncommand.cpp */,
754 37C1D9710F86506E0059E3F0 /* binsequencecommand.h */,
755 37C1D9720F86506E0059E3F0 /* binsequencecommand.cpp */,
756 21DDC0190F97A8FE0060691C /* bootstrapsharedcommand.h */,
757 21DDC01A0F97A8FE0060691C /* bootstrapsharedcommand.cpp */,
758 37D927C40F21331F001D4494 /* clustercommand.h */,
759 37D927C30F21331F001D4494 /* clustercommand.cpp */,
760 37D927C80F21331F001D4494 /* collectcommand.h */,
761 37D927C70F21331F001D4494 /* collectcommand.cpp */,
762 37D927CC0F21331F001D4494 /* collectsharedcommand.h */,
763 37D927CB0F21331F001D4494 /* collectsharedcommand.cpp */,
764 377326640FAF16E0007ABB8B /* concensuscommand.h */,
765 377326630FAF16E0007ABB8B /* concensuscommand.cpp */,
766 37B28F660F27590100808A62 /* deconvolutecommand.h */,
767 37B28F670F27590100808A62 /* deconvolutecommand.cpp */,
768 37C753CC0FB3415200DBD02E /* distancecommand.h */,
769 37C753CD0FB3415200DBD02E /* distancecommand.cpp */,
770 378C1AEF0FB0644D004D63F5 /* filterseqscommand.h */,
771 378C1AEE0FB0644D004D63F5 /* filterseqscommand.cpp */,
772 A70B53A50F4CD7AD0064797E /* getgroupcommand.h */,
773 A70B53A40F4CD7AD0064797E /* getgroupcommand.cpp */,
774 A70B53A70F4CD7AD0064797E /* getlabelcommand.h */,
775 A70B53A60F4CD7AD0064797E /* getlabelcommand.cpp */,
776 A70B53A90F4CD7AD0064797E /* getlinecommand.h */,
777 A70B53A80F4CD7AD0064797E /* getlinecommand.cpp */,
778 370B88050F8A4EE4005AB382 /* getoturepcommand.h */,
779 370B88060F8A4EE4005AB382 /* getoturepcommand.cpp */,
780 3749273D0FD5956B0031C06B /* getrabundcommand.h */,
781 3749273E0FD5956B0031C06B /* getrabundcommand.cpp */,
782 3749271B0FD58C840031C06B /* getsabundcommand.h */,
783 3749271C0FD58C840031C06B /* getsabundcommand.cpp */,
784 375873F10F7D64800040F377 /* heatmapcommand.h */,
785 375873F00F7D64800040F377 /* heatmapcommand.cpp */,
786 378598640FDD497000EF9D03 /* heatmapsimcommand.h */,
787 378598650FDD497000EF9D03 /* heatmapsimcommand.cpp */,
788 37D927E40F21331F001D4494 /* helpcommand.h */,
789 37D927E30F21331F001D4494 /* helpcommand.cpp */,
790 375873F40F7D648F0040F377 /* libshuffcommand.h */,
791 375873F30F7D648F0040F377 /* libshuffcommand.cpp */,
792 21E859D60FC4632E005E1A48 /* matrixoutputcommand.h */,
793 21E859D70FC4632E005E1A48 /* matrixoutputcommand.cpp */,
794 7E5A17AD0FE57292003C6A03 /* mergefilecommand.h */,
795 7E5A17AE0FE57292003C6A03 /* mergefilecommand.cpp */,
796 375873F70F7D649C0040F377 /* nocommands.h */,
797 375873F60F7D649C0040F377 /* nocommands.cpp */,
798 37D927FA0F21331F001D4494 /* parselistcommand.h */,
799 37D927F90F21331F001D4494 /* parselistcommand.cpp */,
800 3792946E0F2E191800B9034A /* parsimonycommand.h */,
801 3792946F0F2E191800B9034A /* parsimonycommand.cpp */,
802 37D927FE0F21331F001D4494 /* quitcommand.h */,
803 37D927FD0F21331F001D4494 /* quitcommand.cpp */,
804 37D928080F21331F001D4494 /* rarefactcommand.h */,
805 37D928070F21331F001D4494 /* rarefactcommand.cpp */,
806 37D9280B0F21331F001D4494 /* rarefactsharedcommand.h */,
807 37D9280A0F21331F001D4494 /* rarefactsharedcommand.cpp */,
808 372E12940F263D5A0095CF7E /* readdistcommand.h */,
809 372E12950F263D5A0095CF7E /* readdistcommand.cpp */,
810 372E126E0F26365B0095CF7E /* readotucommand.h */,
811 372E126F0F26365B0095CF7E /* readotucommand.cpp */,
812 37E5F4900F2A3DA800F8D827 /* readtreecommand.h */,
813 37E5F4910F2A3DA800F8D827 /* readtreecommand.cpp */,
814 7E09C5120FDA79C5002ECAE5 /* reversecommand.h */,
815 7E09C5130FDA79C5002ECAE5 /* reversecommand.cpp */,
816 371B30B30FD7EE67000414CA /* screenseqscommand.h */,
817 371B30B20FD7EE67000414CA /* screenseqscommand.cpp */,
818 3799A94F0FD6A58C00E33EDE /* seqsummarycommand.h */,
819 3799A94E0FD6A58C00E33EDE /* seqsummarycommand.cpp */,
820 37D928270F21331F001D4494 /* sharedcommand.h */,
821 37D928260F21331F001D4494 /* sharedcommand.cpp */,
822 37D928470F21331F001D4494 /* summarycommand.h */,
823 37D928460F21331F001D4494 /* summarycommand.cpp */,
824 37D9284B0F21331F001D4494 /* summarysharedcommand.h */,
825 37D9284A0F21331F001D4494 /* summarysharedcommand.cpp */,
826 211C38370F961E1F00FEE541 /* treegroupscommand.h */,
827 211C38360F961E1F00FEE541 /* treegroupscommand.cpp */,
828 7E09C5340FDA7F65002ECAE5 /* trimseqscommand.h */,
829 7E09C5350FDA7F65002ECAE5 /* trimseqscommand.cpp */,
830 3746109B0F40657600460C57 /* unifracunweightedcommand.h */,
831 3746109C0F40657600460C57 /* unifracunweightedcommand.cpp */,
832 374610760F40645300460C57 /* unifracweightedcommand.h */,
833 374610770F40645300460C57 /* unifracweightedcommand.cpp */,
834 37519A9F0F810D0200FED5E8 /* venncommand.h */,
835 37519AA00F810D0200FED5E8 /* venncommand.cpp */,
838 sourceTree = "<group>";
840 37D928AC0F213420001D4494 /* containers */ = {
843 373C68A10FC1C07D00137ACD /* alignment.hpp */,
844 373C68A00FC1C07D00137ACD /* alignment.cpp */,
845 373C68A30FC1C07D00137ACD /* alignmentcell.hpp */,
846 373C68A20FC1C07D00137ACD /* alignmentcell.cpp */,
847 373C69170FC1C8AF00137ACD /* blastdb.hpp */,
848 373C69160FC1C8AF00137ACD /* blastdb.cpp */,
849 37D927D40F21331F001D4494 /* database.hpp */,
850 37D927D30F21331F001D4494 /* database.cpp */,
851 37D927D50F21331F001D4494 /* datavector.hpp */,
852 3799A94D0FD6A58C00E33EDE /* distancedb.hpp */,
853 3799A94C0FD6A58C00E33EDE /* distancedb.cpp */,
854 37D927DC0F21331F001D4494 /* fastamap.h */,
855 37D927DB0F21331F001D4494 /* fastamap.cpp */,
856 375873EA0F7D64520040F377 /* fullmatrix.h */,
857 375873EB0F7D64520040F377 /* fullmatrix.cpp */,
858 37D927E20F21331F001D4494 /* groupmap.h */,
859 37D927E10F21331F001D4494 /* groupmap.cpp */,
860 37D927EA0F21331F001D4494 /* kmer.hpp */,
861 37D927E90F21331F001D4494 /* kmer.cpp */,
862 37D927EC0F21331F001D4494 /* kmerdb.hpp */,
863 37D927EB0F21331F001D4494 /* kmerdb.cpp */,
864 37D927EE0F21331F001D4494 /* listvector.hpp */,
865 37D927ED0F21331F001D4494 /* listvector.cpp */,
866 37D927F80F21331F001D4494 /* ordervector.hpp */,
867 37D927F70F21331F001D4494 /* ordervector.cpp */,
868 37D928000F21331F001D4494 /* rabundvector.hpp */,
869 37D927FF0F21331F001D4494 /* rabundvector.cpp */,
870 37D9281B0F21331F001D4494 /* sabundvector.hpp */,
871 37D9281A0F21331F001D4494 /* sabundvector.cpp */,
872 37D9281D0F21331F001D4494 /* sequence.hpp */,
873 37D9281C0F21331F001D4494 /* sequence.cpp */,
874 378C1AFE0FB0644D004D63F5 /* sequencedb.h */,
875 378C1AFD0FB0644D004D63F5 /* sequencedb.cpp */,
876 37AD4CE20F28AEA300AA2D49 /* sharedlistvector.h */,
877 37AD4CE30F28AEA300AA2D49 /* sharedlistvector.cpp */,
878 37D9282F0F21331F001D4494 /* sharedordervector.h */,
879 37D9282E0F21331F001D4494 /* sharedordervector.cpp */,
880 37D928310F21331F001D4494 /* sharedrabundvector.h */,
881 37D928300F21331F001D4494 /* sharedrabundvector.cpp */,
882 37D928330F21331F001D4494 /* sharedsabundvector.h */,
883 37D928320F21331F001D4494 /* sharedsabundvector.cpp */,
884 37D928450F21331F001D4494 /* sparsematrix.hpp */,
885 37D928440F21331F001D4494 /* sparsematrix.cpp */,
886 373C68F40FC1C6A800137ACD /* suffixdb.hpp */,
887 373C68F30FC1C6A800137ACD /* suffixdb.cpp */,
888 373C68F60FC1C6A800137ACD /* suffixnodes.hpp */,
889 373C68F50FC1C6A800137ACD /* suffixnodes.cpp */,
890 373C68F80FC1C6A800137ACD /* suffixtree.hpp */,
891 373C68F70FC1C6A800137ACD /* suffixtree.cpp */,
892 37AD4DB90F28E2FE00AA2D49 /* tree.h */,
893 37AD4DBA0F28E2FE00AA2D49 /* tree.cpp */,
894 379293C10F2DE73400B9034A /* treemap.h */,
895 379293C20F2DE73400B9034A /* treemap.cpp */,
896 37E5F3E10F29FD4200F8D827 /* treenode.h */,
897 37E5F3E20F29FD4200F8D827 /* treenode.cpp */,
900 sourceTree = "<group>";
902 37D928B10F213472001D4494 /* errorcheckor */ = {
905 37D928500F21331F001D4494 /* validcalculator.h */,
906 37D9284F0F21331F001D4494 /* validcalculator.cpp */,
907 37D928540F21331F001D4494 /* validparameter.h */,
908 37D928530F21331F001D4494 /* validparameter.cpp */,
911 sourceTree = "<group>";
913 C6859E8C029090F304C91782 /* Documentation */ = {
916 C6859E8B029090EE04C91782 /* Mothur.1 */,
918 name = Documentation;
919 sourceTree = "<group>";
921 /* End PBXGroup section */
923 /* Begin PBXNativeTarget section */
924 8DD76F620486A84900D96B5E /* mothur */ = {
925 isa = PBXNativeTarget;
926 buildConfigurationList = 1DEB923108733DC60010E9CD /* Build configuration list for PBXNativeTarget "mothur" */;
928 8DD76F640486A84900D96B5E /* Sources */,
929 8DD76F660486A84900D96B5E /* Frameworks */,
930 8DD76F690486A84900D96B5E /* CopyFiles */,
937 productInstallPath = "$(HOME)/bin";
938 productName = Mothur;
939 productReference = 8DD76F6C0486A84900D96B5E /* mothur */;
940 productType = "com.apple.product-type.tool";
942 /* End PBXNativeTarget section */
944 /* Begin PBXProject section */
945 08FB7793FE84155DC02AAC07 /* Project object */ = {
947 buildConfigurationList = 1DEB923508733DC60010E9CD /* Build configuration list for PBXProject "Mothur" */;
948 compatibilityVersion = "Xcode 3.0";
949 hasScannedForEncodings = 1;
950 mainGroup = 08FB7794FE84155DC02AAC07 /* Mothur */;
954 8DD76F620486A84900D96B5E /* mothur */,
957 /* End PBXProject section */
959 /* Begin PBXSourcesBuildPhase section */
960 8DD76F640486A84900D96B5E /* Sources */ = {
961 isa = PBXSourcesBuildPhase;
962 buildActionMask = 2147483647;
964 37D928550F21331F001D4494 /* ace.cpp in Sources */,
965 37D928560F21331F001D4494 /* averagelinkage.cpp in Sources */,
966 37D928570F21331F001D4494 /* bootstrap.cpp in Sources */,
967 37D928580F21331F001D4494 /* calculator.cpp in Sources */,
968 37D928590F21331F001D4494 /* chao1.cpp in Sources */,
969 37D9285A0F21331F001D4494 /* cluster.cpp in Sources */,
970 37D9285B0F21331F001D4494 /* clustercommand.cpp in Sources */,
971 37D9285C0F21331F001D4494 /* collect.cpp in Sources */,
972 37D9285D0F21331F001D4494 /* collectcommand.cpp in Sources */,
973 37D9285E0F21331F001D4494 /* collectsharedcommand.cpp in Sources */,
974 37D928600F21331F001D4494 /* commandoptionparser.cpp in Sources */,
975 37D928610F21331F001D4494 /* completelinkage.cpp in Sources */,
976 37D928620F21331F001D4494 /* database.cpp in Sources */,
977 37D928630F21331F001D4494 /* engine.cpp in Sources */,
978 37D928650F21331F001D4494 /* fastamap.cpp in Sources */,
979 37D928660F21331F001D4494 /* fileoutput.cpp in Sources */,
980 37D928670F21331F001D4494 /* globaldata.cpp in Sources */,
981 37D928680F21331F001D4494 /* groupmap.cpp in Sources */,
982 37D928690F21331F001D4494 /* helpcommand.cpp in Sources */,
983 37D9286A0F21331F001D4494 /* inputdata.cpp in Sources */,
984 37D9286B0F21331F001D4494 /* jackknife.cpp in Sources */,
985 37D9286C0F21331F001D4494 /* kmer.cpp in Sources */,
986 37D9286D0F21331F001D4494 /* kmerdb.cpp in Sources */,
987 37D9286E0F21331F001D4494 /* listvector.cpp in Sources */,
988 37D9286F0F21331F001D4494 /* mothur.cpp in Sources */,
989 37D928700F21331F001D4494 /* nameassignment.cpp in Sources */,
990 37D928720F21331F001D4494 /* npshannon.cpp in Sources */,
991 37D928730F21331F001D4494 /* ordervector.cpp in Sources */,
992 37D928740F21331F001D4494 /* parselistcommand.cpp in Sources */,
993 37D928750F21331F001D4494 /* progress.cpp in Sources */,
994 37D928760F21331F001D4494 /* quitcommand.cpp in Sources */,
995 37D928770F21331F001D4494 /* rabundvector.cpp in Sources */,
996 37D928780F21331F001D4494 /* rarecalc.cpp in Sources */,
997 37D928790F21331F001D4494 /* raredisplay.cpp in Sources */,
998 37D9287A0F21331F001D4494 /* rarefact.cpp in Sources */,
999 37D9287B0F21331F001D4494 /* rarefactcommand.cpp in Sources */,
1000 37D9287C0F21331F001D4494 /* rarefactsharedcommand.cpp in Sources */,
1001 37D928840F21331F001D4494 /* sabundvector.cpp in Sources */,
1002 37D928850F21331F001D4494 /* sequence.cpp in Sources */,
1003 37D928860F21331F001D4494 /* shannon.cpp in Sources */,
1004 37D928870F21331F001D4494 /* shared.cpp in Sources */,
1005 37D928880F21331F001D4494 /* sharedace.cpp in Sources */,
1006 37D928890F21331F001D4494 /* sharedchao1.cpp in Sources */,
1007 37D9288A0F21331F001D4494 /* sharedcommand.cpp in Sources */,
1008 37D9288B0F21331F001D4494 /* sharedjabund.cpp in Sources */,
1009 37D9288C0F21331F001D4494 /* sharedjclass.cpp in Sources */,
1010 37D9288D0F21331F001D4494 /* sharedjest.cpp in Sources */,
1011 37D9288E0F21331F001D4494 /* sharedordervector.cpp in Sources */,
1012 37D9288F0F21331F001D4494 /* sharedrabundvector.cpp in Sources */,
1013 37D928900F21331F001D4494 /* sharedsabundvector.cpp in Sources */,
1014 37D928910F21331F001D4494 /* sharedsobs.cpp in Sources */,
1015 37D928920F21331F001D4494 /* sharedsorabund.cpp in Sources */,
1016 37D928930F21331F001D4494 /* sharedsorclass.cpp in Sources */,
1017 37D928940F21331F001D4494 /* sharedsorest.cpp in Sources */,
1018 37D928950F21331F001D4494 /* sharedthetan.cpp in Sources */,
1019 37D928960F21331F001D4494 /* sharedthetayc.cpp in Sources */,
1020 37D928970F21331F001D4494 /* simpson.cpp in Sources */,
1021 37D928980F21331F001D4494 /* singlelinkage.cpp in Sources */,
1022 37D928990F21331F001D4494 /* sparsematrix.cpp in Sources */,
1023 37D9289A0F21331F001D4494 /* summarycommand.cpp in Sources */,
1024 37D9289B0F21331F001D4494 /* summarysharedcommand.cpp in Sources */,
1025 37D9289C0F21331F001D4494 /* uvest.cpp in Sources */,
1026 37D9289D0F21331F001D4494 /* validcalculator.cpp in Sources */,
1027 37D9289F0F21331F001D4494 /* validparameter.cpp in Sources */,
1028 372E12700F26365B0095CF7E /* readotucommand.cpp in Sources */,
1029 372E12960F263D5A0095CF7E /* readdistcommand.cpp in Sources */,
1030 372E12ED0F264D320095CF7E /* commandfactory.cpp in Sources */,
1031 37B28F680F27590100808A62 /* deconvolutecommand.cpp in Sources */,
1032 37AD4CE40F28AEA300AA2D49 /* sharedlistvector.cpp in Sources */,
1033 37AD4DBB0F28E2FE00AA2D49 /* tree.cpp in Sources */,
1034 37AD4DCA0F28F3DD00AA2D49 /* readtree.cpp in Sources */,
1035 37E5F3E30F29FD4200F8D827 /* treenode.cpp in Sources */,
1036 37E5F4920F2A3DA800F8D827 /* readtreecommand.cpp in Sources */,
1037 379293C30F2DE73400B9034A /* treemap.cpp in Sources */,
1038 379294700F2E191800B9034A /* parsimonycommand.cpp in Sources */,
1039 3792948A0F2E258500B9034A /* parsimony.cpp in Sources */,
1040 374610780F40645300460C57 /* unifracweightedcommand.cpp in Sources */,
1041 3746107E0F4064D100460C57 /* weighted.cpp in Sources */,
1042 374610830F40652400460C57 /* unweighted.cpp in Sources */,
1043 3746109D0F40657600460C57 /* unifracunweightedcommand.cpp in Sources */,
1044 37AFC71F0F445386005F492D /* sharedsobscollectsummary.cpp in Sources */,
1045 A70B53AA0F4CD7AD0064797E /* getgroupcommand.cpp in Sources */,
1046 A70B53AB0F4CD7AD0064797E /* getlabelcommand.cpp in Sources */,
1047 A70B53AC0F4CD7AD0064797E /* getlinecommand.cpp in Sources */,
1048 EB9303EB0F534D9400E8EF26 /* logsd.cpp in Sources */,
1049 EB9303F90F53517300E8EF26 /* geom.cpp in Sources */,
1050 EB6E68190F5F1C780044E17B /* qstat.cpp in Sources */,
1051 EB1216880F619B83004A865F /* bergerparker.cpp in Sources */,
1052 EB1216E50F61ACFB004A865F /* bstick.cpp in Sources */,
1053 EB1217230F61C9AC004A865F /* sharedkstest.cpp in Sources */,
1054 375873EC0F7D64520040F377 /* fullmatrix.cpp in Sources */,
1055 375873EF0F7D646F0040F377 /* heatmap.cpp in Sources */,
1056 375873F20F7D64800040F377 /* heatmapcommand.cpp in Sources */,
1057 375873F50F7D648F0040F377 /* libshuffcommand.cpp in Sources */,
1058 375873F80F7D649C0040F377 /* nocommands.cpp in Sources */,
1059 375873FD0F7D64DA0040F377 /* sharedbraycurtis.cpp in Sources */,
1060 375874040F7D64EF0040F377 /* sharedkulczynski.cpp in Sources */,
1061 375874050F7D64EF0040F377 /* sharedlennon.cpp in Sources */,
1062 375874060F7D64EF0040F377 /* sharedkulczynskicody.cpp in Sources */,
1063 3758740C0F7D64FC0040F377 /* sharedmorisitahorn.cpp in Sources */,
1064 3758740D0F7D64FC0040F377 /* sharedochiai.cpp in Sources */,
1065 37519A6B0F80E6EB00FED5E8 /* sharedanderbergs.cpp in Sources */,
1066 37519AA10F810D0200FED5E8 /* venncommand.cpp in Sources */,
1067 37519AB50F810FAE00FED5E8 /* venn.cpp in Sources */,
1068 37C1D9730F86506E0059E3F0 /* binsequencecommand.cpp in Sources */,
1069 370B88070F8A4EE4005AB382 /* getoturepcommand.cpp in Sources */,
1070 7E412F490F8D21B600381DD0 /* slibshuff.cpp in Sources */,
1071 7E412FEA0F8D3E2C00381DD0 /* libshuff.cpp in Sources */,
1072 7E4130F80F8E58FA00381DD0 /* dlibshuff.cpp in Sources */,
1073 211C38320F961DD400FEE541 /* sharedutilities.cpp in Sources */,
1074 211C38380F961E1F00FEE541 /* treegroupscommand.cpp in Sources */,
1075 21DDC01B0F97A8FE0060691C /* bootstrapsharedcommand.cpp in Sources */,
1076 375AA1390F9E433D008EF9B8 /* readcolumn.cpp in Sources */,
1077 375AA13A0F9E433D008EF9B8 /* readotu.cpp in Sources */,
1078 375AA13B0F9E433D008EF9B8 /* readphylip.cpp in Sources */,
1079 7EC3D4550FA0FFF900338DA5 /* coverage.cpp in Sources */,
1080 7EC3D4560FA0FFF900338DA5 /* whittaker.cpp in Sources */,
1081 377326650FAF16E0007ABB8B /* concensuscommand.cpp in Sources */,
1082 378C1B030FB0644E004D63F5 /* filterseqscommand.cpp in Sources */,
1083 378C1B040FB0644E004D63F5 /* goodscoverage.cpp in Sources */,
1084 378C1B0A0FB0644E004D63F5 /* sequencedb.cpp in Sources */,
1085 378C1B0B0FB0644E004D63F5 /* sharedjackknife.cpp in Sources */,
1086 378C1B0C0FB0644E004D63F5 /* sharedmarczewski.cpp in Sources */,
1087 37C753CE0FB3415200DBD02E /* distancecommand.cpp in Sources */,
1088 378DC5CF0FBDE1C8003B8607 /* aligncommand.cpp in Sources */,
1089 373C68A40FC1C07D00137ACD /* alignment.cpp in Sources */,
1090 373C68A50FC1C07D00137ACD /* alignmentcell.cpp in Sources */,
1091 373C68BC0FC1C1A600137ACD /* gotohoverlap.cpp in Sources */,
1092 373C68C50FC1C25F00137ACD /* overlap.cpp in Sources */,
1093 373C68CF0FC1C2D900137ACD /* needlemanoverlap.cpp in Sources */,
1094 373C68DD0FC1C38D00137ACD /* blastalign.cpp in Sources */,
1095 373C68E50FC1C4A500137ACD /* noalign.cpp in Sources */,
1096 373C68F90FC1C6A800137ACD /* suffixdb.cpp in Sources */,
1097 373C68FA0FC1C6A800137ACD /* suffixnodes.cpp in Sources */,
1098 373C68FB0FC1C6A800137ACD /* suffixtree.cpp in Sources */,
1099 373C69180FC1C8AF00137ACD /* blastdb.cpp in Sources */,
1100 373C691F0FC1C98600137ACD /* nast.cpp in Sources */,
1101 373C692B0FC1C9EB00137ACD /* nastreport.cpp in Sources */,
1102 373C699A0FC1E63600137ACD /* boneh.cpp in Sources */,
1103 373C699B0FC1E63600137ACD /* efron.cpp in Sources */,
1104 373C699C0FC1E63600137ACD /* solow.cpp in Sources */,
1105 EB72FE260FC1F5CA0051AC11 /* shen.cpp in Sources */,
1106 21E859D80FC4632E005E1A48 /* matrixoutputcommand.cpp in Sources */,
1107 3749271D0FD58C840031C06B /* getsabundcommand.cpp in Sources */,
1108 3749273F0FD5956B0031C06B /* getrabundcommand.cpp in Sources */,
1109 3799A9500FD6A58C00E33EDE /* distancedb.cpp in Sources */,
1110 3799A9510FD6A58C00E33EDE /* seqsummarycommand.cpp in Sources */,
1111 371B30B40FD7EE67000414CA /* screenseqscommand.cpp in Sources */,
1112 7E09C5140FDA79C5002ECAE5 /* reversecommand.cpp in Sources */,
1113 7E09C5360FDA7F65002ECAE5 /* trimseqscommand.cpp in Sources */,
1114 378598660FDD497000EF9D03 /* heatmapsimcommand.cpp in Sources */,
1115 378598740FDD4C1500EF9D03 /* heatmapsim.cpp in Sources */,
1116 378599100FDD7E8E00EF9D03 /* optionparser.cpp in Sources */,
1117 7E5A17AF0FE57292003C6A03 /* mergefilecommand.cpp in Sources */,
1119 runOnlyForDeploymentPostprocessing = 0;
1121 /* End PBXSourcesBuildPhase section */
1123 /* Begin XCBuildConfiguration section */
1124 1DEB923208733DC60010E9CD /* Debug */ = {
1125 isa = XCBuildConfiguration;
1127 COPY_PHASE_STRIP = NO;
1128 GCC_DYNAMIC_NO_PIC = NO;
1129 GCC_ENABLE_FIX_AND_CONTINUE = YES;
1130 GCC_MODEL_TUNING = G5;
1131 GCC_OPTIMIZATION_LEVEL = 0;
1132 GCC_PREPROCESSOR_DEFINITIONS = (
1134 "_GLIBCXX_DEBUG_PEDANTIC=1",
1136 INSTALL_PATH = /usr/local/bin;
1137 PRODUCT_NAME = mothur;
1142 1DEB923308733DC60010E9CD /* Release */ = {
1143 isa = XCBuildConfiguration;
1145 DEBUG_INFORMATION_FORMAT = "dwarf-with-dsym";
1146 GCC_MODEL_TUNING = G5;
1147 INSTALL_PATH = /usr/local/bin;
1148 PRODUCT_NAME = mothur;
1152 1DEB923608733DC60010E9CD /* Debug */ = {
1153 isa = XCBuildConfiguration;
1155 GCC_OPTIMIZATION_LEVEL = 3;
1156 GCC_WARN_ABOUT_RETURN_TYPE = YES;
1157 GCC_WARN_UNUSED_VARIABLE = YES;
1159 SDKROOT = "$(DEVELOPER_SDK_DIR)/MacOSX10.5.sdk";
1163 1DEB923708733DC60010E9CD /* Release */ = {
1164 isa = XCBuildConfiguration;
1170 GCC_OPTIMIZATION_LEVEL = 3;
1171 GCC_WARN_ABOUT_RETURN_TYPE = YES;
1172 GCC_WARN_UNUSED_VARIABLE = YES;
1174 SDKROOT = "$(DEVELOPER_SDK_DIR)/MacOSX10.5.sdk";
1178 /* End XCBuildConfiguration section */
1180 /* Begin XCConfigurationList section */
1181 1DEB923108733DC60010E9CD /* Build configuration list for PBXNativeTarget "mothur" */ = {
1182 isa = XCConfigurationList;
1183 buildConfigurations = (
1184 1DEB923208733DC60010E9CD /* Debug */,
1185 1DEB923308733DC60010E9CD /* Release */,
1187 defaultConfigurationIsVisible = 0;
1188 defaultConfigurationName = Release;
1190 1DEB923508733DC60010E9CD /* Build configuration list for PBXProject "Mothur" */ = {
1191 isa = XCConfigurationList;
1192 buildConfigurations = (
1193 1DEB923608733DC60010E9CD /* Debug */,
1194 1DEB923708733DC60010E9CD /* Release */,
1196 defaultConfigurationIsVisible = 0;
1197 defaultConfigurationName = Release;
1199 /* End XCConfigurationList section */
1201 rootObject = 08FB7793FE84155DC02AAC07 /* Project object */;