Mothur.xcodeproj/project.pbxproj

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  96                 A7DA200F113FECD400BF472F /* chao1.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = chao1.cpp; sourceTree = "<group>"; };
  97                 A7DA2010113FECD400BF472F /* chao1.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = chao1.h; sourceTree = "<group>"; };
  98                 A7DA2011113FECD400BF472F /* chimera.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = chimera.cpp; sourceTree = "<group>"; };
  99                 A7DA2012113FECD400BF472F /* chimera.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = chimera.h; sourceTree = "<group>"; };
 100                 A7DA2013113FECD400BF472F /* chimeracheckrdp.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = chimeracheckrdp.cpp; sourceTree = "<group>"; };
 101                 A7DA2014113FECD400BF472F /* chimeracheckrdp.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = chimeracheckrdp.h; sourceTree = "<group>"; };
 102                 A7DA2015113FECD400BF472F /* chimerarealigner.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = chimerarealigner.cpp; sourceTree = "<group>"; };
 103                 A7DA2016113FECD400BF472F /* chimerarealigner.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = chimerarealigner.h; sourceTree = "<group>"; };
 104                 A7DA2017113FECD400BF472F /* chimeraseqscommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = chimeraseqscommand.cpp; sourceTree = "<group>"; };
 105                 A7DA2018113FECD400BF472F /* chimeraseqscommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = chimeraseqscommand.h; sourceTree = "<group>"; };
 106                 A7DA2019113FECD400BF472F /* chimeraslayer.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = chimeraslayer.cpp; sourceTree = "<group>"; };
 107                 A7DA201A113FECD400BF472F /* chimeraslayer.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = chimeraslayer.h; sourceTree = "<group>"; };
 108                 A7DA201B113FECD400BF472F /* classify.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = classify.cpp; sourceTree = "<group>"; };
 109                 A7DA201C113FECD400BF472F /* classify.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = classify.h; sourceTree = "<group>"; };
 110                 A7DA201D113FECD400BF472F /* classifyseqscommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = classifyseqscommand.cpp; sourceTree = "<group>"; };
 111                 A7DA201E113FECD400BF472F /* classifyseqscommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = classifyseqscommand.h; sourceTree = "<group>"; };
 112                 A7DA201F113FECD400BF472F /* cluster.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = cluster.cpp; sourceTree = "<group>"; };
 113                 A7DA2020113FECD400BF472F /* cluster.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = cluster.hpp; sourceTree = "<group>"; };
 114                 A7DA2021113FECD400BF472F /* clustercommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = clustercommand.cpp; sourceTree = "<group>"; };
 115                 A7DA2022113FECD400BF472F /* clustercommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = clustercommand.h; sourceTree = "<group>"; };
 116                 A7DA2023113FECD400BF472F /* collect.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = collect.cpp; sourceTree = "<group>"; };
 117                 A7DA2024113FECD400BF472F /* collect.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = collect.h; sourceTree = "<group>"; };
 118                 A7DA2025113FECD400BF472F /* collectcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = collectcommand.cpp; sourceTree = "<group>"; };
 119                 A7DA2026113FECD400BF472F /* collectcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = collectcommand.h; sourceTree = "<group>"; };
 120                 A7DA2027113FECD400BF472F /* collectdisplay.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = collectdisplay.h; sourceTree = "<group>"; };
 121                 A7DA2028113FECD400BF472F /* collectorscurvedata.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = collectorscurvedata.h; sourceTree = "<group>"; };
 122                 A7DA2029113FECD400BF472F /* collectsharedcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = collectsharedcommand.cpp; sourceTree = "<group>"; };
 123                 A7DA202A113FECD400BF472F /* collectsharedcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = collectsharedcommand.h; sourceTree = "<group>"; };
 124                 A7DA202B113FECD400BF472F /* command.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = command.hpp; sourceTree = "<group>"; };
 125                 A7DA202C113FECD400BF472F /* commandfactory.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = commandfactory.cpp; sourceTree = "<group>"; };
 126                 A7DA202D113FECD400BF472F /* commandfactory.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = commandfactory.hpp; sourceTree = "<group>"; };
 127                 A7DA202E113FECD400BF472F /* commandoptionparser.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = commandoptionparser.cpp; sourceTree = "<group>"; };
 128                 A7DA202F113FECD400BF472F /* commandoptionparser.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = commandoptionparser.hpp; sourceTree = "<group>"; };
 129                 A7DA2030113FECD400BF472F /* completelinkage.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = completelinkage.cpp; sourceTree = "<group>"; };
 130                 A7DA2031113FECD400BF472F /* consensuscommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = consensuscommand.cpp; sourceTree = "<group>"; };
 131                 A7DA2032113FECD400BF472F /* consensuscommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = consensuscommand.h; sourceTree = "<group>"; };
 132                 A7DA2033113FECD400BF472F /* coverage.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = coverage.cpp; sourceTree = "<group>"; };
 133                 A7DA2034113FECD400BF472F /* coverage.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = coverage.h; sourceTree = "<group>"; };
 134                 A7DA2035113FECD400BF472F /* database.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = database.cpp; sourceTree = "<group>"; };
 135                 A7DA2036113FECD400BF472F /* database.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = database.hpp; sourceTree = "<group>"; };
 136                 A7DA2037113FECD400BF472F /* datavector.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = datavector.hpp; sourceTree = "<group>"; };
 137                 A7DA2038113FECD400BF472F /* decalc.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = decalc.cpp; sourceTree = "<group>"; };
 138                 A7DA2039113FECD400BF472F /* decalc.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = decalc.h; sourceTree = "<group>"; };
 139                 A7DA203A113FECD400BF472F /* deconvolutecommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = deconvolutecommand.cpp; sourceTree = "<group>"; };
 140                 A7DA203B113FECD400BF472F /* deconvolutecommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = deconvolutecommand.h; sourceTree = "<group>"; };
 141                 A7DA203C113FECD400BF472F /* display.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = display.h; sourceTree = "<group>"; };
 142                 A7DA203D113FECD400BF472F /* dist.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = dist.h; sourceTree = "<group>"; };
 143                 A7DA203E113FECD400BF472F /* distancecommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = distancecommand.cpp; sourceTree = "<group>"; };
 144                 A7DA203F113FECD400BF472F /* distancecommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = distancecommand.h; sourceTree = "<group>"; };
 145                 A7DA2040113FECD400BF472F /* distancedb.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = distancedb.cpp; sourceTree = "<group>"; };
 146                 A7DA2041113FECD400BF472F /* distancedb.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = distancedb.hpp; sourceTree = "<group>"; };
 147                 A7DA2042113FECD400BF472F /* dlibshuff.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = dlibshuff.cpp; sourceTree = "<group>"; };
 148                 A7DA2043113FECD400BF472F /* dlibshuff.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = dlibshuff.h; sourceTree = "<group>"; };
 149                 A7DA2044113FECD400BF472F /* eachgapdist.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = eachgapdist.h; sourceTree = "<group>"; };
 150                 A7DA2045113FECD400BF472F /* eachgapignore.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = eachgapignore.h; sourceTree = "<group>"; };
 151                 A7DA2046113FECD400BF472F /* efron.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = efron.cpp; sourceTree = "<group>"; };
 152                 A7DA2047113FECD400BF472F /* efron.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = efron.h; sourceTree = "<group>"; };
 153                 A7DA2048113FECD400BF472F /* engine.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = engine.cpp; sourceTree = "<group>"; };
 154                 A7DA2049113FECD400BF472F /* engine.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = engine.hpp; sourceTree = "<group>"; };
 155                 A7DA204A113FECD400BF472F /* fastamap.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = fastamap.cpp; sourceTree = "<group>"; };
 156                 A7DA204B113FECD400BF472F /* fastamap.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = fastamap.h; sourceTree = "<group>"; };
 157                 A7DA204C113FECD400BF472F /* fileoutput.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = fileoutput.cpp; sourceTree = "<group>"; };
 158                 A7DA204D113FECD400BF472F /* fileoutput.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = fileoutput.h; sourceTree = "<group>"; };
 159                 A7DA204E113FECD400BF472F /* filters.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = filters.h; sourceTree = "<group>"; };
 160                 A7DA204F113FECD400BF472F /* filterseqscommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = filterseqscommand.cpp; sourceTree = "<group>"; };
 161                 A7DA2050113FECD400BF472F /* filterseqscommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = filterseqscommand.h; sourceTree = "<group>"; };
 162                 A7DA2051113FECD400BF472F /* formatcolumn.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = formatcolumn.cpp; sourceTree = "<group>"; };
 163                 A7DA2052113FECD400BF472F /* formatcolumn.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = formatcolumn.h; sourceTree = "<group>"; };
 164                 A7DA2053113FECD400BF472F /* formatmatrix.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = formatmatrix.h; sourceTree = "<group>"; };
 165                 A7DA2054113FECD400BF472F /* formatphylip.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = formatphylip.cpp; sourceTree = "<group>"; };
 166                 A7DA2055113FECD400BF472F /* formatphylip.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = formatphylip.h; sourceTree = "<group>"; };
 167                 A7DA2056113FECD400BF472F /* fullmatrix.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = fullmatrix.cpp; sourceTree = "<group>"; };
 168                 A7DA2057113FECD400BF472F /* fullmatrix.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = fullmatrix.h; sourceTree = "<group>"; };
 169                 A7DA2058113FECD400BF472F /* geom.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = geom.cpp; sourceTree = "<group>"; };
 170                 A7DA2059113FECD400BF472F /* geom.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = geom.h; sourceTree = "<group>"; };
 171                 A7DA205A113FECD400BF472F /* getgroupcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = getgroupcommand.cpp; sourceTree = "<group>"; };
 172                 A7DA205B113FECD400BF472F /* getgroupcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = getgroupcommand.h; sourceTree = "<group>"; };
 173                 A7DA205C113FECD400BF472F /* getlabelcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = getlabelcommand.cpp; sourceTree = "<group>"; };
 174                 A7DA205D113FECD400BF472F /* getlabelcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = getlabelcommand.h; sourceTree = "<group>"; };
 175                 A7DA205E113FECD400BF472F /* getlistcountcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = getlistcountcommand.cpp; sourceTree = "<group>"; };
 176                 A7DA205F113FECD400BF472F /* getlistcountcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = getlistcountcommand.h; sourceTree = "<group>"; };
 177                 A7DA2060113FECD400BF472F /* getoturepcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = getoturepcommand.cpp; sourceTree = "<group>"; };
 178                 A7DA2061113FECD400BF472F /* getoturepcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = getoturepcommand.h; sourceTree = "<group>"; };
 179                 A7DA2062113FECD400BF472F /* getrabundcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = getrabundcommand.cpp; sourceTree = "<group>"; };
 180                 A7DA2063113FECD400BF472F /* getrabundcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = getrabundcommand.h; sourceTree = "<group>"; };
 181                 A7DA2064113FECD400BF472F /* getsabundcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = getsabundcommand.cpp; sourceTree = "<group>"; };
 182                 A7DA2065113FECD400BF472F /* getsabundcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = getsabundcommand.h; sourceTree = "<group>"; };
 183                 A7DA2066113FECD400BF472F /* getseqscommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = getseqscommand.cpp; sourceTree = "<group>"; };
 184                 A7DA2067113FECD400BF472F /* getseqscommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = getseqscommand.h; sourceTree = "<group>"; };
 185                 A7DA2068113FECD400BF472F /* getsharedotucommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = getsharedotucommand.cpp; sourceTree = "<group>"; };
 186                 A7DA2069113FECD400BF472F /* getsharedotucommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = getsharedotucommand.h; sourceTree = "<group>"; };
 187                 A7DA206A113FECD400BF472F /* globaldata.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = globaldata.cpp; sourceTree = "<group>"; };
 188                 A7DA206B113FECD400BF472F /* globaldata.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = globaldata.hpp; sourceTree = "<group>"; };
 189                 A7DA206C113FECD400BF472F /* goodscoverage.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = goodscoverage.cpp; sourceTree = "<group>"; };
 190                 A7DA206D113FECD400BF472F /* goodscoverage.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = goodscoverage.h; sourceTree = "<group>"; };
 191                 A7DA206E113FECD400BF472F /* gotohoverlap.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = gotohoverlap.cpp; sourceTree = "<group>"; };
 192                 A7DA206F113FECD400BF472F /* gotohoverlap.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = gotohoverlap.hpp; sourceTree = "<group>"; };
 193                 A7DA2070113FECD400BF472F /* groupmap.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = groupmap.cpp; sourceTree = "<group>"; };
 194                 A7DA2071113FECD400BF472F /* groupmap.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = groupmap.h; sourceTree = "<group>"; };
 195                 A7DA2072113FECD400BF472F /* hcluster.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = hcluster.cpp; sourceTree = "<group>"; };
 196                 A7DA2073113FECD400BF472F /* hcluster.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = hcluster.h; sourceTree = "<group>"; };
 197                 A7DA2074113FECD400BF472F /* hclustercommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = hclustercommand.cpp; sourceTree = "<group>"; };
 198                 A7DA2075113FECD400BF472F /* hclustercommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = hclustercommand.h; sourceTree = "<group>"; };
 199                 A7DA2076113FECD400BF472F /* heatmap.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = heatmap.cpp; sourceTree = "<group>"; };
 200                 A7DA2077113FECD400BF472F /* heatmap.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = heatmap.h; sourceTree = "<group>"; };
 201                 A7DA2078113FECD400BF472F /* heatmapcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = heatmapcommand.cpp; sourceTree = "<group>"; };
 202                 A7DA2079113FECD400BF472F /* heatmapcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = heatmapcommand.h; sourceTree = "<group>"; };
 203                 A7DA207A113FECD400BF472F /* heatmapsim.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = heatmapsim.cpp; sourceTree = "<group>"; };
 204                 A7DA207B113FECD400BF472F /* heatmapsim.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = heatmapsim.h; sourceTree = "<group>"; };
 205                 A7DA207C113FECD400BF472F /* heatmapsimcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = heatmapsimcommand.cpp; sourceTree = "<group>"; };
 206                 A7DA207D113FECD400BF472F /* heatmapsimcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = heatmapsimcommand.h; sourceTree = "<group>"; };
 207                 A7DA207E113FECD400BF472F /* helpcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = helpcommand.cpp; sourceTree = "<group>"; };
 208                 A7DA207F113FECD400BF472F /* helpcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = helpcommand.h; sourceTree = "<group>"; };
 209                 A7DA2080113FECD400BF472F /* ignoregaps.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = ignoregaps.h; sourceTree = "<group>"; };
 210                 A7DA2081113FECD400BF472F /* inputdata.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = inputdata.cpp; sourceTree = "<group>"; };
 211                 A7DA2082113FECD400BF472F /* inputdata.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = inputdata.h; sourceTree = "<group>"; };
 212                 A7DA2083113FECD400BF472F /* jackknife.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = jackknife.cpp; sourceTree = "<group>"; };
 213                 A7DA2084113FECD400BF472F /* jackknife.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = jackknife.h; sourceTree = "<group>"; };
 214                 A7DA2085113FECD400BF472F /* kmer.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = kmer.cpp; sourceTree = "<group>"; };
 215                 A7DA2086113FECD400BF472F /* kmer.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = kmer.hpp; sourceTree = "<group>"; };
 216                 A7DA2087113FECD400BF472F /* kmerdb.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = kmerdb.cpp; sourceTree = "<group>"; };
 217                 A7DA2088113FECD400BF472F /* kmerdb.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = kmerdb.hpp; sourceTree = "<group>"; };
 218                 A7DA2089113FECD400BF472F /* knn.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = knn.cpp; sourceTree = "<group>"; };
 219                 A7DA208A113FECD400BF472F /* knn.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = knn.h; sourceTree = "<group>"; };
 220                 A7DA208B113FECD400BF472F /* libshuff.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = libshuff.cpp; sourceTree = "<group>"; };
 221                 A7DA208C113FECD400BF472F /* libshuff.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = libshuff.h; sourceTree = "<group>"; };
 222                 A7DA208D113FECD400BF472F /* libshuffcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = libshuffcommand.cpp; sourceTree = "<group>"; };
 223                 A7DA208E113FECD400BF472F /* libshuffcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = libshuffcommand.h; sourceTree = "<group>"; };
 224                 A7DA208F113FECD400BF472F /* listseqscommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = listseqscommand.cpp; sourceTree = "<group>"; };
 225                 A7DA2090113FECD400BF472F /* listseqscommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = listseqscommand.h; sourceTree = "<group>"; };
 226                 A7DA2091113FECD400BF472F /* listvector.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = listvector.cpp; sourceTree = "<group>"; };
 227                 A7DA2092113FECD400BF472F /* listvector.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = listvector.hpp; sourceTree = "<group>"; };
 228                 A7DA2093113FECD400BF472F /* logsd.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = logsd.cpp; sourceTree = "<group>"; };
 229                 A7DA2094113FECD400BF472F /* logsd.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = logsd.h; sourceTree = "<group>"; };
 230                 A7DA2095113FECD400BF472F /* maligner.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = maligner.cpp; sourceTree = "<group>"; };
 231                 A7DA2096113FECD400BF472F /* maligner.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = maligner.h; sourceTree = "<group>"; };
 232                 A7DA2098113FECD400BF472F /* matrixoutputcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = matrixoutputcommand.cpp; sourceTree = "<group>"; };
 233                 A7DA2099113FECD400BF472F /* matrixoutputcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = matrixoutputcommand.h; sourceTree = "<group>"; };
 234                 A7DA209A113FECD400BF472F /* mergefilecommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = mergefilecommand.cpp; sourceTree = "<group>"; };
 235                 A7DA209B113FECD400BF472F /* mergefilecommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = mergefilecommand.h; sourceTree = "<group>"; };
 236                 A7DA209C113FECD400BF472F /* mgclustercommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = mgclustercommand.cpp; sourceTree = "<group>"; };
 237                 A7DA209D113FECD400BF472F /* mgclustercommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = mgclustercommand.h; sourceTree = "<group>"; };
 238                 A7DA209E113FECD400BF472F /* mothur.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = mothur.cpp; sourceTree = "<group>"; };
 239                 A7DA209F113FECD400BF472F /* mothur.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = mothur.h; sourceTree = "<group>"; };
 240                 A7DA20A0113FECD400BF472F /* mothurout.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = mothurout.cpp; sourceTree = "<group>"; };
 241                 A7DA20A1113FECD400BF472F /* mothurout.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = mothurout.h; sourceTree = "<group>"; };
 242                 A7DA20A2113FECD400BF472F /* nameassignment.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = nameassignment.cpp; sourceTree = "<group>"; };
 243                 A7DA20A3113FECD400BF472F /* nameassignment.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = nameassignment.hpp; sourceTree = "<group>"; };
 244                 A7DA20A4113FECD400BF472F /* nast.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = nast.cpp; sourceTree = "<group>"; };
 245                 A7DA20A5113FECD400BF472F /* nast.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = nast.hpp; sourceTree = "<group>"; };
 246                 A7DA20A6113FECD400BF472F /* nastreport.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = nastreport.cpp; sourceTree = "<group>"; };
 247                 A7DA20A7113FECD400BF472F /* nastreport.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = nastreport.hpp; sourceTree = "<group>"; };
 248                 A7DA20A8113FECD400BF472F /* needlemanoverlap.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = needlemanoverlap.cpp; sourceTree = "<group>"; };
 249                 A7DA20A9113FECD400BF472F /* needlemanoverlap.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = needlemanoverlap.hpp; sourceTree = "<group>"; };
 250                 A7DA20AA113FECD400BF472F /* noalign.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = noalign.cpp; sourceTree = "<group>"; };
 251                 A7DA20AB113FECD400BF472F /* noalign.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = noalign.hpp; sourceTree = "<group>"; };
 252                 A7DA20AC113FECD400BF472F /* nocommands.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = nocommands.cpp; sourceTree = "<group>"; };
 253                 A7DA20AD113FECD400BF472F /* nocommands.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = nocommands.h; sourceTree = "<group>"; };
 254                 A7DA20AE113FECD400BF472F /* npshannon.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = npshannon.cpp; sourceTree = "<group>"; };
 255                 A7DA20AF113FECD400BF472F /* npshannon.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = npshannon.h; sourceTree = "<group>"; };
 256                 A7DA20B0113FECD400BF472F /* nseqs.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = nseqs.h; sourceTree = "<group>"; };
 257                 A7DA20B1113FECD400BF472F /* observable.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = observable.h; sourceTree = "<group>"; };
 258                 A7DA20B2113FECD400BF472F /* onegapdist.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = onegapdist.h; sourceTree = "<group>"; };
 259                 A7DA20B3113FECD400BF472F /* onegapignore.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = onegapignore.h; sourceTree = "<group>"; };
 260                 A7DA20B4113FECD400BF472F /* optionparser.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = optionparser.cpp; sourceTree = "<group>"; };
 261                 A7DA20B5113FECD400BF472F /* optionparser.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = optionparser.h; sourceTree = "<group>"; };
 262                 A7DA20B6113FECD400BF472F /* ordervector.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = ordervector.cpp; sourceTree = "<group>"; };
 263                 A7DA20B7113FECD400BF472F /* ordervector.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = ordervector.hpp; sourceTree = "<group>"; };
 264                 A7DA20B8113FECD400BF472F /* otuhierarchycommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = otuhierarchycommand.cpp; sourceTree = "<group>"; };
 265                 A7DA20B9113FECD400BF472F /* otuhierarchycommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = otuhierarchycommand.h; sourceTree = "<group>"; };
 266                 A7DA20BA113FECD400BF472F /* overlap.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = overlap.cpp; sourceTree = "<group>"; };
 267                 A7DA20BB113FECD400BF472F /* overlap.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = overlap.hpp; sourceTree = "<group>"; };
 268                 A7DA20BC113FECD400BF472F /* parselistscommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = parselistscommand.cpp; sourceTree = "<group>"; };
 269                 A7DA20BD113FECD400BF472F /* parselistscommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = parselistscommand.h; sourceTree = "<group>"; };
 270                 A7DA20BE113FECD400BF472F /* parsimony.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = parsimony.cpp; sourceTree = "<group>"; };
 271                 A7DA20BF113FECD400BF472F /* parsimony.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = parsimony.h; sourceTree = "<group>"; };
 272                 A7DA20C0113FECD400BF472F /* parsimonycommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = parsimonycommand.cpp; sourceTree = "<group>"; };
 273                 A7DA20C1113FECD400BF472F /* parsimonycommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = parsimonycommand.h; sourceTree = "<group>"; };
 274                 A7DA20C2113FECD400BF472F /* pcacommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = pcacommand.cpp; sourceTree = "<group>"; };
 275                 A7DA20C3113FECD400BF472F /* pcacommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = pcacommand.h; sourceTree = "<group>"; };
 276                 A7DA20C4113FECD400BF472F /* phylotree.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = phylotree.cpp; sourceTree = "<group>"; };
 277                 A7DA20C5113FECD400BF472F /* phylotree.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = phylotree.h; sourceTree = "<group>"; };
 278                 A7DA20C6113FECD400BF472F /* phylotypecommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = phylotypecommand.cpp; sourceTree = "<group>"; };
 279                 A7DA20C7113FECD400BF472F /* phylotypecommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = phylotypecommand.h; sourceTree = "<group>"; };
 280                 A7DA20C8113FECD400BF472F /* pintail.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = pintail.cpp; sourceTree = "<group>"; };
 281                 A7DA20C9113FECD400BF472F /* pintail.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = pintail.h; sourceTree = "<group>"; };
 282                 A7DA20CA113FECD400BF472F /* preclustercommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = preclustercommand.cpp; sourceTree = "<group>"; };
 283                 A7DA20CB113FECD400BF472F /* preclustercommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = preclustercommand.h; sourceTree = "<group>"; };
 284                 A7DA20CC113FECD400BF472F /* progress.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = progress.cpp; sourceTree = "<group>"; };
 285                 A7DA20CD113FECD400BF472F /* progress.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = progress.hpp; sourceTree = "<group>"; };
 286                 A7DA20CE113FECD400BF472F /* qstat.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = qstat.cpp; sourceTree = "<group>"; };
 287                 A7DA20CF113FECD400BF472F /* qstat.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = qstat.h; sourceTree = "<group>"; };
 288                 A7DA20D0113FECD400BF472F /* quitcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = quitcommand.cpp; sourceTree = "<group>"; };
 289                 A7DA20D1113FECD400BF472F /* quitcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = quitcommand.h; sourceTree = "<group>"; };
 290                 A7DA20D2113FECD400BF472F /* rabundvector.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = rabundvector.cpp; sourceTree = "<group>"; };
 291                 A7DA20D3113FECD400BF472F /* rabundvector.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = rabundvector.hpp; sourceTree = "<group>"; };
 292                 A7DA20D4113FECD400BF472F /* rarecalc.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = rarecalc.cpp; sourceTree = "<group>"; };
 293                 A7DA20D5113FECD400BF472F /* rarecalc.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = rarecalc.h; sourceTree = "<group>"; };
 294                 A7DA20D6113FECD400BF472F /* raredisplay.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = raredisplay.cpp; sourceTree = "<group>"; };
 295                 A7DA20D7113FECD400BF472F /* raredisplay.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = raredisplay.h; sourceTree = "<group>"; };
 296                 A7DA20D8113FECD400BF472F /* rarefact.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = rarefact.cpp; sourceTree = "<group>"; };
 297                 A7DA20D9113FECD400BF472F /* rarefact.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = rarefact.h; sourceTree = "<group>"; };
 298                 A7DA20DA113FECD400BF472F /* rarefactcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = rarefactcommand.cpp; sourceTree = "<group>"; };
 299                 A7DA20DB113FECD400BF472F /* rarefactcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = rarefactcommand.h; sourceTree = "<group>"; };
 300                 A7DA20DC113FECD400BF472F /* rarefactioncurvedata.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = rarefactioncurvedata.h; sourceTree = "<group>"; };
 301                 A7DA20DD113FECD400BF472F /* rarefactsharedcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = rarefactsharedcommand.cpp; sourceTree = "<group>"; };
 302                 A7DA20DE113FECD400BF472F /* rarefactsharedcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = rarefactsharedcommand.h; sourceTree = "<group>"; };
 303                 A7DA20DF113FECD400BF472F /* readblast.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = readblast.cpp; sourceTree = "<group>"; };
 304                 A7DA20E0113FECD400BF472F /* readblast.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = readblast.h; sourceTree = "<group>"; };
 305                 A7DA20E1113FECD400BF472F /* readcluster.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = readcluster.cpp; sourceTree = "<group>"; };
 306                 A7DA20E2113FECD400BF472F /* readcluster.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = readcluster.h; sourceTree = "<group>"; };
 307                 A7DA20E3113FECD400BF472F /* readcolumn.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = readcolumn.cpp; sourceTree = "<group>"; };
 308                 A7DA20E4113FECD400BF472F /* readcolumn.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = readcolumn.h; sourceTree = "<group>"; };
 309                 A7DA20E5113FECD400BF472F /* readdistcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = readdistcommand.cpp; sourceTree = "<group>"; };
 310                 A7DA20E6113FECD400BF472F /* readdistcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = readdistcommand.h; sourceTree = "<group>"; };
 311                 A7DA20E7113FECD400BF472F /* readmatrix.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = readmatrix.hpp; sourceTree = "<group>"; };
 312                 A7DA20E8113FECD400BF472F /* readotu.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = readotu.cpp; sourceTree = "<group>"; };
 313                 A7DA20E9113FECD400BF472F /* readotu.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = readotu.h; sourceTree = "<group>"; };
 314                 A7DA20EA113FECD400BF472F /* readotucommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = readotucommand.cpp; sourceTree = "<group>"; };
 315                 A7DA20EB113FECD400BF472F /* readotucommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = readotucommand.h; sourceTree = "<group>"; };
 316                 A7DA20EC113FECD400BF472F /* readphylip.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = readphylip.cpp; sourceTree = "<group>"; };
 317                 A7DA20ED113FECD400BF472F /* readphylip.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = readphylip.h; sourceTree = "<group>"; };
 318                 A7DA20EE113FECD400BF472F /* readtree.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = readtree.cpp; sourceTree = "<group>"; };
 319                 A7DA20EF113FECD400BF472F /* readtree.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = readtree.h; sourceTree = "<group>"; };
 320                 A7DA20F0113FECD400BF472F /* readtreecommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = readtreecommand.cpp; sourceTree = "<group>"; };
 321                 A7DA20F1113FECD400BF472F /* readtreecommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = readtreecommand.h; sourceTree = "<group>"; };
 322                 A7DA20F2113FECD400BF472F /* removeseqscommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = removeseqscommand.cpp; sourceTree = "<group>"; };
 323                 A7DA20F3113FECD400BF472F /* removeseqscommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = removeseqscommand.h; sourceTree = "<group>"; };
 324                 A7DA20F4113FECD400BF472F /* reversecommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = reversecommand.cpp; sourceTree = "<group>"; };
 325                 A7DA20F5113FECD400BF472F /* reversecommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = reversecommand.h; sourceTree = "<group>"; };
 326                 A7DA20F6113FECD400BF472F /* sabundvector.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sabundvector.cpp; sourceTree = "<group>"; };
 327                 A7DA20F7113FECD400BF472F /* sabundvector.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = sabundvector.hpp; sourceTree = "<group>"; };
 328                 A7DA20F8113FECD400BF472F /* screenseqscommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = screenseqscommand.cpp; sourceTree = "<group>"; };
 329                 A7DA20F9113FECD400BF472F /* screenseqscommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = screenseqscommand.h; sourceTree = "<group>"; };
 330                 A7DA20FA113FECD400BF472F /* secondarystructurecommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = secondarystructurecommand.cpp; sourceTree = "<group>"; };
 331                 A7DA20FB113FECD400BF472F /* secondarystructurecommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = secondarystructurecommand.h; sourceTree = "<group>"; };
 332                 A7DA20FC113FECD400BF472F /* seqsummarycommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = seqsummarycommand.cpp; sourceTree = "<group>"; };
 333                 A7DA20FD113FECD400BF472F /* seqsummarycommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = seqsummarycommand.h; sourceTree = "<group>"; };
 334                 A7DA20FE113FECD400BF472F /* sequence.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sequence.cpp; sourceTree = "<group>"; };
 335                 A7DA20FF113FECD400BF472F /* sequence.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = sequence.hpp; sourceTree = "<group>"; };
 336                 A7DA2100113FECD400BF472F /* sequencedb.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sequencedb.cpp; sourceTree = "<group>"; };
 337                 A7DA2101113FECD400BF472F /* sequencedb.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sequencedb.h; sourceTree = "<group>"; };
 338                 A7DA2102113FECD400BF472F /* setdircommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = setdircommand.cpp; sourceTree = "<group>"; };
 339                 A7DA2103113FECD400BF472F /* setdircommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = setdircommand.h; sourceTree = "<group>"; };
 340                 A7DA2104113FECD400BF472F /* shannon.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = shannon.cpp; sourceTree = "<group>"; };
 341                 A7DA2105113FECD400BF472F /* shannon.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = shannon.h; sourceTree = "<group>"; };
 342                 A7DA2106113FECD400BF472F /* sharedace.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedace.cpp; sourceTree = "<group>"; };
 343                 A7DA2107113FECD400BF472F /* sharedace.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedace.h; sourceTree = "<group>"; };
 344                 A7DA2108113FECD400BF472F /* sharedanderberg.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedanderberg.h; sourceTree = "<group>"; };
 345                 A7DA2109113FECD400BF472F /* sharedanderbergs.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedanderbergs.cpp; sourceTree = "<group>"; };
 346                 A7DA210A113FECD400BF472F /* sharedanderbergs.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedanderbergs.h; sourceTree = "<group>"; };
 347                 A7DA210B113FECD400BF472F /* sharedbraycurtis.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedbraycurtis.cpp; sourceTree = "<group>"; };
 348                 A7DA210C113FECD400BF472F /* sharedbraycurtis.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedbraycurtis.h; sourceTree = "<group>"; };
 349                 A7DA210D113FECD400BF472F /* sharedchao1.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedchao1.cpp; sourceTree = "<group>"; };
 350                 A7DA210E113FECD400BF472F /* sharedchao1.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedchao1.h; sourceTree = "<group>"; };
 351                 A7DA210F113FECD400BF472F /* sharedcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedcommand.cpp; sourceTree = "<group>"; };
 352                 A7DA2110113FECD400BF472F /* sharedcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedcommand.h; sourceTree = "<group>"; };
 353                 A7DA2111113FECD400BF472F /* sharedjabund.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedjabund.cpp; sourceTree = "<group>"; };
 354                 A7DA2112113FECD400BF472F /* sharedjabund.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedjabund.h; sourceTree = "<group>"; };
 355                 A7DA2113113FECD400BF472F /* sharedjackknife.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedjackknife.cpp; sourceTree = "<group>"; };
 356                 A7DA2114113FECD400BF472F /* sharedjackknife.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedjackknife.h; sourceTree = "<group>"; };
 357                 A7DA2115113FECD400BF472F /* sharedjclass.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedjclass.cpp; sourceTree = "<group>"; };
 358                 A7DA2116113FECD400BF472F /* sharedjclass.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedjclass.h; sourceTree = "<group>"; };
 359                 A7DA2117113FECD400BF472F /* sharedjest.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedjest.cpp; sourceTree = "<group>"; };
 360                 A7DA2118113FECD400BF472F /* sharedjest.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedjest.h; sourceTree = "<group>"; };
 361                 A7DA2119113FECD400BF472F /* sharedkstest.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedkstest.cpp; sourceTree = "<group>"; };
 362                 A7DA211A113FECD400BF472F /* sharedkstest.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedkstest.h; sourceTree = "<group>"; };
 363                 A7DA211B113FECD400BF472F /* sharedkulczynski.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedkulczynski.cpp; sourceTree = "<group>"; };
 364                 A7DA211C113FECD400BF472F /* sharedkulczynski.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedkulczynski.h; sourceTree = "<group>"; };
 365                 A7DA211D113FECD400BF472F /* sharedkulczynskicody.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedkulczynskicody.cpp; sourceTree = "<group>"; };
 366                 A7DA211E113FECD400BF472F /* sharedkulczynskicody.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedkulczynskicody.h; sourceTree = "<group>"; };
 367                 A7DA211F113FECD400BF472F /* sharedlennon.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedlennon.cpp; sourceTree = "<group>"; };
 368                 A7DA2120113FECD400BF472F /* sharedlennon.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedlennon.h; sourceTree = "<group>"; };
 369                 A7DA2121113FECD400BF472F /* sharedlistvector.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedlistvector.cpp; sourceTree = "<group>"; };
 370                 A7DA2122113FECD400BF472F /* sharedlistvector.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedlistvector.h; sourceTree = "<group>"; };
 371                 A7DA2123113FECD400BF472F /* sharedmarczewski.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedmarczewski.cpp; sourceTree = "<group>"; };
 372                 A7DA2124113FECD400BF472F /* sharedmarczewski.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedmarczewski.h; sourceTree = "<group>"; };
 373                 A7DA2125113FECD400BF472F /* sharedmorisitahorn.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedmorisitahorn.cpp; sourceTree = "<group>"; };
 374                 A7DA2126113FECD400BF472F /* sharedmorisitahorn.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedmorisitahorn.h; sourceTree = "<group>"; };
 375                 A7DA2127113FECD400BF472F /* sharednseqs.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharednseqs.h; sourceTree = "<group>"; };
 376                 A7DA2128113FECD400BF472F /* sharedochiai.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedochiai.cpp; sourceTree = "<group>"; };
 377                 A7DA2129113FECD400BF472F /* sharedochiai.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedochiai.h; sourceTree = "<group>"; };
 378                 A7DA212A113FECD400BF472F /* sharedordervector.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedordervector.cpp; sourceTree = "<group>"; };
 379                 A7DA212B113FECD400BF472F /* sharedordervector.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedordervector.h; sourceTree = "<group>"; };
 380                 A7DA212C113FECD400BF472F /* sharedrabundvector.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedrabundvector.cpp; sourceTree = "<group>"; };
 381                 A7DA212D113FECD400BF472F /* sharedrabundvector.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedrabundvector.h; sourceTree = "<group>"; };
 382                 A7DA212E113FECD400BF472F /* sharedsabundvector.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedsabundvector.cpp; sourceTree = "<group>"; };
 383                 A7DA212F113FECD400BF472F /* sharedsabundvector.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedsabundvector.h; sourceTree = "<group>"; };
 384                 A7DA2130113FECD400BF472F /* sharedsobs.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedsobs.cpp; sourceTree = "<group>"; };
 385                 A7DA2131113FECD400BF472F /* sharedsobs.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedsobs.h; sourceTree = "<group>"; };
 386                 A7DA2132113FECD400BF472F /* sharedsobscollectsummary.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedsobscollectsummary.cpp; sourceTree = "<group>"; };
 387                 A7DA2133113FECD400BF472F /* sharedsobscollectsummary.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedsobscollectsummary.h; sourceTree = "<group>"; };
 388                 A7DA2134113FECD400BF472F /* sharedsorabund.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedsorabund.cpp; sourceTree = "<group>"; };
 389                 A7DA2135113FECD400BF472F /* sharedsorabund.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedsorabund.h; sourceTree = "<group>"; };
 390                 A7DA2136113FECD400BF472F /* sharedsorclass.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedsorclass.cpp; sourceTree = "<group>"; };
 391                 A7DA2137113FECD400BF472F /* sharedsorclass.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedsorclass.h; sourceTree = "<group>"; };
 392                 A7DA2138113FECD400BF472F /* sharedsorest.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedsorest.cpp; sourceTree = "<group>"; };
 393                 A7DA2139113FECD400BF472F /* sharedsorest.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedsorest.h; sourceTree = "<group>"; };
 394                 A7DA213A113FECD400BF472F /* sharedthetan.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedthetan.cpp; sourceTree = "<group>"; };
 395                 A7DA213B113FECD400BF472F /* sharedthetan.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedthetan.h; sourceTree = "<group>"; };
 396                 A7DA213C113FECD400BF472F /* sharedthetayc.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedthetayc.cpp; sourceTree = "<group>"; };
 397                 A7DA213D113FECD400BF472F /* sharedthetayc.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedthetayc.h; sourceTree = "<group>"; };
 398                 A7DA213E113FECD400BF472F /* sharedutilities.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedutilities.cpp; sourceTree = "<group>"; };
 399                 A7DA213F113FECD400BF472F /* sharedutilities.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedutilities.h; sourceTree = "<group>"; };
 400                 A7DA2140113FECD400BF472F /* shen.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = shen.cpp; sourceTree = "<group>"; };
 401                 A7DA2141113FECD400BF472F /* shen.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = shen.h; sourceTree = "<group>"; };
 402                 A7DA2142113FECD400BF472F /* simpson.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = simpson.cpp; sourceTree = "<group>"; };
 403                 A7DA2143113FECD400BF472F /* simpson.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = simpson.h; sourceTree = "<group>"; };
 404                 A7DA2144113FECD400BF472F /* singlelinkage.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = singlelinkage.cpp; sourceTree = "<group>"; };
 405                 A7DA2145113FECD400BF472F /* slayer.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = slayer.cpp; sourceTree = "<group>"; };
 406                 A7DA2146113FECD400BF472F /* slayer.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = slayer.h; sourceTree = "<group>"; };
 407                 A7DA2147113FECD400BF472F /* slibshuff.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = slibshuff.cpp; sourceTree = "<group>"; };
 408                 A7DA2148113FECD400BF472F /* slibshuff.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = slibshuff.h; sourceTree = "<group>"; };
 409                 A7DA2149113FECD400BF472F /* sobs.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sobs.h; sourceTree = "<group>"; };
 410                 A7DA214A113FECD400BF472F /* solow.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = solow.cpp; sourceTree = "<group>"; };
 411                 A7DA214B113FECD400BF472F /* solow.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = solow.h; sourceTree = "<group>"; };
 412                 A7DA214C113FECD400BF472F /* sparsematrix.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sparsematrix.cpp; sourceTree = "<group>"; };
 413                 A7DA214D113FECD400BF472F /* sparsematrix.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = sparsematrix.hpp; sourceTree = "<group>"; };
 414                 A7DA214E113FECD400BF472F /* suffixdb.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = suffixdb.cpp; sourceTree = "<group>"; };
 415                 A7DA214F113FECD400BF472F /* suffixdb.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = suffixdb.hpp; sourceTree = "<group>"; };
 416                 A7DA2150113FECD400BF472F /* suffixnodes.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = suffixnodes.cpp; sourceTree = "<group>"; };
 417                 A7DA2151113FECD400BF472F /* suffixnodes.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = suffixnodes.hpp; sourceTree = "<group>"; };
 418                 A7DA2152113FECD400BF472F /* suffixtree.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = suffixtree.cpp; sourceTree = "<group>"; };
 419                 A7DA2153113FECD400BF472F /* suffixtree.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = suffixtree.hpp; sourceTree = "<group>"; };
 420                 A7DA2154113FECD400BF472F /* summarycommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = summarycommand.cpp; sourceTree = "<group>"; };
 421                 A7DA2155113FECD400BF472F /* summarycommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = summarycommand.h; sourceTree = "<group>"; };
 422                 A7DA2158113FECD400BF472F /* summarysharedcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = summarysharedcommand.cpp; sourceTree = "<group>"; };
 423                 A7DA2159113FECD400BF472F /* summarysharedcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = summarysharedcommand.h; sourceTree = "<group>"; };
 424                 A7DA215A113FECD400BF472F /* systemcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = systemcommand.cpp; sourceTree = "<group>"; };
 425                 A7DA215B113FECD400BF472F /* systemcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = systemcommand.h; sourceTree = "<group>"; };
 426                 A7DA215C113FECD400BF472F /* taxonomyequalizer.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = taxonomyequalizer.cpp; sourceTree = "<group>"; };
 427                 A7DA215D113FECD400BF472F /* taxonomyequalizer.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = taxonomyequalizer.h; sourceTree = "<group>"; };
 428                 A7DA215E113FECD400BF472F /* tree.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = tree.cpp; sourceTree = "<group>"; };
 429                 A7DA215F113FECD400BF472F /* tree.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = tree.h; sourceTree = "<group>"; };
 430                 A7DA2160113FECD400BF472F /* treecalculator.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = treecalculator.h; sourceTree = "<group>"; };
 431                 A7DA2161113FECD400BF472F /* treegroupscommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = treegroupscommand.cpp; sourceTree = "<group>"; };
 432                 A7DA2162113FECD400BF472F /* treegroupscommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = treegroupscommand.h; sourceTree = "<group>"; };
 433                 A7DA2163113FECD400BF472F /* treemap.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = treemap.cpp; sourceTree = "<group>"; };
 434                 A7DA2164113FECD400BF472F /* treemap.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = treemap.h; sourceTree = "<group>"; };
 435                 A7DA2165113FECD400BF472F /* treenode.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = treenode.cpp; sourceTree = "<group>"; };
 436                 A7DA2166113FECD400BF472F /* treenode.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = treenode.h; sourceTree = "<group>"; };
 437                 A7DA2167113FECD400BF472F /* trimseqscommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = trimseqscommand.cpp; sourceTree = "<group>"; };
 438                 A7DA2168113FECD400BF472F /* trimseqscommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = trimseqscommand.h; sourceTree = "<group>"; };
 439                 A7DA2169113FECD400BF472F /* unifracunweightedcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = unifracunweightedcommand.cpp; sourceTree = "<group>"; };
 440                 A7DA216A113FECD400BF472F /* unifracunweightedcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = unifracunweightedcommand.h; sourceTree = "<group>"; };
 441                 A7DA216B113FECD400BF472F /* unifracweightedcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = unifracweightedcommand.cpp; sourceTree = "<group>"; };
 442                 A7DA216C113FECD400BF472F /* unifracweightedcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = unifracweightedcommand.h; sourceTree = "<group>"; };
 443                 A7DA216D113FECD400BF472F /* unweighted.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = unweighted.cpp; sourceTree = "<group>"; };
 444                 A7DA216E113FECD400BF472F /* unweighted.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = unweighted.h; sourceTree = "<group>"; };
 445                 A7DA216F113FECD400BF472F /* uvest.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = uvest.cpp; sourceTree = "<group>"; };
 446                 A7DA2170113FECD400BF472F /* uvest.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = uvest.h; sourceTree = "<group>"; };
 447                 A7DA2171113FECD400BF472F /* validcalculator.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = validcalculator.cpp; sourceTree = "<group>"; };
 448                 A7DA2172113FECD400BF472F /* validcalculator.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = validcalculator.h; sourceTree = "<group>"; };
 449                 A7DA2173113FECD400BF472F /* validparameter.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = validparameter.cpp; sourceTree = "<group>"; };
 450                 A7DA2174113FECD400BF472F /* validparameter.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = validparameter.h; sourceTree = "<group>"; };
 451                 A7DA2175113FECD400BF472F /* venn.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = venn.cpp; sourceTree = "<group>"; };
 452                 A7DA2176113FECD400BF472F /* venn.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = venn.h; sourceTree = "<group>"; };
 453                 A7DA2177113FECD400BF472F /* venncommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = venncommand.cpp; sourceTree = "<group>"; };
 454                 A7DA2178113FECD400BF472F /* venncommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = venncommand.h; sourceTree = "<group>"; };
 455                 A7DA2179113FECD400BF472F /* weighted.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = weighted.cpp; sourceTree = "<group>"; };
 456                 A7DA217A113FECD400BF472F /* weighted.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = weighted.h; sourceTree = "<group>"; };
 457                 A7DA217B113FECD400BF472F /* whittaker.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = whittaker.cpp; sourceTree = "<group>"; };
 458                 A7DA217C113FECD400BF472F /* whittaker.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = whittaker.h; sourceTree = "<group>"; };
 459                 A7DF0AD3121EBB14004A03EA /* clearcut.c */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.c; path = clearcut.c; sourceTree = "<group>"; };
 460                 A7DF0AD4121EBB14004A03EA /* clearcut.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = clearcut.h; sourceTree = "<group>"; };
 461                 A7DF0AD5121EBB14004A03EA /* cmdargs.c */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.c; path = cmdargs.c; sourceTree = "<group>"; };
 462                 A7DF0AD6121EBB14004A03EA /* cmdargs.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = cmdargs.h; sourceTree = "<group>"; };
 463                 A7DF0AD7121EBB14004A03EA /* common.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = common.h; sourceTree = "<group>"; };
 464                 A7DF0AD8121EBB14004A03EA /* dayhoff.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = dayhoff.h; sourceTree = "<group>"; };
 465                 A7DF0AD9121EBB14004A03EA /* distclearcut.c */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.c; path = distclearcut.c; sourceTree = "<group>"; };
 466                 A7DF0ADA121EBB14004A03EA /* distclearcut.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = distclearcut.h; sourceTree = "<group>"; };
 467                 A7DF0ADB121EBB14004A03EA /* dmat.c */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.c; path = dmat.c; sourceTree = "<group>"; };
 468                 A7DF0ADC121EBB14004A03EA /* dmat.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = dmat.h; sourceTree = "<group>"; };
 469                 A7DF0ADD121EBB14004A03EA /* fasta.c */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.c; path = fasta.c; sourceTree = "<group>"; };
 470                 A7DF0ADE121EBB14004A03EA /* fasta.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = fasta.h; sourceTree = "<group>"; };
 471                 A7DF0ADF121EBB14004A03EA /* getopt_long.c */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.c; path = getopt_long.c; sourceTree = "<group>"; };
 472                 A7DF0AE0121EBB14004A03EA /* getopt_long.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = getopt_long.h; sourceTree = "<group>"; };
 473                 A7DF0AE1121EBB14004A03EA /* prng.c */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.c; path = prng.c; sourceTree = "<group>"; };
 474                 A7DF0AE2121EBB14004A03EA /* prng.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = prng.h; sourceTree = "<group>"; };
 475                 A7E8338B115BBDAA00739EC4 /* parsesffcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = parsesffcommand.cpp; sourceTree = "<group>"; };
 476                 A7E8338C115BBDAA00739EC4 /* parsesffcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = parsesffcommand.h; sourceTree = "<group>"; };
 477 /* End PBXFileReference section */
 478
 479 /* Begin PBXGroup section */
 480                 08FB7794FE84155DC02AAC07 /* mothur */ = {
 481                         isa = PBXGroup;
 482                         children = (
 483                                 A7639F8D1175DF35008F5578 /* makefile */,
 484                                 A7DA1FF0113FECD400BF472F /* alignment.cpp */,
 485                                 A7DA1FF1113FECD400BF472F /* alignment.hpp */,
 486                                 A7DA1FF6113FECD400BF472F /* averagelinkage.cpp */,
 487                                 A7DA2000113FECD400BF472F /* blastalign.hpp */,
 488                                 A7DA1FFF113FECD400BF472F /* blastalign.cpp */,
 489                                 A7DA201F113FECD400BF472F /* cluster.cpp */,
 490                                 A7DA2020113FECD400BF472F /* cluster.hpp */,
 491                                 A7CB593B11402EF90010EB83 /* calculators */,
 492                                 A7CB594A11402FB40010EB83 /* chimeras */,
 493                                 A7CB594511402F6E0010EB83 /* classifers */,
 494                                 A7DF0AE5121EBC26004A03EA /* clearcutsource */,
 495                                 A7CB593E11402F110010EB83 /* commands */,
 496                                 A7CB594211402F430010EB83 /* containers */,
 497                                 A7DA2023113FECD400BF472F /* collect.cpp */,
 498                                 A7DA2024113FECD400BF472F /* collect.h */,
 499                                 A7DA2027113FECD400BF472F /* collectdisplay.h */,
 500                                 A7DA2028113FECD400BF472F /* collectorscurvedata.h */,
 501                                 A7DA202C113FECD400BF472F /* commandfactory.cpp */,
 502                                 A7DA202D113FECD400BF472F /* commandfactory.hpp */,
 503                                 A7DA202E113FECD400BF472F /* commandoptionparser.cpp */,
 504                                 A7DA202F113FECD400BF472F /* commandoptionparser.hpp */,
 505                                 A7DA2030113FECD400BF472F /* completelinkage.cpp */,
 506                                 A7DA203C113FECD400BF472F /* display.h */,
 507                                 A7DA2042113FECD400BF472F /* dlibshuff.cpp */,
 508                                 A7DA2043113FECD400BF472F /* dlibshuff.h */,
 509                                 A780E6CB11E7745D00BB5718 /* endiannessmacros.h */,
 510                                 A7DA2048113FECD400BF472F /* engine.cpp */,
 511                                 A7DA2049113FECD400BF472F /* engine.hpp */,
 512                                 A7DA204C113FECD400BF472F /* fileoutput.cpp */,
 513                                 A7DA204D113FECD400BF472F /* fileoutput.h */,
 514                                 A7DA206A113FECD400BF472F /* globaldata.cpp */,
 515                                 A7DA206B113FECD400BF472F /* globaldata.hpp */,
 516                                 A7DA206E113FECD400BF472F /* gotohoverlap.cpp */,
 517                                 A7DA206F113FECD400BF472F /* gotohoverlap.hpp */,
 518                                 A7DA2072113FECD400BF472F /* hcluster.cpp */,
 519                                 A7DA2073113FECD400BF472F /* hcluster.h */,
 520                                 A7DA2076113FECD400BF472F /* heatmap.cpp */,
 521                                 A7DA2077113FECD400BF472F /* heatmap.h */,
 522                                 A7DA207A113FECD400BF472F /* heatmapsim.cpp */,
 523                                 A7DA207B113FECD400BF472F /* heatmapsim.h */,
 524                                 A7DA2081113FECD400BF472F /* inputdata.cpp */,
 525                                 A7DA2082113FECD400BF472F /* inputdata.h */,
 526                                 A7DA208B113FECD400BF472F /* libshuff.cpp */,
 527                                 A7DA208C113FECD400BF472F /* libshuff.h */,
 528                                 A7DA209E113FECD400BF472F /* mothur.cpp */,
 529                                 A7DA209F113FECD400BF472F /* mothur.h */,
 530                                 A7DA20A0113FECD400BF472F /* mothurout.cpp */,
 531                                 A7DA20A1113FECD400BF472F /* mothurout.h */,
 532                                 A7DA20A4113FECD400BF472F /* nast.cpp */,
 533                                 A7DA20A5113FECD400BF472F /* nast.hpp */,
 534                                 A7DA20A6113FECD400BF472F /* nastreport.cpp */,
 535                                 A7DA20A7113FECD400BF472F /* nastreport.hpp */,
 536                                 A7DA20A8113FECD400BF472F /* needlemanoverlap.cpp */,
 537                                 A7DA20A9113FECD400BF472F /* needlemanoverlap.hpp */,
 538                                 A7DA20AA113FECD400BF472F /* noalign.cpp */,
 539                                 A7DA20AB113FECD400BF472F /* noalign.hpp */,
 540                                 A7DA20B1113FECD400BF472F /* observable.h */,
 541                                 A7DA20B4113FECD400BF472F /* optionparser.cpp */,
 542                                 A7DA20B5113FECD400BF472F /* optionparser.h */,
 543                                 A7DA20BA113FECD400BF472F /* overlap.cpp */,
 544                                 A7DA20BB113FECD400BF472F /* overlap.hpp */,
 545                                 A7DA20CC113FECD400BF472F /* progress.cpp */,
 546                                 A7DA20CD113FECD400BF472F /* progress.hpp */,
 547                                 A7DA20D4113FECD400BF472F /* rarecalc.cpp */,
 548                                 A7DA20D5113FECD400BF472F /* rarecalc.h */,
 549                                 A7DA20D6113FECD400BF472F /* raredisplay.cpp */,
 550                                 A7DA20D7113FECD400BF472F /* raredisplay.h */,
 551                                 A7DA20D8113FECD400BF472F /* rarefact.cpp */,
 552                                 A7DA20D9113FECD400BF472F /* rarefact.h */,
 553                                 A7DA20DC113FECD400BF472F /* rarefactioncurvedata.h */,
 554                                 A7CB5953114033220010EB83 /* read */,
 555                                 A7DA213E113FECD400BF472F /* sharedutilities.cpp */,
 556                                 A7DA213F113FECD400BF472F /* sharedutilities.h */,
 557                                 A7DA2144113FECD400BF472F /* singlelinkage.cpp */,
 558                                 A7DA2147113FECD400BF472F /* slibshuff.cpp */,
 559                                 A7DA2148113FECD400BF472F /* slibshuff.h */,
 560                                 A7DA2171113FECD400BF472F /* validcalculator.cpp */,
 561                                 A7DA2172113FECD400BF472F /* validcalculator.h */,
 562                                 A7DA2173113FECD400BF472F /* validparameter.cpp */,
 563                                 A7DA2174113FECD400BF472F /* validparameter.h */,
 564                                 A7DA2175113FECD400BF472F /* venn.cpp */,
 565                                 A7DA2176113FECD400BF472F /* venn.h */,
 566                         );
 567                         name = mothur;
 568                         sourceTree = "<group>";
 569                 };
 570                 A7CB593B11402EF90010EB83 /* calculators */ = {
 571                         isa = PBXGroup;
 572                         children = (
 573                                 A7DA200B113FECD400BF472F /* calculator.cpp */,
 574                                 A7DA200C113FECD400BF472F /* calculator.h */,
 575                                 A7DA1FED113FECD400BF472F /* ace.h */,
 576                                 A7DA1FEC113FECD400BF472F /* ace.cpp */,
 577                                 A7DA1FFB113FECD400BF472F /* bergerparker.cpp */,
 578                                 A7DA1FFC113FECD400BF472F /* bergerparker.h */,
 579                                 A7DA2003113FECD400BF472F /* boneh.cpp */,
 580                                 A7DA2004113FECD400BF472F /* boneh.h */,
 581                                 A7DA2005113FECD400BF472F /* bootstrap.cpp */,
 582                                 A7DA2006113FECD400BF472F /* bootstrap.h */,
 583                                 A7DA2009113FECD400BF472F /* bstick.cpp */,
 584                                 A7DA200A113FECD400BF472F /* bstick.h */,
 585                                 A7DA200F113FECD400BF472F /* chao1.cpp */,
 586                                 A7DA2010113FECD400BF472F /* chao1.h */,
 587                                 A7DA2033113FECD400BF472F /* coverage.cpp */,
 588                                 A7DA2034113FECD400BF472F /* coverage.h */,
 589                                 A7DA203D113FECD400BF472F /* dist.h */,
 590                                 A7DA2044113FECD400BF472F /* eachgapdist.h */,
 591                                 A7DA2045113FECD400BF472F /* eachgapignore.h */,
 592                                 A7DA2046113FECD400BF472F /* efron.cpp */,
 593                                 A7DA2047113FECD400BF472F /* efron.h */,
 594                                 A7DA204E113FECD400BF472F /* filters.h */,
 595                                 A7DA2058113FECD400BF472F /* geom.cpp */,
 596                                 A7DA2059113FECD400BF472F /* geom.h */,
 597                                 A7DA206C113FECD400BF472F /* goodscoverage.cpp */,
 598                                 A7DA206D113FECD400BF472F /* goodscoverage.h */,
 599                                 A7DA2080113FECD400BF472F /* ignoregaps.h */,
 600                                 A7DA2083113FECD400BF472F /* jackknife.cpp */,
 601                                 A7DA2084113FECD400BF472F /* jackknife.h */,
 602                                 A7DA2093113FECD400BF472F /* logsd.cpp */,
 603                                 A7DA2094113FECD400BF472F /* logsd.h */,
 604                                 A7DA20AE113FECD400BF472F /* npshannon.cpp */,
 605                                 A7DA20AF113FECD400BF472F /* npshannon.h */,
 606                                 A7DA20B0113FECD400BF472F /* nseqs.h */,
 607                                 A7DA20B2113FECD400BF472F /* onegapdist.h */,
 608                                 A7DA20B3113FECD400BF472F /* onegapignore.h */,
 609                                 A72B3A7B118B4D1B004B9F8D /* phylodiversity.h */,
 610                                 A72B3A7C118B4D1B004B9F8D /* phylodiversity.cpp */,
 611                                 A7DA20BE113FECD400BF472F /* parsimony.cpp */,
 612                                 A7DA20BF113FECD400BF472F /* parsimony.h */,
 613                                 A7DA20CE113FECD400BF472F /* qstat.cpp */,
 614                                 A7DA20CF113FECD400BF472F /* qstat.h */,
 615                                 A7DA2104113FECD400BF472F /* shannon.cpp */,
 616                                 A7DA2105113FECD400BF472F /* shannon.h */,
 617                                 A7DA2106113FECD400BF472F /* sharedace.cpp */,
 618                                 A7DA2107113FECD400BF472F /* sharedace.h */,
 619                                 A7DA2108113FECD400BF472F /* sharedanderberg.h */,
 620                                 A7DA2109113FECD400BF472F /* sharedanderbergs.cpp */,
 621                                 A7DA210A113FECD400BF472F /* sharedanderbergs.h */,
 622                                 A7DA210B113FECD400BF472F /* sharedbraycurtis.cpp */,
 623                                 A7DA210C113FECD400BF472F /* sharedbraycurtis.h */,
 624                                 A7DA210D113FECD400BF472F /* sharedchao1.cpp */,
 625                                 A7DA210E113FECD400BF472F /* sharedchao1.h */,
 626                                 A7DA2111113FECD400BF472F /* sharedjabund.cpp */,
 627                                 A7DA2112113FECD400BF472F /* sharedjabund.h */,
 628                                 A7DA2113113FECD400BF472F /* sharedjackknife.cpp */,
 629                                 A7DA2114113FECD400BF472F /* sharedjackknife.h */,
 630                                 A7DA2115113FECD400BF472F /* sharedjclass.cpp */,
 631                                 A7DA2116113FECD400BF472F /* sharedjclass.h */,
 632                                 A7DA2117113FECD400BF472F /* sharedjest.cpp */,
 633                                 A7DA2118113FECD400BF472F /* sharedjest.h */,
 634                                 A7DA2119113FECD400BF472F /* sharedkstest.cpp */,
 635                                 A7DA211A113FECD400BF472F /* sharedkstest.h */,
 636                                 A7DA211B113FECD400BF472F /* sharedkulczynski.cpp */,
 637                                 A7DA211C113FECD400BF472F /* sharedkulczynski.h */,
 638                                 A7DA211D113FECD400BF472F /* sharedkulczynskicody.cpp */,
 639                                 A7DA211E113FECD400BF472F /* sharedkulczynskicody.h */,
 640                                 A7DA211F113FECD400BF472F /* sharedlennon.cpp */,
 641                                 A7DA2120113FECD400BF472F /* sharedlennon.h */,
 642                                 A7DA2123113FECD400BF472F /* sharedmarczewski.cpp */,
 643                                 A7DA2124113FECD400BF472F /* sharedmarczewski.h */,
 644                                 A7DA2125113FECD400BF472F /* sharedmorisitahorn.cpp */,
 645                                 A7DA2126113FECD400BF472F /* sharedmorisitahorn.h */,
 646                                 A7DA2127113FECD400BF472F /* sharednseqs.h */,
 647                                 A7DA2128113FECD400BF472F /* sharedochiai.cpp */,
 648                                 A7DA2129113FECD400BF472F /* sharedochiai.h */,
 649                                 A7DA2130113FECD400BF472F /* sharedsobs.cpp */,
 650                                 A7DA2131113FECD400BF472F /* sharedsobs.h */,
 651                                 A7DA2132113FECD400BF472F /* sharedsobscollectsummary.cpp */,
 652                                 A7DA2133113FECD400BF472F /* sharedsobscollectsummary.h */,
 653                                 A7DA2134113FECD400BF472F /* sharedsorabund.cpp */,
 654                                 A7DA2135113FECD400BF472F /* sharedsorabund.h */,
 655                                 A7DA2136113FECD400BF472F /* sharedsorclass.cpp */,
 656                                 A7DA2137113FECD400BF472F /* sharedsorclass.h */,
 657                                 A7DA2138113FECD400BF472F /* sharedsorest.cpp */,
 658                                 A7DA2139113FECD400BF472F /* sharedsorest.h */,
 659                                 A7DA213A113FECD400BF472F /* sharedthetan.cpp */,
 660                                 A7DA213B113FECD400BF472F /* sharedthetan.h */,
 661                                 A7DA213C113FECD400BF472F /* sharedthetayc.cpp */,
 662                                 A7DA213D113FECD400BF472F /* sharedthetayc.h */,
 663                                 A7DA2140113FECD400BF472F /* shen.cpp */,
 664                                 A7DA2141113FECD400BF472F /* shen.h */,
 665                                 A7DA2142113FECD400BF472F /* simpson.cpp */,
 666                                 A7DA2143113FECD400BF472F /* simpson.h */,
 667                                 A7DA2149113FECD400BF472F /* sobs.h */,
 668                                 A7DA214A113FECD400BF472F /* solow.cpp */,
 669                                 A7DA214B113FECD400BF472F /* solow.h */,
 670                                 A7DA2160113FECD400BF472F /* treecalculator.h */,
 671                                 A7DA216D113FECD400BF472F /* unweighted.cpp */,
 672                                 A7DA216E113FECD400BF472F /* unweighted.h */,
 673                                 A7DA216F113FECD400BF472F /* uvest.cpp */,
 674                                 A7DA2170113FECD400BF472F /* uvest.h */,
 675                                 A7DA2179113FECD400BF472F /* weighted.cpp */,
 676                                 A7DA217A113FECD400BF472F /* weighted.h */,
 677                                 7EC61A0911BEA6AF00F668D9 /* weightedlinkage.cpp */,
 678                                 A7DA217B113FECD400BF472F /* whittaker.cpp */,
 679                                 A7DA217C113FECD400BF472F /* whittaker.h */,
 680                         );
 681                         name = calculators;
 682                         sourceTree = "<group>";
 683                 };
 684                 A7CB593E11402F110010EB83 /* commands */ = {
 685                         isa = PBXGroup;
 686                         children = (
 687                                 A7DA202B113FECD400BF472F /* command.hpp */,
 688                                 A7DA1FEF113FECD400BF472F /* aligncommand.h */,
 689                                 A7DA1FEE113FECD400BF472F /* aligncommand.cpp */,
 690                                 A7DA1FFE113FECD400BF472F /* binsequencecommand.h */,
 691                                 A7DA1FFD113FECD400BF472F /* binsequencecommand.cpp */,
 692                                 A7DA2007113FECD400BF472F /* bootstrapsharedcommand.cpp */,
 693                                 A7DA2008113FECD400BF472F /* bootstrapsharedcommand.h */,
 694                                 A7D216061199C47F00F13F13 /* catchallcommand.h */,
 695                                 A7D216071199C47F00F13F13 /* catchallcommand.cpp */,
 696                                 A7DA2017113FECD400BF472F /* chimeraseqscommand.cpp */,
 697                                 A7DA2018113FECD400BF472F /* chimeraseqscommand.h */,
 698                                 A7825502116519F70002E2DD /* chimerabellerophoncommand.h */,
 699                                 A7825503116519F70002E2DD /* chimerabellerophoncommand.cpp */,
 700                                 A747E79B1163442A00FB9042 /* chimeracheckcommand.h */,
 701                                 A747E79C1163442A00FB9042 /* chimeracheckcommand.cpp */,
 702                                 A78434881162224F00100BE0 /* chimeraccodecommand.h */,
 703                                 A78434891162224F00100BE0 /* chimeraccodecommand.cpp */,
 704                                 A78254461164D7790002E2DD /* chimerapintailcommand.h */,
 705                                 A78254471164D7790002E2DD /* chimerapintailcommand.cpp */,
 706                                 A747E81C116365E000FB9042 /* chimeraslayercommand.h */,
 707                                 A747E81D116365E000FB9042 /* chimeraslayercommand.cpp */,
 708                                 A73953DA11987ED100B0B160 /* chopseqscommand.h */,
 709                                 A73953DB11987ED100B0B160 /* chopseqscommand.cpp */,
 710                                 A7DA201E113FECD400BF472F /* classifyseqscommand.h */,
 711                                 A7DA201D113FECD400BF472F /* classifyseqscommand.cpp */,
 712                                 A7BBDA7B11B5694E006E6551 /* classifyotucommand.h */,
 713                                 A7BBDA7C11B5694E006E6551 /* classifyotucommand.cpp */,
 714                                 A7D215C811996C6E00F13F13 /* clearcutcommand.h */,
 715                                 A7D215C911996C6E00F13F13 /* clearcutcommand.cpp */,
 716                                 A7DA2021113FECD400BF472F /* clustercommand.cpp */,
 717                                 A7DA2022113FECD400BF472F /* clustercommand.h */,
 718                                 A71D924311AEB42400D00CBC /* clustersplitcommand.h */,
 719                                 A71D924211AEB42400D00CBC /* clustersplitcommand.cpp */,
 720                                 A7DA2025113FECD400BF472F /* collectcommand.cpp */,
 721                                 A7DA2026113FECD400BF472F /* collectcommand.h */,
 722                                 A7DA2029113FECD400BF472F /* collectsharedcommand.cpp */,
 723                                 A7DA202A113FECD400BF472F /* collectsharedcommand.h */,
 724                                 A7DA2031113FECD400BF472F /* consensuscommand.cpp */,
 725                                 A7DA2032113FECD400BF472F /* consensuscommand.h */,
 726                                 A7118EE511CFCAC000CFDE03 /* degapseqscommand.h */,
 727                                 A7118EE611CFCAC000CFDE03 /* degapseqscommand.cpp */,
 728                                 A7DA203A113FECD400BF472F /* deconvolutecommand.cpp */,
 729                                 A7DA203B113FECD400BF472F /* deconvolutecommand.h */,
 730                                 A7DA203E113FECD400BF472F /* distancecommand.cpp */,
 731                                 A7DA203F113FECD400BF472F /* distancecommand.h */,
 732                                 A7DA204F113FECD400BF472F /* filterseqscommand.cpp */,
 733                                 A7DA2050113FECD400BF472F /* filterseqscommand.h */,
 734                                 A7DA205A113FECD400BF472F /* getgroupcommand.cpp */,
 735                                 A7DA205B113FECD400BF472F /* getgroupcommand.h */,
 736                                 A7DA205C113FECD400BF472F /* getlabelcommand.cpp */,
 737                                 A7DA205D113FECD400BF472F /* getlabelcommand.h */,
 738                                 A7DA205F113FECD400BF472F /* getlistcountcommand.h */,
 739                                 A7DA205E113FECD400BF472F /* getlistcountcommand.cpp */,
 740                                 A7DA2061113FECD400BF472F /* getoturepcommand.h */,
 741                                 A7DA2060113FECD400BF472F /* getoturepcommand.cpp */,
 742                                 A7DA2062113FECD400BF472F /* getrabundcommand.cpp */,
 743                                 A7DA2063113FECD400BF472F /* getrabundcommand.h */,
 744                                 A7118F0F11CFD5DC00CFDE03 /* getrelabundcommand.h */,
 745                                 A7118F1011CFD5DC00CFDE03 /* getrelabundcommand.cpp */,
 746                                 A7DA2064113FECD400BF472F /* getsabundcommand.cpp */,
 747                                 A7DA2065113FECD400BF472F /* getsabundcommand.h */,
 748                                 A7DA2067113FECD400BF472F /* getseqscommand.h */,
 749                                 A7DA2066113FECD400BF472F /* getseqscommand.cpp */,
 750                                 A7DA2068113FECD400BF472F /* getsharedotucommand.cpp */,
 751                                 A7DA2069113FECD400BF472F /* getsharedotucommand.h */,
 752                                 A7DA2074113FECD400BF472F /* hclustercommand.cpp */,
 753                                 A7DA2075113FECD400BF472F /* hclustercommand.h */,
 754                                 A7DA2078113FECD400BF472F /* heatmapcommand.cpp */,
 755                                 A7DA2079113FECD400BF472F /* heatmapcommand.h */,
 756                                 A7DA207C113FECD400BF472F /* heatmapsimcommand.cpp */,
 757                                 A7DA207D113FECD400BF472F /* heatmapsimcommand.h */,
 758                                 A7DA207E113FECD400BF472F /* helpcommand.cpp */,
 759                                 A7DA207F113FECD400BF472F /* helpcommand.h */,
 760                                 A7DA208D113FECD400BF472F /* libshuffcommand.cpp */,
 761                                 A7DA208E113FECD400BF472F /* libshuffcommand.h */,
 762                                 A7DA2090113FECD400BF472F /* listseqscommand.h */,
 763                                 A7DA208F113FECD400BF472F /* listseqscommand.cpp */,
 764                                 A703FE931194645F002C397E /* makegroupcommand.h */,
 765                                 A703FE941194645F002C397E /* makegroupcommand.cpp */,
 766                                 A7DA2098113FECD400BF472F /* matrixoutputcommand.cpp */,
 767                                 A7DA2099113FECD400BF472F /* matrixoutputcommand.h */,
 768                                 A7DA209A113FECD400BF472F /* mergefilecommand.cpp */,
 769                                 A7DA209B113FECD400BF472F /* mergefilecommand.h */,
 770                                 A7DA209C113FECD400BF472F /* mgclustercommand.cpp */,
 771                                 A7DA209D113FECD400BF472F /* mgclustercommand.h */,
 772                                 A7DA20AC113FECD400BF472F /* nocommands.cpp */,
 773                                 A7DA20AD113FECD400BF472F /* nocommands.h */,
 774                                 A7DA20B8113FECD400BF472F /* otuhierarchycommand.cpp */,
 775                                 A7DA20B9113FECD400BF472F /* otuhierarchycommand.h */,
 776                                 A7DA20BC113FECD400BF472F /* parselistscommand.cpp */,
 777                                 A7DA20BD113FECD400BF472F /* parselistscommand.h */,
 778                                 A7E8338B115BBDAA00739EC4 /* parsesffcommand.cpp */,
 779                                 A7E8338C115BBDAA00739EC4 /* parsesffcommand.h */,
 780                                 A7DA20C0113FECD400BF472F /* parsimonycommand.cpp */,
 781                                 A7DA20C1113FECD400BF472F /* parsimonycommand.h */,
 782                                 A7DA20C3113FECD400BF472F /* pcacommand.h */,
 783                                 A7DA20C2113FECD400BF472F /* pcacommand.cpp */,
 784                                 A72B3A62118B37FD004B9F8D /* phylodiversitycommand.h */,
 785                                 A72B3A63118B37FD004B9F8D /* phylodiversitycommand.cpp */,
 786                                 A7DA20C7113FECD400BF472F /* phylotypecommand.h */,
 787                                 A7DA20C6113FECD400BF472F /* phylotypecommand.cpp */,
 788                                 A7DA20CB113FECD400BF472F /* preclustercommand.h */,
 789                                 A7DA20CA113FECD400BF472F /* preclustercommand.cpp */,
 790                                 A7DA20D1113FECD400BF472F /* quitcommand.h */,
 791                                 A7DA20D0113FECD400BF472F /* quitcommand.cpp */,
 792                                 A7DA20DB113FECD400BF472F /* rarefactcommand.h */,
 793                                 A7DA20DA113FECD400BF472F /* rarefactcommand.cpp */,
 794                                 A7DA20DE113FECD400BF472F /* rarefactsharedcommand.h */,
 795                                 A7DA20DD113FECD400BF472F /* rarefactsharedcommand.cpp */,
 796                                 A7DA20E6113FECD400BF472F /* readdistcommand.h */,
 797                                 A7DA20E5113FECD400BF472F /* readdistcommand.cpp */,
 798                                 A7DA20EB113FECD400BF472F /* readotucommand.h */,
 799                                 A7DA20EA113FECD400BF472F /* readotucommand.cpp */,
 800                                 A7DA20F1113FECD400BF472F /* readtreecommand.h */,
 801                                 A7DA20F0113FECD400BF472F /* readtreecommand.cpp */,
 802                                 A7DA20F3113FECD400BF472F /* removeseqscommand.h */,
 803                                 A7DA20F2113FECD400BF472F /* removeseqscommand.cpp */,
 804                                 A7DA20F5113FECD400BF472F /* reversecommand.h */,
 805                                 A7DA20F4113FECD400BF472F /* reversecommand.cpp */,
 806                                 A7DA20F9113FECD400BF472F /* screenseqscommand.h */,
 807                                 A7DA20F8113FECD400BF472F /* screenseqscommand.cpp */,
 808                                 A7DA20FB113FECD400BF472F /* secondarystructurecommand.h */,
 809                                 A7DA20FA113FECD400BF472F /* secondarystructurecommand.cpp */,
 810                                 7EA299BA11E384940022D8D3 /* sensspeccommand.h */,
 811                                 7EA299BB11E384940022D8D3 /* sensspeccommand.cpp */,
 812                                 7E84528511EF4BEB00564975 /* seqerrorcommand.h */,
 813                                 7E84528611EF4BEB00564975 /* seqerrorcommand.cpp */,
 814                                 A7DA20FD113FECD400BF472F /* seqsummarycommand.h */,
 815                                 A7DA20FC113FECD400BF472F /* seqsummarycommand.cpp */,
 816                                 A7DA2103113FECD400BF472F /* setdircommand.h */,
 817                                 A7DA2102113FECD400BF472F /* setdircommand.cpp */,
 818                                 A76C4A1011876BAF0009460B /* setlogfilecommand.h */,
 819                                 A76C4A1111876BAF0009460B /* setlogfilecommand.cpp */,
 820                                 A732505E11E49EF100484B90 /* sffinfocommand.h */,
 821                                 A732505F11E49EF100484B90 /* sffinfocommand.cpp */,
 822                                 A7DA2110113FECD400BF472F /* sharedcommand.h */,
 823                                 A7DA210F113FECD400BF472F /* sharedcommand.cpp */,
 824                                 A71D924511AEB42400D00CBC /* splitabundcommand.h */,
 825                                 A71D924411AEB42400D00CBC /* splitabundcommand.cpp */,
 826                                 A7DA2155113FECD400BF472F /* summarycommand.h */,
 827                                 A7DA2154113FECD400BF472F /* summarycommand.cpp */,
 828                                 A7DA2159113FECD400BF472F /* summarysharedcommand.h */,
 829                                 A7DA2158113FECD400BF472F /* summarysharedcommand.cpp */,
 830                                 A7DA215B113FECD400BF472F /* systemcommand.h */,
 831                                 A7DA215A113FECD400BF472F /* systemcommand.cpp */,
 832                                 A7DA2162113FECD400BF472F /* treegroupscommand.h */,
 833                                 A7DA2161113FECD400BF472F /* treegroupscommand.cpp */,
 834                                 A7DA2168113FECD400BF472F /* trimseqscommand.h */,
 835                                 A7DA2167113FECD400BF472F /* trimseqscommand.cpp */,
 836                                 A7DA216A113FECD400BF472F /* unifracunweightedcommand.h */,
 837                                 A7DA2169113FECD400BF472F /* unifracunweightedcommand.cpp */,
 838                                 A7DA216C113FECD400BF472F /* unifracweightedcommand.h */,
 839                                 A7DA216B113FECD400BF472F /* unifracweightedcommand.cpp */,
 840                                 A7DA2178113FECD400BF472F /* venncommand.h */,
 841                                 A7DA2177113FECD400BF472F /* venncommand.cpp */,
 842                         );
 843                         name = commands;
 844                         sourceTree = "<group>";
 845                 };
 846                 A7CB594211402F430010EB83 /* containers */ = {
 847                         isa = PBXGroup;
 848                         children = (
 849                                 A7DA1FF3113FECD400BF472F /* alignmentcell.hpp */,
 850                                 A7DA1FF2113FECD400BF472F /* alignmentcell.cpp */,
 851                                 A7DA1FF4113FECD400BF472F /* alignmentdb.cpp */,
 852                                 A7DA1FF5113FECD400BF472F /* alignmentdb.h */,
 853                                 A7DA2001113FECD400BF472F /* blastdb.cpp */,
 854                                 A7DA2002113FECD400BF472F /* blastdb.hpp */,
 855                                 A7DA2035113FECD400BF472F /* database.cpp */,
 856                                 A7DA2036113FECD400BF472F /* database.hpp */,
 857                                 A7DA2037113FECD400BF472F /* datavector.hpp */,
 858                                 A7DA2040113FECD400BF472F /* distancedb.cpp */,
 859                                 A7DA2041113FECD400BF472F /* distancedb.hpp */,
 860                                 A7DA204A113FECD400BF472F /* fastamap.cpp */,
 861                                 A7DA204B113FECD400BF472F /* fastamap.h */,
 862                                 A7DA2056113FECD400BF472F /* fullmatrix.cpp */,
 863                                 A7DA2057113FECD400BF472F /* fullmatrix.h */,
 864                                 A7DA2070113FECD400BF472F /* groupmap.cpp */,
 865                                 A7DA2071113FECD400BF472F /* groupmap.h */,
 866                                 A7DA2085113FECD400BF472F /* kmer.cpp */,
 867                                 A7DA2086113FECD400BF472F /* kmer.hpp */,
 868                                 A7DA2087113FECD400BF472F /* kmerdb.cpp */,
 869                                 A7DA2088113FECD400BF472F /* kmerdb.hpp */,
 870                                 A7DA2091113FECD400BF472F /* listvector.cpp */,
 871                                 A7DA2092113FECD400BF472F /* listvector.hpp */,
 872                                 A7DA20A2113FECD400BF472F /* nameassignment.cpp */,
 873                                 A7DA20A3113FECD400BF472F /* nameassignment.hpp */,
 874                                 A7DA20B6113FECD400BF472F /* ordervector.cpp */,
 875                                 A7DA20B7113FECD400BF472F /* ordervector.hpp */,
 876                                 7E85BD1C11EB5E9B00FD37C0 /* qualityscores.h */,
 877                                 7E85BD1D11EB5E9B00FD37C0 /* qualityscores.cpp */,
 878                                 A7DA20D3113FECD400BF472F /* rabundvector.hpp */,
 879                                 A7DA20D2113FECD400BF472F /* rabundvector.cpp */,
 880                                 A7DA20F6113FECD400BF472F /* sabundvector.cpp */,
 881                                 A7DA20F7113FECD400BF472F /* sabundvector.hpp */,
 882                                 A7DA20FE113FECD400BF472F /* sequence.cpp */,
 883                                 A7DA20FF113FECD400BF472F /* sequence.hpp */,
 884                                 A7DA2100113FECD400BF472F /* sequencedb.cpp */,
 885                                 A7DA2101113FECD400BF472F /* sequencedb.h */,
 886                                 A7DA2121113FECD400BF472F /* sharedlistvector.cpp */,
 887                                 A7DA2122113FECD400BF472F /* sharedlistvector.h */,
 888                                 A7DA212A113FECD400BF472F /* sharedordervector.cpp */,
 889                                 A7DA212B113FECD400BF472F /* sharedordervector.h */,
 890                                 A7DA212C113FECD400BF472F /* sharedrabundvector.cpp */,
 891                                 A7DA212D113FECD400BF472F /* sharedrabundvector.h */,
 892                                 A7AE6302121C3408001DE6FC /* sharedrabundfloatvector.h */,
 893                                 A7AE6303121C3408001DE6FC /* sharedrabundfloatvector.cpp */,
 894                                 A7DA212F113FECD400BF472F /* sharedsabundvector.h */,
 895                                 A7DA212E113FECD400BF472F /* sharedsabundvector.cpp */,
 896                                 A7DA214C113FECD400BF472F /* sparsematrix.cpp */,
 897                                 A7DA214D113FECD400BF472F /* sparsematrix.hpp */,
 898                                 A7DA214E113FECD400BF472F /* suffixdb.cpp */,
 899                                 A7DA214F113FECD400BF472F /* suffixdb.hpp */,
 900                                 A7DA2150113FECD400BF472F /* suffixnodes.cpp */,
 901                                 A7DA2151113FECD400BF472F /* suffixnodes.hpp */,
 902                                 A7DA2152113FECD400BF472F /* suffixtree.cpp */,
 903                                 A7DA2153113FECD400BF472F /* suffixtree.hpp */,
 904                                 A7DA215E113FECD400BF472F /* tree.cpp */,
 905                                 A7DA215F113FECD400BF472F /* tree.h */,
 906                                 A7DA2163113FECD400BF472F /* treemap.cpp */,
 907                                 A7DA2164113FECD400BF472F /* treemap.h */,
 908                                 A7DA2165113FECD400BF472F /* treenode.cpp */,
 909                                 A7DA2166113FECD400BF472F /* treenode.h */,
 910                         );
 911                         name = containers;
 912                         sourceTree = "<group>";
 913                 };
 914                 A7CB594511402F6E0010EB83 /* classifers */ = {
 915                         isa = PBXGroup;
 916                         children = (
 917                                 A7DA201B113FECD400BF472F /* classify.cpp */,
 918                                 A7DA201C113FECD400BF472F /* classify.h */,
 919                                 A7DA1FF7113FECD400BF472F /* bayesian.cpp */,
 920                                 A7DA1FF8113FECD400BF472F /* bayesian.h */,
 921                                 A7DA2089113FECD400BF472F /* knn.cpp */,
 922                                 A7DA208A113FECD400BF472F /* knn.h */,
 923                                 A7DA20C4113FECD400BF472F /* phylotree.cpp */,
 924                                 A7DA20C5113FECD400BF472F /* phylotree.h */,
 925                                 A76AAD02117F322B003D8DA1 /* phylosummary.h */,
 926                                 A76AAD03117F322B003D8DA1 /* phylosummary.cpp */,
 927                                 A7DA215C113FECD400BF472F /* taxonomyequalizer.cpp */,
 928                                 A7DA215D113FECD400BF472F /* taxonomyequalizer.h */,
 929                         );
 930                         name = classifers;
 931                         sourceTree = "<group>";
 932                 };
 933                 A7CB594A11402FB40010EB83 /* chimeras */ = {
 934                         isa = PBXGroup;
 935                         children = (
 936                                 A7DA2011113FECD400BF472F /* chimera.cpp */,
 937                                 A7DA2012113FECD400BF472F /* chimera.h */,
 938                                 A7DA1FF9113FECD400BF472F /* bellerophon.cpp */,
 939                                 A7DA1FFA113FECD400BF472F /* bellerophon.h */,
 940                                 A7DA200D113FECD400BF472F /* ccode.cpp */,
 941                                 A7DA200E113FECD400BF472F /* ccode.h */,
 942                                 A7DA2013113FECD400BF472F /* chimeracheckrdp.cpp */,
 943                                 A7DA2014113FECD400BF472F /* chimeracheckrdp.h */,
 944                                 A7DA2015113FECD400BF472F /* chimerarealigner.cpp */,
 945                                 A7DA2016113FECD400BF472F /* chimerarealigner.h */,
 946                                 A7DA2019113FECD400BF472F /* chimeraslayer.cpp */,
 947                                 A7DA201A113FECD400BF472F /* chimeraslayer.h */,
 948                                 A7DA2038113FECD400BF472F /* decalc.cpp */,
 949                                 A7DA2039113FECD400BF472F /* decalc.h */,
 950                                 A7DA2095113FECD400BF472F /* maligner.cpp */,
 951                                 A7DA2096113FECD400BF472F /* maligner.h */,
 952                                 A7DA20C8113FECD400BF472F /* pintail.cpp */,
 953                                 A7DA20C9113FECD400BF472F /* pintail.h */,
 954                                 A7DA2145113FECD400BF472F /* slayer.cpp */,
 955                                 A7DA2146113FECD400BF472F /* slayer.h */,
 956                         );
 957                         name = chimeras;
 958                         sourceTree = "<group>";
 959                 };
 960                 A7CB5953114033220010EB83 /* read */ = {
 961                         isa = PBXGroup;
 962                         children = (
 963                                 A7DA2051113FECD400BF472F /* formatcolumn.cpp */,
 964                                 A7DA2052113FECD400BF472F /* formatcolumn.h */,
 965                                 A7DA2053113FECD400BF472F /* formatmatrix.h */,
 966                                 A7DA2054113FECD400BF472F /* formatphylip.cpp */,
 967                                 A7DA2055113FECD400BF472F /* formatphylip.h */,
 968                                 A7DA20DF113FECD400BF472F /* readblast.cpp */,
 969                                 A7DA20E0113FECD400BF472F /* readblast.h */,
 970                                 A7DA20E1113FECD400BF472F /* readcluster.cpp */,
 971                                 A7DA20E2113FECD400BF472F /* readcluster.h */,
 972                                 A7DA20E3113FECD400BF472F /* readcolumn.cpp */,
 973                                 A7DA20E4113FECD400BF472F /* readcolumn.h */,
 974                                 A7DA20E7113FECD400BF472F /* readmatrix.hpp */,
 975                                 A7DA20E8113FECD400BF472F /* readotu.cpp */,
 976                                 A7DA20E9113FECD400BF472F /* readotu.h */,
 977                                 A7DA20EC113FECD400BF472F /* readphylip.cpp */,
 978                                 A7DA20ED113FECD400BF472F /* readphylip.h */,
 979                                 A7DA20EE113FECD400BF472F /* readtree.cpp */,
 980                                 A7DA20EF113FECD400BF472F /* readtree.h */,
 981                                 A71D924711AEB42400D00CBC /* splitmatrix.h */,
 982                                 A71D924611AEB42400D00CBC /* splitmatrix.cpp */,
 983                         );
 984                         name = read;
 985                         sourceTree = "<group>";
 986                 };
 987                 A7DF0AE5121EBC26004A03EA /* clearcutsource */ = {
 988                         isa = PBXGroup;
 989                         children = (
 990                                 A7DF0AD4121EBB14004A03EA /* clearcut.h */,
 991                                 A7DF0AD3121EBB14004A03EA /* clearcut.c */,
 992                                 A7DF0AD6121EBB14004A03EA /* cmdargs.h */,
 993                                 A7DF0AD7121EBB14004A03EA /* common.h */,
 994                                 A7DF0AD8121EBB14004A03EA /* dayhoff.h */,
 995                                 A7DF0AD5121EBB14004A03EA /* cmdargs.c */,
 996                                 A7DF0AD9121EBB14004A03EA /* distclearcut.c */,
 997                                 A7DF0ADA121EBB14004A03EA /* distclearcut.h */,
 998                                 A7DF0ADB121EBB14004A03EA /* dmat.c */,
 999                                 A7DF0ADC121EBB14004A03EA /* dmat.h */,
1000                                 A7DF0ADD121EBB14004A03EA /* fasta.c */,
1001                                 A7DF0ADE121EBB14004A03EA /* fasta.h */,
1002                                 A7DF0ADF121EBB14004A03EA /* getopt_long.c */,
1003                                 A7DF0AE0121EBB14004A03EA /* getopt_long.h */,
1004                                 A7DF0AE2121EBB14004A03EA /* prng.h */,
1005                                 A7DF0AE1121EBB14004A03EA /* prng.c */,
1006                         );
1007                         name = clearcutsource;
1008                         sourceTree = "<group>";
1009                 };
1010 /* End PBXGroup section */
1011
1012 /* Begin PBXLegacyTarget section */
1013                 D28A88AD04BDD90700651E21 /* mothur */ = {
1014                         isa = PBXLegacyTarget;
1015                         buildArgumentsString = "$(ACTION)";
1016                         buildConfigurationList = 1DEB918F08733D9F0010E9CD /* Build configuration list for PBXLegacyTarget "mothur" */;
1017                         buildPhases = (
1018                         );
1019                         buildToolPath = /usr/bin/make;
1020                         dependencies = (
1021                         );
1022                         name = mothur;
1023                         passBuildSettingsInEnvironment = 1;
1024                         productName = mothur;
1025                 };
1026 /* End PBXLegacyTarget section */
1027
1028 /* Begin PBXProject section */
1029                 08FB7793FE84155DC02AAC07 /* Project object */ = {
1030                         isa = PBXProject;
1031                         attributes = {
1032                                 BuildIndependentTargetsInParallel = YES;
1033                                 ORGANIZATIONNAME = "Schloss Lab";
1034                         };
1035                         buildConfigurationList = 1DEB919308733D9F0010E9CD /* Build configuration list for PBXProject "Mothur" */;
1036                         compatibilityVersion = "Xcode 3.0";
1037                         hasScannedForEncodings = 1;
1038                         mainGroup = 08FB7794FE84155DC02AAC07 /* mothur */;
1039                         projectDirPath = "";
1040                         projectRoot = "";
1041                         targets = (
1042                                 D28A88AD04BDD90700651E21 /* mothur */,
1043                         );
1044                 };
1045 /* End PBXProject section */
1046
1047 /* Begin XCBuildConfiguration section */
1048                 1DEB919108733D9F0010E9CD /* Release */ = {
1049                         isa = XCBuildConfiguration;
1050                         buildSettings = {
1051                                 COPY_PHASE_STRIP = YES;
1052                                 GCC_ENABLE_FIX_AND_CONTINUE = NO;
1053                                 OTHER_CFLAGS = "";
1054                                 OTHER_LDFLAGS = "";
1055                                 PRODUCT_NAME = mothur;
1056                                 ZERO_LINK = NO;
1057                         };
1058                         name = Release;
1059                 };
1060                 1DEB919508733D9F0010E9CD /* Release */ = {
1061                         isa = XCBuildConfiguration;
1062                         buildSettings = {
1063                                 ARCHS = (
1064                                         ppc,
1065                                         i386,
1066                                 );
1067                                 GCC_WARN_ABOUT_RETURN_TYPE = YES;
1068                                 GCC_WARN_UNUSED_VARIABLE = YES;
1069                                 LINK_WITH_STANDARD_LIBRARIES = YES;
1070                                 PREBINDING = NO;
1071                                 SDKROOT = "$(DEVELOPER_SDK_DIR)/MacOSX10.6.sdk";
1072                         };
1073                         name = Release;
1074                 };
1075 /* End XCBuildConfiguration section */
1076
1077 /* Begin XCConfigurationList section */
1078                 1DEB918F08733D9F0010E9CD /* Build configuration list for PBXLegacyTarget "mothur" */ = {
1079                         isa = XCConfigurationList;
1080                         buildConfigurations = (
1081                                 1DEB919108733D9F0010E9CD /* Release */,
1082                         );
1083                         defaultConfigurationIsVisible = 0;
1084                         defaultConfigurationName = Release;
1085                 };
1086                 1DEB919308733D9F0010E9CD /* Build configuration list for PBXProject "Mothur" */ = {
1087                         isa = XCConfigurationList;
1088                         buildConfigurations = (
1089                                 1DEB919508733D9F0010E9CD /* Release */,
1090                         );
1091                         defaultConfigurationIsVisible = 0;
1092                         defaultConfigurationName = Release;
1093                 };
1094 /* End XCConfigurationList section */
1095         };
1096         rootObject = 08FB7793FE84155DC02AAC07 /* Project object */;
1097 }