Mothur.xcodeproj/project.pbxproj

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 396                 A7E9B68C12D37EC400DA6239 /* chopseqscommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = chopseqscommand.cpp; sourceTree = "<group>"; };
 397                 A7E9B68D12D37EC400DA6239 /* chopseqscommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = chopseqscommand.h; sourceTree = "<group>"; };
 398                 A7E9B68E12D37EC400DA6239 /* classify.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = classify.cpp; sourceTree = "<group>"; };
 399                 A7E9B68F12D37EC400DA6239 /* classify.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = classify.h; sourceTree = "<group>"; };
 400                 A7E9B69012D37EC400DA6239 /* classifyotucommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = classifyotucommand.cpp; sourceTree = "<group>"; };
 401                 A7E9B69112D37EC400DA6239 /* classifyotucommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = classifyotucommand.h; sourceTree = "<group>"; };
 402                 A7E9B69212D37EC400DA6239 /* classifyseqscommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = classifyseqscommand.cpp; sourceTree = "<group>"; };
 403                 A7E9B69312D37EC400DA6239 /* classifyseqscommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = classifyseqscommand.h; sourceTree = "<group>"; };
 404                 A7E9B69412D37EC400DA6239 /* clearcut.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = clearcut.cpp; sourceTree = "<group>"; };
 405                 A7E9B69512D37EC400DA6239 /* clearcut.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = clearcut.h; sourceTree = "<group>"; };
 406                 A7E9B69612D37EC400DA6239 /* clearcutcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = clearcutcommand.cpp; sourceTree = "<group>"; };
 407                 A7E9B69712D37EC400DA6239 /* clearcutcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = clearcutcommand.h; sourceTree = "<group>"; };
 408                 A7E9B69812D37EC400DA6239 /* cluster.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = cluster.cpp; sourceTree = "<group>"; };
 409                 A7E9B69912D37EC400DA6239 /* cluster.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = cluster.hpp; sourceTree = "<group>"; };
 410                 A7E9B69A12D37EC400DA6239 /* clusterclassic.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = clusterclassic.cpp; sourceTree = "<group>"; };
 411                 A7E9B69B12D37EC400DA6239 /* clusterclassic.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = clusterclassic.h; sourceTree = "<group>"; };
 412                 A7E9B69C12D37EC400DA6239 /* clustercommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = clustercommand.cpp; sourceTree = "<group>"; };
 413                 A7E9B69D12D37EC400DA6239 /* clustercommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = clustercommand.h; sourceTree = "<group>"; };
 414                 A7E9B69E12D37EC400DA6239 /* clusterdoturcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = clusterdoturcommand.cpp; sourceTree = "<group>"; };
 415                 A7E9B69F12D37EC400DA6239 /* clusterdoturcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = clusterdoturcommand.h; sourceTree = "<group>"; };
 416                 A7E9B6A012D37EC400DA6239 /* clusterfragmentscommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = clusterfragmentscommand.cpp; sourceTree = "<group>"; };
 417                 A7E9B6A112D37EC400DA6239 /* clusterfragmentscommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = clusterfragmentscommand.h; sourceTree = "<group>"; };
 418                 A7E9B6A212D37EC400DA6239 /* clustersplitcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = clustersplitcommand.cpp; sourceTree = "<group>"; };
 419                 A7E9B6A312D37EC400DA6239 /* clustersplitcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = clustersplitcommand.h; sourceTree = "<group>"; };
 420                 A7E9B6A412D37EC400DA6239 /* cmdargs.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = cmdargs.cpp; sourceTree = "<group>"; };
 421                 A7E9B6A512D37EC400DA6239 /* cmdargs.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = cmdargs.h; sourceTree = "<group>"; };
 422                 A7E9B6A612D37EC400DA6239 /* collect.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = collect.cpp; sourceTree = SOURCE_ROOT; };
 423                 A7E9B6A712D37EC400DA6239 /* collect.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = collect.h; sourceTree = SOURCE_ROOT; };
 424                 A7E9B6A812D37EC400DA6239 /* collectcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = collectcommand.cpp; sourceTree = "<group>"; };
 425                 A7E9B6A912D37EC400DA6239 /* collectcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = collectcommand.h; sourceTree = "<group>"; };
 426                 A7E9B6AA12D37EC400DA6239 /* collectdisplay.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = collectdisplay.h; sourceTree = SOURCE_ROOT; };
 427                 A7E9B6AB12D37EC400DA6239 /* collectorscurvedata.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = collectorscurvedata.h; sourceTree = SOURCE_ROOT; };
 428                 A7E9B6AC12D37EC400DA6239 /* collectsharedcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = collectsharedcommand.cpp; sourceTree = "<group>"; };
 429                 A7E9B6AD12D37EC400DA6239 /* collectsharedcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = collectsharedcommand.h; sourceTree = "<group>"; };
 430                 A7E9B6AE12D37EC400DA6239 /* command.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = command.hpp; sourceTree = "<group>"; };
 431                 A7E9B6AF12D37EC400DA6239 /* commandfactory.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = commandfactory.cpp; sourceTree = SOURCE_ROOT; };
 432                 A7E9B6B012D37EC400DA6239 /* commandfactory.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = commandfactory.hpp; sourceTree = SOURCE_ROOT; };
 433                 A7E9B6B112D37EC400DA6239 /* commandoptionparser.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = commandoptionparser.cpp; sourceTree = SOURCE_ROOT; };
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 435                 A7E9B6B312D37EC400DA6239 /* common.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = common.h; sourceTree = "<group>"; };
 436                 A7E9B6B412D37EC400DA6239 /* completelinkage.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = completelinkage.cpp; sourceTree = SOURCE_ROOT; };
 437                 A7E9B6B512D37EC400DA6239 /* consensuscommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = consensuscommand.cpp; sourceTree = "<group>"; };
 438                 A7E9B6B612D37EC400DA6239 /* consensuscommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = consensuscommand.h; sourceTree = "<group>"; };
 439                 A7E9B6B712D37EC400DA6239 /* consensusseqscommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = consensusseqscommand.cpp; sourceTree = "<group>"; };
 440                 A7E9B6B812D37EC400DA6239 /* consensusseqscommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = consensusseqscommand.h; sourceTree = "<group>"; };
 441                 A7E9B6B912D37EC400DA6239 /* corraxescommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = corraxescommand.cpp; sourceTree = "<group>"; };
 442                 A7E9B6BA12D37EC400DA6239 /* corraxescommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = corraxescommand.h; sourceTree = "<group>"; };
 443                 A7E9B6BB12D37EC400DA6239 /* coverage.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = coverage.cpp; sourceTree = "<group>"; };
 444                 A7E9B6BC12D37EC400DA6239 /* coverage.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = coverage.h; sourceTree = "<group>"; };
 445                 A7E9B6BD12D37EC400DA6239 /* database.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = database.cpp; sourceTree = "<group>"; };
 446                 A7E9B6BE12D37EC400DA6239 /* database.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = database.hpp; sourceTree = "<group>"; };
 447                 A7E9B6BF12D37EC400DA6239 /* datavector.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = datavector.hpp; sourceTree = "<group>"; };
 448                 A7E9B6C012D37EC400DA6239 /* dayhoff.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = dayhoff.h; sourceTree = "<group>"; };
 449                 A7E9B6C112D37EC400DA6239 /* decalc.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = decalc.cpp; sourceTree = "<group>"; };
 450                 A7E9B6C212D37EC400DA6239 /* decalc.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = decalc.h; sourceTree = "<group>"; };
 451                 A7E9B6C312D37EC400DA6239 /* deconvolutecommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = deconvolutecommand.cpp; sourceTree = "<group>"; };
 452                 A7E9B6C412D37EC400DA6239 /* deconvolutecommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = deconvolutecommand.h; sourceTree = "<group>"; };
 453                 A7E9B6C512D37EC400DA6239 /* degapseqscommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = degapseqscommand.cpp; sourceTree = "<group>"; };
 454                 A7E9B6C612D37EC400DA6239 /* degapseqscommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = degapseqscommand.h; sourceTree = "<group>"; };
 455                 A7E9B6C712D37EC400DA6239 /* deuniqueseqscommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = deuniqueseqscommand.cpp; sourceTree = "<group>"; };
 456                 A7E9B6C812D37EC400DA6239 /* deuniqueseqscommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = deuniqueseqscommand.h; sourceTree = "<group>"; };
 457                 A7E9B6C912D37EC400DA6239 /* display.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = display.h; sourceTree = SOURCE_ROOT; };
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 459                 A7E9B6CB12D37EC400DA6239 /* distancecommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = distancecommand.cpp; sourceTree = "<group>"; };
 460                 A7E9B6CC12D37EC400DA6239 /* distancecommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = distancecommand.h; sourceTree = "<group>"; };
 461                 A7E9B6CD12D37EC400DA6239 /* distancedb.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = distancedb.cpp; sourceTree = "<group>"; };
 462                 A7E9B6CE12D37EC400DA6239 /* distancedb.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = distancedb.hpp; sourceTree = "<group>"; };
 463                 A7E9B6CF12D37EC400DA6239 /* distclearcut.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = distclearcut.cpp; sourceTree = "<group>"; };
 464                 A7E9B6D012D37EC400DA6239 /* distclearcut.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = distclearcut.h; sourceTree = "<group>"; };
 465                 A7E9B6D112D37EC400DA6239 /* dlibshuff.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = dlibshuff.cpp; sourceTree = SOURCE_ROOT; };
 466                 A7E9B6D212D37EC400DA6239 /* dlibshuff.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = dlibshuff.h; sourceTree = SOURCE_ROOT; };
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 468                 A7E9B6D412D37EC400DA6239 /* dmat.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = dmat.h; sourceTree = "<group>"; };
 469                 A7E9B6D512D37EC400DA6239 /* eachgapdist.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = eachgapdist.h; sourceTree = "<group>"; };
 470                 A7E9B6D612D37EC400DA6239 /* eachgapignore.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = eachgapignore.h; sourceTree = "<group>"; };
 471                 A7E9B6D712D37EC400DA6239 /* efron.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = efron.cpp; sourceTree = "<group>"; };
 472                 A7E9B6D812D37EC400DA6239 /* efron.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = efron.h; sourceTree = "<group>"; };
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 478                 A7E9B6DE12D37EC400DA6239 /* fastamap.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = fastamap.cpp; sourceTree = "<group>"; };
 479                 A7E9B6DF12D37EC400DA6239 /* fastamap.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = fastamap.h; sourceTree = "<group>"; };
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 483                 A7E9B6E312D37EC400DA6239 /* filterseqscommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = filterseqscommand.cpp; sourceTree = "<group>"; };
 484                 A7E9B6E412D37EC400DA6239 /* filterseqscommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = filterseqscommand.h; sourceTree = "<group>"; };
 485                 A7E9B6E512D37EC400DA6239 /* fisher2.c */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.c; path = fisher2.c; sourceTree = "<group>"; };
 486                 A7E9B6E612D37EC400DA6239 /* fisher2.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = fisher2.h; sourceTree = "<group>"; };
 487                 A7E9B6E712D37EC400DA6239 /* flowdata.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = flowdata.cpp; sourceTree = "<group>"; };
 488                 A7E9B6E812D37EC400DA6239 /* flowdata.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = flowdata.h; sourceTree = "<group>"; };
 489                 A7E9B6E912D37EC400DA6239 /* formatcolumn.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = formatcolumn.cpp; sourceTree = "<group>"; };
 490                 A7E9B6EA12D37EC400DA6239 /* formatcolumn.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = formatcolumn.h; sourceTree = "<group>"; };
 491                 A7E9B6EB12D37EC400DA6239 /* formatmatrix.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = formatmatrix.h; sourceTree = "<group>"; };
 492                 A7E9B6EC12D37EC400DA6239 /* formatphylip.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = formatphylip.cpp; sourceTree = "<group>"; };
 493                 A7E9B6ED12D37EC400DA6239 /* formatphylip.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = formatphylip.h; sourceTree = "<group>"; };
 494                 A7E9B6EE12D37EC400DA6239 /* fullmatrix.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = fullmatrix.cpp; sourceTree = "<group>"; };
 495                 A7E9B6EF12D37EC400DA6239 /* fullmatrix.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = fullmatrix.h; sourceTree = "<group>"; };
 496                 A7E9B6F012D37EC400DA6239 /* geom.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = geom.cpp; sourceTree = "<group>"; };
 497                 A7E9B6F112D37EC400DA6239 /* geom.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = geom.h; sourceTree = "<group>"; };
 498                 A7E9B6F212D37EC400DA6239 /* getgroupcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = getgroupcommand.cpp; sourceTree = "<group>"; };
 499                 A7E9B6F312D37EC400DA6239 /* getgroupcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = getgroupcommand.h; sourceTree = "<group>"; };
 500                 A7E9B6F412D37EC400DA6239 /* getgroupscommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = getgroupscommand.cpp; sourceTree = "<group>"; };
 501                 A7E9B6F512D37EC400DA6239 /* getgroupscommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = getgroupscommand.h; sourceTree = "<group>"; };
 502                 A7E9B6F612D37EC400DA6239 /* getlabelcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = getlabelcommand.cpp; sourceTree = "<group>"; };
 503                 A7E9B6F712D37EC400DA6239 /* getlabelcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = getlabelcommand.h; sourceTree = "<group>"; };
 504                 A7E9B6F812D37EC400DA6239 /* getlineagecommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = getlineagecommand.cpp; sourceTree = "<group>"; };
 505                 A7E9B6F912D37EC400DA6239 /* getlineagecommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = getlineagecommand.h; sourceTree = "<group>"; };
 506                 A7E9B6FA12D37EC400DA6239 /* getlistcountcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = getlistcountcommand.cpp; sourceTree = "<group>"; };
 507                 A7E9B6FB12D37EC400DA6239 /* getlistcountcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = getlistcountcommand.h; sourceTree = "<group>"; };
 508                 A7E9B6FC12D37EC400DA6239 /* getopt_long.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = getopt_long.cpp; sourceTree = "<group>"; };
 509                 A7E9B6FD12D37EC400DA6239 /* getopt_long.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = getopt_long.h; sourceTree = "<group>"; };
 510                 A7E9B6FE12D37EC400DA6239 /* getoturepcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = getoturepcommand.cpp; sourceTree = "<group>"; };
 511                 A7E9B6FF12D37EC400DA6239 /* getoturepcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = getoturepcommand.h; sourceTree = "<group>"; };
 512                 A7E9B70012D37EC400DA6239 /* getotuscommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = getotuscommand.cpp; sourceTree = "<group>"; };
 513                 A7E9B70112D37EC400DA6239 /* getotuscommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = getotuscommand.h; sourceTree = "<group>"; };
 514                 A7E9B70212D37EC400DA6239 /* getrabundcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = getrabundcommand.cpp; sourceTree = "<group>"; };
 515                 A7E9B70312D37EC400DA6239 /* getrabundcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = getrabundcommand.h; sourceTree = "<group>"; };
 516                 A7E9B70412D37EC400DA6239 /* getrelabundcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = getrelabundcommand.cpp; sourceTree = "<group>"; };
 517                 A7E9B70512D37EC400DA6239 /* getrelabundcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = getrelabundcommand.h; sourceTree = "<group>"; };
 518                 A7E9B70612D37EC400DA6239 /* getsabundcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = getsabundcommand.cpp; sourceTree = "<group>"; };
 519                 A7E9B70712D37EC400DA6239 /* getsabundcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = getsabundcommand.h; sourceTree = "<group>"; };
 520                 A7E9B70812D37EC400DA6239 /* getseqscommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = getseqscommand.cpp; sourceTree = "<group>"; };
 521                 A7E9B70912D37EC400DA6239 /* getseqscommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = getseqscommand.h; sourceTree = "<group>"; };
 522                 A7E9B70A12D37EC400DA6239 /* getsharedotucommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = getsharedotucommand.cpp; sourceTree = "<group>"; };
 523                 A7E9B70B12D37EC400DA6239 /* getsharedotucommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = getsharedotucommand.h; sourceTree = "<group>"; };
 524                 A7E9B70C12D37EC400DA6239 /* globaldata.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = globaldata.cpp; sourceTree = SOURCE_ROOT; };
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 526                 A7E9B70E12D37EC400DA6239 /* goodscoverage.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = goodscoverage.cpp; sourceTree = "<group>"; };
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 528                 A7E9B71012D37EC400DA6239 /* gotohoverlap.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = gotohoverlap.cpp; sourceTree = SOURCE_ROOT; };
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 532                 A7E9B71412D37EC400DA6239 /* groupmap.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = groupmap.cpp; sourceTree = "<group>"; };
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 534                 A7E9B71612D37EC400DA6239 /* hamming.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = hamming.cpp; sourceTree = "<group>"; };
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 536                 A7E9B71812D37EC400DA6239 /* hcluster.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = hcluster.cpp; sourceTree = SOURCE_ROOT; };
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 540                 A7E9B71C12D37EC400DA6239 /* heatmap.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = heatmap.cpp; sourceTree = SOURCE_ROOT; };
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 544                 A7E9B72012D37EC400DA6239 /* heatmapsim.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = heatmapsim.cpp; sourceTree = SOURCE_ROOT; };
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 548                 A7E9B72412D37EC400DA6239 /* heip.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = heip.cpp; sourceTree = "<group>"; };
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 550                 A7E9B72612D37EC400DA6239 /* hellinger.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = hellinger.cpp; sourceTree = "<group>"; };
 551                 A7E9B72712D37EC400DA6239 /* hellinger.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = hellinger.h; sourceTree = "<group>"; };
 552                 A7E9B72812D37EC400DA6239 /* helpcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = helpcommand.cpp; sourceTree = "<group>"; };
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 554                 A7E9B72A12D37EC400DA6239 /* ignoregaps.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = ignoregaps.h; sourceTree = "<group>"; };
 555                 A7E9B72B12D37EC400DA6239 /* indicatorcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = indicatorcommand.cpp; sourceTree = "<group>"; };
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 572                 A7E9B73C12D37EC400DA6239 /* libshuffcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = libshuffcommand.h; sourceTree = "<group>"; };
 573                 A7E9B73D12D37EC400DA6239 /* listseqscommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = listseqscommand.cpp; sourceTree = "<group>"; };
 574                 A7E9B73E12D37EC400DA6239 /* listseqscommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = listseqscommand.h; sourceTree = "<group>"; };
 575                 A7E9B73F12D37EC400DA6239 /* listvector.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = listvector.cpp; sourceTree = "<group>"; };
 576                 A7E9B74012D37EC400DA6239 /* listvector.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = listvector.hpp; sourceTree = "<group>"; };
 577                 A7E9B74112D37EC400DA6239 /* logsd.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = logsd.cpp; sourceTree = "<group>"; };
 578                 A7E9B74212D37EC400DA6239 /* logsd.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = logsd.h; sourceTree = "<group>"; };
 579                 A7E9B74312D37EC400DA6239 /* makegroupcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = makegroupcommand.cpp; sourceTree = "<group>"; };
 580                 A7E9B74412D37EC400DA6239 /* makegroupcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = makegroupcommand.h; sourceTree = "<group>"; };
 581                 A7E9B74512D37EC400DA6239 /* maligner.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = maligner.cpp; sourceTree = "<group>"; };
 582                 A7E9B74612D37EC400DA6239 /* maligner.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = maligner.h; sourceTree = "<group>"; };
 583                 A7E9B74712D37EC400DA6239 /* manhattan.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = manhattan.cpp; sourceTree = "<group>"; };
 584                 A7E9B74812D37EC400DA6239 /* manhattan.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = manhattan.h; sourceTree = "<group>"; };
 585                 A7E9B74912D37EC400DA6239 /* matrixoutputcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = matrixoutputcommand.cpp; sourceTree = "<group>"; };
 586                 A7E9B74A12D37EC400DA6239 /* matrixoutputcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = matrixoutputcommand.h; sourceTree = "<group>"; };
 587                 A7E9B74B12D37EC400DA6239 /* memchi2.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = memchi2.cpp; sourceTree = "<group>"; };
 588                 A7E9B74C12D37EC400DA6239 /* memchi2.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = memchi2.h; sourceTree = "<group>"; };
 589                 A7E9B74D12D37EC400DA6239 /* memchord.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = memchord.cpp; sourceTree = "<group>"; };
 590                 A7E9B74E12D37EC400DA6239 /* memchord.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = memchord.h; sourceTree = "<group>"; };
 591                 A7E9B74F12D37EC400DA6239 /* memeuclidean.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = memeuclidean.cpp; sourceTree = "<group>"; };
 592                 A7E9B75012D37EC400DA6239 /* memeuclidean.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = memeuclidean.h; sourceTree = "<group>"; };
 593                 A7E9B75112D37EC400DA6239 /* mempearson.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = mempearson.cpp; sourceTree = "<group>"; };
 594                 A7E9B75212D37EC400DA6239 /* mempearson.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = mempearson.h; sourceTree = "<group>"; };
 595                 A7E9B75312D37EC400DA6239 /* mergefilecommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = mergefilecommand.cpp; sourceTree = "<group>"; };
 596                 A7E9B75412D37EC400DA6239 /* mergefilecommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = mergefilecommand.h; sourceTree = "<group>"; };
 597                 A7E9B75512D37EC400DA6239 /* metastats.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = metastats.h; sourceTree = "<group>"; };
 598                 A7E9B75612D37EC400DA6239 /* metastats2.c */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.c; path = metastats2.c; sourceTree = "<group>"; };
 599                 A7E9B75712D37EC400DA6239 /* metastatscommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = metastatscommand.cpp; sourceTree = "<group>"; };
 600                 A7E9B75812D37EC400DA6239 /* metastatscommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = metastatscommand.h; sourceTree = "<group>"; };
 601                 A7E9B75912D37EC400DA6239 /* mgclustercommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = mgclustercommand.cpp; sourceTree = "<group>"; };
 602                 A7E9B75A12D37EC400DA6239 /* mgclustercommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = mgclustercommand.h; sourceTree = "<group>"; };
 603                 A7E9B75B12D37EC400DA6239 /* mothur.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = mothur.cpp; sourceTree = SOURCE_ROOT; };
 604                 A7E9B75C12D37EC400DA6239 /* mothur.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = mothur.h; sourceTree = SOURCE_ROOT; };
 605                 A7E9B75D12D37EC400DA6239 /* mothurout.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = mothurout.cpp; sourceTree = SOURCE_ROOT; };
 606                 A7E9B75E12D37EC400DA6239 /* mothurout.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = mothurout.h; sourceTree = SOURCE_ROOT; };
 607                 A7E9B75F12D37EC400DA6239 /* nameassignment.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = nameassignment.cpp; sourceTree = "<group>"; };
 608                 A7E9B76012D37EC400DA6239 /* nameassignment.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = nameassignment.hpp; sourceTree = "<group>"; };
 609                 A7E9B76112D37EC400DA6239 /* nast.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = nast.cpp; sourceTree = SOURCE_ROOT; };
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 613                 A7E9B76512D37EC400DA6239 /* needlemanoverlap.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = needlemanoverlap.cpp; sourceTree = SOURCE_ROOT; };
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 619                 A7E9B76B12D37EC400DA6239 /* normalizesharedcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = normalizesharedcommand.cpp; sourceTree = "<group>"; };
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 621                 A7E9B76D12D37EC400DA6239 /* npshannon.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = npshannon.cpp; sourceTree = "<group>"; };
 622                 A7E9B76E12D37EC400DA6239 /* npshannon.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = npshannon.h; sourceTree = "<group>"; };
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 629                 A7E9B77512D37EC400DA6239 /* optionparser.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = optionparser.cpp; sourceTree = SOURCE_ROOT; };
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 633                 A7E9B77912D37EC400DA6239 /* otuhierarchycommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = otuhierarchycommand.cpp; sourceTree = "<group>"; };
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 635                 A7E9B77B12D37EC400DA6239 /* overlap.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = overlap.cpp; sourceTree = SOURCE_ROOT; };
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 640                 A7E9B78012D37EC400DA6239 /* parsefastaqcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = parsefastaqcommand.h; sourceTree = "<group>"; };
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 642                 A7E9B78212D37EC400DA6239 /* parselistscommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = parselistscommand.h; sourceTree = "<group>"; };
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 647                 A7E9B78712D37EC400DA6239 /* pcoacommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = pcoacommand.cpp; sourceTree = "<group>"; };
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 649                 A7E9B78912D37EC400DA6239 /* phylodiversity.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = phylodiversity.cpp; sourceTree = "<group>"; };
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 661                 A7E9B79512D37EC400DA6239 /* pipelinepdscommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = pipelinepdscommand.cpp; sourceTree = "<group>"; };
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 663                 A7E9B79712D37EC400DA6239 /* preclustercommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = preclustercommand.cpp; sourceTree = "<group>"; };
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 665                 A7E9B79912D37EC400DA6239 /* prng.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = prng.cpp; sourceTree = "<group>"; };
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 667                 A7E9B79B12D37EC400DA6239 /* progress.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = progress.cpp; sourceTree = SOURCE_ROOT; };
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 670                 A7E9B79E12D37EC400DA6239 /* qstat.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = qstat.h; sourceTree = "<group>"; };
 671                 A7E9B79F12D37EC400DA6239 /* qualityscores.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = qualityscores.cpp; sourceTree = "<group>"; };
 672                 A7E9B7A012D37EC400DA6239 /* qualityscores.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = qualityscores.h; sourceTree = "<group>"; };
 673                 A7E9B7A112D37EC400DA6239 /* quitcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = quitcommand.cpp; sourceTree = "<group>"; };
 674                 A7E9B7A212D37EC400DA6239 /* quitcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = quitcommand.h; sourceTree = "<group>"; };
 675                 A7E9B7A312D37EC400DA6239 /* rabundvector.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = rabundvector.cpp; sourceTree = "<group>"; };
 676                 A7E9B7A412D37EC400DA6239 /* rabundvector.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = rabundvector.hpp; sourceTree = "<group>"; };
 677                 A7E9B7A512D37EC400DA6239 /* rarecalc.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = rarecalc.cpp; sourceTree = SOURCE_ROOT; };
 678                 A7E9B7A612D37EC400DA6239 /* rarecalc.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = rarecalc.h; sourceTree = SOURCE_ROOT; };
 679                 A7E9B7A712D37EC400DA6239 /* raredisplay.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = raredisplay.cpp; sourceTree = SOURCE_ROOT; };
 680                 A7E9B7A812D37EC400DA6239 /* raredisplay.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = raredisplay.h; sourceTree = SOURCE_ROOT; };
 681                 A7E9B7A912D37EC400DA6239 /* rarefact.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = rarefact.cpp; sourceTree = SOURCE_ROOT; };
 682                 A7E9B7AA12D37EC400DA6239 /* rarefact.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = rarefact.h; sourceTree = SOURCE_ROOT; };
 683                 A7E9B7AB12D37EC400DA6239 /* rarefactcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = rarefactcommand.cpp; sourceTree = "<group>"; };
 684                 A7E9B7AC12D37EC400DA6239 /* rarefactcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = rarefactcommand.h; sourceTree = "<group>"; };
 685                 A7E9B7AD12D37EC400DA6239 /* rarefactioncurvedata.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = rarefactioncurvedata.h; sourceTree = SOURCE_ROOT; };
 686                 A7E9B7AE12D37EC400DA6239 /* rarefactsharedcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = rarefactsharedcommand.cpp; sourceTree = "<group>"; };
 687                 A7E9B7AF12D37EC400DA6239 /* rarefactsharedcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = rarefactsharedcommand.h; sourceTree = "<group>"; };
 688                 A7E9B7B012D37EC400DA6239 /* readblast.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = readblast.cpp; sourceTree = "<group>"; };
 689                 A7E9B7B112D37EC400DA6239 /* readblast.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = readblast.h; sourceTree = "<group>"; };
 690                 A7E9B7B212D37EC400DA6239 /* readcluster.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = readcluster.cpp; sourceTree = "<group>"; };
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 692                 A7E9B7B412D37EC400DA6239 /* readcolumn.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = readcolumn.cpp; sourceTree = "<group>"; };
 693                 A7E9B7B512D37EC400DA6239 /* readcolumn.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = readcolumn.h; sourceTree = "<group>"; };
 694                 A7E9B7B612D37EC400DA6239 /* readdistcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = readdistcommand.cpp; sourceTree = "<group>"; };
 695                 A7E9B7B712D37EC400DA6239 /* readdistcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = readdistcommand.h; sourceTree = "<group>"; };
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 697                 A7E9B7B912D37EC400DA6239 /* readotu.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = readotu.cpp; sourceTree = "<group>"; };
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 700                 A7E9B7BC12D37EC400DA6239 /* readotucommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = readotucommand.h; sourceTree = "<group>"; };
 701                 A7E9B7BD12D37EC400DA6239 /* readphylip.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = readphylip.cpp; sourceTree = "<group>"; };
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 706                 A7E9B7C212D37EC400DA6239 /* readtreecommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = readtreecommand.h; sourceTree = "<group>"; };
 707                 A7E9B7C312D37EC400DA6239 /* removegroupscommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = removegroupscommand.cpp; sourceTree = "<group>"; };
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 745                 A7E9B7E912D37EC400DA6239 /* sharedace.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedace.cpp; sourceTree = "<group>"; };
 746                 A7E9B7EA12D37EC400DA6239 /* sharedace.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedace.h; sourceTree = "<group>"; };
 747                 A7E9B7EB12D37EC400DA6239 /* sharedanderberg.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedanderberg.h; sourceTree = "<group>"; };
 748                 A7E9B7EC12D37EC400DA6239 /* sharedanderbergs.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedanderbergs.cpp; sourceTree = "<group>"; };
 749                 A7E9B7ED12D37EC400DA6239 /* sharedanderbergs.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedanderbergs.h; sourceTree = "<group>"; };
 750                 A7E9B7EE12D37EC400DA6239 /* sharedbraycurtis.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedbraycurtis.cpp; sourceTree = "<group>"; };
 751                 A7E9B7EF12D37EC400DA6239 /* sharedbraycurtis.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedbraycurtis.h; sourceTree = "<group>"; };
 752                 A7E9B7F012D37EC400DA6239 /* sharedchao1.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedchao1.cpp; sourceTree = "<group>"; };
 753                 A7E9B7F112D37EC400DA6239 /* sharedchao1.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedchao1.h; sourceTree = "<group>"; };
 754                 A7E9B7F212D37EC400DA6239 /* sharedcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedcommand.cpp; sourceTree = "<group>"; };
 755                 A7E9B7F312D37EC400DA6239 /* sharedcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedcommand.h; sourceTree = "<group>"; };
 756                 A7E9B7F412D37EC400DA6239 /* sharedjabund.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedjabund.cpp; sourceTree = "<group>"; };
 757                 A7E9B7F512D37EC400DA6239 /* sharedjabund.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedjabund.h; sourceTree = "<group>"; };
 758                 A7E9B7F612D37EC400DA6239 /* sharedjackknife.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedjackknife.cpp; sourceTree = "<group>"; };
 759                 A7E9B7F712D37EC400DA6239 /* sharedjackknife.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedjackknife.h; sourceTree = "<group>"; };
 760                 A7E9B7F812D37EC400DA6239 /* sharedjclass.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedjclass.cpp; sourceTree = "<group>"; };
 761                 A7E9B7F912D37EC400DA6239 /* sharedjclass.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedjclass.h; sourceTree = "<group>"; };
 762                 A7E9B7FA12D37EC400DA6239 /* sharedjest.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedjest.cpp; sourceTree = "<group>"; };
 763                 A7E9B7FB12D37EC400DA6239 /* sharedjest.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedjest.h; sourceTree = "<group>"; };
 764                 A7E9B7FC12D37EC400DA6239 /* sharedkstest.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedkstest.cpp; sourceTree = "<group>"; };
 765                 A7E9B7FD12D37EC400DA6239 /* sharedkstest.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedkstest.h; sourceTree = "<group>"; };
 766                 A7E9B7FE12D37EC400DA6239 /* sharedkulczynski.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedkulczynski.cpp; sourceTree = "<group>"; };
 767                 A7E9B7FF12D37EC400DA6239 /* sharedkulczynski.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedkulczynski.h; sourceTree = "<group>"; };
 768                 A7E9B80012D37EC400DA6239 /* sharedkulczynskicody.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedkulczynskicody.cpp; sourceTree = "<group>"; };
 769                 A7E9B80112D37EC400DA6239 /* sharedkulczynskicody.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedkulczynskicody.h; sourceTree = "<group>"; };
 770                 A7E9B80212D37EC400DA6239 /* sharedlennon.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedlennon.cpp; sourceTree = "<group>"; };
 771                 A7E9B80312D37EC400DA6239 /* sharedlennon.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedlennon.h; sourceTree = "<group>"; };
 772                 A7E9B80412D37EC400DA6239 /* sharedlistvector.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedlistvector.cpp; sourceTree = "<group>"; };
 773                 A7E9B80512D37EC400DA6239 /* sharedlistvector.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedlistvector.h; sourceTree = "<group>"; };
 774                 A7E9B80612D37EC400DA6239 /* sharedmarczewski.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedmarczewski.cpp; sourceTree = "<group>"; };
 775                 A7E9B80712D37EC400DA6239 /* sharedmarczewski.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedmarczewski.h; sourceTree = "<group>"; };
 776                 A7E9B80812D37EC400DA6239 /* sharedmorisitahorn.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedmorisitahorn.cpp; sourceTree = "<group>"; };
 777                 A7E9B80912D37EC400DA6239 /* sharedmorisitahorn.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedmorisitahorn.h; sourceTree = "<group>"; };
 778                 A7E9B80A12D37EC400DA6239 /* sharednseqs.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharednseqs.h; sourceTree = "<group>"; };
 779                 A7E9B80B12D37EC400DA6239 /* sharedochiai.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedochiai.cpp; sourceTree = "<group>"; };
 780                 A7E9B80C12D37EC400DA6239 /* sharedochiai.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedochiai.h; sourceTree = "<group>"; };
 781                 A7E9B80D12D37EC400DA6239 /* sharedordervector.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedordervector.cpp; sourceTree = "<group>"; };
 782                 A7E9B80E12D37EC400DA6239 /* sharedordervector.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedordervector.h; sourceTree = "<group>"; };
 783                 A7E9B80F12D37EC400DA6239 /* sharedrabundfloatvector.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedrabundfloatvector.cpp; sourceTree = "<group>"; };
 784                 A7E9B81012D37EC400DA6239 /* sharedrabundfloatvector.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedrabundfloatvector.h; sourceTree = "<group>"; };
 785                 A7E9B81112D37EC400DA6239 /* sharedrabundvector.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedrabundvector.cpp; sourceTree = "<group>"; };
 786                 A7E9B81212D37EC400DA6239 /* sharedrabundvector.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedrabundvector.h; sourceTree = "<group>"; };
 787                 A7E9B81312D37EC400DA6239 /* sharedsabundvector.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedsabundvector.cpp; sourceTree = "<group>"; };
 788                 A7E9B81412D37EC400DA6239 /* sharedsabundvector.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedsabundvector.h; sourceTree = "<group>"; };
 789                 A7E9B81512D37EC400DA6239 /* sharedsobs.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedsobs.cpp; sourceTree = "<group>"; };
 790                 A7E9B81612D37EC400DA6239 /* sharedsobs.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedsobs.h; sourceTree = "<group>"; };
 791                 A7E9B81712D37EC400DA6239 /* sharedsobscollectsummary.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedsobscollectsummary.cpp; sourceTree = "<group>"; };
 792                 A7E9B81812D37EC400DA6239 /* sharedsobscollectsummary.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedsobscollectsummary.h; sourceTree = "<group>"; };
 793                 A7E9B81912D37EC400DA6239 /* sharedsorabund.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedsorabund.cpp; sourceTree = "<group>"; };
 794                 A7E9B81A12D37EC400DA6239 /* sharedsorabund.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedsorabund.h; sourceTree = "<group>"; };
 795                 A7E9B81B12D37EC400DA6239 /* sharedsorclass.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedsorclass.cpp; sourceTree = "<group>"; };
 796                 A7E9B81C12D37EC400DA6239 /* sharedsorclass.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedsorclass.h; sourceTree = "<group>"; };
 797                 A7E9B81D12D37EC400DA6239 /* sharedsorest.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedsorest.cpp; sourceTree = "<group>"; };
 798                 A7E9B81E12D37EC400DA6239 /* sharedsorest.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedsorest.h; sourceTree = "<group>"; };
 799                 A7E9B81F12D37EC400DA6239 /* sharedthetan.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedthetan.cpp; sourceTree = "<group>"; };
 800                 A7E9B82012D37EC400DA6239 /* sharedthetan.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedthetan.h; sourceTree = "<group>"; };
 801                 A7E9B82112D37EC400DA6239 /* sharedthetayc.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedthetayc.cpp; sourceTree = "<group>"; };
 802                 A7E9B82212D37EC400DA6239 /* sharedthetayc.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedthetayc.h; sourceTree = "<group>"; };
 803                 A7E9B82312D37EC400DA6239 /* sharedutilities.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sharedutilities.cpp; sourceTree = SOURCE_ROOT; };
 804                 A7E9B82412D37EC400DA6239 /* sharedutilities.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sharedutilities.h; sourceTree = SOURCE_ROOT; };
 805                 A7E9B82512D37EC400DA6239 /* shen.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = shen.cpp; sourceTree = "<group>"; };
 806                 A7E9B82612D37EC400DA6239 /* shen.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = shen.h; sourceTree = "<group>"; };
 807                 A7E9B82712D37EC400DA6239 /* shhhercommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = shhhercommand.cpp; sourceTree = "<group>"; };
 808                 A7E9B82812D37EC400DA6239 /* shhhercommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = shhhercommand.h; sourceTree = "<group>"; };
 809                 A7E9B82912D37EC400DA6239 /* simpson.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = simpson.cpp; sourceTree = "<group>"; };
 810                 A7E9B82A12D37EC400DA6239 /* simpson.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = simpson.h; sourceTree = "<group>"; };
 811                 A7E9B82B12D37EC400DA6239 /* simpsoneven.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = simpsoneven.cpp; sourceTree = "<group>"; };
 812                 A7E9B82C12D37EC400DA6239 /* simpsoneven.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = simpsoneven.h; sourceTree = "<group>"; };
 813                 A7E9B82D12D37EC400DA6239 /* singlelinkage.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = singlelinkage.cpp; sourceTree = SOURCE_ROOT; };
 814                 A7E9B82E12D37EC400DA6239 /* slayer.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = slayer.cpp; sourceTree = "<group>"; };
 815                 A7E9B82F12D37EC400DA6239 /* slayer.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = slayer.h; sourceTree = "<group>"; };
 816                 A7E9B83012D37EC400DA6239 /* slibshuff.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = slibshuff.cpp; sourceTree = SOURCE_ROOT; };
 817                 A7E9B83112D37EC400DA6239 /* slibshuff.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = slibshuff.h; sourceTree = SOURCE_ROOT; };
 818                 A7E9B83212D37EC400DA6239 /* smithwilson.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = smithwilson.cpp; sourceTree = "<group>"; };
 819                 A7E9B83312D37EC400DA6239 /* smithwilson.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = smithwilson.h; sourceTree = "<group>"; };
 820                 A7E9B83412D37EC400DA6239 /* sobs.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = sobs.h; sourceTree = "<group>"; };
 821                 A7E9B83512D37EC400DA6239 /* soergel.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = soergel.cpp; sourceTree = "<group>"; };
 822                 A7E9B83612D37EC400DA6239 /* soergel.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = soergel.h; sourceTree = "<group>"; };
 823                 A7E9B83712D37EC400DA6239 /* solow.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = solow.cpp; sourceTree = "<group>"; };
 824                 A7E9B83812D37EC400DA6239 /* solow.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = solow.h; sourceTree = "<group>"; };
 825                 A7E9B83912D37EC400DA6239 /* sparsematrix.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = sparsematrix.cpp; sourceTree = "<group>"; };
 826                 A7E9B83A12D37EC400DA6239 /* sparsematrix.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = sparsematrix.hpp; sourceTree = "<group>"; };
 827                 A7E9B83B12D37EC400DA6239 /* spearman.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = spearman.cpp; sourceTree = "<group>"; };
 828                 A7E9B83C12D37EC400DA6239 /* spearman.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = spearman.h; sourceTree = "<group>"; };
 829                 A7E9B83D12D37EC400DA6239 /* speciesprofile.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = speciesprofile.cpp; sourceTree = "<group>"; };
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 904 /* End PBXFileReference section */
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 908                         isa = PBXFrameworksBuildPhase;
 909                         buildActionMask = 2147483647;
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 911                         );
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 913                 };
 914 /* End PBXFrameworksBuildPhase section */
 915
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 918                         isa = PBXGroup;
 919                         children = (
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 921                                 C6A0FF2B0290797F04C91782 /* Documentation */,
 922                                 1AB674ADFE9D54B511CA2CBB /* Products */,
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 929                         children = (
 930                                 A7A61F1A130035C800E05B6B /* LICENSE */,
 931                                 A70332B512D3A13400761E33 /* makefile */,
 932                                 A7E9B65912D37EC300DA6239 /* averagelinkage.cpp */,
 933                                 A7E9BA4F12D398D700DA6239 /* clearcut */,
 934                                 A7E9B69812D37EC400DA6239 /* cluster.cpp */,
 935                                 A7E9B69912D37EC400DA6239 /* cluster.hpp */,
 936                                 A7E9B69A12D37EC400DA6239 /* clusterclassic.cpp */,
 937                                 A7E9B69B12D37EC400DA6239 /* clusterclassic.h */,
 938                                 A7E9BA3F12D395F700DA6239 /* calculators */,
 939                                 A7E9BA4512D3965600DA6239 /* chimera */,
 940                                 A7E9BA4B12D3966900DA6239 /* classifier */,
 941                                 A7E9B6A612D37EC400DA6239 /* collect.cpp */,
 942                                 A7E9B6A712D37EC400DA6239 /* collect.h */,
 943                                 A7E9B6AA12D37EC400DA6239 /* collectdisplay.h */,
 944                                 A7E9B6AB12D37EC400DA6239 /* collectorscurvedata.h */,
 945                                 A7E9BA3812D3956100DA6239 /* commands */,
 946                                 A7E9B6AF12D37EC400DA6239 /* commandfactory.cpp */,
 947                                 A7E9B6B012D37EC400DA6239 /* commandfactory.hpp */,
 948                                 A7E9B6B112D37EC400DA6239 /* commandoptionparser.cpp */,
 949                                 A7E9B6B212D37EC400DA6239 /* commandoptionparser.hpp */,
 950                                 A7E9B6B412D37EC400DA6239 /* completelinkage.cpp */,
 951                                 A7E9BA4212D3960D00DA6239 /* containers */,
 952                                 A7AACFBA132FE008003D6C4D /* currentfile.h */,
 953                                 A7AACFBB132FE008003D6C4D /* currentfile.cpp */,
 954                                 A7E9B6C912D37EC400DA6239 /* display.h */,
 955                                 A7E9B6D112D37EC400DA6239 /* dlibshuff.cpp */,
 956                                 A7E9B6D212D37EC400DA6239 /* dlibshuff.h */,
 957                                 A7E9B6D912D37EC400DA6239 /* endiannessmacros.h */,
 958                                 A7E9B6DA12D37EC400DA6239 /* engine.cpp */,
 959                                 A7E9B6DB12D37EC400DA6239 /* engine.hpp */,
 960                                 A7E9B6E012D37EC400DA6239 /* fileoutput.cpp */,
 961                                 A7E9B6E112D37EC400DA6239 /* fileoutput.h */,
 962                                 A7E9B70C12D37EC400DA6239 /* globaldata.cpp */,
 963                                 A7E9B70D12D37EC400DA6239 /* globaldata.hpp */,
 964                                 A7E9B71112D37EC400DA6239 /* gotohoverlap.hpp */,
 965                                 A7E9B71012D37EC400DA6239 /* gotohoverlap.cpp */,
 966                                 A7E9B71812D37EC400DA6239 /* hcluster.cpp */,
 967                                 A7E9B71912D37EC400DA6239 /* hcluster.h */,
 968                                 A7E9B71C12D37EC400DA6239 /* heatmap.cpp */,
 969                                 A7E9B71D12D37EC400DA6239 /* heatmap.h */,
 970                                 A7E9B72012D37EC400DA6239 /* heatmapsim.cpp */,
 971                                 A7E9B72112D37EC400DA6239 /* heatmapsim.h */,
 972                                 A7E9B72E12D37EC400DA6239 /* inputdata.h */,
 973                                 A7E9B72D12D37EC400DA6239 /* inputdata.cpp */,
 974                                 A7E9B73912D37EC400DA6239 /* libshuff.cpp */,
 975                                 A7E9B73A12D37EC400DA6239 /* libshuff.h */,
 976                                 A7FC480C12D788F20055BC5C /* linearalgebra.h */,
 977                                 A7FC480D12D788F20055BC5C /* linearalgebra.cpp */,
 978                                 A7E9BA5612D39BD800DA6239 /* metastats */,
 979                                 A7E9B75B12D37EC400DA6239 /* mothur.cpp */,
 980                                 A7E9B75C12D37EC400DA6239 /* mothur.h */,
 981                                 A7E9B75D12D37EC400DA6239 /* mothurout.cpp */,
 982                                 A7E9B75E12D37EC400DA6239 /* mothurout.h */,
 983                                 A7E9B76112D37EC400DA6239 /* nast.cpp */,
 984                                 A7E9B76212D37EC400DA6239 /* nast.hpp */,
 985                                 A7E9B76312D37EC400DA6239 /* nastreport.cpp */,
 986                                 A7E9B76412D37EC400DA6239 /* nastreport.hpp */,
 987                                 A7E9B76712D37EC400DA6239 /* noalign.cpp */,
 988                                 A7E9B76812D37EC400DA6239 /* noalign.hpp */,
 989                                 A7E9B76512D37EC400DA6239 /* needlemanoverlap.cpp */,
 990                                 A7E9B76612D37EC400DA6239 /* needlemanoverlap.hpp */,
 991                                 A7E9B77012D37EC400DA6239 /* observable.h */,
 992                                 A7E9B77512D37EC400DA6239 /* optionparser.cpp */,
 993                                 A7E9B77612D37EC400DA6239 /* optionparser.h */,
 994                                 A7E9B77B12D37EC400DA6239 /* overlap.cpp */,
 995                                 A7E9B77C12D37EC400DA6239 /* overlap.hpp */,
 996                                 A7E9B79B12D37EC400DA6239 /* progress.cpp */,
 997                                 A7E9B79C12D37EC400DA6239 /* progress.hpp */,
 998                                 A7E9B7A512D37EC400DA6239 /* rarecalc.cpp */,
 999                                 A7E9B7A612D37EC400DA6239 /* rarecalc.h */,
1000                                 A7E9B7A712D37EC400DA6239 /* raredisplay.cpp */,
1001                                 A7E9B7A812D37EC400DA6239 /* raredisplay.h */,
1002                                 A7E9B7A912D37EC400DA6239 /* rarefact.cpp */,
1003                                 A7E9B7AA12D37EC400DA6239 /* rarefact.h */,
1004                                 A7E9B7AD12D37EC400DA6239 /* rarefactioncurvedata.h */,
1005                                 7E6BE10812F710D8007ADDBE /* refchimeratest.h */,
1006                                 7E6BE10912F710D8007ADDBE /* refchimeratest.cpp */,
1007                                 A7E9BA5312D39A5E00DA6239 /* read */,
1008                                 A7E9B82312D37EC400DA6239 /* sharedutilities.cpp */,
1009                                 A7E9B82412D37EC400DA6239 /* sharedutilities.h */,
1010                                 A7E9B82D12D37EC400DA6239 /* singlelinkage.cpp */,
1011                                 A7E9B83012D37EC400DA6239 /* slibshuff.cpp */,
1012                                 A7E9B83112D37EC400DA6239 /* slibshuff.h */,
1013                                 A7E9B85112D37EC400DA6239 /* suffixdb.cpp */,
1014                                 A7E9B85212D37EC400DA6239 /* suffixdb.hpp */,
1015                                 A7E9B85312D37EC400DA6239 /* suffixnodes.cpp */,
1016                                 A7E9B85412D37EC400DA6239 /* suffixnodes.hpp */,
1017                                 A7E9B85512D37EC400DA6239 /* suffixtree.cpp */,
1018                                 A7E9B85612D37EC400DA6239 /* suffixtree.hpp */,
1019                                 A7E9B87412D37EC400DA6239 /* validcalculator.cpp */,
1020                                 A7E9B87512D37EC400DA6239 /* validcalculator.h */,
1021                                 A7E9B87612D37EC400DA6239 /* validparameter.cpp */,
1022                                 A7E9B87712D37EC400DA6239 /* validparameter.h */,
1023                                 A7E9B87812D37EC400DA6239 /* venn.cpp */,
1024                                 A7E9B87912D37EC400DA6239 /* venn.h */,
1025                                 A7E9B87E12D37EC400DA6239 /* weightedlinkage.cpp */,
1026                         );
1027                         name = Source;
1028                         sourceTree = "<group>";
1029                 };
1030                 1AB674ADFE9D54B511CA2CBB /* Products */ = {
1031                         isa = PBXGroup;
1032                         children = (
1033                                 8DD76FB20486AB0100D96B5E /* Mothur */,
1034                         );
1035                         name = Products;
1036                         sourceTree = "<group>";
1037                 };
1038                 A7E9BA3812D3956100DA6239 /* commands */ = {
1039                         isa = PBXGroup;
1040                         children = (
1041                                 A7E9B6AE12D37EC400DA6239 /* command.hpp */,
1042                                 A7E9B65112D37EC300DA6239 /* aligncommand.cpp */,
1043                                 A7E9B65212D37EC300DA6239 /* aligncommand.h */,
1044                                 A7A61F2B130062E000E05B6B /* amovacommand.h */,
1045                                 A7A61F2C130062E000E05B6B /* amovacommand.cpp */,
1046                                 A71CB15E130B04A2001E7287 /* anosimcommand.cpp */,
1047                                 A71CB15F130B04A2001E7287 /* anosimcommand.h */,
1048                                 A7E9B66012D37EC300DA6239 /* binsequencecommand.cpp */,
1049                                 A7E9B66112D37EC300DA6239 /* binsequencecommand.h */,
1050                                 A7E9B66A12D37EC400DA6239 /* bootstrapsharedcommand.cpp */,
1051                                 A7E9B66B12D37EC400DA6239 /* bootstrapsharedcommand.h */,
1052                                 A7E9B67212D37EC400DA6239 /* catchallcommand.cpp */,
1053                                 A7E9B67312D37EC400DA6239 /* catchallcommand.h */,
1054                                 A7E9B67A12D37EC400DA6239 /* chimerabellerophoncommand.cpp */,
1055                                 A7E9B67B12D37EC400DA6239 /* chimerabellerophoncommand.h */,
1056                                 A7E9B67C12D37EC400DA6239 /* chimeraccodecommand.cpp */,
1057                                 A7E9B67D12D37EC400DA6239 /* chimeraccodecommand.h */,
1058                                 A7E9B67E12D37EC400DA6239 /* chimeracheckcommand.cpp */,
1059                                 A7E9B67F12D37EC400DA6239 /* chimeracheckcommand.h */,
1060                                 A7E9B68212D37EC400DA6239 /* chimerapintailcommand.cpp */,
1061                                 A7E9B68312D37EC400DA6239 /* chimerapintailcommand.h */,
1062                                 A7E9B68612D37EC400DA6239 /* chimeraseqscommand.cpp */,
1063                                 A7E9B68712D37EC400DA6239 /* chimeraseqscommand.h */,
1064                                 A7E9B68A12D37EC400DA6239 /* chimeraslayercommand.cpp */,
1065                                 A7E9B68B12D37EC400DA6239 /* chimeraslayercommand.h */,
1066                                 A7E9B68C12D37EC400DA6239 /* chopseqscommand.cpp */,
1067                                 A7E9B68D12D37EC400DA6239 /* chopseqscommand.h */,
1068                                 A7E9B69012D37EC400DA6239 /* classifyotucommand.cpp */,
1069                                 A7E9B69112D37EC400DA6239 /* classifyotucommand.h */,
1070                                 A7E9B69212D37EC400DA6239 /* classifyseqscommand.cpp */,
1071                                 A7E9B69312D37EC400DA6239 /* classifyseqscommand.h */,
1072                                 A7E9B69612D37EC400DA6239 /* clearcutcommand.cpp */,
1073                                 A7E9B69712D37EC400DA6239 /* clearcutcommand.h */,
1074                                 A7E9B69C12D37EC400DA6239 /* clustercommand.cpp */,
1075                                 A7E9B69D12D37EC400DA6239 /* clustercommand.h */,
1076                                 A7E9B69E12D37EC400DA6239 /* clusterdoturcommand.cpp */,
1077                                 A7E9B69F12D37EC400DA6239 /* clusterdoturcommand.h */,
1078                                 A7E9B6A012D37EC400DA6239 /* clusterfragmentscommand.cpp */,
1079                                 A7E9B6A112D37EC400DA6239 /* clusterfragmentscommand.h */,
1080                                 A7E9B6A212D37EC400DA6239 /* clustersplitcommand.cpp */,
1081                                 A7E9B6A312D37EC400DA6239 /* clustersplitcommand.h */,
1082                                 A7E9B6A812D37EC400DA6239 /* collectcommand.cpp */,
1083                                 A7E9B6A912D37EC400DA6239 /* collectcommand.h */,
1084                                 A7E9B6AC12D37EC400DA6239 /* collectsharedcommand.cpp */,
1085                                 A7E9B6AD12D37EC400DA6239 /* collectsharedcommand.h */,
1086                                 A7E9B6B512D37EC400DA6239 /* consensuscommand.cpp */,
1087                                 A7E9B6B612D37EC400DA6239 /* consensuscommand.h */,
1088                                 A7E9B6B712D37EC400DA6239 /* consensusseqscommand.cpp */,
1089                                 A7E9B6B812D37EC400DA6239 /* consensusseqscommand.h */,
1090                                 A7E9B6B912D37EC400DA6239 /* corraxescommand.cpp */,
1091                                 A7E9B6BA12D37EC400DA6239 /* corraxescommand.h */,
1092                                 A7E9B6C312D37EC400DA6239 /* deconvolutecommand.cpp */,
1093                                 A7E9B6C412D37EC400DA6239 /* deconvolutecommand.h */,
1094                                 A7E9B6C512D37EC400DA6239 /* degapseqscommand.cpp */,
1095                                 A7E9B6C612D37EC400DA6239 /* degapseqscommand.h */,
1096                                 A7E9B6C712D37EC400DA6239 /* deuniqueseqscommand.cpp */,
1097                                 A7E9B6C812D37EC400DA6239 /* deuniqueseqscommand.h */,
1098                                 A7E9B6CB12D37EC400DA6239 /* distancecommand.cpp */,
1099                                 A7E9B6CC12D37EC400DA6239 /* distancecommand.h */,
1100                                 A7E9B6E312D37EC400DA6239 /* filterseqscommand.cpp */,
1101                                 A7E9B6E412D37EC400DA6239 /* filterseqscommand.h */,
1102                                 A7E9B6F212D37EC400DA6239 /* getgroupcommand.cpp */,
1103                                 A7E9B6F312D37EC400DA6239 /* getgroupcommand.h */,
1104                                 A7E9B6F412D37EC400DA6239 /* getgroupscommand.cpp */,
1105                                 A7E9B6F512D37EC400DA6239 /* getgroupscommand.h */,
1106                                 A7E9B6F612D37EC400DA6239 /* getlabelcommand.cpp */,
1107                                 A7E9B6F712D37EC400DA6239 /* getlabelcommand.h */,
1108                                 A7E9B6F812D37EC400DA6239 /* getlineagecommand.cpp */,
1109                                 A7E9B6F912D37EC400DA6239 /* getlineagecommand.h */,
1110                                 A7E9B6FA12D37EC400DA6239 /* getlistcountcommand.cpp */,
1111                                 A7E9B6FB12D37EC400DA6239 /* getlistcountcommand.h */,
1112                                 A7E9B6FE12D37EC400DA6239 /* getoturepcommand.cpp */,
1113                                 A7E9B6FF12D37EC400DA6239 /* getoturepcommand.h */,
1114                                 A7E9B70012D37EC400DA6239 /* getotuscommand.cpp */,
1115                                 A7E9B70112D37EC400DA6239 /* getotuscommand.h */,
1116                                 A7E9B70212D37EC400DA6239 /* getrabundcommand.cpp */,
1117                                 A7E9B70312D37EC400DA6239 /* getrabundcommand.h */,
1118                                 A7E9B70412D37EC400DA6239 /* getrelabundcommand.cpp */,
1119                                 A7E9B70512D37EC400DA6239 /* getrelabundcommand.h */,
1120                                 A7E9B70612D37EC400DA6239 /* getsabundcommand.cpp */,
1121                                 A7E9B70712D37EC400DA6239 /* getsabundcommand.h */,
1122                                 A7E9B70812D37EC400DA6239 /* getseqscommand.cpp */,
1123                                 A7E9B70912D37EC400DA6239 /* getseqscommand.h */,
1124                                 A7E9B70A12D37EC400DA6239 /* getsharedotucommand.cpp */,
1125                                 A7E9B70B12D37EC400DA6239 /* getsharedotucommand.h */,
1126                                 A7E9B71A12D37EC400DA6239 /* hclustercommand.cpp */,
1127                                 A7E9B71B12D37EC400DA6239 /* hclustercommand.h */,
1128                                 A7E9B71E12D37EC400DA6239 /* heatmapcommand.cpp */,
1129                                 A7E9B71F12D37EC400DA6239 /* heatmapcommand.h */,
1130                                 A7E9B72212D37EC400DA6239 /* heatmapsimcommand.cpp */,
1131                                 A7E9B72312D37EC400DA6239 /* heatmapsimcommand.h */,
1132                                 A7E9B72812D37EC400DA6239 /* helpcommand.cpp */,
1133                                 A7E9B72912D37EC400DA6239 /* helpcommand.h */,
1134                                 A75790571301749D00A30DAB /* homovacommand.h */,
1135                                 A75790581301749D00A30DAB /* homovacommand.cpp */,
1136                                 A7E9B72B12D37EC400DA6239 /* indicatorcommand.cpp */,
1137                                 A7E9B72C12D37EC400DA6239 /* indicatorcommand.h */,
1138                                 A7E9B73B12D37EC400DA6239 /* libshuffcommand.cpp */,
1139                                 A7E9B73C12D37EC400DA6239 /* libshuffcommand.h */,
1140                                 A7E9B73D12D37EC400DA6239 /* listseqscommand.cpp */,
1141                                 A7E9B73E12D37EC400DA6239 /* listseqscommand.h */,
1142                                 A7FA10001302E096003860FE /* mantelcommand.h */,
1143                                 A7FA10011302E096003860FE /* mantelcommand.cpp */,
1144                                 A799F5B71309A3E000AEEFA0 /* makefastqcommand.h */,
1145                                 A799F5B81309A3E000AEEFA0 /* makefastqcommand.cpp */,
1146                                 A7E9B74312D37EC400DA6239 /* makegroupcommand.cpp */,
1147                                 A7E9B74412D37EC400DA6239 /* makegroupcommand.h */,
1148                                 A7E9B74912D37EC400DA6239 /* matrixoutputcommand.cpp */,
1149                                 A7E9B74A12D37EC400DA6239 /* matrixoutputcommand.h */,
1150                                 A7E9B75312D37EC400DA6239 /* mergefilecommand.cpp */,
1151                                 A7E9B75412D37EC400DA6239 /* mergefilecommand.h */,
1152                                 A71FE12A12EDF72400963CA7 /* mergegroupscommand.h */,
1153                                 A71FE12B12EDF72400963CA7 /* mergegroupscommand.cpp */,
1154                                 A7E9B75712D37EC400DA6239 /* metastatscommand.cpp */,
1155                                 A7E9B75812D37EC400DA6239 /* metastatscommand.h */,
1156                                 A7E9B75912D37EC400DA6239 /* mgclustercommand.cpp */,
1157                                 A7E9B75A12D37EC400DA6239 /* mgclustercommand.h */,
1158                                 A7E9B76A12D37EC400DA6239 /* nocommands.h */,
1159                                 A7E9B76912D37EC400DA6239 /* nocommands.cpp */,
1160                                 A7E9B76B12D37EC400DA6239 /* normalizesharedcommand.cpp */,
1161                                 A7E9B76C12D37EC400DA6239 /* normalizesharedcommand.h */,
1162                                 A713EBEB12DC7C5E000092AC /* nmdscommand.h */,
1163                                 A713EBEC12DC7C5E000092AC /* nmdscommand.cpp */,
1164                                 A7E9B77912D37EC400DA6239 /* otuhierarchycommand.cpp */,
1165                                 A7E9B77A12D37EC400DA6239 /* otuhierarchycommand.h */,
1166                                 A7E9B77D12D37EC400DA6239 /* pairwiseseqscommand.cpp */,
1167                                 A7E9B77E12D37EC400DA6239 /* pairwiseseqscommand.h */,
1168                                 A7E9B77F12D37EC400DA6239 /* parsefastaqcommand.cpp */,
1169                                 A7E9B78012D37EC400DA6239 /* parsefastaqcommand.h */,
1170                                 A7E9B78112D37EC400DA6239 /* parselistscommand.cpp */,
1171                                 A7E9B78212D37EC400DA6239 /* parselistscommand.h */,
1172                                 A7E9B78512D37EC400DA6239 /* parsimonycommand.cpp */,
1173                                 A7E9B78612D37EC400DA6239 /* parsimonycommand.h */,
1174                                 A7FC486512D795D60055BC5C /* pcacommand.h */,
1175                                 A7FC486612D795D60055BC5C /* pcacommand.cpp */,
1176                                 A7E9B78712D37EC400DA6239 /* pcoacommand.cpp */,
1177                                 A7E9B78812D37EC400DA6239 /* pcoacommand.h */,
1178                                 A7E9B78B12D37EC400DA6239 /* phylodiversitycommand.cpp */,
1179                                 A7E9B78C12D37EC400DA6239 /* phylodiversitycommand.h */,
1180                                 A7E9B79112D37EC400DA6239 /* phylotypecommand.cpp */,
1181                                 A7E9B79212D37EC400DA6239 /* phylotypecommand.h */,
1182                                 A7E9B79512D37EC400DA6239 /* pipelinepdscommand.cpp */,
1183                                 A7E9B79612D37EC400DA6239 /* pipelinepdscommand.h */,
1184                                 A7E9B79712D37EC400DA6239 /* preclustercommand.cpp */,
1185                                 A7E9B79812D37EC400DA6239 /* preclustercommand.h */,
1186                                 A7E9B7A112D37EC400DA6239 /* quitcommand.cpp */,
1187                                 A7E9B7A212D37EC400DA6239 /* quitcommand.h */,
1188                                 A7E9B7AB12D37EC400DA6239 /* rarefactcommand.cpp */,
1189                                 A7E9B7AC12D37EC400DA6239 /* rarefactcommand.h */,
1190                                 A7E9B7AE12D37EC400DA6239 /* rarefactsharedcommand.cpp */,
1191                                 A7E9B7AF12D37EC400DA6239 /* rarefactsharedcommand.h */,
1192                                 A7E9B7B612D37EC400DA6239 /* readdistcommand.cpp */,
1193                                 A7E9B7B712D37EC400DA6239 /* readdistcommand.h */,
1194                                 A7E9B7BB12D37EC400DA6239 /* readotucommand.cpp */,
1195                                 A7E9B7BC12D37EC400DA6239 /* readotucommand.h */,
1196                                 A7E9B7C112D37EC400DA6239 /* readtreecommand.cpp */,
1197                                 A7E9B7C212D37EC400DA6239 /* readtreecommand.h */,
1198                                 A7E9B7C312D37EC400DA6239 /* removegroupscommand.cpp */,
1199                                 A7E9B7C412D37EC400DA6239 /* removegroupscommand.h */,
1200                                 A7E9B7C512D37EC400DA6239 /* removelineagecommand.cpp */,
1201                                 A7E9B7C612D37EC400DA6239 /* removelineagecommand.h */,
1202                                 A7E9B7C712D37EC400DA6239 /* removeotuscommand.cpp */,
1203                                 A7E9B7C812D37EC400DA6239 /* removeotuscommand.h */,
1204                                 A727864212E9E28C00F86ABA /* removerarecommand.h */,
1205                                 A727864312E9E28C00F86ABA /* removerarecommand.cpp */,
1206                                 A7E9B7C912D37EC400DA6239 /* removeseqscommand.cpp */,
1207                                 A7E9B7CA12D37EC400DA6239 /* removeseqscommand.h */,
1208                                 A7E9B7CD12D37EC400DA6239 /* reversecommand.cpp */,
1209                                 A7E9B7CE12D37EC400DA6239 /* reversecommand.h */,
1210                                 A7E9B7D112D37EC400DA6239 /* screenseqscommand.cpp */,
1211                                 A7E9B7D212D37EC400DA6239 /* screenseqscommand.h */,
1212                                 A7E9B7D312D37EC400DA6239 /* secondarystructurecommand.cpp */,
1213                                 A7E9B7D412D37EC400DA6239 /* secondarystructurecommand.h */,
1214                                 A7E9B7D512D37EC400DA6239 /* sensspeccommand.cpp */,
1215                                 A7E9B7D612D37EC400DA6239 /* sensspeccommand.h */,
1216                                 A7E9B7D712D37EC400DA6239 /* seqerrorcommand.cpp */,
1217                                 A7E9B7D812D37EC400DA6239 /* seqerrorcommand.h */,
1218                                 A7E9B7D912D37EC400DA6239 /* seqsummarycommand.cpp */,
1219                                 A7E9B7DA12D37EC400DA6239 /* seqsummarycommand.h */,
1220                                 A7E9B7DF12D37EC400DA6239 /* setdircommand.cpp */,
1221                                 A7E9B7E012D37EC400DA6239 /* setdircommand.h */,
1222                                 A7E9B7E112D37EC400DA6239 /* setlogfilecommand.cpp */,
1223                                 A7E9B7E212D37EC400DA6239 /* setlogfilecommand.h */,
1224                                 A7E9B7E312D37EC400DA6239 /* sffinfocommand.cpp */,
1225                                 A7E9B7E412D37EC400DA6239 /* sffinfocommand.h */,
1226                                 A7E9B7F212D37EC400DA6239 /* sharedcommand.cpp */,
1227                                 A7E9B7F312D37EC400DA6239 /* sharedcommand.h */,
1228                                 A7E9B82712D37EC400DA6239 /* shhhercommand.cpp */,
1229                                 A7E9B82812D37EC400DA6239 /* shhhercommand.h */,
1230                                 A7E9B83F12D37EC400DA6239 /* splitabundcommand.cpp */,
1231                                 A7E9B84012D37EC400DA6239 /* splitabundcommand.h */,
1232                                 A7E9B84112D37EC400DA6239 /* splitgroupscommand.cpp */,
1233                                 A7E9B84212D37EC400DA6239 /* splitgroupscommand.h */,
1234                                 A7E9B84F12D37EC400DA6239 /* subsamplecommand.cpp */,
1235                                 A7E9B85012D37EC400DA6239 /* subsamplecommand.h */,
1236                                 A7E9B85712D37EC400DA6239 /* summarycommand.cpp */,
1237                                 A7E9B85812D37EC400DA6239 /* summarycommand.h */,
1238                                 A7E9B85912D37EC400DA6239 /* summarysharedcommand.cpp */,
1239                                 A7E9B85A12D37EC400DA6239 /* summarysharedcommand.h */,
1240                                 A7E9B85B12D37EC400DA6239 /* systemcommand.cpp */,
1241                                 A7E9B85C12D37EC400DA6239 /* systemcommand.h */,
1242                                 A7E9B86212D37EC400DA6239 /* treegroupscommand.cpp */,
1243                                 A7E9B86312D37EC400DA6239 /* treegroupscommand.h */,
1244                                 A7E9B86812D37EC400DA6239 /* trimflowscommand.cpp */,
1245                                 A7E9B86912D37EC400DA6239 /* trimflowscommand.h */,
1246                                 A7E9B86A12D37EC400DA6239 /* trimseqscommand.cpp */,
1247                                 A7E9B86B12D37EC400DA6239 /* trimseqscommand.h */,
1248                                 A7E9B86C12D37EC400DA6239 /* unifracunweightedcommand.cpp */,
1249                                 A7E9B86D12D37EC400DA6239 /* unifracunweightedcommand.h */,
1250                                 A7E9B86E12D37EC400DA6239 /* unifracweightedcommand.cpp */,
1251                                 A7E9B86F12D37EC400DA6239 /* unifracweightedcommand.h */,
1252                                 A7E9B87A12D37EC400DA6239 /* venncommand.cpp */,
1253                                 A7E9B87B12D37EC400DA6239 /* venncommand.h */,
1254                         );
1255                         name = commands;
1256                         sourceTree = "<group>";
1257                 };
1258                 A7E9BA3F12D395F700DA6239 /* calculators */ = {
1259                         isa = PBXGroup;
1260                         children = (
1261                                 A7E9B64F12D37EC300DA6239 /* ace.cpp */,
1262                                 A7E9B65012D37EC300DA6239 /* ace.h */,
1263                                 A7E9B65E12D37EC300DA6239 /* bergerparker.cpp */,
1264                                 A7E9B65F12D37EC300DA6239 /* bergerparker.h */,
1265                                 A7E9B66612D37EC400DA6239 /* boneh.cpp */,
1266                                 A7E9B66712D37EC400DA6239 /* boneh.h */,
1267                                 A7E9B66812D37EC400DA6239 /* bootstrap.cpp */,
1268                                 A7E9B66912D37EC400DA6239 /* bootstrap.h */,
1269                                 A7E9B66C12D37EC400DA6239 /* bstick.cpp */,
1270                                 A7E9B66D12D37EC400DA6239 /* bstick.h */,
1271                                 A7E9B66E12D37EC400DA6239 /* calculator.cpp */,
1272                                 A7E9B66F12D37EC400DA6239 /* calculator.h */,
1273                                 A7E9B67012D37EC400DA6239 /* canberra.cpp */,
1274                                 A7E9B67112D37EC400DA6239 /* canberra.h */,
1275                                 A7E9B67612D37EC400DA6239 /* chao1.cpp */,
1276                                 A7E9B67712D37EC400DA6239 /* chao1.h */,
1277                                 A7E9B6A412D37EC400DA6239 /* cmdargs.cpp */,
1278                                 A7E9B6A512D37EC400DA6239 /* cmdargs.h */,
1279                                 A7E9B6BB12D37EC400DA6239 /* coverage.cpp */,
1280                                 A7E9B6BC12D37EC400DA6239 /* coverage.h */,
1281                                 A7E9B6CA12D37EC400DA6239 /* dist.h */,
1282                                 A7E9B6C012D37EC400DA6239 /* dayhoff.h */,
1283                                 A7E9B6D512D37EC400DA6239 /* eachgapdist.h */,
1284                                 A7E9B6D612D37EC400DA6239 /* eachgapignore.h */,
1285                                 A7E9B6D712D37EC400DA6239 /* efron.cpp */,
1286                                 A7E9B6D812D37EC400DA6239 /* efron.h */,
1287                                 A7E9B6E212D37EC400DA6239 /* filters.h */,
1288                                 A7E9B6E512D37EC400DA6239 /* fisher2.c */,
1289                                 A7E9B6E612D37EC400DA6239 /* fisher2.h */,
1290                                 A7E9B6F012D37EC400DA6239 /* geom.cpp */,
1291                                 A7E9B6F112D37EC400DA6239 /* geom.h */,
1292                                 A7E9B70E12D37EC400DA6239 /* goodscoverage.cpp */,
1293                                 A7E9B70F12D37EC400DA6239 /* goodscoverage.h */,
1294                                 A7E9B71212D37EC400DA6239 /* gower.cpp */,
1295                                 A7E9B71312D37EC400DA6239 /* gower.h */,
1296                                 A7E9B71612D37EC400DA6239 /* hamming.cpp */,
1297                                 A7E9B71712D37EC400DA6239 /* hamming.h */,
1298                                 A7E9B72412D37EC400DA6239 /* heip.cpp */,
1299                                 A7E9B72512D37EC400DA6239 /* heip.h */,
1300                                 A7E9B72612D37EC400DA6239 /* hellinger.cpp */,
1301                                 A7E9B72712D37EC400DA6239 /* hellinger.h */,
1302                                 A7E9B72A12D37EC400DA6239 /* ignoregaps.h */,
1303                                 A7E9B72F12D37EC400DA6239 /* invsimpson.cpp */,
1304                                 A7E9B73012D37EC400DA6239 /* invsimpson.h */,
1305                                 A7E9B73112D37EC400DA6239 /* jackknife.cpp */,
1306                                 A7E9B73212D37EC400DA6239 /* jackknife.h */,
1307                                 A7E9B74112D37EC400DA6239 /* logsd.cpp */,
1308                                 A7E9B74212D37EC400DA6239 /* logsd.h */,
1309                                 A7E9B74712D37EC400DA6239 /* manhattan.cpp */,
1310                                 A7E9B74812D37EC400DA6239 /* manhattan.h */,
1311                                 A7E9B74B12D37EC400DA6239 /* memchi2.cpp */,
1312                                 A7E9B74C12D37EC400DA6239 /* memchi2.h */,
1313                                 A7E9B74D12D37EC400DA6239 /* memchord.cpp */,
1314                                 A7E9B74E12D37EC400DA6239 /* memchord.h */,
1315                                 A7E9B74F12D37EC400DA6239 /* memeuclidean.cpp */,
1316                                 A7E9B75012D37EC400DA6239 /* memeuclidean.h */,
1317                                 A7E9B75112D37EC400DA6239 /* mempearson.cpp */,
1318                                 A7E9B75212D37EC400DA6239 /* mempearson.h */,
1319                                 A7E9B76D12D37EC400DA6239 /* npshannon.cpp */,
1320                                 A7E9B76E12D37EC400DA6239 /* npshannon.h */,
1321                                 A7E9B76F12D37EC400DA6239 /* nseqs.h */,
1322                                 A7E9B77112D37EC400DA6239 /* odum.cpp */,
1323                                 A7E9B77212D37EC400DA6239 /* odum.h */,
1324                                 A7E9B77312D37EC400DA6239 /* onegapdist.h */,
1325                                 A7E9B77412D37EC400DA6239 /* onegapignore.h */,
1326                                 A7E9B78412D37EC400DA6239 /* parsimony.h */,
1327                                 A7E9B78312D37EC400DA6239 /* parsimony.cpp */,
1328                                 A7E9B79912D37EC400DA6239 /* prng.cpp */,
1329                                 A7E9B79A12D37EC400DA6239 /* prng.h */,
1330                                 A7E9B79D12D37EC400DA6239 /* qstat.cpp */,
1331                                 A7E9B79E12D37EC400DA6239 /* qstat.h */,
1332                                 A7E9B7E512D37EC400DA6239 /* shannon.cpp */,
1333                                 A7E9B7E612D37EC400DA6239 /* shannon.h */,
1334                                 A7E9B7E712D37EC400DA6239 /* shannoneven.cpp */,
1335                                 A7E9B7E812D37EC400DA6239 /* shannoneven.h */,
1336                                 A7E9B7E912D37EC400DA6239 /* sharedace.cpp */,
1337                                 A7E9B7EA12D37EC400DA6239 /* sharedace.h */,
1338                                 A7E9B7EB12D37EC400DA6239 /* sharedanderberg.h */,
1339                                 A7E9B7EC12D37EC400DA6239 /* sharedanderbergs.cpp */,
1340                                 A7E9B7ED12D37EC400DA6239 /* sharedanderbergs.h */,
1341                                 A7E9B7EE12D37EC400DA6239 /* sharedbraycurtis.cpp */,
1342                                 A7E9B7EF12D37EC400DA6239 /* sharedbraycurtis.h */,
1343                                 A7E9B7F012D37EC400DA6239 /* sharedchao1.cpp */,
1344                                 A7E9B7F112D37EC400DA6239 /* sharedchao1.h */,
1345                                 A7E9B7F412D37EC400DA6239 /* sharedjabund.cpp */,
1346                                 A7E9B7F512D37EC400DA6239 /* sharedjabund.h */,
1347                                 A7E9B7F612D37EC400DA6239 /* sharedjackknife.cpp */,
1348                                 A7E9B7F712D37EC400DA6239 /* sharedjackknife.h */,
1349                                 A7E9B7F812D37EC400DA6239 /* sharedjclass.cpp */,
1350                                 A7E9B7F912D37EC400DA6239 /* sharedjclass.h */,
1351                                 A7E9B7FA12D37EC400DA6239 /* sharedjest.cpp */,
1352                                 A7E9B7FB12D37EC400DA6239 /* sharedjest.h */,
1353                                 A7E9B7FC12D37EC400DA6239 /* sharedkstest.cpp */,
1354                                 A7E9B7FD12D37EC400DA6239 /* sharedkstest.h */,
1355                                 A7E9B7FE12D37EC400DA6239 /* sharedkulczynski.cpp */,
1356                                 A7E9B7FF12D37EC400DA6239 /* sharedkulczynski.h */,
1357                                 A7E9B80012D37EC400DA6239 /* sharedkulczynskicody.cpp */,
1358                                 A7E9B80112D37EC400DA6239 /* sharedkulczynskicody.h */,
1359                                 A7E9B80212D37EC400DA6239 /* sharedlennon.cpp */,
1360                                 A7E9B80312D37EC400DA6239 /* sharedlennon.h */,
1361                                 A7E9B80612D37EC400DA6239 /* sharedmarczewski.cpp */,
1362                                 A7E9B80712D37EC400DA6239 /* sharedmarczewski.h */,
1363                                 A7E9B80812D37EC400DA6239 /* sharedmorisitahorn.cpp */,
1364                                 A7E9B80912D37EC400DA6239 /* sharedmorisitahorn.h */,
1365                                 A7E9B80A12D37EC400DA6239 /* sharednseqs.h */,
1366                                 A7E9B80B12D37EC400DA6239 /* sharedochiai.cpp */,
1367                                 A7E9B80C12D37EC400DA6239 /* sharedochiai.h */,
1368                                 A7E9B81512D37EC400DA6239 /* sharedsobs.cpp */,
1369                                 A7E9B81612D37EC400DA6239 /* sharedsobs.h */,
1370                                 A7E9B81712D37EC400DA6239 /* sharedsobscollectsummary.cpp */,
1371                                 A7E9B81812D37EC400DA6239 /* sharedsobscollectsummary.h */,
1372                                 A7E9B81912D37EC400DA6239 /* sharedsorabund.cpp */,
1373                                 A7E9B81A12D37EC400DA6239 /* sharedsorabund.h */,
1374                                 A7E9B81B12D37EC400DA6239 /* sharedsorclass.cpp */,
1375                                 A7E9B81C12D37EC400DA6239 /* sharedsorclass.h */,
1376                                 A7E9B81D12D37EC400DA6239 /* sharedsorest.cpp */,
1377                                 A7E9B81E12D37EC400DA6239 /* sharedsorest.h */,
1378                                 A7E9B81F12D37EC400DA6239 /* sharedthetan.cpp */,
1379                                 A7E9B82012D37EC400DA6239 /* sharedthetan.h */,
1380                                 A7E9B82112D37EC400DA6239 /* sharedthetayc.cpp */,
1381                                 A7E9B82212D37EC400DA6239 /* sharedthetayc.h */,
1382                                 A7E9B82512D37EC400DA6239 /* shen.cpp */,
1383                                 A7E9B82612D37EC400DA6239 /* shen.h */,
1384                                 A7E9B82912D37EC400DA6239 /* simpson.cpp */,
1385                                 A7E9B82A12D37EC400DA6239 /* simpson.h */,
1386                                 A7E9B82B12D37EC400DA6239 /* simpsoneven.cpp */,
1387                                 A7E9B82C12D37EC400DA6239 /* simpsoneven.h */,
1388                                 A7E9B83212D37EC400DA6239 /* smithwilson.cpp */,
1389                                 A7E9B83312D37EC400DA6239 /* smithwilson.h */,
1390                                 A7E9B83412D37EC400DA6239 /* sobs.h */,
1391                                 A7E9B83512D37EC400DA6239 /* soergel.cpp */,
1392                                 A7E9B83612D37EC400DA6239 /* soergel.h */,
1393                                 A7E9B83712D37EC400DA6239 /* solow.cpp */,
1394                                 A7E9B83812D37EC400DA6239 /* solow.h */,
1395                                 A7E9B83B12D37EC400DA6239 /* spearman.cpp */,
1396                                 A7E9B83C12D37EC400DA6239 /* spearman.h */,
1397                                 A7E9B83D12D37EC400DA6239 /* speciesprofile.cpp */,
1398                                 A7E9B83E12D37EC400DA6239 /* speciesprofile.h */,
1399                                 A7E9B84512D37EC400DA6239 /* structchi2.cpp */,
1400                                 A7E9B84612D37EC400DA6239 /* structchi2.h */,
1401                                 A7E9B84712D37EC400DA6239 /* structchord.cpp */,
1402                                 A7E9B84812D37EC400DA6239 /* structchord.h */,
1403                                 A7E9B84912D37EC400DA6239 /* structeuclidean.cpp */,
1404                                 A7E9B84A12D37EC400DA6239 /* structeuclidean.h */,
1405                                 A7E9B84B12D37EC400DA6239 /* structkulczynski.cpp */,
1406                                 A7E9B84C12D37EC400DA6239 /* structkulczynski.h */,
1407                                 A7E9B84D12D37EC400DA6239 /* structpearson.cpp */,
1408                                 A7E9B84E12D37EC400DA6239 /* structpearson.h */,
1409                                 A7E9B86112D37EC400DA6239 /* treecalculator.h */,
1410                                 A7E9B87012D37EC400DA6239 /* unweighted.cpp */,
1411                                 A7E9B87112D37EC400DA6239 /* unweighted.h */,
1412                                 A7E9B87212D37EC400DA6239 /* uvest.cpp */,
1413                                 A7E9B87312D37EC400DA6239 /* uvest.h */,
1414                                 A7E9B87C12D37EC400DA6239 /* weighted.cpp */,
1415                                 A7E9B87D12D37EC400DA6239 /* weighted.h */,
1416                                 A7E9B87F12D37EC400DA6239 /* whittaker.cpp */,
1417                                 A7E9B88012D37EC400DA6239 /* whittaker.h */,
1418                         );
1419                         name = calculators;
1420                         sourceTree = "<group>";
1421                 };
1422                 A7E9BA4212D3960D00DA6239 /* containers */ = {
1423                         isa = PBXGroup;
1424                         children = (
1425                                 A7E9B65312D37EC300DA6239 /* alignment.cpp */,
1426                                 A7E9B65412D37EC300DA6239 /* alignment.hpp */,
1427                                 A7E9B65512D37EC300DA6239 /* alignmentcell.cpp */,
1428                                 A7E9B65612D37EC300DA6239 /* alignmentcell.hpp */,
1429                                 A7E9B65712D37EC300DA6239 /* alignmentdb.cpp */,
1430                                 A7E9B65812D37EC300DA6239 /* alignmentdb.h */,
1431                                 A7E9B66212D37EC300DA6239 /* blastalign.cpp */,
1432                                 A7E9B66312D37EC400DA6239 /* blastalign.hpp */,
1433                                 A7E9B66412D37EC400DA6239 /* blastdb.cpp */,
1434                                 A7E9B66512D37EC400DA6239 /* blastdb.hpp */,
1435                                 A7E9B6BD12D37EC400DA6239 /* database.cpp */,
1436                                 A7E9B6BE12D37EC400DA6239 /* database.hpp */,
1437                                 A7E9B6BF12D37EC400DA6239 /* datavector.hpp */,
1438                                 A7E9B6CD12D37EC400DA6239 /* distancedb.cpp */,
1439                                 A7E9B6CE12D37EC400DA6239 /* distancedb.hpp */,
1440                                 A7E9B6DE12D37EC400DA6239 /* fastamap.cpp */,
1441                                 A7E9B6DF12D37EC400DA6239 /* fastamap.h */,
1442                                 A7E9B6E812D37EC400DA6239 /* flowdata.h */,
1443                                 A7E9B6E712D37EC400DA6239 /* flowdata.cpp */,
1444                                 A7E9B6EE12D37EC400DA6239 /* fullmatrix.cpp */,
1445                                 A7E9B6EF12D37EC400DA6239 /* fullmatrix.h */,
1446                                 A7E9B71412D37EC400DA6239 /* groupmap.cpp */,
1447                                 A7E9B71512D37EC400DA6239 /* groupmap.h */,
1448                                 A7E9B73312D37EC400DA6239 /* kmer.cpp */,
1449                                 A7E9B73412D37EC400DA6239 /* kmer.hpp */,
1450                                 A7E9B73512D37EC400DA6239 /* kmerdb.cpp */,
1451                                 A7E9B73612D37EC400DA6239 /* kmerdb.hpp */,
1452                                 A7E9B73F12D37EC400DA6239 /* listvector.cpp */,
1453                                 A7E9B74012D37EC400DA6239 /* listvector.hpp */,
1454                                 A7E9B75F12D37EC400DA6239 /* nameassignment.cpp */,
1455                                 A7E9B76012D37EC400DA6239 /* nameassignment.hpp */,
1456                                 A7E9B77712D37EC400DA6239 /* ordervector.cpp */,
1457                                 A7E9B77812D37EC400DA6239 /* ordervector.hpp */,
1458                                 A7E9B79F12D37EC400DA6239 /* qualityscores.cpp */,
1459                                 A7E9B7A012D37EC400DA6239 /* qualityscores.h */,
1460                                 A7E9B7A312D37EC400DA6239 /* rabundvector.cpp */,
1461                                 A7E9B7A412D37EC400DA6239 /* rabundvector.hpp */,
1462                                 A7E9B7CB12D37EC400DA6239 /* reportfile.cpp */,
1463                                 A7E9B7CC12D37EC400DA6239 /* reportfile.h */,
1464                                 A7E9B7CF12D37EC400DA6239 /* sabundvector.cpp */,
1465                                 A7E9B7D012D37EC400DA6239 /* sabundvector.hpp */,
1466                                 A7E9B7DB12D37EC400DA6239 /* sequence.cpp */,
1467                                 A7E9B7DC12D37EC400DA6239 /* sequence.hpp */,
1468                                 A7E9B7DD12D37EC400DA6239 /* sequencedb.cpp */,
1469                                 A7E9B7DE12D37EC400DA6239 /* sequencedb.h */,
1470                                 A7E9B80412D37EC400DA6239 /* sharedlistvector.cpp */,
1471                                 A7E9B80512D37EC400DA6239 /* sharedlistvector.h */,
1472                                 A7E9B80D12D37EC400DA6239 /* sharedordervector.cpp */,
1473                                 A7E9B80E12D37EC400DA6239 /* sharedordervector.h */,
1474                                 A7E9B80F12D37EC400DA6239 /* sharedrabundfloatvector.cpp */,
1475                                 A7E9B81012D37EC400DA6239 /* sharedrabundfloatvector.h */,
1476                                 A7E9B81112D37EC400DA6239 /* sharedrabundvector.cpp */,
1477                                 A7E9B81212D37EC400DA6239 /* sharedrabundvector.h */,
1478                                 A7E9B81312D37EC400DA6239 /* sharedsabundvector.cpp */,
1479                                 A7E9B81412D37EC400DA6239 /* sharedsabundvector.h */,
1480                                 A7E9B83912D37EC400DA6239 /* sparsematrix.cpp */,
1481                                 A7E9B83A12D37EC400DA6239 /* sparsematrix.hpp */,
1482                                 A7E9B85F12D37EC400DA6239 /* tree.cpp */,
1483                                 A7E9B86012D37EC400DA6239 /* tree.h */,
1484                                 A7E9B86412D37EC400DA6239 /* treemap.cpp */,
1485                                 A7E9B86512D37EC400DA6239 /* treemap.h */,
1486                                 A7E9B86612D37EC400DA6239 /* treenode.cpp */,
1487                                 A7E9B86712D37EC400DA6239 /* treenode.h */,
1488                         );
1489                         name = containers;
1490                         sourceTree = "<group>";
1491                 };
1492                 A7E9BA4512D3965600DA6239 /* chimera */ = {
1493                         isa = PBXGroup;
1494                         children = (
1495                                 A7E9B65C12D37EC300DA6239 /* bellerophon.cpp */,
1496                                 A7E9B65D12D37EC300DA6239 /* bellerophon.h */,
1497                                 A7E9B67412D37EC400DA6239 /* ccode.cpp */,
1498                                 A7E9B67512D37EC400DA6239 /* ccode.h */,
1499                                 A7E9B67812D37EC400DA6239 /* chimera.cpp */,
1500                                 A7E9B67912D37EC400DA6239 /* chimera.h */,
1501                                 A7E9B68012D37EC400DA6239 /* chimeracheckrdp.cpp */,
1502                                 A7E9B68112D37EC400DA6239 /* chimeracheckrdp.h */,
1503                                 A7E9B68412D37EC400DA6239 /* chimerarealigner.cpp */,
1504                                 A7E9B68512D37EC400DA6239 /* chimerarealigner.h */,
1505                                 A7E9B68812D37EC400DA6239 /* chimeraslayer.cpp */,
1506                                 A7E9B68912D37EC400DA6239 /* chimeraslayer.h */,
1507                                 A7E9B6C112D37EC400DA6239 /* decalc.cpp */,
1508                                 A7E9B74612D37EC400DA6239 /* maligner.h */,
1509                                 A7E9B6C212D37EC400DA6239 /* decalc.h */,
1510                                 A7E9B74512D37EC400DA6239 /* maligner.cpp */,
1511                                 A7E9B79312D37EC400DA6239 /* pintail.cpp */,
1512                                 A7E9B79412D37EC400DA6239 /* pintail.h */,
1513                                 A7E9B82E12D37EC400DA6239 /* slayer.cpp */,
1514                                 A7E9B82F12D37EC400DA6239 /* slayer.h */,
1515                         );
1516                         name = chimera;
1517                         sourceTree = "<group>";
1518                 };
1519                 A7E9BA4B12D3966900DA6239 /* classifier */ = {
1520                         isa = PBXGroup;
1521                         children = (
1522                                 A7E9B65A12D37EC300DA6239 /* bayesian.cpp */,
1523                                 A7E9B65B12D37EC300DA6239 /* bayesian.h */,
1524                                 A7E9B68E12D37EC400DA6239 /* classify.cpp */,
1525                                 A7E9B68F12D37EC400DA6239 /* classify.h */,
1526                                 A7E9B73812D37EC400DA6239 /* knn.h */,
1527                                 A7E9B73712D37EC400DA6239 /* knn.cpp */,
1528                                 A7E9B78912D37EC400DA6239 /* phylodiversity.cpp */,
1529                                 A7E9B78A12D37EC400DA6239 /* phylodiversity.h */,
1530                                 A7E9B78D12D37EC400DA6239 /* phylosummary.cpp */,
1531                                 A7E9B78E12D37EC400DA6239 /* phylosummary.h */,
1532                                 A7E9B78F12D37EC400DA6239 /* phylotree.cpp */,
1533                                 A7E9B79012D37EC400DA6239 /* phylotree.h */,
1534                                 A7E9B85D12D37EC400DA6239 /* taxonomyequalizer.cpp */,
1535                                 A7E9B85E12D37EC400DA6239 /* taxonomyequalizer.h */,
1536                         );
1537                         name = classifier;
1538                         sourceTree = "<group>";
1539                 };
1540                 A7E9BA4F12D398D700DA6239 /* clearcut */ = {
1541                         isa = PBXGroup;
1542                         children = (
1543                                 A7E9B69412D37EC400DA6239 /* clearcut.cpp */,
1544                                 A7E9B69512D37EC400DA6239 /* clearcut.h */,
1545                                 A7E9B6B312D37EC400DA6239 /* common.h */,
1546                                 A7E9B6CF12D37EC400DA6239 /* distclearcut.cpp */,
1547                                 A7E9B6D012D37EC400DA6239 /* distclearcut.h */,
1548                                 A7E9B6D312D37EC400DA6239 /* dmat.cpp */,
1549                                 A7E9B6D412D37EC400DA6239 /* dmat.h */,
1550                                 A7E9B6DC12D37EC400DA6239 /* fasta.cpp */,
1551                                 A7E9B6DD12D37EC400DA6239 /* fasta.h */,
1552                                 A7E9B6FD12D37EC400DA6239 /* getopt_long.h */,
1553                                 A7E9B6FC12D37EC400DA6239 /* getopt_long.cpp */,
1554                         );
1555                         name = clearcut;
1556                         sourceTree = "<group>";
1557                 };
1558                 A7E9BA5312D39A5E00DA6239 /* read */ = {
1559                         isa = PBXGroup;
1560                         children = (
1561                                 A7E9B6E912D37EC400DA6239 /* formatcolumn.cpp */,
1562                                 A7E9B6EA12D37EC400DA6239 /* formatcolumn.h */,
1563                                 A7E9B6EB12D37EC400DA6239 /* formatmatrix.h */,
1564                                 A7E9B6EC12D37EC400DA6239 /* formatphylip.cpp */,
1565                                 A7E9B6ED12D37EC400DA6239 /* formatphylip.h */,
1566                                 A7E9B7B012D37EC400DA6239 /* readblast.cpp */,
1567                                 A7E9B7B112D37EC400DA6239 /* readblast.h */,
1568                                 A7E9B7B212D37EC400DA6239 /* readcluster.cpp */,
1569                                 A7E9B7B312D37EC400DA6239 /* readcluster.h */,
1570                                 A7E9B7B412D37EC400DA6239 /* readcolumn.cpp */,
1571                                 A7E9B7B512D37EC400DA6239 /* readcolumn.h */,
1572                                 A7E9B7B812D37EC400DA6239 /* readmatrix.hpp */,
1573                                 A7E9B7B912D37EC400DA6239 /* readotu.cpp */,
1574                                 A7E9B7BA12D37EC400DA6239 /* readotu.h */,
1575                                 A7E9B7BD12D37EC400DA6239 /* readphylip.cpp */,
1576                                 A7E9B7BE12D37EC400DA6239 /* readphylip.h */,
1577                                 A7E9B7BF12D37EC400DA6239 /* readtree.cpp */,
1578                                 A7E9B7C012D37EC400DA6239 /* readtree.h */,
1579                                 A713EBAA12DC7613000092AC /* readphylipvector.h */,
1580                                 A713EBAB12DC7613000092AC /* readphylipvector.cpp */,
1581                                 A7E9B84312D37EC400DA6239 /* splitmatrix.cpp */,
1582                                 A7E9B84412D37EC400DA6239 /* splitmatrix.h */,
1583                         );
1584                         name = read;
1585                         sourceTree = "<group>";
1586                 };
1587                 A7E9BA5612D39BD800DA6239 /* metastats */ = {
1588                         isa = PBXGroup;
1589                         children = (
1590                                 A7E9B75512D37EC400DA6239 /* metastats.h */,
1591                                 A7E9B75612D37EC400DA6239 /* metastats2.c */,
1592                         );
1593                         name = metastats;
1594                         sourceTree = "<group>";
1595                 };
1596                 C6A0FF2B0290797F04C91782 /* Documentation */ = {
1597                         isa = PBXGroup;
1598                         children = (
1599                                 C6A0FF2C0290799A04C91782 /* mothur.1 */,
1600                         );
1601                         name = Documentation;
1602                         sourceTree = "<group>";
1603                 };
1604 /* End PBXGroup section */
1605
1606 /* Begin PBXNativeTarget section */
1607                 8DD76FA90486AB0100D96B5E /* Mothur */ = {
1608                         isa = PBXNativeTarget;
1609                         buildConfigurationList = 1DEB928508733DD80010E9CD /* Build configuration list for PBXNativeTarget "Mothur" */;
1610                         buildPhases = (
1611                                 8DD76FAB0486AB0100D96B5E /* Sources */,
1612                                 8DD76FAD0486AB0100D96B5E /* Frameworks */,
1613                                 8DD76FAF0486AB0100D96B5E /* CopyFiles */,
1614                         );
1615                         buildRules = (
1616                         );
1617                         dependencies = (
1618                         );
1619                         name = Mothur;
1620                         productInstallPath = "$(HOME)/bin";
1621                         productName = mothur;
1622                         productReference = 8DD76FB20486AB0100D96B5E /* Mothur */;
1623                         productType = "com.apple.product-type.tool";
1624                 };
1625 /* End PBXNativeTarget section */
1626
1627 /* Begin PBXProject section */
1628                 08FB7793FE84155DC02AAC07 /* Project object */ = {
1629                         isa = PBXProject;
1630                         attributes = {
1631                                 ORGANIZATIONNAME = "Schloss Lab";
1632                         };
1633                         buildConfigurationList = 1DEB928908733DD80010E9CD /* Build configuration list for PBXProject "Mothur" */;
1634                         compatibilityVersion = "Xcode 3.1";
1635                         developmentRegion = English;
1636                         hasScannedForEncodings = 1;
1637                         knownRegions = (
1638                                 English,
1639                                 Japanese,
1640                                 French,
1641                                 German,
1642                         );
1643                         mainGroup = 08FB7794FE84155DC02AAC07 /* mothur */;
1644                         projectDirPath = "";
1645                         projectRoot = "";
1646                         targets = (
1647                                 8DD76FA90486AB0100D96B5E /* Mothur */,
1648                         );
1649                 };
1650 /* End PBXProject section */
1651
1652 /* Begin PBXSourcesBuildPhase section */
1653                 8DD76FAB0486AB0100D96B5E /* Sources */ = {
1654                         isa = PBXSourcesBuildPhase;
1655                         buildActionMask = 2147483647;
1656                         files = (
1657                                 A7E9B88112D37EC400DA6239 /* ace.cpp in Sources */,
1658                                 A7E9B88212D37EC400DA6239 /* aligncommand.cpp in Sources */,
1659                                 A7E9B88312D37EC400DA6239 /* alignment.cpp in Sources */,
1660                                 A7E9B88412D37EC400DA6239 /* alignmentcell.cpp in Sources */,
1661                                 A7E9B88512D37EC400DA6239 /* alignmentdb.cpp in Sources */,
1662                                 A7E9B88612D37EC400DA6239 /* averagelinkage.cpp in Sources */,
1663                                 A7E9B88712D37EC400DA6239 /* bayesian.cpp in Sources */,
1664                                 A7E9B88812D37EC400DA6239 /* bellerophon.cpp in Sources */,
1665                                 A7E9B88912D37EC400DA6239 /* bergerparker.cpp in Sources */,
1666                                 A7E9B88A12D37EC400DA6239 /* binsequencecommand.cpp in Sources */,
1667                                 A7E9B88B12D37EC400DA6239 /* blastalign.cpp in Sources */,
1668                                 A7E9B88C12D37EC400DA6239 /* blastdb.cpp in Sources */,
1669                                 A7E9B88D12D37EC400DA6239 /* boneh.cpp in Sources */,
1670                                 A7E9B88E12D37EC400DA6239 /* bootstrap.cpp in Sources */,
1671                                 A7E9B88F12D37EC400DA6239 /* bootstrapsharedcommand.cpp in Sources */,
1672                                 A7E9B89012D37EC400DA6239 /* bstick.cpp in Sources */,
1673                                 A7E9B89112D37EC400DA6239 /* calculator.cpp in Sources */,
1674                                 A7E9B89212D37EC400DA6239 /* canberra.cpp in Sources */,
1675                                 A7E9B89312D37EC400DA6239 /* catchallcommand.cpp in Sources */,
1676                                 A7E9B89412D37EC400DA6239 /* ccode.cpp in Sources */,
1677                                 A7E9B89512D37EC400DA6239 /* chao1.cpp in Sources */,
1678                                 A7E9B89612D37EC400DA6239 /* chimera.cpp in Sources */,
1679                                 A7E9B89712D37EC400DA6239 /* chimerabellerophoncommand.cpp in Sources */,
1680                                 A7E9B89812D37EC400DA6239 /* chimeraccodecommand.cpp in Sources */,
1681                                 A7E9B89912D37EC400DA6239 /* chimeracheckcommand.cpp in Sources */,
1682                                 A7E9B89A12D37EC400DA6239 /* chimeracheckrdp.cpp in Sources */,
1683                                 A7E9B89B12D37EC400DA6239 /* chimerapintailcommand.cpp in Sources */,
1684                                 A7E9B89C12D37EC400DA6239 /* chimerarealigner.cpp in Sources */,
1685                                 A7E9B89D12D37EC400DA6239 /* chimeraseqscommand.cpp in Sources */,
1686                                 A7E9B89E12D37EC400DA6239 /* chimeraslayer.cpp in Sources */,
1687                                 A7E9B89F12D37EC400DA6239 /* chimeraslayercommand.cpp in Sources */,
1688                                 A7E9B8A012D37EC400DA6239 /* chopseqscommand.cpp in Sources */,
1689                                 A7E9B8A112D37EC400DA6239 /* classify.cpp in Sources */,
1690                                 A7E9B8A212D37EC400DA6239 /* classifyotucommand.cpp in Sources */,
1691                                 A7E9B8A312D37EC400DA6239 /* classifyseqscommand.cpp in Sources */,
1692                                 A7E9B8A412D37EC400DA6239 /* clearcut.cpp in Sources */,
1693                                 A7E9B8A512D37EC400DA6239 /* clearcutcommand.cpp in Sources */,
1694                                 A7E9B8A612D37EC400DA6239 /* cluster.cpp in Sources */,
1695                                 A7E9B8A712D37EC400DA6239 /* clusterclassic.cpp in Sources */,
1696                                 A7E9B8A812D37EC400DA6239 /* clustercommand.cpp in Sources */,
1697                                 A7E9B8A912D37EC400DA6239 /* clusterdoturcommand.cpp in Sources */,
1698                                 A7E9B8AA12D37EC400DA6239 /* clusterfragmentscommand.cpp in Sources */,
1699                                 A7E9B8AB12D37EC400DA6239 /* clustersplitcommand.cpp in Sources */,
1700                                 A7E9B8AC12D37EC400DA6239 /* cmdargs.cpp in Sources */,
1701                                 A7E9B8AD12D37EC400DA6239 /* collect.cpp in Sources */,
1702                                 A7E9B8AE12D37EC400DA6239 /* collectcommand.cpp in Sources */,
1703                                 A7E9B8AF12D37EC400DA6239 /* collectsharedcommand.cpp in Sources */,
1704                                 A7E9B8B012D37EC400DA6239 /* commandfactory.cpp in Sources */,
1705                                 A7E9B8B112D37EC400DA6239 /* commandoptionparser.cpp in Sources */,
1706                                 A7E9B8B212D37EC400DA6239 /* completelinkage.cpp in Sources */,
1707                                 A7E9B8B312D37EC400DA6239 /* consensuscommand.cpp in Sources */,
1708                                 A7E9B8B412D37EC400DA6239 /* consensusseqscommand.cpp in Sources */,
1709                                 A7E9B8B512D37EC400DA6239 /* corraxescommand.cpp in Sources */,
1710                                 A7E9B8B612D37EC400DA6239 /* coverage.cpp in Sources */,
1711                                 A7E9B8B712D37EC400DA6239 /* database.cpp in Sources */,
1712                                 A7E9B8B812D37EC400DA6239 /* decalc.cpp in Sources */,
1713                                 A7E9B8B912D37EC400DA6239 /* deconvolutecommand.cpp in Sources */,
1714                                 A7E9B8BA12D37EC400DA6239 /* degapseqscommand.cpp in Sources */,
1715                                 A7E9B8BB12D37EC400DA6239 /* deuniqueseqscommand.cpp in Sources */,
1716                                 A7E9B8BC12D37EC400DA6239 /* distancecommand.cpp in Sources */,
1717                                 A7E9B8BD12D37EC400DA6239 /* distancedb.cpp in Sources */,
1718                                 A7E9B8BE12D37EC400DA6239 /* distclearcut.cpp in Sources */,
1719                                 A7E9B8BF12D37EC400DA6239 /* dlibshuff.cpp in Sources */,
1720                                 A7E9B8C012D37EC400DA6239 /* dmat.cpp in Sources */,
1721                                 A7E9B8C112D37EC400DA6239 /* efron.cpp in Sources */,
1722                                 A7E9B8C212D37EC400DA6239 /* engine.cpp in Sources */,
1723                                 A7E9B8C312D37EC400DA6239 /* fasta.cpp in Sources */,
1724                                 A7E9B8C412D37EC400DA6239 /* fastamap.cpp in Sources */,
1725                                 A7E9B8C512D37EC400DA6239 /* fileoutput.cpp in Sources */,
1726                                 A7E9B8C612D37EC400DA6239 /* filterseqscommand.cpp in Sources */,
1727                                 A7E9B8C712D37EC400DA6239 /* fisher2.c in Sources */,
1728                                 A7E9B8C812D37EC400DA6239 /* flowdata.cpp in Sources */,
1729                                 A7E9B8C912D37EC400DA6239 /* formatcolumn.cpp in Sources */,
1730                                 A7E9B8CA12D37EC400DA6239 /* formatphylip.cpp in Sources */,
1731                                 A7E9B8CB12D37EC400DA6239 /* fullmatrix.cpp in Sources */,
1732                                 A7E9B8CC12D37EC400DA6239 /* geom.cpp in Sources */,
1733                                 A7E9B8CD12D37EC400DA6239 /* getgroupcommand.cpp in Sources */,
1734                                 A7E9B8CE12D37EC400DA6239 /* getgroupscommand.cpp in Sources */,
1735                                 A7E9B8CF12D37EC400DA6239 /* getlabelcommand.cpp in Sources */,
1736                                 A7E9B8D012D37EC400DA6239 /* getlineagecommand.cpp in Sources */,
1737                                 A7E9B8D112D37EC400DA6239 /* getlistcountcommand.cpp in Sources */,
1738                                 A7E9B8D212D37EC400DA6239 /* getopt_long.cpp in Sources */,
1739                                 A7E9B8D312D37EC400DA6239 /* getoturepcommand.cpp in Sources */,
1740                                 A7E9B8D412D37EC400DA6239 /* getotuscommand.cpp in Sources */,
1741                                 A7E9B8D512D37EC400DA6239 /* getrabundcommand.cpp in Sources */,
1742                                 A7E9B8D612D37EC400DA6239 /* getrelabundcommand.cpp in Sources */,
1743                                 A7E9B8D712D37EC400DA6239 /* getsabundcommand.cpp in Sources */,
1744                                 A7E9B8D812D37EC400DA6239 /* getseqscommand.cpp in Sources */,
1745                                 A7E9B8D912D37EC400DA6239 /* getsharedotucommand.cpp in Sources */,
1746                                 A7E9B8DA12D37EC400DA6239 /* globaldata.cpp in Sources */,
1747                                 A7E9B8DB12D37EC400DA6239 /* goodscoverage.cpp in Sources */,
1748                                 A7E9B8DC12D37EC400DA6239 /* gotohoverlap.cpp in Sources */,
1749                                 A7E9B8DD12D37EC400DA6239 /* gower.cpp in Sources */,
1750                                 A7E9B8DE12D37EC400DA6239 /* groupmap.cpp in Sources */,
1751                                 A7E9B8DF12D37EC400DA6239 /* hamming.cpp in Sources */,
1752                                 A7E9B8E012D37EC400DA6239 /* hcluster.cpp in Sources */,
1753                                 A7E9B8E112D37EC400DA6239 /* hclustercommand.cpp in Sources */,
1754                                 A7E9B8E212D37EC400DA6239 /* heatmap.cpp in Sources */,
1755                                 A7E9B8E312D37EC400DA6239 /* heatmapcommand.cpp in Sources */,
1756                                 A7E9B8E412D37EC400DA6239 /* heatmapsim.cpp in Sources */,
1757                                 A7E9B8E512D37EC400DA6239 /* heatmapsimcommand.cpp in Sources */,
1758                                 A7E9B8E612D37EC400DA6239 /* heip.cpp in Sources */,
1759                                 A7E9B8E712D37EC400DA6239 /* hellinger.cpp in Sources */,
1760                                 A7E9B8E812D37EC400DA6239 /* helpcommand.cpp in Sources */,
1761                                 A7E9B8E912D37EC400DA6239 /* indicatorcommand.cpp in Sources */,
1762                                 A7E9B8EA12D37EC400DA6239 /* inputdata.cpp in Sources */,
1763                                 A7E9B8EB12D37EC400DA6239 /* invsimpson.cpp in Sources */,
1764                                 A7E9B8EC12D37EC400DA6239 /* jackknife.cpp in Sources */,
1765                                 A7E9B8ED12D37EC400DA6239 /* kmer.cpp in Sources */,
1766                                 A7E9B8EE12D37EC400DA6239 /* kmerdb.cpp in Sources */,
1767                                 A7E9B8EF12D37EC400DA6239 /* knn.cpp in Sources */,
1768                                 A7E9B8F012D37EC400DA6239 /* libshuff.cpp in Sources */,
1769                                 A7E9B8F112D37EC400DA6239 /* libshuffcommand.cpp in Sources */,
1770                                 A7E9B8F212D37EC400DA6239 /* listseqscommand.cpp in Sources */,
1771                                 A7E9B8F312D37EC400DA6239 /* listvector.cpp in Sources */,
1772                                 A7E9B8F412D37EC400DA6239 /* logsd.cpp in Sources */,
1773                                 A7E9B8F512D37EC400DA6239 /* makegroupcommand.cpp in Sources */,
1774                                 A7E9B8F612D37EC400DA6239 /* maligner.cpp in Sources */,
1775                                 A7E9B8F712D37EC400DA6239 /* manhattan.cpp in Sources */,
1776                                 A7E9B8F812D37EC400DA6239 /* matrixoutputcommand.cpp in Sources */,
1777                                 A7E9B8F912D37EC400DA6239 /* memchi2.cpp in Sources */,
1778                                 A7E9B8FA12D37EC400DA6239 /* memchord.cpp in Sources */,
1779                                 A7E9B8FB12D37EC400DA6239 /* memeuclidean.cpp in Sources */,
1780                                 A7E9B8FC12D37EC400DA6239 /* mempearson.cpp in Sources */,
1781                                 A7E9B8FD12D37EC400DA6239 /* mergefilecommand.cpp in Sources */,
1782                                 A7E9B8FE12D37EC400DA6239 /* metastats2.c in Sources */,
1783                                 A7E9B8FF12D37EC400DA6239 /* metastatscommand.cpp in Sources */,
1784                                 A7E9B90012D37EC400DA6239 /* mgclustercommand.cpp in Sources */,
1785                                 A7E9B90112D37EC400DA6239 /* mothur.cpp in Sources */,
1786                                 A7E9B90212D37EC400DA6239 /* mothurout.cpp in Sources */,
1787                                 A7E9B90312D37EC400DA6239 /* nameassignment.cpp in Sources */,
1788                                 A7E9B90412D37EC400DA6239 /* nast.cpp in Sources */,
1789                                 A7E9B90512D37EC400DA6239 /* nastreport.cpp in Sources */,
1790                                 A7E9B90612D37EC400DA6239 /* needlemanoverlap.cpp in Sources */,
1791                                 A7E9B90712D37EC400DA6239 /* noalign.cpp in Sources */,
1792                                 A7E9B90812D37EC400DA6239 /* nocommands.cpp in Sources */,
1793                                 A7E9B90912D37EC400DA6239 /* normalizesharedcommand.cpp in Sources */,
1794                                 A7E9B90A12D37EC400DA6239 /* npshannon.cpp in Sources */,
1795                                 A7E9B90B12D37EC400DA6239 /* odum.cpp in Sources */,
1796                                 A7E9B90C12D37EC400DA6239 /* optionparser.cpp in Sources */,
1797                                 A7E9B90D12D37EC400DA6239 /* ordervector.cpp in Sources */,
1798                                 A7E9B90E12D37EC400DA6239 /* otuhierarchycommand.cpp in Sources */,
1799                                 A7E9B90F12D37EC400DA6239 /* overlap.cpp in Sources */,
1800                                 A7E9B91012D37EC400DA6239 /* pairwiseseqscommand.cpp in Sources */,
1801                                 A7E9B91112D37EC400DA6239 /* parsefastaqcommand.cpp in Sources */,
1802                                 A7E9B91212D37EC400DA6239 /* parselistscommand.cpp in Sources */,
1803                                 A7E9B91312D37EC400DA6239 /* parsimony.cpp in Sources */,
1804                                 A7E9B91412D37EC400DA6239 /* parsimonycommand.cpp in Sources */,
1805                                 A7E9B91512D37EC400DA6239 /* pcoacommand.cpp in Sources */,
1806                                 A7E9B91612D37EC400DA6239 /* phylodiversity.cpp in Sources */,
1807                                 A7E9B91712D37EC400DA6239 /* phylodiversitycommand.cpp in Sources */,
1808                                 A7E9B91812D37EC400DA6239 /* phylosummary.cpp in Sources */,
1809                                 A7E9B91912D37EC400DA6239 /* phylotree.cpp in Sources */,
1810                                 A7E9B91A12D37EC400DA6239 /* phylotypecommand.cpp in Sources */,
1811                                 A7E9B91B12D37EC400DA6239 /* pintail.cpp in Sources */,
1812                                 A7E9B91C12D37EC400DA6239 /* pipelinepdscommand.cpp in Sources */,
1813                                 A7E9B91D12D37EC400DA6239 /* preclustercommand.cpp in Sources */,
1814                                 A7E9B91E12D37EC400DA6239 /* prng.cpp in Sources */,
1815                                 A7E9B91F12D37EC400DA6239 /* progress.cpp in Sources */,
1816                                 A7E9B92012D37EC400DA6239 /* qstat.cpp in Sources */,
1817                                 A7E9B92112D37EC400DA6239 /* qualityscores.cpp in Sources */,
1818                                 A7E9B92212D37EC400DA6239 /* quitcommand.cpp in Sources */,
1819                                 A7E9B92312D37EC400DA6239 /* rabundvector.cpp in Sources */,
1820                                 A7E9B92412D37EC400DA6239 /* rarecalc.cpp in Sources */,
1821                                 A7E9B92512D37EC400DA6239 /* raredisplay.cpp in Sources */,
1822                                 A7E9B92612D37EC400DA6239 /* rarefact.cpp in Sources */,
1823                                 A7E9B92712D37EC400DA6239 /* rarefactcommand.cpp in Sources */,
1824                                 A7E9B92812D37EC400DA6239 /* rarefactsharedcommand.cpp in Sources */,
1825                                 A7E9B92912D37EC400DA6239 /* readblast.cpp in Sources */,
1826                                 A7E9B92A12D37EC400DA6239 /* readcluster.cpp in Sources */,
1827                                 A7E9B92B12D37EC400DA6239 /* readcolumn.cpp in Sources */,
1828                                 A7E9B92C12D37EC400DA6239 /* readdistcommand.cpp in Sources */,
1829                                 A7E9B92D12D37EC400DA6239 /* readotu.cpp in Sources */,
1830                                 A7E9B92E12D37EC400DA6239 /* readotucommand.cpp in Sources */,
1831                                 A7E9B92F12D37EC400DA6239 /* readphylip.cpp in Sources */,
1832                                 A7E9B93012D37EC400DA6239 /* readtree.cpp in Sources */,
1833                                 A7E9B93112D37EC400DA6239 /* readtreecommand.cpp in Sources */,
1834                                 A7E9B93212D37EC400DA6239 /* removegroupscommand.cpp in Sources */,
1835                                 A7E9B93312D37EC400DA6239 /* removelineagecommand.cpp in Sources */,
1836                                 A7E9B93412D37EC400DA6239 /* removeotuscommand.cpp in Sources */,
1837                                 A7E9B93512D37EC400DA6239 /* removeseqscommand.cpp in Sources */,
1838                                 A7E9B93612D37EC400DA6239 /* reportfile.cpp in Sources */,
1839                                 A7E9B93712D37EC400DA6239 /* reversecommand.cpp in Sources */,
1840                                 A7E9B93812D37EC400DA6239 /* sabundvector.cpp in Sources */,
1841                                 A7E9B93912D37EC400DA6239 /* screenseqscommand.cpp in Sources */,
1842                                 A7E9B93A12D37EC400DA6239 /* secondarystructurecommand.cpp in Sources */,
1843                                 A7E9B93B12D37EC400DA6239 /* sensspeccommand.cpp in Sources */,
1844                                 A7E9B93C12D37EC400DA6239 /* seqerrorcommand.cpp in Sources */,
1845                                 A7E9B93D12D37EC400DA6239 /* seqsummarycommand.cpp in Sources */,
1846                                 A7E9B93E12D37EC400DA6239 /* sequence.cpp in Sources */,
1847                                 A7E9B93F12D37EC400DA6239 /* sequencedb.cpp in Sources */,
1848                                 A7E9B94012D37EC400DA6239 /* setdircommand.cpp in Sources */,
1849                                 A7E9B94112D37EC400DA6239 /* setlogfilecommand.cpp in Sources */,
1850                                 A7E9B94212D37EC400DA6239 /* sffinfocommand.cpp in Sources */,
1851                                 A7E9B94312D37EC400DA6239 /* shannon.cpp in Sources */,
1852                                 A7E9B94412D37EC400DA6239 /* shannoneven.cpp in Sources */,
1853                                 A7E9B94512D37EC400DA6239 /* sharedace.cpp in Sources */,
1854                                 A7E9B94612D37EC400DA6239 /* sharedanderbergs.cpp in Sources */,
1855                                 A7E9B94712D37EC400DA6239 /* sharedbraycurtis.cpp in Sources */,
1856                                 A7E9B94812D37EC400DA6239 /* sharedchao1.cpp in Sources */,
1857                                 A7E9B94912D37EC400DA6239 /* sharedcommand.cpp in Sources */,
1858                                 A7E9B94A12D37EC400DA6239 /* sharedjabund.cpp in Sources */,
1859                                 A7E9B94B12D37EC400DA6239 /* sharedjackknife.cpp in Sources */,
1860                                 A7E9B94C12D37EC400DA6239 /* sharedjclass.cpp in Sources */,
1861                                 A7E9B94D12D37EC400DA6239 /* sharedjest.cpp in Sources */,
1862                                 A7E9B94E12D37EC400DA6239 /* sharedkstest.cpp in Sources */,
1863                                 A7E9B94F12D37EC400DA6239 /* sharedkulczynski.cpp in Sources */,
1864                                 A7E9B95012D37EC400DA6239 /* sharedkulczynskicody.cpp in Sources */,
1865                                 A7E9B95112D37EC400DA6239 /* sharedlennon.cpp in Sources */,
1866                                 A7E9B95212D37EC400DA6239 /* sharedlistvector.cpp in Sources */,
1867                                 A7E9B95312D37EC400DA6239 /* sharedmarczewski.cpp in Sources */,
1868                                 A7E9B95412D37EC400DA6239 /* sharedmorisitahorn.cpp in Sources */,
1869                                 A7E9B95512D37EC400DA6239 /* sharedochiai.cpp in Sources */,
1870                                 A7E9B95612D37EC400DA6239 /* sharedordervector.cpp in Sources */,
1871                                 A7E9B95712D37EC400DA6239 /* sharedrabundfloatvector.cpp in Sources */,
1872                                 A7E9B95812D37EC400DA6239 /* sharedrabundvector.cpp in Sources */,
1873                                 A7E9B95912D37EC400DA6239 /* sharedsabundvector.cpp in Sources */,
1874                                 A7E9B95A12D37EC400DA6239 /* sharedsobs.cpp in Sources */,
1875                                 A7E9B95B12D37EC400DA6239 /* sharedsobscollectsummary.cpp in Sources */,
1876                                 A7E9B95C12D37EC400DA6239 /* sharedsorabund.cpp in Sources */,
1877                                 A7E9B95D12D37EC400DA6239 /* sharedsorclass.cpp in Sources */,
1878                                 A7E9B95E12D37EC400DA6239 /* sharedsorest.cpp in Sources */,
1879                                 A7E9B95F12D37EC400DA6239 /* sharedthetan.cpp in Sources */,
1880                                 A7E9B96012D37EC400DA6239 /* sharedthetayc.cpp in Sources */,
1881                                 A7E9B96112D37EC400DA6239 /* sharedutilities.cpp in Sources */,
1882                                 A7E9B96212D37EC400DA6239 /* shen.cpp in Sources */,
1883                                 A7E9B96312D37EC400DA6239 /* shhhercommand.cpp in Sources */,
1884                                 A7E9B96412D37EC400DA6239 /* simpson.cpp in Sources */,
1885                                 A7E9B96512D37EC400DA6239 /* simpsoneven.cpp in Sources */,
1886                                 A7E9B96612D37EC400DA6239 /* singlelinkage.cpp in Sources */,
1887                                 A7E9B96712D37EC400DA6239 /* slayer.cpp in Sources */,
1888                                 A7E9B96812D37EC400DA6239 /* slibshuff.cpp in Sources */,
1889                                 A7E9B96912D37EC400DA6239 /* smithwilson.cpp in Sources */,
1890                                 A7E9B96A12D37EC400DA6239 /* soergel.cpp in Sources */,
1891                                 A7E9B96B12D37EC400DA6239 /* solow.cpp in Sources */,
1892                                 A7E9B96C12D37EC400DA6239 /* sparsematrix.cpp in Sources */,
1893                                 A7E9B96D12D37EC400DA6239 /* spearman.cpp in Sources */,
1894                                 A7E9B96E12D37EC400DA6239 /* speciesprofile.cpp in Sources */,
1895                                 A7E9B96F12D37EC400DA6239 /* splitabundcommand.cpp in Sources */,
1896                                 A7E9B97012D37EC400DA6239 /* splitgroupscommand.cpp in Sources */,
1897                                 A7E9B97112D37EC400DA6239 /* splitmatrix.cpp in Sources */,
1898                                 A7E9B97212D37EC400DA6239 /* structchi2.cpp in Sources */,
1899                                 A7E9B97312D37EC400DA6239 /* structchord.cpp in Sources */,
1900                                 A7E9B97412D37EC400DA6239 /* structeuclidean.cpp in Sources */,
1901                                 A7E9B97512D37EC400DA6239 /* structkulczynski.cpp in Sources */,
1902                                 A7E9B97612D37EC400DA6239 /* structpearson.cpp in Sources */,
1903                                 A7E9B97712D37EC400DA6239 /* subsamplecommand.cpp in Sources */,
1904                                 A7E9B97812D37EC400DA6239 /* suffixdb.cpp in Sources */,
1905                                 A7E9B97912D37EC400DA6239 /* suffixnodes.cpp in Sources */,
1906                                 A7E9B97A12D37EC400DA6239 /* suffixtree.cpp in Sources */,
1907                                 A7E9B97B12D37EC400DA6239 /* summarycommand.cpp in Sources */,
1908                                 A7E9B97C12D37EC400DA6239 /* summarysharedcommand.cpp in Sources */,
1909                                 A7E9B97D12D37EC400DA6239 /* systemcommand.cpp in Sources */,
1910                                 A7E9B97E12D37EC400DA6239 /* taxonomyequalizer.cpp in Sources */,
1911                                 A7E9B97F12D37EC400DA6239 /* tree.cpp in Sources */,
1912                                 A7E9B98012D37EC400DA6239 /* treegroupscommand.cpp in Sources */,
1913                                 A7E9B98112D37EC400DA6239 /* treemap.cpp in Sources */,
1914                                 A7E9B98212D37EC400DA6239 /* treenode.cpp in Sources */,
1915                                 A7E9B98312D37EC400DA6239 /* trimflowscommand.cpp in Sources */,
1916                                 A7E9B98412D37EC400DA6239 /* trimseqscommand.cpp in Sources */,
1917                                 A7E9B98512D37EC400DA6239 /* unifracunweightedcommand.cpp in Sources */,
1918                                 A7E9B98612D37EC400DA6239 /* unifracweightedcommand.cpp in Sources */,
1919                                 A7E9B98712D37EC400DA6239 /* unweighted.cpp in Sources */,
1920                                 A7E9B98812D37EC400DA6239 /* uvest.cpp in Sources */,
1921                                 A7E9B98912D37EC400DA6239 /* validcalculator.cpp in Sources */,
1922                                 A7E9B98A12D37EC400DA6239 /* validparameter.cpp in Sources */,
1923                                 A7E9B98B12D37EC400DA6239 /* venn.cpp in Sources */,
1924                                 A7E9B98C12D37EC400DA6239 /* venncommand.cpp in Sources */,
1925                                 A7E9B98D12D37EC400DA6239 /* weighted.cpp in Sources */,
1926                                 A7E9B98E12D37EC400DA6239 /* weightedlinkage.cpp in Sources */,
1927                                 A7E9B98F12D37EC400DA6239 /* whittaker.cpp in Sources */,
1928                                 A70332B712D3A13400761E33 /* makefile in Sources */,
1929                                 A7FC480E12D788F20055BC5C /* linearalgebra.cpp in Sources */,
1930                                 A7FC486712D795D60055BC5C /* pcacommand.cpp in Sources */,
1931                                 A713EBAC12DC7613000092AC /* readphylipvector.cpp in Sources */,
1932                                 A713EBED12DC7C5E000092AC /* nmdscommand.cpp in Sources */,
1933                                 A727864412E9E28C00F86ABA /* removerarecommand.cpp in Sources */,
1934                                 A71FE12C12EDF72400963CA7 /* mergegroupscommand.cpp in Sources */,
1935                                 7E6BE10A12F710D8007ADDBE /* refchimeratest.cpp in Sources */,
1936                                 A7A61F2D130062E000E05B6B /* amovacommand.cpp in Sources */,
1937                                 A75790591301749D00A30DAB /* homovacommand.cpp in Sources */,
1938                                 A7FA10021302E097003860FE /* mantelcommand.cpp in Sources */,
1939                                 A799F5B91309A3E000AEEFA0 /* makefastqcommand.cpp in Sources */,
1940                                 A71CB160130B04A2001E7287 /* anosimcommand.cpp in Sources */,
1941                                 A7AACFBC132FE008003D6C4D /* currentfile.cpp in Sources */,
1942                         );
1943                         runOnlyForDeploymentPostprocessing = 0;
1944                 };
1945 /* End PBXSourcesBuildPhase section */
1946
1947 /* Begin XCBuildConfiguration section */
1948                 1DEB928608733DD80010E9CD /* Debug */ = {
1949                         isa = XCBuildConfiguration;
1950                         buildSettings = {
1951                                 ALWAYS_SEARCH_USER_PATHS = NO;
1952                                 COPY_PHASE_STRIP = NO;
1953                                 GCC_DYNAMIC_NO_PIC = NO;
1954                                 GCC_ENABLE_FIX_AND_CONTINUE = YES;
1955                                 GCC_MODEL_TUNING = G5;
1956                                 GCC_OPTIMIZATION_LEVEL = 0;
1957                                 INSTALL_PATH = /usr/local/bin;
1958                                 PRODUCT_NAME = Mothur;
1959                                 SDKROOT = macosx10.6;
1960                         };
1961                         name = Debug;
1962                 };
1963                 1DEB928708733DD80010E9CD /* Release */ = {
1964                         isa = XCBuildConfiguration;
1965                         buildSettings = {
1966                                 ALWAYS_SEARCH_USER_PATHS = NO;
1967                                 DEBUG_INFORMATION_FORMAT = "dwarf-with-dsym";
1968                                 DEPLOYMENT_LOCATION = YES;
1969                                 GCC_MODEL_TUNING = G5;
1970                                 GCC_WARN_UNUSED_VALUE = YES;
1971                                 INSTALL_PATH = ./;
1972                                 PRODUCT_NAME = Mothur;
1973                         };
1974                         name = Release;
1975                 };
1976                 1DEB928A08733DD80010E9CD /* Debug */ = {
1977                         isa = XCBuildConfiguration;
1978                         buildSettings = {
1979                                 ARCHS = "$(ARCHS_STANDARD_64_BIT)";
1980                                 DEPLOYMENT_LOCATION = NO;
1981                                 GCC_C_LANGUAGE_STANDARD = gnu99;
1982                                 GCC_OPTIMIZATION_LEVEL = 3;
1983                                 GCC_PREPROCESSOR_DEFINITIONS = (
1984                                         "MOTHUR_FILES=\"\\\"../release\\\"\"",
1985                                         "VERSION=\"\\\"1.17.3\\\"\"",
1986                                         "RELEASE_DATE=\"\\\"3/07/2011\\\"\"",
1987                                 );
1988                                 GCC_WARN_ABOUT_MISSING_NEWLINE = YES;
1989                                 GCC_WARN_ABOUT_RETURN_TYPE = YES;
1990                                 GCC_WARN_UNUSED_VARIABLE = YES;
1991                                 INSTALL_PATH = "";
1992                                 MACH_O_TYPE = mh_execute;
1993                                 ONLY_ACTIVE_ARCH = YES;
1994                                 OTHER_CPLUSPLUSFLAGS = (
1995                                         "-DBIT_VERSION",
1996                                         "-DUSE_READLINE",
1997                                         "$(OTHER_CFLAGS)",
1998                                 );
1999                                 OTHER_LDFLAGS = (
2000                                         "-lncurses",
2001                                         "-lreadline",
2002                                 );
2003                                 PREBINDING = NO;
2004                                 SDKROOT = macosx10.6;
2005                         };
2006                         name = Debug;
2007                 };
2008                 1DEB928B08733DD80010E9CD /* Release */ = {
2009                         isa = XCBuildConfiguration;
2010                         buildSettings = {
2011                                 ARCHS = "$(NATIVE_ARCH_ACTUAL)";
2012                                 DEPLOYMENT_LOCATION = NO;
2013                                 GCC_C_LANGUAGE_STANDARD = gnu99;
2014                                 GCC_GENERATE_DEBUGGING_SYMBOLS = NO;
2015                                 GCC_MODEL_TUNING = "";
2016                                 GCC_OPTIMIZATION_LEVEL = 3;
2017                                 GCC_PREPROCESSOR_DEFINITIONS = (
2018                                         "MOTHUR_FILES=\"\\\"../release\\\"\"",
2019                                         "VERSION=\"\\\"1.15.0\\\"\"",
2020                                         "RELEASE_DATE=\"\\\"12/10/2010\\\"\"",
2021                                 );
2022                                 GCC_WARN_ABOUT_MISSING_NEWLINE = YES;
2023                                 GCC_WARN_ABOUT_RETURN_TYPE = YES;
2024                                 GCC_WARN_MISSING_PARENTHESES = YES;
2025                                 GCC_WARN_MULTIPLE_DEFINITION_TYPES_FOR_SELECTOR = YES;
2026                                 GCC_WARN_UNUSED_FUNCTION = YES;
2027                                 GCC_WARN_UNUSED_PARAMETER = YES;
2028                                 GCC_WARN_UNUSED_VALUE = YES;
2029                                 GCC_WARN_UNUSED_VARIABLE = YES;
2030                                 INSTALL_PATH = "";
2031                                 MACH_O_TYPE = mh_execute;
2032                                 OTHER_CPLUSPLUSFLAGS = (
2033                                         "-DUSE_READLINE",
2034                                         "-DBIT_VERSION",
2035                                         "$(OTHER_CFLAGS)",
2036                                 );
2037                                 OTHER_LDFLAGS = (
2038                                         "-lncurses",
2039                                         "-lreadline",
2040                                 );
2041                                 PREBINDING = NO;
2042                                 SDKROOT = "";
2043                         };
2044                         name = Release;
2045                 };
2046 /* End XCBuildConfiguration section */
2047
2048 /* Begin XCConfigurationList section */
2049                 1DEB928508733DD80010E9CD /* Build configuration list for PBXNativeTarget "Mothur" */ = {
2050                         isa = XCConfigurationList;
2051                         buildConfigurations = (
2052                                 1DEB928608733DD80010E9CD /* Debug */,
2053                                 1DEB928708733DD80010E9CD /* Release */,
2054                         );
2055                         defaultConfigurationIsVisible = 0;
2056                         defaultConfigurationName = Release;
2057                 };
2058                 1DEB928908733DD80010E9CD /* Build configuration list for PBXProject "Mothur" */ = {
2059                         isa = XCConfigurationList;
2060                         buildConfigurations = (
2061                                 1DEB928A08733DD80010E9CD /* Debug */,
2062                                 1DEB928B08733DD80010E9CD /* Release */,
2063                         );
2064                         defaultConfigurationIsVisible = 0;
2065                         defaultConfigurationName = Release;
2066                 };
2067 /* End XCConfigurationList section */
2068         };
2069         rootObject = 08FB7793FE84155DC02AAC07 /* Project object */;
2070 }