added phylotype command which reads a taxonomy file and creates a .list, .rabund...

[mothur.git] / Mothur.xcodeproj / project.pbxproj

diff --git a/Mothur.xcodeproj/project.pbxproj b/Mothur.xcodeproj/project.pbxproj
index 977aee98049b1ee387a34f6ce2cbfaf3efc43990..5dc0ea90e1cc5d932d128d2ec885505ffb5d47b7 100644 (file)
--- a/Mothur.xcodeproj/project.pbxproj
+++ b/Mothur.xcodeproj/project.pbxproj
@@ -168,9 +168,11 @@
                A73329CF1083B3B3003B10C5 /* getlistcountcommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A73329CE1083B3B3003B10C5 /* getlistcountcommand.cpp */; };
                A751ACEA1098B283003D0911 /* readcluster.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A751ACE91098B283003D0911 /* readcluster.cpp */; };
                A75B887E104C16860083C454 /* ccode.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A75B887B104C16860083C454 /* ccode.cpp */; };
+               A773805F10B6D6FC002A6A61 /* taxonomyequalizer.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A773805E10B6D6FC002A6A61 /* taxonomyequalizer.cpp */; };
+               A773809010B6EFD1002A6A61 /* phylotypecommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A773808F10B6EFD1002A6A61 /* phylotypecommand.cpp */; };
                A7861478109F5FA00010AAAF /* classifyseqscommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A7861477109F5FA00010AAAF /* classifyseqscommand.cpp */; };
                A787810310A06D5D0086103D /* classify.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A787810210A06D5D0086103D /* classify.cpp */; };
-               A78781BA10A0813E0086103D /* doTaxonomy.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A78781B810A0813D0086103D /* doTaxonomy.cpp */; };
+               A78781BA10A0813E0086103D /* phylotree.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A78781B810A0813D0086103D /* phylotree.cpp */; };
                A787821110A0AAE70086103D /* bayesian.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A787821010A0AAE70086103D /* bayesian.cpp */; };
                A78782AB10A1B1CB0086103D /* alignmentdb.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A78782AA10A1B1CB0086103D /* alignmentdb.cpp */; };
                A787844510A1EBDD0086103D /* knn.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A787844410A1EBDD0086103D /* knn.cpp */; };
@@ -541,12 +543,16 @@
                A751ACE91098B283003D0911 /* readcluster.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = readcluster.cpp; sourceTree = SOURCE_ROOT; };
                A75B887B104C16860083C454 /* ccode.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = ccode.cpp; sourceTree = SOURCE_ROOT; };
                A75B887C104C16860083C454 /* ccode.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = ccode.h; sourceTree = SOURCE_ROOT; };
+               A773805D10B6D6FC002A6A61 /* taxonomyequalizer.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = taxonomyequalizer.h; sourceTree = SOURCE_ROOT; };
+               A773805E10B6D6FC002A6A61 /* taxonomyequalizer.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = taxonomyequalizer.cpp; sourceTree = SOURCE_ROOT; };
+               A773808E10B6EFD1002A6A61 /* phylotypecommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = phylotypecommand.h; sourceTree = SOURCE_ROOT; };
+               A773808F10B6EFD1002A6A61 /* phylotypecommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = phylotypecommand.cpp; sourceTree = SOURCE_ROOT; };
                A7861476109F5FA00010AAAF /* classifyseqscommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = classifyseqscommand.h; sourceTree = SOURCE_ROOT; };
                A7861477109F5FA00010AAAF /* classifyseqscommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = classifyseqscommand.cpp; sourceTree = SOURCE_ROOT; };
                A78780FE10A06B8B0086103D /* classify.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = classify.h; sourceTree = SOURCE_ROOT; };
                A787810210A06D5D0086103D /* classify.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = classify.cpp; sourceTree = SOURCE_ROOT; };
-               A78781B810A0813D0086103D /* doTaxonomy.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = doTaxonomy.cpp; sourceTree = SOURCE_ROOT; };
-               A78781B910A0813D0086103D /* doTaxonomy.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = doTaxonomy.h; sourceTree = SOURCE_ROOT; };
+               A78781B810A0813D0086103D /* phylotree.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = phylotree.cpp; sourceTree = SOURCE_ROOT; };
+               A78781B910A0813D0086103D /* phylotree.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = phylotree.h; sourceTree = SOURCE_ROOT; };
                A787820F10A0AAE70086103D /* bayesian.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = bayesian.h; sourceTree = SOURCE_ROOT; };
                A787821010A0AAE70086103D /* bayesian.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = bayesian.cpp; sourceTree = SOURCE_ROOT; };
                A78782A910A1B1CB0086103D /* alignmentdb.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = alignmentdb.h; sourceTree = SOURCE_ROOT; };
@@ -909,6 +915,8 @@
                                375873F60F7D649C0040F377 /* nocommands.cpp */,
                                3792946E0F2E191800B9034A /* parsimonycommand.h */,
                                3792946F0F2E191800B9034A /* parsimonycommand.cpp */,
+                               A773808E10B6EFD1002A6A61 /* phylotypecommand.h */,
+                               A773808F10B6EFD1002A6A61 /* phylotypecommand.cpp */,
                                37D927FE0F21331F001D4494 /* quitcommand.h */,
                                37D927FD0F21331F001D4494 /* quitcommand.cpp */,
                                37D928080F21331F001D4494 /* rarefactcommand.h */,
@@ -1035,8 +1043,10 @@
                                A787810210A06D5D0086103D /* classify.cpp */,
                                A787820F10A0AAE70086103D /* bayesian.h */,
                                A787821010A0AAE70086103D /* bayesian.cpp */,
-                               A78781B910A0813D0086103D /* doTaxonomy.h */,
-                               A78781B810A0813D0086103D /* doTaxonomy.cpp */,
+                               A773805D10B6D6FC002A6A61 /* taxonomyequalizer.h */,
+                               A773805E10B6D6FC002A6A61 /* taxonomyequalizer.cpp */,
+                               A78781B910A0813D0086103D /* phylotree.h */,
+                               A78781B810A0813D0086103D /* phylotree.cpp */,
                                A787844310A1EBDD0086103D /* knn.h */,
                                A787844410A1EBDD0086103D /* knn.cpp */,
                        );
@@ -1267,10 +1277,12 @@
                                A751ACEA1098B283003D0911 /* readcluster.cpp in Sources */,
                                A7861478109F5FA00010AAAF /* classifyseqscommand.cpp in Sources */,
                                A787810310A06D5D0086103D /* classify.cpp in Sources */,
-                               A78781BA10A0813E0086103D /* doTaxonomy.cpp in Sources */,
+                               A78781BA10A0813E0086103D /* phylotree.cpp in Sources */,
                                A787821110A0AAE70086103D /* bayesian.cpp in Sources */,
                                A78782AB10A1B1CB0086103D /* alignmentdb.cpp in Sources */,
                                A787844510A1EBDD0086103D /* knn.cpp in Sources */,
+                               A773805F10B6D6FC002A6A61 /* taxonomyequalizer.cpp in Sources */,
+                               A773809010B6EFD1002A6A61 /* phylotypecommand.cpp in Sources */,
                        );
                        runOnlyForDeploymentPostprocessing = 0;
                };