]> git.donarmstrong.com Git - mothur.git/blobdiff - Mothur.xcodeproj/project.pbxproj
a lot of new input parameters in rf module, implemented a pruning system in the rf...
[mothur.git] / Mothur.xcodeproj / project.pbxproj
index c78e3fbb4fbf64ebf2a4f44509592b80bd06a86f..b2d579f7b492326ca6db86ea25c99fa284432438 100644 (file)
@@ -32,7 +32,6 @@
                A727864412E9E28C00F86ABA /* removerarecommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A727864312E9E28C00F86ABA /* removerarecommand.cpp */; };
                A7386C231619CCE600651424 /* classifysharedcommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A7386C211619CCE600651424 /* classifysharedcommand.cpp */; };
                A7386C251619E52300651424 /* abstractdecisiontree.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A7386C241619E52200651424 /* abstractdecisiontree.cpp */; };
-               A7386C27161A0F9D00651424 /* abstractrandomforest.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A7386C26161A0F9C00651424 /* abstractrandomforest.cpp */; };
                A7386C29161A110800651424 /* decisiontree.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A7386C28161A110700651424 /* decisiontree.cpp */; };
                A73901081588C40900ED2ED6 /* loadlogfilecommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A73901071588C40900ED2ED6 /* loadlogfilecommand.cpp */; };
                A73DDBBA13C4A0D1006AAE38 /* clearmemorycommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A73DDBB913C4A0D1006AAE38 /* clearmemorycommand.cpp */; };
@@ -44,6 +43,8 @@
                A74D36B8137DAFAA00332B0C /* chimerauchimecommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A74D36B7137DAFAA00332B0C /* chimerauchimecommand.cpp */; };
                A74D59A4159A1E2000043046 /* counttable.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A74D59A3159A1E2000043046 /* counttable.cpp */; };
                A754149714840CF7005850D1 /* summaryqualcommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A754149614840CF7005850D1 /* summaryqualcommand.cpp */; };
+               A7548FAD17142EBC00B1F05A /* getmetacommunitycommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A7548FAC17142EBC00B1F05A /* getmetacommunitycommand.cpp */; };
+               A7548FB0171440ED00B1F05A /* qFinderDMM.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A7548FAE171440EC00B1F05A /* qFinderDMM.cpp */; };
                A75790591301749D00A30DAB /* homovacommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A75790581301749D00A30DAB /* homovacommand.cpp */; };
                A76CDD821510F143004C8458 /* prcseqscommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A76CDD811510F143004C8458 /* prcseqscommand.cpp */; };
                A7730EFF13967241007433A3 /* countseqscommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A7730EFE13967241007433A3 /* countseqscommand.cpp */; };
@@ -58,6 +59,7 @@
                A7876A26152A017C00A0AE86 /* subsample.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A7876A25152A017C00A0AE86 /* subsample.cpp */; };
                A79234D713C74BF6002B08E2 /* mothurfisher.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A79234D613C74BF6002B08E2 /* mothurfisher.cpp */; };
                A795840D13F13CD900F201D5 /* countgroupscommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A795840C13F13CD900F201D5 /* countgroupscommand.cpp */; };
+               A799314B16CBD0CD0017E888 /* mergetaxsummarycommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A799314A16CBD0CD0017E888 /* mergetaxsummarycommand.cpp */; };
                A799F5B91309A3E000AEEFA0 /* makefastqcommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A799F5B81309A3E000AEEFA0 /* makefastqcommand.cpp */; };
                A79EEF8616971D4A0006DEC1 /* filtersharedcommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A79EEF8516971D4A0006DEC1 /* filtersharedcommand.cpp */; };
                A7A0671A1562946F0095C8C5 /* listotulabelscommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A7A067191562946F0095C8C5 /* listotulabelscommand.cpp */; };
                        outputFiles = (
                                "$(TARGET_BUILD_DIR)/$(INPUT_FILE_BASE).o",
                        );
-                       script = "/usr/local/gfortran/bin/gfortran -g -m64 -c ${PROJECT_DIR}/${INPUT_FILE_NAME} -o ${TARGET_BUILD_DIR}/${INPUT_FILE_BASE}.o";
+                       script = "/usr/local/bin/gfortran -g -m64 -c ${PROJECT_DIR}/${INPUT_FILE_NAME} -o ${TARGET_BUILD_DIR}/${INPUT_FILE_BASE}.o";
                };
 /* End PBXBuildRule section */
 
                A727864212E9E28C00F86ABA /* removerarecommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = removerarecommand.h; sourceTree = "<group>"; };
                A727864312E9E28C00F86ABA /* removerarecommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = removerarecommand.cpp; sourceTree = "<group>"; };
                A7386C1B1619CACB00651424 /* abstractdecisiontree.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = abstractdecisiontree.hpp; sourceTree = "<group>"; };
-               A7386C1C1619CACB00651424 /* abstractrandomforest.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = abstractrandomforest.hpp; sourceTree = "<group>"; };
                A7386C1D1619CACB00651424 /* decisiontree.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = decisiontree.hpp; sourceTree = "<group>"; };
                A7386C1E1619CACB00651424 /* macros.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = macros.h; sourceTree = "<group>"; };
                A7386C1F1619CACB00651424 /* randomforest.hpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.h; path = randomforest.hpp; sourceTree = "<group>"; };
                A7386C211619CCE600651424 /* classifysharedcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = classifysharedcommand.cpp; sourceTree = "<group>"; };
                A7386C221619CCE600651424 /* classifysharedcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = classifysharedcommand.h; sourceTree = "<group>"; };
                A7386C241619E52200651424 /* abstractdecisiontree.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = abstractdecisiontree.cpp; sourceTree = "<group>"; };
-               A7386C26161A0F9C00651424 /* abstractrandomforest.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = abstractrandomforest.cpp; sourceTree = "<group>"; };
                A7386C28161A110700651424 /* decisiontree.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = decisiontree.cpp; sourceTree = "<group>"; };
                A73901051588C3EF00ED2ED6 /* loadlogfilecommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = loadlogfilecommand.h; sourceTree = "<group>"; };
                A73901071588C40900ED2ED6 /* loadlogfilecommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = loadlogfilecommand.cpp; sourceTree = "<group>"; };
                A74D59A6159A1E3600043046 /* counttable.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = counttable.h; sourceTree = "<group>"; };
                A754149514840CF7005850D1 /* summaryqualcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = summaryqualcommand.h; sourceTree = "<group>"; };
                A754149614840CF7005850D1 /* summaryqualcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = summaryqualcommand.cpp; sourceTree = "<group>"; };
+               A7548FAB17142EA500B1F05A /* getmetacommunitycommand.h */ = {isa = PBXFileReference; lastKnownFileType = sourcecode.c.h; path = getmetacommunitycommand.h; sourceTree = "<group>"; };
+               A7548FAC17142EBC00B1F05A /* getmetacommunitycommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = getmetacommunitycommand.cpp; sourceTree = "<group>"; };
+               A7548FAE171440EC00B1F05A /* qFinderDMM.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = qFinderDMM.cpp; sourceTree = "<group>"; };
+               A7548FAF171440ED00B1F05A /* qFinderDMM.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = qFinderDMM.h; sourceTree = "<group>"; };
                A75790571301749D00A30DAB /* homovacommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = homovacommand.h; sourceTree = "<group>"; };
                A75790581301749D00A30DAB /* homovacommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = homovacommand.cpp; sourceTree = "<group>"; };
                A76CDD7F1510F09A004C8458 /* pcrseqscommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = pcrseqscommand.h; sourceTree = "<group>"; };
                A79234D613C74BF6002B08E2 /* mothurfisher.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = mothurfisher.cpp; sourceTree = "<group>"; };
                A795840B13F13CD900F201D5 /* countgroupscommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = countgroupscommand.h; sourceTree = "<group>"; };
                A795840C13F13CD900F201D5 /* countgroupscommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = countgroupscommand.cpp; sourceTree = "<group>"; };
+               A799314816CBD0BC0017E888 /* mergetaxsummarycommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = mergetaxsummarycommand.h; sourceTree = "<group>"; };
+               A799314A16CBD0CD0017E888 /* mergetaxsummarycommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = mergetaxsummarycommand.cpp; sourceTree = "<group>"; };
                A799F5B71309A3E000AEEFA0 /* makefastqcommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = makefastqcommand.h; sourceTree = "<group>"; };
                A799F5B81309A3E000AEEFA0 /* makefastqcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = makefastqcommand.cpp; sourceTree = "<group>"; };
                A79EEF8516971D4A0006DEC1 /* filtersharedcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = filtersharedcommand.cpp; sourceTree = "<group>"; };
                                A7E9B77C12D37EC400DA6239 /* overlap.hpp */,
                                A7E9B79B12D37EC400DA6239 /* progress.cpp */,
                                A7E9B79C12D37EC400DA6239 /* progress.hpp */,
+                               A7548FAF171440ED00B1F05A /* qFinderDMM.h */,
+                               A7548FAE171440EC00B1F05A /* qFinderDMM.cpp */,
                                A7E9B7A512D37EC400DA6239 /* rarecalc.cpp */,
                                A7386C191619C9FB00651424 /* randomforest */,
                                A7E9B7A612D37EC400DA6239 /* rarecalc.h */,
                        children = (
                                A7386C1B1619CACB00651424 /* abstractdecisiontree.hpp */,
                                A7386C241619E52200651424 /* abstractdecisiontree.cpp */,
-                               A7386C1C1619CACB00651424 /* abstractrandomforest.hpp */,
-                               A7386C26161A0F9C00651424 /* abstractrandomforest.cpp */,
                                A7386C1D1619CACB00651424 /* decisiontree.hpp */,
                                A7386C28161A110700651424 /* decisiontree.cpp */,
                                A7386C1E1619CACB00651424 /* macros.h */,
                                A7E9B6F412D37EC400DA6239 /* getgroupscommand.cpp */,
                                A7E9B6F712D37EC400DA6239 /* getlabelcommand.h */,
                                A7E9B6F612D37EC400DA6239 /* getlabelcommand.cpp */,
+                               A7548FAB17142EA500B1F05A /* getmetacommunitycommand.h */,
+                               A7548FAC17142EBC00B1F05A /* getmetacommunitycommand.cpp */,
                                A70056E8156A93E300924A2D /* getotulabelscommand.h */,
                                A70056E5156A93D000924A2D /* getotulabelscommand.cpp */,
                                A7E9B6F912D37EC400DA6239 /* getlineagecommand.h */,
                                A7E9B75312D37EC400DA6239 /* mergefilecommand.cpp */,
                                A71FE12A12EDF72400963CA7 /* mergegroupscommand.h */,
                                A71FE12B12EDF72400963CA7 /* mergegroupscommand.cpp */,
+                               A799314816CBD0BC0017E888 /* mergetaxsummarycommand.h */,
+                               A799314A16CBD0CD0017E888 /* mergetaxsummarycommand.cpp */,
                                A7E9B75812D37EC400DA6239 /* metastatscommand.h */,
                                A7E9B75712D37EC400DA6239 /* metastatscommand.cpp */,
                                A7E9B75A12D37EC400DA6239 /* mgclustercommand.h */,
                                A7E9B66512D37EC400DA6239 /* blastdb.hpp */,
                                A74D59A6159A1E3600043046 /* counttable.h */,
                                A74D59A3159A1E2000043046 /* counttable.cpp */,
-                               A7E9B6CD12D37EC400DA6239 /* distancedb.cpp */,
                                A7E9B6BD12D37EC400DA6239 /* database.cpp */,
                                A7E9B6BE12D37EC400DA6239 /* database.hpp */,
                                A7E9B6BF12D37EC400DA6239 /* datavector.hpp */,
                                A7E9B6CE12D37EC400DA6239 /* distancedb.hpp */,
+                               A7E9B6CD12D37EC400DA6239 /* distancedb.cpp */,
                                A7E9B6DE12D37EC400DA6239 /* fastamap.cpp */,
                                A7E9B6DF12D37EC400DA6239 /* fastamap.h */,
                                A7E9B6E812D37EC400DA6239 /* flowdata.h */,
                                A7C7DAB915DA758B0059B0CF /* sffmultiplecommand.cpp in Sources */,
                                A7386C231619CCE600651424 /* classifysharedcommand.cpp in Sources */,
                                A7386C251619E52300651424 /* abstractdecisiontree.cpp in Sources */,
-                               A7386C27161A0F9D00651424 /* abstractrandomforest.cpp in Sources */,
                                A7386C29161A110800651424 /* decisiontree.cpp in Sources */,
                                A77E1938161B201E00DB1A2A /* randomforest.cpp in Sources */,
                                A77E193B161B289600DB1A2A /* rftreenode.cpp in Sources */,
                                A74C06E916A9C0A9008390A3 /* primerdesigncommand.cpp in Sources */,
                                A7128B1D16B7002A00723BE4 /* getdistscommand.cpp in Sources */,
                                A7B0231516B8244C006BA09E /* removedistscommand.cpp in Sources */,
+                               A799314B16CBD0CD0017E888 /* mergetaxsummarycommand.cpp in Sources */,
+                               A7548FAD17142EBC00B1F05A /* getmetacommunitycommand.cpp in Sources */,
+                               A7548FB0171440ED00B1F05A /* qFinderDMM.cpp in Sources */,
                        );
                        runOnlyForDeploymentPostprocessing = 0;
                };
                                GCC_OPTIMIZATION_LEVEL = 3;
                                "INSTALL_PATH[sdk=*]" = TARGET_BUILD_DIR;
                                PRODUCT_NAME = mothur;
-                               SDKROOT = macosx;
+                               SDKROOT = macosx10.8;
                                SKIP_INSTALL = NO;
                        };
                        name = Debug;
                                GCC_ENABLE_SSE3_EXTENSIONS = NO;
                                GCC_ENABLE_SSE41_EXTENSIONS = NO;
                                GCC_ENABLE_SSE42_EXTENSIONS = NO;
-                               GCC_OPTIMIZATION_LEVEL = 3;
+                               GCC_OPTIMIZATION_LEVEL = s;
                                GCC_PREPROCESSOR_DEFINITIONS = (
-                                       "MOTHUR_FILES=\"\\\"../release\\\"\"",
-                                       "VERSION=\"\\\"1.28.0\\\"\"",
-                                       "RELEASE_DATE=\"\\\"11/2/2012\\\"\"",
+                                       "MOTHUR_FILES=\"\\\"../../release\\\"\"",
+                                       "VERSION=\"\\\"1.29.2\\\"\"",
+                                       "RELEASE_DATE=\"\\\"2/12/2013\\\"\"",
                                );
                                "GCC_VERSION[arch=*]" = "";
                                GCC_WARN_ABOUT_MISSING_NEWLINE = YES;
                                GCC_C_LANGUAGE_STANDARD = gnu99;
                                GCC_GENERATE_DEBUGGING_SYMBOLS = NO;
                                GCC_MODEL_TUNING = "";
-                               GCC_OPTIMIZATION_LEVEL = 3;
+                               GCC_OPTIMIZATION_LEVEL = s;
                                GCC_PREPROCESSOR_DEFINITIONS = (
-                                       "VERSION=\"\\\"1.28.0\\\"\"",
-                                       "RELEASE_DATE=\"\\\"11/2/2012\\\"\"",
+                                       "VERSION=\"\\\"1.30.0\\\"\"",
+                                       "RELEASE_DATE=\"\\\"4/01/2013\\\"\"",
                                );
                                GCC_WARN_ABOUT_MISSING_NEWLINE = YES;
                                GCC_WARN_ABOUT_RETURN_TYPE = YES;