]> git.donarmstrong.com Git - mothur.git/blobdiff - Mothur.xcodeproj/project.pbxproj
fixed bugg in shhh.seqs command
[mothur.git] / Mothur.xcodeproj / project.pbxproj
index 7a32b803547870fb6ad5c2f96f8a7835504fd1b7..511f0d65a1dcee18fc9b76a6b345845cf8e23417 100644 (file)
@@ -7,8 +7,16 @@
        objects = {
 
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                        isa = PBXGroup;
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                                A7E9B73A12D37EC400DA6239 /* libshuff.h */,
+                               A7FC480C12D788F20055BC5C /* linearalgebra.h */,
+                               A7FC480D12D788F20055BC5C /* linearalgebra.cpp */,
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                                A7E9B75E12D37EC400DA6239 /* mothurout.h */,
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+                               A7E9B76312D37EC400DA6239 /* nastreport.cpp */,
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+                               A7E9B76712D37EC400DA6239 /* noalign.cpp */,
+                               A7E9B76812D37EC400DA6239 /* noalign.hpp */,
                                A7E9B76512D37EC400DA6239 /* needlemanoverlap.cpp */,
                                A7E9B76612D37EC400DA6239 /* needlemanoverlap.hpp */,
                                A7E9B77012D37EC400DA6239 /* observable.h */,
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                                A7E9B7AD12D37EC400DA6239 /* rarefactioncurvedata.h */,
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                                A7E9B65112D37EC300DA6239 /* aligncommand.cpp */,
                                A7E9B65212D37EC300DA6239 /* aligncommand.h */,
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                                A7E9B66012D37EC300DA6239 /* binsequencecommand.cpp */,
                                A7E9B66112D37EC300DA6239 /* binsequencecommand.h */,
                                A7E9B66A12D37EC400DA6239 /* bootstrapsharedcommand.cpp */,
                                A7E9B72312D37EC400DA6239 /* heatmapsimcommand.h */,
                                A7E9B72812D37EC400DA6239 /* helpcommand.cpp */,
                                A7E9B72912D37EC400DA6239 /* helpcommand.h */,
+                               A75790571301749D00A30DAB /* homovacommand.h */,
+                               A75790581301749D00A30DAB /* homovacommand.cpp */,
                                A7E9B72B12D37EC400DA6239 /* indicatorcommand.cpp */,
                                A7E9B72C12D37EC400DA6239 /* indicatorcommand.h */,
                                A7E9B73B12D37EC400DA6239 /* libshuffcommand.cpp */,
                                A7E9B73C12D37EC400DA6239 /* libshuffcommand.h */,
                                A7E9B73D12D37EC400DA6239 /* listseqscommand.cpp */,
                                A7E9B73E12D37EC400DA6239 /* listseqscommand.h */,
+                               A7FA10001302E096003860FE /* mantelcommand.h */,
+                               A7FA10011302E096003860FE /* mantelcommand.cpp */,
+                               A799F5B71309A3E000AEEFA0 /* makefastqcommand.h */,
+                               A799F5B81309A3E000AEEFA0 /* makefastqcommand.cpp */,
                                A7E9B74312D37EC400DA6239 /* makegroupcommand.cpp */,
                                A7E9B74412D37EC400DA6239 /* makegroupcommand.h */,
                                A7E9B74912D37EC400DA6239 /* matrixoutputcommand.cpp */,
                                A7E9B74A12D37EC400DA6239 /* matrixoutputcommand.h */,
                                A7E9B75312D37EC400DA6239 /* mergefilecommand.cpp */,
                                A7E9B75412D37EC400DA6239 /* mergefilecommand.h */,
+                               A71FE12A12EDF72400963CA7 /* mergegroupscommand.h */,
+                               A71FE12B12EDF72400963CA7 /* mergegroupscommand.cpp */,
                                A7E9B75712D37EC400DA6239 /* metastatscommand.cpp */,
                                A7E9B75812D37EC400DA6239 /* metastatscommand.h */,
                                A7E9B75912D37EC400DA6239 /* mgclustercommand.cpp */,
                                A7E9B76912D37EC400DA6239 /* nocommands.cpp */,
                                A7E9B76B12D37EC400DA6239 /* normalizesharedcommand.cpp */,
                                A7E9B76C12D37EC400DA6239 /* normalizesharedcommand.h */,
+                               A713EBEB12DC7C5E000092AC /* nmdscommand.h */,
+                               A713EBEC12DC7C5E000092AC /* nmdscommand.cpp */,
                                A7E9B77912D37EC400DA6239 /* otuhierarchycommand.cpp */,
                                A7E9B77A12D37EC400DA6239 /* otuhierarchycommand.h */,
                                A7E9B77D12D37EC400DA6239 /* pairwiseseqscommand.cpp */,
                                A7E9B78212D37EC400DA6239 /* parselistscommand.h */,
                                A7E9B78512D37EC400DA6239 /* parsimonycommand.cpp */,
                                A7E9B78612D37EC400DA6239 /* parsimonycommand.h */,
-                               A7E9B78712D37EC400DA6239 /* pcacommand.cpp */,
-                               A7E9B78812D37EC400DA6239 /* pcacommand.h */,
+                               A7FC486512D795D60055BC5C /* pcacommand.h */,
+                               A7FC486612D795D60055BC5C /* pcacommand.cpp */,
+                               A7E9B78712D37EC400DA6239 /* pcoacommand.cpp */,
+                               A7E9B78812D37EC400DA6239 /* pcoacommand.h */,
                                A7E9B78B12D37EC400DA6239 /* phylodiversitycommand.cpp */,
                                A7E9B78C12D37EC400DA6239 /* phylodiversitycommand.h */,
                                A7E9B79112D37EC400DA6239 /* phylotypecommand.cpp */,
                                A7E9B7C612D37EC400DA6239 /* removelineagecommand.h */,
                                A7E9B7C712D37EC400DA6239 /* removeotuscommand.cpp */,
                                A7E9B7C812D37EC400DA6239 /* removeotuscommand.h */,
+                               A727864212E9E28C00F86ABA /* removerarecommand.h */,
+                               A727864312E9E28C00F86ABA /* removerarecommand.cpp */,
                                A7E9B7C912D37EC400DA6239 /* removeseqscommand.cpp */,
                                A7E9B7CA12D37EC400DA6239 /* removeseqscommand.h */,
                                A7E9B7CD12D37EC400DA6239 /* reversecommand.cpp */,
                                A7E9B68812D37EC400DA6239 /* chimeraslayer.cpp */,
                                A7E9B68912D37EC400DA6239 /* chimeraslayer.h */,
                                A7E9B6C112D37EC400DA6239 /* decalc.cpp */,
-                               A7E9B6C212D37EC400DA6239 /* decalc.h */,
                                A7E9B74612D37EC400DA6239 /* maligner.h */,
+                               A7E9B6C212D37EC400DA6239 /* decalc.h */,
                                A7E9B74512D37EC400DA6239 /* maligner.cpp */,
                                A7E9B79312D37EC400DA6239 /* pintail.cpp */,
                                A7E9B79412D37EC400DA6239 /* pintail.h */,
                                A7E9B7BE12D37EC400DA6239 /* readphylip.h */,
                                A7E9B7BF12D37EC400DA6239 /* readtree.cpp */,
                                A7E9B7C012D37EC400DA6239 /* readtree.h */,
+                               A713EBAA12DC7613000092AC /* readphylipvector.h */,
+                               A713EBAB12DC7613000092AC /* readphylipvector.cpp */,
                                A7E9B84312D37EC400DA6239 /* splitmatrix.cpp */,
                                A7E9B84412D37EC400DA6239 /* splitmatrix.h */,
                        );
 /* Begin PBXProject section */
                08FB7793FE84155DC02AAC07 /* Project object */ = {
                        isa = PBXProject;
-                       buildConfigurationList = 1DEB928908733DD80010E9CD /* Build configuration list for PBXProject "mothur" */;
+                       attributes = {
+                               ORGANIZATIONNAME = "Schloss Lab";
+                       };
+                       buildConfigurationList = 1DEB928908733DD80010E9CD /* Build configuration list for PBXProject "Mothur" */;
                        compatibilityVersion = "Xcode 3.1";
                        developmentRegion = English;
                        hasScannedForEncodings = 1;
                                A7E9B91212D37EC400DA6239 /* parselistscommand.cpp in Sources */,
                                A7E9B91312D37EC400DA6239 /* parsimony.cpp in Sources */,
                                A7E9B91412D37EC400DA6239 /* parsimonycommand.cpp in Sources */,
-                               A7E9B91512D37EC400DA6239 /* pcacommand.cpp in Sources */,
+                               A7E9B91512D37EC400DA6239 /* pcoacommand.cpp in Sources */,
                                A7E9B91612D37EC400DA6239 /* phylodiversity.cpp in Sources */,
                                A7E9B91712D37EC400DA6239 /* phylodiversitycommand.cpp in Sources */,
                                A7E9B91812D37EC400DA6239 /* phylosummary.cpp in Sources */,
                                A7E9B98E12D37EC400DA6239 /* weightedlinkage.cpp in Sources */,
                                A7E9B98F12D37EC400DA6239 /* whittaker.cpp in Sources */,
                                A70332B712D3A13400761E33 /* makefile in Sources */,
+                               A7FC480E12D788F20055BC5C /* linearalgebra.cpp in Sources */,
+                               A7FC486712D795D60055BC5C /* pcacommand.cpp in Sources */,
+                               A713EBAC12DC7613000092AC /* readphylipvector.cpp in Sources */,
+                               A713EBED12DC7C5E000092AC /* nmdscommand.cpp in Sources */,
+                               A727864412E9E28C00F86ABA /* removerarecommand.cpp in Sources */,
+                               A71FE12C12EDF72400963CA7 /* mergegroupscommand.cpp in Sources */,
+                               7E6BE10A12F710D8007ADDBE /* refchimeratest.cpp in Sources */,
+                               A7A61F2D130062E000E05B6B /* amovacommand.cpp in Sources */,
+                               A75790591301749D00A30DAB /* homovacommand.cpp in Sources */,
+                               A7FA10021302E097003860FE /* mantelcommand.cpp in Sources */,
+                               A799F5B91309A3E000AEEFA0 /* makefastqcommand.cpp in Sources */,
                        );
                        runOnlyForDeploymentPostprocessing = 0;
                };
                                ARCHS = "$(ARCHS_STANDARD_32_64_BIT)";
                                DEPLOYMENT_LOCATION = NO;
                                GCC_C_LANGUAGE_STANDARD = gnu99;
-                               GCC_OPTIMIZATION_LEVEL = 0;
+                               GCC_OPTIMIZATION_LEVEL = 3;
                                GCC_PREPROCESSOR_DEFINITIONS = (
                                        "MOTHUR_FILES=\"\\\"../release\\\"\"",
-                                       "VERSION=\"\\\"1.15.0\\\"\"",
-                                       "RELEASE_DATE=\"\\\"12/10/2010\\\"\"",
+                                       "VERSION=\"\\\"1.16.0\\\"\"",
+                                       "RELEASE_DATE=\"\\\"2/7/2011\\\"\"",
                                );
+                               GCC_WARN_ABOUT_MISSING_NEWLINE = YES;
                                GCC_WARN_ABOUT_RETURN_TYPE = YES;
                                GCC_WARN_UNUSED_VARIABLE = YES;
                                INSTALL_PATH = "";
+                               MACH_O_TYPE = mh_execute;
                                ONLY_ACTIVE_ARCH = YES;
                                OTHER_CPLUSPLUSFLAGS = (
                                        "-DUSE_READLINE",
                                ARCHS = "$(ARCHS_STANDARD_32_64_BIT)";
                                DEPLOYMENT_LOCATION = NO;
                                GCC_C_LANGUAGE_STANDARD = gnu99;
+                               GCC_GENERATE_DEBUGGING_SYMBOLS = NO;
+                               GCC_MODEL_TUNING = "";
+                               GCC_OPTIMIZATION_LEVEL = 3;
                                GCC_PREPROCESSOR_DEFINITIONS = (
                                        "MOTHUR_FILES=\"\\\"../release\\\"\"",
                                        "VERSION=\"\\\"1.15.0\\\"\"",
                                GCC_WARN_UNUSED_VALUE = YES;
                                GCC_WARN_UNUSED_VARIABLE = YES;
                                INSTALL_PATH = "";
+                               MACH_O_TYPE = mh_execute;
                                OTHER_CPLUSPLUSFLAGS = (
                                        "-DUSE_READLINE",
                                        "-DBIT_VERSION",
                        defaultConfigurationIsVisible = 0;
                        defaultConfigurationName = Release;
                };
-               1DEB928908733DD80010E9CD /* Build configuration list for PBXProject "mothur" */ = {
+               1DEB928908733DD80010E9CD /* Build configuration list for PBXProject "Mothur" */ = {
                        isa = XCConfigurationList;
                        buildConfigurations = (
                                1DEB928A08733DD80010E9CD /* Debug */,