X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=Mothur.xcodeproj%2Fproject.pbxproj;h=096a09b7287bb0ef159a28ae3d13915073e18053;hb=0ac77545b7ad36dbd28c5388fb85e9156207c56d;hp=15a5cff06d869482c252cdc50e82c5ec0a75abdf;hpb=1f0e54b53b714781f3f2fee7d01177fade98a625;p=mothur.git diff --git a/Mothur.xcodeproj/project.pbxproj b/Mothur.xcodeproj/project.pbxproj index 15a5cff..096a09b 100644 --- a/Mothur.xcodeproj/project.pbxproj +++ b/Mothur.xcodeproj/project.pbxproj @@ -20,6 +20,7 @@ A7128B1D16B7002A00723BE4 /* getdistscommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A7128B1C16B7002600723BE4 /* getdistscommand.cpp */; }; A713EBAC12DC7613000092AC /* readphylipvector.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A713EBAB12DC7613000092AC /* readphylipvector.cpp */; }; A713EBED12DC7C5E000092AC /* nmdscommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A713EBEC12DC7C5E000092AC /* nmdscommand.cpp */; }; + A7190B221768E0DF00A9AFA6 /* lefsecommand.cpp in Sources */ = 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A7E9B71812D37EC400DA6239 /* hcluster.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = hcluster.cpp; sourceTree = SOURCE_ROOT; }; A7E9B71912D37EC400DA6239 /* hcluster.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = hcluster.h; sourceTree = SOURCE_ROOT; }; A7E9B71A12D37EC400DA6239 /* hclustercommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = hclustercommand.cpp; sourceTree = ""; }; - A7E9B71B12D37EC400DA6239 /* hclustercommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = hclustercommand.h; sourceTree = ""; }; + A7E9B71B12D37EC400DA6239 /* hclustercommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; lineEnding = 0; path = hclustercommand.h; sourceTree = ""; xcLanguageSpecificationIdentifier = xcode.lang.objcpp; }; A7E9B71C12D37EC400DA6239 /* heatmap.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = heatmap.cpp; sourceTree = SOURCE_ROOT; }; A7E9B71D12D37EC400DA6239 /* heatmap.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = heatmap.h; sourceTree = SOURCE_ROOT; }; A7E9B71E12D37EC400DA6239 /* heatmapcommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = heatmapcommand.cpp; sourceTree = ""; }; @@ -1122,6 +1152,8 @@ A7A61F1A130035C800E05B6B /* LICENSE */, A70332B512D3A13400761E33 /* makefile */, A7E9B65912D37EC300DA6239 /* averagelinkage.cpp */, + A77B718A173D40E4002163C2 /* calcsparcc.h */, + A77B7189173D40E4002163C2 /* calcsparcc.cpp */, A7E9BA4F12D398D700DA6239 /* clearcut */, A7E9B69812D37EC400DA6239 /* cluster.cpp */, A7E9B69912D37EC400DA6239 /* cluster.hpp */, @@ -1189,6 +1221,10 @@ A7E9B77C12D37EC400DA6239 /* overlap.hpp */, A7E9B79B12D37EC400DA6239 /* progress.cpp */, A7E9B79C12D37EC400DA6239 /* progress.hpp */, + A7548FAF171440ED00B1F05A /* qFinderDMM.h */, + A7548FAE171440EC00B1F05A /* qFinderDMM.cpp */, + A77B7187173D4041002163C2 /* randomnumber.h */, + A77B7186173D4041002163C2 /* randomnumber.cpp */, A7E9B7A512D37EC400DA6239 /* rarecalc.cpp */, A7386C191619C9FB00651424 /* randomforest */, A7E9B7A612D37EC400DA6239 /* rarecalc.h */, @@ -1237,8 +1273,6 @@ children = ( A7386C1B1619CACB00651424 /* abstractdecisiontree.hpp */, A7386C241619E52200651424 /* abstractdecisiontree.cpp */, - A7386C1C1619CACB00651424 /* abstractrandomforest.hpp */, - A7386C26161A0F9C00651424 /* abstractrandomforest.cpp */, A7386C1D1619CACB00651424 /* decisiontree.hpp */, A7386C28161A110700651424 /* decisiontree.cpp */, A7386C1E1619CACB00651424 /* macros.h */, @@ -1372,8 +1406,8 @@ A7E9B6F412D37EC400DA6239 /* getgroupscommand.cpp */, A7E9B6F712D37EC400DA6239 /* getlabelcommand.h */, A7E9B6F612D37EC400DA6239 /* getlabelcommand.cpp */, - A70056E8156A93E300924A2D /* getotulabelscommand.h */, - A70056E5156A93D000924A2D /* getotulabelscommand.cpp */, + A7548FAB17142EA500B1F05A /* getmetacommunitycommand.h */, + A7548FAC17142EBC00B1F05A /* getmetacommunitycommand.cpp */, A7E9B6F912D37EC400DA6239 /* getlineagecommand.h */, A7E9B6F812D37EC400DA6239 /* getlineagecommand.cpp */, A7E9B6FB12D37EC400DA6239 /* getlistcountcommand.h */, @@ -1382,6 +1416,8 @@ A7E9B6FE12D37EC400DA6239 /* getoturepcommand.cpp */, A7E9B70112D37EC400DA6239 /* getotuscommand.h */, A7E9B70012D37EC400DA6239 /* getotuscommand.cpp */, + A70056E8156A93E300924A2D /* getotulabelscommand.h */, + A70056E5156A93D000924A2D /* getotulabelscommand.cpp */, A7E9B70312D37EC400DA6239 /* getrabundcommand.h */, A7E9B70212D37EC400DA6239 /* getrabundcommand.cpp */, A7E9B70512D37EC400DA6239 /* getrelabundcommand.h */, @@ -1406,6 +1442,8 @@ A7E9B72B12D37EC400DA6239 /* indicatorcommand.cpp */, A7496D2D167B531B00CC7D7C /* kruskalwalliscommand.h */, A7496D2C167B531B00CC7D7C /* kruskalwalliscommand.cpp */, + A7190B211768E0DF00A9AFA6 /* lefsecommand.h */, + A7190B201768E0DF00A9AFA6 /* lefsecommand.cpp */, A7E9B73C12D37EC400DA6239 /* libshuffcommand.h */, A7E9B73B12D37EC400DA6239 /* libshuffcommand.cpp */, A7A0671C156294810095C8C5 /* listotulabelscommand.h */, @@ -1424,12 +1462,18 @@ A799F5B81309A3E000AEEFA0 /* makefastqcommand.cpp */, A7E9B74412D37EC400DA6239 /* makegroupcommand.h */, A7E9B74312D37EC400DA6239 /* makegroupcommand.cpp */, + A741744B175CD9B1007DF49B /* makelefsecommand.h */, + A741744A175CD9B1007DF49B /* makelefsecommand.cpp */, + A7E6F69C17427CF2006775E2 /* makelookupcommand.h */, + A7E6F69D17427D06006775E2 /* makelookupcommand.cpp */, A7E9B74A12D37EC400DA6239 /* matrixoutputcommand.h */, A7E9B74912D37EC400DA6239 /* matrixoutputcommand.cpp */, A7E9B75412D37EC400DA6239 /* mergefilecommand.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 */, @@ -1488,6 +1532,8 @@ A727864312E9E28C00F86ABA /* removerarecommand.cpp */, A7E9B7CA12D37EC400DA6239 /* removeseqscommand.h */, A7E9B7C912D37EC400DA6239 /* removeseqscommand.cpp */, + A7CFA42F1755400500D9ED4D /* renameseqscommand.h */, + A7CFA4301755401800D9ED4D /* renameseqscommand.cpp */, A7E9B7CE12D37EC400DA6239 /* reversecommand.h */, A7E9B7CD12D37EC400DA6239 /* reversecommand.cpp */, A7E9B7D212D37EC400DA6239 /* screenseqscommand.h */, @@ -1518,6 +1564,8 @@ A774101314695AF60098E6AC /* shhhseqscommand.cpp */, A7A32DAC14DC43D10001D2E5 /* sortseqscommand.h */, A7A32DA914DC43B00001D2E5 /* sortseqscommand.cpp */, + A77B7183173D222F002163C2 /* sparcccommand.h */, + A77B7184173D2240002163C2 /* sparcccommand.cpp */, A7E9B84012D37EC400DA6239 /* splitabundcommand.h */, A7E9B83F12D37EC400DA6239 /* splitabundcommand.cpp */, A7E9B84212D37EC400DA6239 /* splitgroupscommand.h */, @@ -1725,11 +1773,13 @@ A7E9B66512D37EC400DA6239 /* blastdb.hpp */, A74D59A6159A1E3600043046 /* counttable.h */, A74D59A3159A1E2000043046 /* counttable.cpp */, - A7E9B6CD12D37EC400DA6239 /* distancedb.cpp */, A7E9B6BD12D37EC400DA6239 /* database.cpp */, A7E9B6BE12D37EC400DA6239 /* database.hpp */, A7E9B6BF12D37EC400DA6239 /* datavector.hpp */, + A77916E7176F7F7600EEFE18 /* designmap.h */, + A77916E6176F7F7600EEFE18 /* designmap.cpp */, A7E9B6CE12D37EC400DA6239 /* distancedb.hpp */, + A7E9B6CD12D37EC400DA6239 /* distancedb.cpp */, A7E9B6DE12D37EC400DA6239 /* fastamap.cpp */, A7E9B6DF12D37EC400DA6239 /* fastamap.h */, A7E9B6E812D37EC400DA6239 /* flowdata.h */, @@ -1953,7 +2003,7 @@ 08FB7793FE84155DC02AAC07 /* Project object */ = { isa = PBXProject; attributes = { - LastUpgradeCheck = 0420; + LastUpgradeCheck = 0460; ORGANIZATIONNAME = "Schloss Lab"; }; buildConfigurationList = 1DEB928908733DD80010E9CD /* Build configuration list for PBXProject "Mothur" */; @@ -2311,7 +2361,6 @@ 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 */, @@ -2328,6 +2377,17 @@ 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 */, + A77B7185173D2240002163C2 /* sparcccommand.cpp in Sources */, + A77B7188173D4042002163C2 /* randomnumber.cpp in Sources */, + A77B718B173D40E5002163C2 /* calcsparcc.cpp in Sources */, + A7E6F69E17427D06006775E2 /* makelookupcommand.cpp in Sources */, + A7CFA4311755401800D9ED4D /* renameseqscommand.cpp in Sources */, + A741744C175CD9B1007DF49B /* makelefsecommand.cpp in Sources */, + A7190B221768E0DF00A9AFA6 /* lefsecommand.cpp in Sources */, + A77916E8176F7F7600EEFE18 /* designmap.cpp in Sources */, ); runOnlyForDeploymentPostprocessing = 0; }; @@ -2347,7 +2407,7 @@ GCC_OPTIMIZATION_LEVEL = 3; "INSTALL_PATH[sdk=*]" = TARGET_BUILD_DIR; PRODUCT_NAME = mothur; - SDKROOT = macosx10.6; + SDKROOT = macosx10.8; SKIP_INSTALL = NO; }; name = Debug; @@ -2363,6 +2423,7 @@ GCC_OPTIMIZATION_LEVEL = 3; GCC_WARN_UNUSED_VALUE = YES; PRODUCT_NAME = mothur; + SDKROOT = macosx; SKIP_INSTALL = NO; }; name = Release; @@ -2376,11 +2437,11 @@ 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=\"\\\"1.31.0\\\"\"", + "RELEASE_DATE=\"\\\"5/24/2013\\\"\"", ); "GCC_VERSION[arch=*]" = ""; GCC_WARN_ABOUT_MISSING_NEWLINE = YES; @@ -2399,7 +2460,7 @@ "-lncurses", "-lreadline", ); - SDKROOT = macosx10.6; + SDKROOT = macosx; SKIP_INSTALL = NO; USER_HEADER_SEARCH_PATHS = ""; }; @@ -2413,10 +2474,10 @@ 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=\"\\\"1.31.0\\\"\"", + "RELEASE_DATE=\"\\\"5/24/2013\\\"\"", ); GCC_WARN_ABOUT_MISSING_NEWLINE = YES; GCC_WARN_ABOUT_RETURN_TYPE = YES; @@ -2437,7 +2498,7 @@ "-lncurses", "-lreadline", ); - SDKROOT = macosx10.6; + SDKROOT = macosx; SKIP_INSTALL = NO; }; name = Release;