Added summary.qual command. Added fontsize parameter to heatmap.sim and venn commands

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

diff --git a/Mothur.xcodeproj/project.pbxproj b/Mothur.xcodeproj/project.pbxproj
index 769e33999b25da3d3751b2249476e7c53fab7a6a..d1cb6d8776158e5749eef9d0112a6a2a97d8acb6 100644 (file)
--- a/Mothur.xcodeproj/project.pbxproj
+++ b/Mothur.xcodeproj/project.pbxproj
@@ -41,14 +41,20 @@
                A74D369B137DAB8400332B0C /* viterbifast.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A74D3684137DAB8300332B0C /* viterbifast.cpp */; };
                A74D369C137DAB8400332B0C /* writechhit.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A74D3686137DAB8300332B0C /* writechhit.cpp */; };
                A74D36B8137DAFAA00332B0C /* chimerauchimecommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A74D36B7137DAFAA00332B0C /* chimerauchimecommand.cpp */; };
+               A754149714840CF7005850D1 /* summaryqualcommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A754149614840CF7005850D1 /* summaryqualcommand.cpp */; };
                A75790591301749D00A30DAB /* homovacommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A75790581301749D00A30DAB /* homovacommand.cpp */; };
                A7730EFF13967241007433A3 /* countseqscommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A7730EFE13967241007433A3 /* countseqscommand.cpp */; };
+               A774101414695AF60098E6AC /* shhhseqscommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A774101314695AF60098E6AC /* shhhseqscommand.cpp */; };
+               A774104814696F320098E6AC /* myseqdist.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A774104614696F320098E6AC /* myseqdist.cpp */; };
+               A77410F614697C300098E6AC /* seqnoise.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A77410F414697C300098E6AC /* seqnoise.cpp */; };
                A778FE6B134CA6CA00C0BA33 /* getcommandinfocommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A778FE6A134CA6CA00C0BA33 /* getcommandinfocommand.cpp */; };
                A77A221F139001B600B0BE70 /* deuniquetreecommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A77A221E139001B600B0BE70 /* deuniquetreecommand.cpp */; };
                A79234D713C74BF6002B08E2 /* mothurfisher.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A79234D613C74BF6002B08E2 /* mothurfisher.cpp */; };
                A795840D13F13CD900F201D5 /* countgroupscommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A795840C13F13CD900F201D5 /* countgroupscommand.cpp */; };
                A799F5B91309A3E000AEEFA0 /* makefastqcommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A799F5B81309A3E000AEEFA0 /* makefastqcommand.cpp */; };
                A7A61F2D130062E000E05B6B /* amovacommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A7A61F2C130062E000E05B6B /* amovacommand.cpp */; };
+               A7BF221414587886000AD524 /* myPerseus.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A7BF221214587886000AD524 /* myPerseus.cpp */; };
+               A7BF2232145879B2000AD524 /* chimeraperseuscommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A7BF2231145879B2000AD524 /* chimeraperseuscommand.cpp */; };
                A7E9B88112D37EC400DA6239 /* ace.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A7E9B64F12D37EC300DA6239 /* ace.cpp */; };
                A7E9B88212D37EC400DA6239 /* aligncommand.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A7E9B65112D37EC300DA6239 /* aligncommand.cpp */; };
                A7E9B88312D37EC400DA6239 /* alignment.cpp in Sources */ = {isa = PBXBuildFile; fileRef = A7E9B65312D37EC300DA6239 /* alignment.cpp */; };
@@ -414,10 +420,18 @@
                A74D3686137DAB8300332B0C /* writechhit.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = writechhit.cpp; sourceTree = "<group>"; };
                A74D36B6137DAFAA00332B0C /* chimerauchimecommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = chimerauchimecommand.h; sourceTree = "<group>"; };
                A74D36B7137DAFAA00332B0C /* chimerauchimecommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = chimerauchimecommand.cpp; 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>"; };
                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>"; };
                A7730EFD13967241007433A3 /* countseqscommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = countseqscommand.h; sourceTree = "<group>"; };
                A7730EFE13967241007433A3 /* countseqscommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = countseqscommand.cpp; sourceTree = "<group>"; };
+               A774101214695AF60098E6AC /* shhhseqscommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = shhhseqscommand.h; sourceTree = "<group>"; };
+               A774101314695AF60098E6AC /* shhhseqscommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = shhhseqscommand.cpp; sourceTree = "<group>"; };
+               A774104614696F320098E6AC /* myseqdist.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = myseqdist.cpp; sourceTree = "<group>"; };
+               A774104714696F320098E6AC /* myseqdist.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = myseqdist.h; sourceTree = "<group>"; };
+               A77410F414697C300098E6AC /* seqnoise.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = seqnoise.cpp; sourceTree = "<group>"; };
+               A77410F514697C300098E6AC /* seqnoise.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = seqnoise.h; sourceTree = "<group>"; };
                A778FE69134CA6CA00C0BA33 /* getcommandinfocommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = getcommandinfocommand.h; sourceTree = "<group>"; };
                A778FE6A134CA6CA00C0BA33 /* getcommandinfocommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = getcommandinfocommand.cpp; sourceTree = "<group>"; };
                A77A221D139001B600B0BE70 /* deuniquetreecommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = deuniquetreecommand.h; sourceTree = "<group>"; };
@@ -432,6 +446,10 @@
                A7A61F2B130062E000E05B6B /* amovacommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = amovacommand.h; sourceTree = "<group>"; };
                A7A61F2C130062E000E05B6B /* amovacommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = amovacommand.cpp; sourceTree = "<group>"; };
                A7AACFBA132FE008003D6C4D /* currentfile.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = currentfile.h; sourceTree = "<group>"; };
+               A7BF221214587886000AD524 /* myPerseus.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = myPerseus.cpp; sourceTree = "<group>"; };
+               A7BF221314587886000AD524 /* myPerseus.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = myPerseus.h; sourceTree = "<group>"; };
+               A7BF2230145879B2000AD524 /* chimeraperseuscommand.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = chimeraperseuscommand.h; sourceTree = "<group>"; };
+               A7BF2231145879B2000AD524 /* chimeraperseuscommand.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = chimeraperseuscommand.cpp; sourceTree = "<group>"; };
                A7DAAFA3133A254E003956EB /* commandparameter.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = commandparameter.h; sourceTree = "<group>"; };
                A7E9B64F12D37EC300DA6239 /* ace.cpp */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.cpp.cpp; path = ace.cpp; sourceTree = "<group>"; };
                A7E9B65012D37EC300DA6239 /* ace.h */ = {isa = PBXFileReference; fileEncoding = 4; lastKnownFileType = sourcecode.c.h; path = ace.h; sourceTree = "<group>"; };
@@ -1082,6 +1100,8 @@
                                A7E9B75C12D37EC400DA6239 /* mothur.h */,
                                A7E9B75D12D37EC400DA6239 /* mothurout.cpp */,
                                A7E9B75E12D37EC400DA6239 /* mothurout.h */,
+                               A774104714696F320098E6AC /* myseqdist.h */,
+                               A774104614696F320098E6AC /* myseqdist.cpp */,
                                A7E9B76112D37EC400DA6239 /* nast.cpp */,
                                A7E9B76212D37EC400DA6239 /* nast.hpp */,
                                A7E9B76312D37EC400DA6239 /* nastreport.cpp */,
@@ -1106,6 +1126,8 @@
                                A7E9B7AD12D37EC400DA6239 /* rarefactioncurvedata.h */,
                                7E6BE10812F710D8007ADDBE /* refchimeratest.h */,
                                7E6BE10912F710D8007ADDBE /* refchimeratest.cpp */,
+                               A77410F514697C300098E6AC /* seqnoise.h */,
+                               A77410F414697C300098E6AC /* seqnoise.cpp */,
                                A7E9BA5312D39A5E00DA6239 /* read */,
                                A7E9B82312D37EC400DA6239 /* sharedutilities.cpp */,
                                A7E9B82412D37EC400DA6239 /* sharedutilities.h */,
@@ -1214,6 +1236,8 @@
                                A7E9B67E12D37EC400DA6239 /* chimeracheckcommand.cpp */,
                                A7E9B68312D37EC400DA6239 /* chimerapintailcommand.h */,
                                A7E9B68212D37EC400DA6239 /* chimerapintailcommand.cpp */,
+                               A7BF2230145879B2000AD524 /* chimeraperseuscommand.h */,
+                               A7BF2231145879B2000AD524 /* chimeraperseuscommand.cpp */,
                                A7E9B68B12D37EC400DA6239 /* chimeraslayercommand.h */,
                                A7E9B68A12D37EC400DA6239 /* chimeraslayercommand.cpp */,
                                A74D36B6137DAFAA00332B0C /* chimerauchimecommand.h */,
@@ -1396,6 +1420,8 @@
                                A7E9B7F212D37EC400DA6239 /* sharedcommand.cpp */,
                                A7E9B82812D37EC400DA6239 /* shhhercommand.h */,
                                A7E9B82712D37EC400DA6239 /* shhhercommand.cpp */,
+                               A774101214695AF60098E6AC /* shhhseqscommand.h */,
+                               A774101314695AF60098E6AC /* shhhseqscommand.cpp */,
                                A7E9B84012D37EC400DA6239 /* splitabundcommand.h */,
                                A7E9B83F12D37EC400DA6239 /* splitabundcommand.cpp */,
                                A7E9B84212D37EC400DA6239 /* splitgroupscommand.h */,
@@ -1404,6 +1430,8 @@
                                A7E9B84F12D37EC400DA6239 /* subsamplecommand.cpp */,
                                A7E9B85812D37EC400DA6239 /* summarycommand.h */,
                                A7E9B85712D37EC400DA6239 /* summarycommand.cpp */,
+                               A754149514840CF7005850D1 /* summaryqualcommand.h */,
+                               A754149614840CF7005850D1 /* summaryqualcommand.cpp */,
                                A7E9B85A12D37EC400DA6239 /* summarysharedcommand.h */,
                                A7E9B85912D37EC400DA6239 /* summarysharedcommand.cpp */,
                                A7FFB556142CA02C004884F2 /* summarytaxcommand.h */,
@@ -1688,6 +1716,8 @@
                                A7E9B68912D37EC400DA6239 /* chimeraslayer.h */,
                                A7E9B74612D37EC400DA6239 /* maligner.h */,
                                A7E9B74512D37EC400DA6239 /* maligner.cpp */,
+                               A7BF221314587886000AD524 /* myPerseus.h */,
+                               A7BF221214587886000AD524 /* myPerseus.cpp */,
                                A7E9B79312D37EC400DA6239 /* pintail.cpp */,
                                A7E9B79412D37EC400DA6239 /* pintail.h */,
                                A7E9B82E12D37EC400DA6239 /* slayer.cpp */,
@@ -2155,6 +2185,12 @@
                                A7FF19F2140FFDA500AD216D /* trimoligos.cpp in Sources */,
                                A7F9F5CF141A5E500032F693 /* sequenceparser.cpp in Sources */,
                                A7FFB558142CA02C004884F2 /* summarytaxcommand.cpp in Sources */,
+                               A7BF221414587886000AD524 /* myPerseus.cpp in Sources */,
+                               A7BF2232145879B2000AD524 /* chimeraperseuscommand.cpp in Sources */,
+                               A774101414695AF60098E6AC /* shhhseqscommand.cpp in Sources */,
+                               A774104814696F320098E6AC /* myseqdist.cpp in Sources */,
+                               A77410F614697C300098E6AC /* seqnoise.cpp in Sources */,
+                               A754149714840CF7005850D1 /* summaryqualcommand.cpp in Sources */,
                        );
                        runOnlyForDeploymentPostprocessing = 0;
                };
@@ -2201,8 +2237,8 @@
                                GCC_OPTIMIZATION_LEVEL = 3;
                                GCC_PREPROCESSOR_DEFINITIONS = (
                                        "MOTHUR_FILES=\"\\\"../release\\\"\"",
-                                       "VERSION=\"\\\"1.21.0\\\"\"",
-                                       "RELEASE_DATE=\"\\\"7/25/2011\\\"\"",
+                                       "VERSION=\"\\\"1.22.0\\\"\"",
+                                       "RELEASE_DATE=\"\\\"10/12/2011\\\"\"",
                                );
                                GCC_WARN_ABOUT_MISSING_NEWLINE = YES;
                                GCC_WARN_ABOUT_RETURN_TYPE = YES;