Mac binaries

[jabaws.git] / website / archive / binaries / mac / src / clustalw / src / Makefile.am

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+# Andreas Wilm (UCD): 2007-12-10
+# Generated using the following sites 
+# http://www.openismus.com/documents/linux/automake/automake.shtml
+# http://www.bioinf.uni-freiburg.de/~mmann/HowTo/automake.html
+
+# we do not use GNU-style files: NEWS README AUTHORS ChangeLog
+AUTOMAKE_OPTIONS = foreign
+
+SUBDIRS = 
+
+#EXTRA_DIST =
+# got the following with automake 1.10 (AW 2009-05-19):
+# src/Makefile.am:13: `INCLUDES' is the old name for `AM_CPPFLAGS' (or `*_CPPFLAGS')
+# deleted next line therefore
+# INCLUDES = -I@top_srcdir@/
+
+# LDADD = foofiles/libfoo.a
+
+bin_PROGRAMS = clustalw2
+
+clustalw2_SOURCES =  ./pairwise/PairwiseAlignBase.h \
+ ./pairwise/FastPairwiseAlign.h \
+ ./pairwise/FullPairwiseAlign.cpp \
+ ./pairwise/FullPairwiseAlign.h \
+ ./pairwise/FastPairwiseAlign.cpp \
+ ./fileInput/FileParser.h \
+ ./fileInput/EMBLFileParser.h \
+ ./fileInput/MSFFileParser.cpp \
+ ./fileInput/FileReader.cpp \
+ ./fileInput/PIRFileParser.cpp \
+ ./fileInput/MSFFileParser.h \
+ ./fileInput/FileReader.h \
+ ./fileInput/RSFFileParser.cpp \
+ ./fileInput/PIRFileParser.h \
+ ./fileInput/GDEFileParser.cpp \
+ ./fileInput/RSFFileParser.h \
+ ./fileInput/GDEFileParser.h \
+ ./fileInput/InFileStream.cpp \
+ ./fileInput/ClustalFileParser.cpp \
+ ./fileInput/PearsonFileParser.cpp \
+ ./fileInput/InFileStream.h \
+ ./fileInput/ClustalFileParser.h \
+ ./fileInput/PearsonFileParser.h \
+ ./fileInput/FileParser.cpp \
+ ./fileInput/EMBLFileParser.cpp \
+ ./tree/UPGMA/RootedClusterTree.cpp \
+ ./tree/UPGMA/RootedGuideTree.h \
+ ./tree/UPGMA/UPGMAAlgorithm.cpp \
+ ./tree/UPGMA/RootedTreeOutput.h \
+ ./tree/UPGMA/RootedClusterTree.h \
+ ./tree/UPGMA/Node.cpp \
+ ./tree/UPGMA/UPGMAAlgorithm.h \
+ ./tree/UPGMA/upgmadata.h \
+ ./tree/UPGMA/Node.h \
+ ./tree/UPGMA/RootedGuideTree.cpp \
+ ./tree/UPGMA/RootedTreeOutput.cpp \
+ ./tree/Tree.cpp \
+ ./tree/ClusterTree.cpp \
+ ./tree/AlignmentSteps.h \
+ ./tree/Tree.h \
+ ./tree/ClusterTree.h \
+ ./tree/ClusterTreeAlgorithm.h \
+ ./tree/TreeInterface.cpp \
+ ./tree/UnRootedClusterTree.cpp \
+ ./tree/ClusterTreeOutput.cpp \
+ ./tree/TreeInterface.h \
+ ./tree/dayhoff.h \
+ ./tree/UnRootedClusterTree.h \
+ ./tree/RandomGenerator.cpp \
+ ./tree/NJTree.cpp \
+ ./tree/ClusterTreeOutput.h \
+ ./tree/RandomGenerator.h \
+ ./tree/NJTree.h \
+ ./tree/AlignmentSteps.cpp \
+ ./interface/InteractiveMenu.cpp \
+ ./interface/CommandLineParser.cpp \
+ ./interface/InteractiveMenu.h \
+ ./interface/CommandLineParser.h \
+ ./substitutionMatrix/SubMatrix.cpp \
+ ./substitutionMatrix/SubMatrix.h \
+ ./substitutionMatrix/globalmatrix.h \
+ ./substitutionMatrix/matrices.h \
+ ./multipleAlign/Iteration.cpp \
+ ./multipleAlign/MSA.cpp \
+ ./multipleAlign/MyersMillerProfileAlign.cpp \
+ ./multipleAlign/ProfileBase.h \
+ ./multipleAlign/ProfileStandard.cpp \
+ ./multipleAlign/LowScoreSegProfile.h \
+ ./multipleAlign/Iteration.h \
+ ./multipleAlign/MSA.h \
+ ./multipleAlign/MyersMillerProfileAlign.h \
+ ./multipleAlign/ProfileStandard.h \
+ ./multipleAlign/ProfileWithSub.cpp \
+ ./multipleAlign/ProfileAlignAlgorithm.h \
+ ./multipleAlign/ProfileBase.cpp \
+ ./multipleAlign/ProfileWithSub.h \
+ ./multipleAlign/LowScoreSegProfile.cpp \
+ ./general/ClustalWResources.h \
+ ./general/OutputFile.cpp \
+ ./general/VectorOutOfRange.h \
+ ./general/UserParameters.cpp \
+ ./general/SymMatrix.h \
+ ./general/Utility.cpp \
+ ./general/clustalw.h \
+ ./general/OutputFile.h \
+ ./general/param.h \
+ ./general/utils.h \
+ ./general/UserParameters.h \
+ ./general/SquareMat.h \
+ ./general/Utility.h \
+ ./general/SequenceNotFoundException.h \
+ ./general/InvalidCombination.cpp \
+ ./general/Array2D.h \
+ ./general/RandomAccessLList.h \
+ ./general/general.h \
+ ./general/debuglogObject.h \
+ ./general/statsObject.h \
+ ./general/userparams.h \
+ ./general/DebugLog.cpp \
+ ./general/ClustalWResources.cpp \
+ ./general/VectorUtility.h \
+ ./general/VectorOutOfRange.cpp \
+ ./general/SymMatrix.cpp \
+ ./general/DebugLog.h \
+ ./general/Stats.cpp \
+ ./general/Stats.h \
+ ./Help.cpp \
+ ./Help.h \
+ ./alignment/Alignment.cpp \
+ ./alignment/AlignmentOutput.cpp \
+ ./alignment/Alignment.h \
+ ./alignment/AlignmentOutput.h \
+ ./alignment/ObjectiveScore.cpp \
+ ./alignment/Sequence.cpp \
+ ./alignment/ObjectiveScore.h \
+ ./alignment/Sequence.h \
+ ./Clustal.cpp \
+ ./Clustal.h \
+ ./clustalw_version.h \
+ ./main.cpp