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| ### std-options | ||
| # check that installed programs support the --help and --version options | ||
| # basic check that the program's run-time dependencies are satisfied | ||
| ### subdir-objects | ||
| # Place generated object files (.o) into the same directory as their source | ||
| # files, in order to avoid collisions when non-recursive make is used. | ||
| AUTOMAKE_OPTIONS = std-options subdir-objects | ||
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| AM_DEFAULT_SOURCE_EXT = .cpp | ||
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| ############################################################################### | ||
| # THE INTARNA LIBRARY | ||
| ############################################################################### | ||
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| # the library names to build (note we are building static libs only) | ||
| lib_LIBRARIES = libIntaRNA.a | ||
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| # where to install the headers on the system | ||
| libIntaRNA_adir = $(includedir)/IntaRNA | ||
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| # the list of header files that belong to the library (to be installed later) | ||
| libIntaRNA_a_HEADERS = \ | ||
| intarna_config.h \ | ||
| general.h \ | ||
| Accessibility.h \ | ||
| AccessibilityConstraint.h \ | ||
| AccessibilityDisabled.h \ | ||
| AccessibilityFromStream.h \ | ||
| AccessibilityVrna.h \ | ||
| AccessibilityBasePair.h \ | ||
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| ### std-options | ||
| # check that installed programs support the --help and --version options | ||
| # basic check that the program's run-time dependencies are satisfied | ||
| ### subdir-objects | ||
| # Place generated object files (.o) into the same directory as their source | ||
| # files, in order to avoid collisions when non-recursive make is used. | ||
| AUTOMAKE_OPTIONS = std-options subdir-objects | ||
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| AM_DEFAULT_SOURCE_EXT = .cpp | ||
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| ############################################################################### | ||
| # THE INTARNA LIBRARY | ||
| ############################################################################### | ||
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| # the library names to build (note we are building static libs only) | ||
| lib_LIBRARIES = libIntaRNA.a | ||
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| # where to install the headers on the system | ||
| libIntaRNA_adir = $(includedir)/IntaRNA | ||
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| # the list of header files that belong to the library (to be installed later) | ||
| libIntaRNA_a_HEADERS = \ | ||
| intarna_config.h \ | ||
| general.h \ | ||
| Accessibility.h \ | ||
| AccessibilityConstraint.h \ | ||
| AccessibilityDisabled.h \ | ||
| AccessibilityFromStream.h \ | ||
| AccessibilityVrna.h \ | ||
| AccessibilityBasePair.h \ | ||
| HelixConstraint.h \ | ||
| HelixHandler.h \ | ||
| HelixHandlerIdxOffset.h \ | ||
| HelixHandlerStackingOnly.h \ | ||
| HelixHandlerUnpaired.h \ | ||
| IndexRange.h \ | ||
| IndexRangeList.h \ | ||
| Interaction.h \ | ||
| InteractionEnergy.h \ | ||
| InteractionEnergyBasePair.h \ | ||
| InteractionEnergyIdxOffset.h \ | ||
| InteractionEnergyVrna.h \ | ||
| InteractionRange.h \ | ||
| NussinovHandler.h \ | ||
| OutputConstraint.h \ | ||
| OutputHandler.h \ | ||
| OutputHandlerCsv.h \ | ||
| OutputHandlerHub.h \ | ||
| OutputHandlerIntaRNA1.h \ | ||
| OutputHandlerInteractionList.h \ | ||
| OutputHandlerRangeOnly.h \ | ||
| OutputHandlerText.h \ | ||
| PredictionTracker.h \ | ||
| PredictionTrackerHub.h \ | ||
| PredictionTrackerPairMinE.h \ | ||
| PredictionTrackerProfileMinE.h \ | ||
| PredictionTrackerSpotProb.h \ | ||
| PredictionTrackerSpotProbAll.h \ | ||
| PredictionTrackerProfileSpotProb.h \ | ||
| Predictor.h \ | ||
| PredictorMaxProb.h \ | ||
| PredictorMfe.h \ | ||
| PredictorMfe2d.h \ | ||
| PredictorMfe2dSeed.h \ | ||
| PredictorMfe2dHeuristic.h \ | ||
| PredictorMfe2dHeuristicSeed.h \ | ||
| IndexRange.h \ | ||
| IndexRangeList.h \ | ||
| Interaction.h \ | ||
| InteractionEnergy.h \ | ||
| InteractionEnergyBasePair.h \ | ||
| InteractionEnergyIdxOffset.h \ | ||
| InteractionEnergyVrna.h \ | ||
| InteractionRange.h \ | ||
| NussinovHandler.h \ | ||
| OutputConstraint.h \ | ||
| OutputHandler.h \ | ||
| OutputHandlerCsv.h \ | ||
| OutputHandlerHub.h \ | ||
| OutputHandlerIntaRNA1.h \ | ||
| OutputHandlerInteractionList.h \ | ||
| OutputHandlerRangeOnly.h \ | ||
| OutputHandlerText.h \ | ||
| PredictionTracker.h \ | ||
| PredictionTrackerHub.h \ | ||
| PredictionTrackerPairMinE.h \ | ||
| PredictionTrackerProfileMinE.h \ | ||
| PredictionTrackerSpotProb.h \ | ||
| PredictionTrackerSpotProbAll.h \ | ||
| PredictionTrackerProfileSpotProb.h \ | ||
| Predictor.h \ | ||
| PredictorMaxProb.h \ | ||
| PredictorMfe.h \ | ||
| PredictorMfe2d.h \ | ||
| PredictorMfe2dSeed.h \ | ||
| PredictorMfe2dHeuristic.h \ | ||
| PredictorMfe2dHeuristicSeed.h \ | ||
| PredictorMfe2dHelixHeuristic.h \ | ||
| PredictorMfe2dHelixHeuristicSeed.h \ | ||
| PredictorMfe4d.h \ | ||
| PredictorMfe4dSeed.h \ | ||
| ReverseAccessibility.h \ | ||
| RnaSequence.h \ | ||
| SeedConstraint.h \ | ||
| SeedHandler.h \ | ||
| SeedHandlerExplicit.h \ | ||
| SeedHandlerIdxOffset.h \ | ||
| SeedHandlerMfe.h \ | ||
| SeedHandlerNoBulge.h \ | ||
| VrnaHandler.h | ||
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| # the sources to add to the library and to add to the source distribution | ||
| libIntaRNA_a_SOURCES = \ | ||
| $(libmylib_a_HEADERS) \ | ||
| general.cpp \ | ||
| Accessibility.cpp \ | ||
| AccessibilityConstraint.cpp \ | ||
| AccessibilityFromStream.cpp \ | ||
| AccessibilityVrna.cpp \ | ||
| AccessibilityBasePair.cpp \ | ||
| PredictorMfe4d.h \ | ||
| PredictorMfe4dSeed.h \ | ||
| ReverseAccessibility.h \ | ||
| RnaSequence.h \ | ||
| SeedConstraint.h \ | ||
| SeedHandler.h \ | ||
| SeedHandlerExplicit.h \ | ||
| SeedHandlerIdxOffset.h \ | ||
| SeedHandlerMfe.h \ | ||
| SeedHandlerNoBulge.h \ | ||
| VrnaHandler.h | ||
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| # the sources to add to the library and to add to the source distribution | ||
| libIntaRNA_a_SOURCES = \ | ||
| $(libmylib_a_HEADERS) \ | ||
| general.cpp \ | ||
| Accessibility.cpp \ | ||
| AccessibilityConstraint.cpp \ | ||
| AccessibilityFromStream.cpp \ | ||
| AccessibilityVrna.cpp \ | ||
| AccessibilityBasePair.cpp \ | ||
| HelixHandler.cpp \ | ||
| HelixHandlerStackingOnly.cpp \ | ||
| HelixHandlerStackingOnlySeed.cpp \ | ||
| HelixHandlerUnpaired.cpp \ | ||
| HelixHandlerUnpairedSeed.cpp \ | ||
| IndexRange.cpp \ | ||
| IndexRangeList.cpp \ | ||
| Interaction.cpp \ | ||
| InteractionEnergy.cpp \ | ||
| InteractionEnergyBasePair.cpp \ | ||
| InteractionEnergyIdxOffset.cpp \ | ||
| InteractionEnergyVrna.cpp \ | ||
| InteractionRange.cpp \ | ||
| NussinovHandler.cpp \ | ||
| OutputConstraint.cpp \ | ||
| OutputHandler.cpp \ | ||
| OutputHandlerCsv.cpp \ | ||
| OutputHandlerIntaRNA1.cpp \ | ||
| OutputHandlerInteractionList.cpp \ | ||
| OutputHandlerRangeOnly.cpp \ | ||
| OutputHandlerText.cpp \ | ||
| PredictionTrackerPairMinE.cpp \ | ||
| PredictionTrackerProfileMinE.cpp \ | ||
| PredictionTrackerSpotProb.cpp \ | ||
| PredictionTrackerSpotProbAll.cpp \ | ||
| PredictionTrackerProfileSpotProb.cpp \ | ||
| PredictorMaxProb.cpp \ | ||
| PredictorMfe.cpp \ | ||
| PredictorMfe2d.cpp \ | ||
| PredictorMfe2dSeed.cpp \ | ||
| PredictorMfe2dHeuristic.cpp \ | ||
| PredictorMfe2dHeuristicSeed.cpp \ | ||
| IndexRange.cpp \ | ||
| IndexRangeList.cpp \ | ||
| Interaction.cpp \ | ||
| InteractionEnergy.cpp \ | ||
| InteractionEnergyBasePair.cpp \ | ||
| InteractionEnergyIdxOffset.cpp \ | ||
| InteractionEnergyVrna.cpp \ | ||
| InteractionRange.cpp \ | ||
| NussinovHandler.cpp \ | ||
| OutputConstraint.cpp \ | ||
| OutputHandler.cpp \ | ||
| OutputHandlerCsv.cpp \ | ||
| OutputHandlerIntaRNA1.cpp \ | ||
| OutputHandlerInteractionList.cpp \ | ||
| OutputHandlerRangeOnly.cpp \ | ||
| OutputHandlerText.cpp \ | ||
| PredictionTrackerPairMinE.cpp \ | ||
| PredictionTrackerProfileMinE.cpp \ | ||
| PredictionTrackerSpotProb.cpp \ | ||
| PredictionTrackerSpotProbAll.cpp \ | ||
| PredictionTrackerProfileSpotProb.cpp \ | ||
| PredictorMaxProb.cpp \ | ||
| PredictorMfe.cpp \ | ||
| PredictorMfe2d.cpp \ | ||
| PredictorMfe2dSeed.cpp \ | ||
| PredictorMfe2dHeuristic.cpp \ | ||
| PredictorMfe2dHeuristicSeed.cpp \ | ||
| PredictorMfe2dHelixHeuristic.cpp \ | ||
| PredictorMfe2dHelixHeuristicSeed.cpp \ | ||
| PredictorMfe4d.cpp \ | ||
| PredictorMfe4dSeed.cpp \ | ||
| ReverseAccessibility.cpp \ | ||
| RnaSequence.cpp \ | ||
| SeedConstraint.cpp \ | ||
| SeedHandlerExplicit.cpp \ | ||
| SeedHandlerMfe.cpp \ | ||
| SeedHandlerNoBulge.cpp \ | ||
| VrnaHandler.cpp | ||
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| # generated intaRNA sources | ||
| nodist_libIntaRNA_a_SOURCES = \ | ||
| ../config.h \ | ||
| intarna_config.h | ||
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| ################################################################ | ||
| # pkg-config | ||
| ################################################################ | ||
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| if enable_pkg_config | ||
| pkgconfigdir = $(libdir)/pkgconfig | ||
| pkgconfig_DATA = $(top_srcdir)/IntaRNA.pc | ||
| endif | ||
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| ############################################################################### | ||
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| PredictorMfe4d.cpp \ | ||
| PredictorMfe4dSeed.cpp \ | ||
| ReverseAccessibility.cpp \ | ||
| RnaSequence.cpp \ | ||
| SeedConstraint.cpp \ | ||
| SeedHandlerExplicit.cpp \ | ||
| SeedHandlerMfe.cpp \ | ||
| SeedHandlerNoBulge.cpp \ | ||
| VrnaHandler.cpp | ||
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| # generated intaRNA sources | ||
| nodist_libIntaRNA_a_SOURCES = \ | ||
| ../config.h \ | ||
| intarna_config.h | ||
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| ################################################################ | ||
| # pkg-config | ||
| ################################################################ | ||
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| if enable_pkg_config | ||
| pkgconfigdir = $(libdir)/pkgconfig | ||
| pkgconfig_DATA = $(top_srcdir)/IntaRNA.pc | ||
| endif | ||
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| ############################################################################### | ||
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