CXXFLAGS=-O2

objects=bidirectional_kmer_incidence_collector.o bidirectional_kmer_incidence_map.o bidirectional_pwm_motif_incidence_collector.o binomial_gene_set_motif_enrichment.o buffered_reader.o collect_incidence_matrix.o common.o conserved_motif_scanner.o dfa_iupac_motif_incidence_collector.o expression_annotator.o expression_set_reader.o expression_statistics.o expression_vector.o gap_kmer_encoder.o gene_id_set_collection.o gene_id_set_collection_reader.o gene_id_set_marker.o gene_id_set_reader.o gene_set_motif_enrichment_base.o hypergeometric_gene_set_motif_enrichment.o iupac_alphabet.o iupac_motif.o iupac_motif_incidence_collector.o iupac_motif_vector_reader.o kmer_encoder.o kmer_incidence_collector.o kmer_incidence_map.o kolmogorov_smirnov_d.o length_corrected_mann_whitney_u.o main.o mann_whitney_u.o mark_set.o min_p_value.o motif_incidence_collector.o motif_incidence_computer.o motif_incidence_map.o motif_incidence_marker.o motif_incidence_set.o motif_instance.o motif_scanner.o multi_dfa.o named_motif_incidence_collector.o named_motif_incidence_map.o neighborhood_iupac_motif_incidence_collector.o neighborhood_kmer_incidence_computer.o nucleotide_distribution.o orthology_annotator.o orthology_map_reader.o precomputed_motif_incidence_collector.o print_incidence.o print_nominally_significant_statistic.o print_significant_statistic.o print_statistic.o promoter.o pwm_motif.o pwm_motif_incidence_collector.o pwm_motif_vector_reader.o sequence.o sequence_expression_map_reader.o student_t.o univariate_expression_statistic_calculator.o

motifADE: ${objects}
	g++ -o $@ ${objects}
