Add adapter_trimmer.cpp to the Makefile

Makefile

@@ -16,7 +16,7 @@ LDFLAGS=
 endif
 
 ## Source code files, add new files to this list
-SRC_COMMON  = src/base_quality.cpp src/error.cpp src/region.cpp src/stringops.cpp src/zalgorithm.cpp src/alignment_filters.cpp src/extract_indels.cpp src/mathops.cpp src/pcr_duplicates.cpp src/bam_io.cpp
+SRC_COMMON  = src/base_quality.cpp src/error.cpp src/region.cpp src/stringops.cpp src/zalgorithm.cpp src/alignment_filters.cpp src/extract_indels.cpp src/mathops.cpp src/pcr_duplicates.cpp src/bam_io.cpp src/adapter_trimmer.cpp
 SRC_HIPSTR  = src/hipstr_main.cpp src/bam_processor.cpp src/stutter_model.cpp src/snp_phasing_quality.cpp src/snp_tree.cpp src/em_stutter_genotyper.cpp src/seq_stutter_genotyper.cpp src/snp_bam_processor.cpp src/genotyper_bam_processor.cpp src/vcf_input.cpp src/read_pooler.cpp src/version.cpp src/haplotype_tracker.cpp src/pedigree.cpp src/vcf_reader.cpp src/genotyper.cpp src/directed_graph.cpp src/debruijn_graph.cpp src/fasta_reader.cpp src/vcf_writer.cpp
 SRC_SEQALN  = src/SeqAlignment/HapAligner.cpp src/SeqAlignment/AlignmentModel.cpp src/SeqAlignment/AlignmentOps.cpp src/SeqAlignment/HapBlock.cpp src/SeqAlignment/NeedlemanWunsch.cpp src/SeqAlignment/Haplotype.cpp src/SeqAlignment/HaplotypeGenerator.cpp src/SeqAlignment/HTMLCreator.cpp src/SeqAlignment/AlignmentViz.cpp src/SeqAlignment/AlignmentTraceback.cpp src/SeqAlignment/StutterAlignerClass.cpp
 SRC_DENOVO  = src/denovos/denovo_main.cpp src/error.cpp src/stringops.cpp src/version.cpp src/pedigree.cpp src/haplotype_tracker.cpp src/vcf_input.cpp src/denovos/denovo_scanner.cpp src/mathops.cpp src/vcf_reader.cpp src/denovos/denovo_allele_priors.cpp src/denovos/trio_denovo_scanner.cpp