diff --git a/CMakeLists.txt b/CMakeLists.txt
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diff --git a/src/CMakeLists.txt b/src/CMakeLists.txt
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diff --git a/src/main.cpp b/src/main.cpp
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diff --git a/src/markdup/args.cpp b/src/markdup/args.cpp
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diff --git a/src/markdup/args.h b/src/markdup/args.h
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diff --git a/src/markdup/dup_metrics.h b/src/markdup/dup_metrics.h
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diff --git a/src/markdup/global_vars.h b/src/markdup/global_vars.h
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diff --git a/src/markdup/markdup.cpp b/src/markdup/markdup.cpp
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diff --git a/src/markdup/md_funcs.cpp b/src/markdup/md_funcs.cpp
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diff --git a/src/markdup/md_funcs.h b/src/markdup/md_funcs.h
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diff --git a/src/markdup/md_types.h b/src/markdup/md_types.h
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diff --git a/src/markdup/pipeline_md.cpp b/src/markdup/pipeline_md.cpp
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diff --git a/src/markdup/pipeline_md.h b/src/markdup/pipeline_md.h
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diff --git a/src/markdup/read_ends.h b/src/markdup/read_ends.h
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diff --git a/src/markdup/read_name_parser.h b/src/markdup/read_name_parser.h
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diff --git a/src/util/bam_buf.cpp b/src/util/bam_buf.cpp
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diff --git a/src/util/bam_buf.h b/src/util/bam_buf.h
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diff --git a/src/util/bam_wrap.h b/src/util/bam_wrap.h
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diff --git a/src/util/murmur3.h b/src/util/murmur3.h
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diff --git a/src/util/timer.cpp b/src/util/timer.cpp
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diff --git a/src/util/timer.h b/src/util/timer.h
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diff --git a/src/util/yarn.cpp b/src/util/yarn.cpp
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diff --git a/src/util/yarn.h b/src/util/yarn.h
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