diff --git a/CMakeLists.txt b/CMakeLists.txt
new file mode 100644
index 0000000..2ceaf2d
--- /dev/null
+++ b/CMakeLists.txt
@@ -0,0 +1,90 @@
+cmake_minimum_required (VERSION 2.6)
+project (samtools) 
+
+OPTION(BUILD_SHARED_LIBS "Build package with shared libraries." OFF)
+
+add_definitions(-D_FILE_OFFSET_BITS=64 -D_USE_KNETFILE -DMD5SUM_MAIN -D_CURSES_LIB=1)
+
+add_library (bam
+ bgzf.c
+ kstring.c
+ bam_aux.c
+ bam.c
+ bam_import.c
+ sam.c
+ bam_index.c
+ bam_pileup.c
+ bam_lpileup.c
+ bam_md.c
+ razf.c
+ faidx.c
+ bedidx.c
+ knetfile.c
+ bam_sort.c
+ sam_header.c
+ bam_reheader.c
+ kprobaln.c
+ bam_cat.c) 
+
+add_executable (samtools
+ bam_tview.c
+ bam_plcmd.c
+ sam_view.c
+ bam_rmdup.c
+ bam_rmdupse.c
+ bam_mate.c
+ bam_stat.c
+ bam_color.c
+ bam_qa.c
+ bamtk.c
+ padding.c
+ kaln.c
+ bam2bcf.c
+ bam2bcf_indel.c
+ errmod.c
+ sample.c
+ cut_target.c
+ phase.c
+ bam2depth.c)
+
+target_link_libraries (samtools curses bam m z bcf)
+
+
+include_directories("./")
+
+add_library(bcf
+ bcftools/bcf.c
+ bcftools/vcf.c
+ bcftools/bcfutils.c
+ bcftools/prob1.c
+ bcftools/em.c
+ bcftools/kfunc.c
+ bcftools/kmin.c
+ bcftools/index.c
+ bcftools/fet.c
+ bcftools/mut.c
+ bcftools/bcf2qcall.c)
+
+
+add_executable(bcftools
+ bcftools/call1.c
+ bcftools/main.c
+ kstring.c
+ bgzf.c
+ knetfile.c
+ bedidx.c)
+
+target_link_libraries (bcftools bcf m z)
+
+install(TARGETS samtools bcftools DESTINATION bin)
+install(TARGETS bam bcf DESTINATION lib)
+install(
+ FILES
+  bam.h
+  sam.h
+  khash.h
+  faidx.h
+  bgzf.h
+  sam_header.h
+ DESTINATION include)
+