Skip to content

add cmake support #14

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Open
domibel wants to merge 1 commit into
base: master
Choose a base branch
from
Open

add cmake support #14

Changes from all commits
Commits
Show all changes
1 commit
Select commit
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
90 changes: 90 additions & 0 deletions CMakeLists.txt
View file
Open in desktop
Original file line number Diff line number Diff line change
@@ -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)