51 lines
1.4 KiB
Ruby
51 lines
1.4 KiB
Ruby
|
require 'formula'
|
||
|
|
|
||
|
|
class Abyss < Formula
|
||
|
|
homepage 'http://www.bcgsc.ca/platform/bioinfo/software/abyss'
|
||
|
|
url 'http://www.bcgsc.ca/downloads/abyss/abyss-1.3.2.tar.gz'
|
||
|
|
md5 'a7551c95f33a0c61cab50bc35db347e4'
|
||
|
|
|
||
|
|
# Only header files are used from these packages, so :build is appropriate
|
||
|
|
depends_on 'boost' => :build
|
||
|
|
depends_on 'google-sparsehash' => :build
|
||
|
|
|
||
|
|
# Snow Leopard comes with mpi but Lion does not
|
||
|
|
depends_on 'open-mpi' if MacOS.lion?
|
||
|
|
|
||
|
|
# strip breaks the ability to read compressed files.
|
||
|
|
skip_clean 'bin'
|
||
|
|
|
||
|
|
# abyss-overlap does not build with LLVM-GCC, so skip it. See:
|
||
|
|
# http://lists.apple.com/archives/xcode-users/2011/Oct/msg00241.html
|
||
|
|
# https://github.com/mxcl/homebrew/pull/10550
|
||
|
|
def patches
|
||
|
|
DATA
|
||
|
|
end
|
||
|
|
|
||
|
|
def install
|
||
|
|
system "./configure", "--disable-dependency-tracking",
|
||
|
|
"--prefix=#{prefix}"
|
||
|
|
system "make install"
|
||
|
|
end
|
||
|
|
|
||
|
|
def test
|
||
|
|
system "#{bin}/ABYSS --version"
|
||
|
|
end
|
||
|
|
end
|
||
|
|
|
||
|
|
__END__
|
||
|
|
diff --git a/Map/Makefile.in b/Map/Makefile.in
|
||
|
|
index 7a4e5a8..4dd5dd5 100644
|
||
|
|
--- a/Map/Makefile.in
|
||
|
|
+++ b/Map/Makefile.in
|
||
|
|
@@ -32,8 +32,7 @@ POST_INSTALL = :
|
||
|
|
NORMAL_UNINSTALL = :
|
||
|
|
PRE_UNINSTALL = :
|
||
|
|
POST_UNINSTALL = :
|
||
|
|
-bin_PROGRAMS = abyss-index$(EXEEXT) abyss-map$(EXEEXT) \
|
||
|
|
- abyss-overlap$(EXEEXT)
|
||
|
|
+bin_PROGRAMS = abyss-index$(EXEEXT) abyss-map$(EXEEXT)
|
||
|
|
subdir = Map
|
||
|
|
DIST_COMMON = $(srcdir)/Makefile.am $(srcdir)/Makefile.in
|
||
|
|
ACLOCAL_M4 = $(top_srcdir)/aclocal.m4
|