Add mammoth, a nice structural alignment program. It contains the MaxSub algorithm, which is used by lots of people.

(Portage version: 2.1.4_rc4)

2 files changed, 24 insertions, 0 deletions

diff --git a/sci-biology/mammoth/files/1.0-consistent-system-intrinsic.patch b/sci-biology/mammoth/files/1.0-consistent-system-intrinsic.patch
new file mode 100644
index 000000000000..63bf9f246750
--- /dev/null
+++ b/sci-biology/mammoth/files/1.0-consistent-system-intrinsic.patch
@@ -0,0 +1,21 @@
+http://gcc.gnu.org/onlinedocs/gcc-4.2.2/gfortran/SYSTEM.html#SYSTEM
+
+This intrinsic is provided in both subroutine and function forms; 
+however, only one form can be used in any given program unit.
+
+--- src/6apply_rot_tras.f.orig	2007-12-10 00:51:35.000000000 -0800
++++ src/6apply_rot_tras.f	2007-12-10 00:55:07.000000000 -0800
+@@ -47,11 +47,11 @@
+       endif
+ 
+ 
+-      call system ('echo $PWD > junk1')
++      i = system ('echo $PWD > junk1')
+       open(unit=21,file='junk1')
+       read(21,'(a340)', end=7) path
+  7    close(21)
+-      call system ('rm -f junk1')
++      i = system ('rm -f junk1')
+ 
+ c      write(6,*)'my path is ', path
+ c      write(6,*)tras1,tras2,tras3,
diff --git a/sci-biology/mammoth/files/digest-mammoth-1.0 b/sci-biology/mammoth/files/digest-mammoth-1.0
new file mode 100644
index 000000000000..3b87d317c321
--- /dev/null
+++ b/sci-biology/mammoth/files/digest-mammoth-1.0
@@ -0,0 +1,3 @@
+MD5 241c7b3ba69974015ea82dad13b5a987 mammoth-1.0-src.tgz 319617
+RMD160 32b6c9c994ba804fab352cc9cfaa3358784f1052 mammoth-1.0-src.tgz 319617
+SHA256 7a21bc47db4a47cc5ebeeb4c46761a79eece0a802104a3d6189f388a03e59de2 mammoth-1.0-src.tgz 319617