debian/changelog

-emmax (0~beta.20100307-1) UNRELEASED; urgency=low
+emmax (0~beta.20100307-1) unstable; urgency=low
 
-  * Initial release pending, not uploaded because of unknown license.
+  * Initial release (Closes: #925158)
 
- -- Andreas Tille <tille@debian.org>  Wed, 20 Mar 2019 13:55:07 +0100
+ -- Andreas Tille <tille@debian.org>  Wed, 20 Mar 2019 18:28:20 +0100

debian/control

@@ -25,6 +25,6 @@ Description: genetic mapping considering population structure
  association mapping accounting for the sample structure. In addition
  to the computational efficiency obtained by EMMA algorithm, EMMAX takes
  advantage of the fact that each locus explains only a small fraction of
- complex traits, which allows to avoid repetitive variance component
+ complex traits, which allows one to avoid repetitive variance component
  estimation procedure, resulting in a significant amount of increase in
  computational time of association mapping using mixed model.

debian/patches/aborts.patch

+Author: Steffen Moeller
+Last-Update: 2013-06-11 09:09:19 +0000
+Description: Clean exit when no options are given
+
 Index: emmax-0~beta.20100307/emmax-kin.c
 ===================================================================
 --- emmax-0~beta.20100307.orig/emmax-kin.c

debian/patches/clean.patch

+Author: Steffen Moeller
+Last-Update: 2013-06-11 09:09:19 +0000
+Description: Proper cleaning
+
 Index: emmax-0~beta.20100307/makefile
 ===================================================================
 --- emmax-0~beta.20100307.orig/makefile

debian/patches/dynamic.patch

+Author: Steffen Moeller
+Last-Update: 2013-06-11 09:09:19 +0000
+Description: Dynamic linking
+
 Index: emmax-0~beta.20100307/makefile
 ===================================================================
 --- emmax-0~beta.20100307.orig/makefile

debian/patches/hardening.patch

+Author: Andreas Tille <tille@debian.org>
+Last-Update: Wed, 20 Mar 2019 18:28:20 +0100
+Description: Propagate hardening options (unfortunately this does not help)
+
+--- a/makefile
++++ b/makefile
+@@ -5,9 +5,9 @@ PREFIX=/usr
+ INCFLAGS = 
+ LIBFLAGS = -Wall
+ 
+-COMPFLAGS = ${INCFLAGS} -O2 -Wall -g
++COMPFLAGS = ${INCFLAGS} -O2 -Wall -g $(CFLAGS)
+ CC = gcc
+-CLIBS = -L/usr/lib/atlas-base -L/usr/lib/lapack/ -llapack_atlas -llapack -lcblas -lblas -latlas -lcblas -lm -lz
++CLIBS = -L/usr/lib/atlas-base -L/usr/lib/lapack/ -llapack_atlas -llapack -lcblas -lblas -latlas -lcblas -lm -lz $(LDFLAGS)
+ 
+ all: emmax emmax-kin
+ 

debian/patches/install.patch

+Author: Steffen Moeller
+Last-Update: 2013-06-11 09:09:19 +0000
+Description: Proper install target
+
 Index: emmax-0~beta.20100307/makefile
 ===================================================================
 --- emmax-0~beta.20100307.orig/makefile

debian/patches/logfile.patch

+Author: Steffen Moeller
+Last-Update: 2013-06-11 09:09:19 +0000
+Description: Log only if file pointer exists
+
 Index: emmax-0~beta.20100307/emmax.c
 ===================================================================
 --- emmax-0~beta.20100307.orig/emmax.c

debian/patches/paths.patch

+Author: Steffen Moeller
+Last-Update: 2013-06-11 09:09:19 +0000
+Description: Fix header path of clapack.h
+
 Index: emmax-0~beta.20100307/emmax.c
 ===================================================================
 --- emmax-0~beta.20100307.orig/emmax.c

debian/patches/series

@@ -5,3 +5,4 @@ install.patch
 clean.patch
 logfile.patch
 atlas.patch
+hardening.patch