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-rw-r--r--sci-biology/dialign-tx/files/dialign-tx-1.0.2-fix-build-system.patch24
-rw-r--r--sci-biology/dialign-tx/files/dialign-tx-1.0.2-gnu89-inline.patch11
-rw-r--r--sci-biology/dialign-tx/files/dialign-tx-1.0.2-implicits.patch4
3 files changed, 37 insertions, 2 deletions
diff --git a/sci-biology/dialign-tx/files/dialign-tx-1.0.2-fix-build-system.patch b/sci-biology/dialign-tx/files/dialign-tx-1.0.2-fix-build-system.patch
new file mode 100644
index 00000000000..cbfd458043c
--- /dev/null
+++ b/sci-biology/dialign-tx/files/dialign-tx-1.0.2-fix-build-system.patch
@@ -0,0 +1,24 @@
+--- a/source/Makefile
++++ b/source/Makefile
+@@ -1,4 +1,3 @@
+-CC=gcc
+ # debug
+ #CPPFLAGS=-g -O0 -Q -v -da
+ #CPPFLAGS=-g -O0 -fstack-check -Q -v -da
+@@ -8,7 +7,6 @@
+ # THIS IS FOR THE OPTIMIZED ONE
+ #CPPFLAGS=-g
+ #CPPFLAGS=-O3 -march=i686 -funroll-loops
+-CPPFLAGS=-O3 -funroll-loops -march=i686 -mfpmath=sse -msse -mmmx
+ #CPPFLAGS=-march=athlon-mp -g -O0 -Wall -D_USE_XOPEN -D__unix__
+
+ OBJ_DIR=.
+@@ -33,7 +31,7 @@
+
+ museq: $(OBJ)
+ rm -f $(TARGET)/$@
+- $(CC) -o $(TARGET)/$@ \
++ $(CC) $(LDFLAGS) -o $(TARGET)/$@ \
+ $(OBJ) \
+ -pipe -Wall -lm
+ mv museq dialign-tx
diff --git a/sci-biology/dialign-tx/files/dialign-tx-1.0.2-gnu89-inline.patch b/sci-biology/dialign-tx/files/dialign-tx-1.0.2-gnu89-inline.patch
new file mode 100644
index 00000000000..21f576f0705
--- /dev/null
+++ b/sci-biology/dialign-tx/files/dialign-tx-1.0.2-gnu89-inline.patch
@@ -0,0 +1,11 @@
+--- a/source/diag.c
++++ b/source/diag.c
+@@ -958,7 +958,7 @@
+ * The pointer returned (and the ones included in the struct)
+ * has to be deallocted explicitely from memory.
+ */
+-inline struct simple_diag_col* find_diags_dialign(struct scr_matrix *smatrix,
++static inline struct simple_diag_col* find_diags_dialign(struct scr_matrix *smatrix,
+ struct prob_dist *pdist, struct seq* seq1,
+ struct seq* seq2, struct alignment *algn,
+ long double **tmp_dist, int round) {
diff --git a/sci-biology/dialign-tx/files/dialign-tx-1.0.2-implicits.patch b/sci-biology/dialign-tx/files/dialign-tx-1.0.2-implicits.patch
index a8388d03232..d82a5bf4be3 100644
--- a/sci-biology/dialign-tx/files/dialign-tx-1.0.2-implicits.patch
+++ b/sci-biology/dialign-tx/files/dialign-tx-1.0.2-implicits.patch
@@ -1,5 +1,5 @@
---- source/museq.c
-+++ source/museq.c
+--- a/source/museq.c
++++ b/source/museq.c
@@ -38,6 +38,7 @@
//extern void calc_weight(struct diag* dg, struct scr_matrix* smatrix,
// struct prob_dist *pdist);