CVS commit: pkgsrc/biology/puzzle

["Thomas Klausner" <wiz%netbsd.org@localhost>]

Module Name:    pkgsrc
Committed By:   wiz
Date:           Mon Apr 27 09:39:28 UTC 2026

Modified Files:
        pkgsrc/biology/puzzle: Makefile PLIST distinfo
Added Files:
        pkgsrc/biology/puzzle/patches: patch-configure

Log Message:
puzzle: fix MPI compiler detection on -current

and restore ppuzzle to PLIST

Bump PKGREVISION.


To generate a diff of this commit:
cvs rdiff -u -r1.16 -r1.17 pkgsrc/biology/puzzle/Makefile
cvs rdiff -u -r1.5 -r1.6 pkgsrc/biology/puzzle/PLIST
cvs rdiff -u -r1.10 -r1.11 pkgsrc/biology/puzzle/distinfo
cvs rdiff -u -r0 -r1.1 pkgsrc/biology/puzzle/patches/patch-configure

Please note that diffs are not public domain; they are subject to the
copyright notices on the relevant files.

Modified files:

Index: pkgsrc/biology/puzzle/Makefile
diff -u pkgsrc/biology/puzzle/Makefile:1.16 pkgsrc/biology/puzzle/Makefile:1.17
--- pkgsrc/biology/puzzle/Makefile:1.16 Sun Jan  4 00:10:35 2026
+++ pkgsrc/biology/puzzle/Makefile      Mon Apr 27 09:39:28 2026
@@ -1,8 +1,8 @@
-# $NetBSD: Makefile,v 1.16 2026/01/04 00:10:35 wiz Exp $
+# $NetBSD: Makefile,v 1.17 2026/04/27 09:39:28 wiz Exp $
 
 DISTNAME=      tree-puzzle-5.2
 PKGNAME=       ${DISTNAME:S/^tree-//}
-PKGREVISION=   1
+PKGREVISION=   2
 CATEGORIES=    biology
 MASTER_SITES=  http://www.tree-puzzle.de/
 
@@ -12,6 +12,8 @@ COMMENT=      Maximum likelihood analysis of 
 LICENSE=       gnu-gpl-v2
 
 GNU_CONFIGURE= yes
+# mv: rename pstep.o to ppstep.o: No such file or directory
+# and link errors
 MAKE_JOBS_SAFE=        no
 
 INSTALLATION_DIRS=     share/doc/puzzle \

Index: pkgsrc/biology/puzzle/PLIST
diff -u pkgsrc/biology/puzzle/PLIST:1.5 pkgsrc/biology/puzzle/PLIST:1.6
--- pkgsrc/biology/puzzle/PLIST:1.5     Sun Jan  4 00:10:35 2026
+++ pkgsrc/biology/puzzle/PLIST Mon Apr 27 09:39:28 2026
@@ -1,4 +1,5 @@
-@comment $NetBSD: PLIST,v 1.5 2026/01/04 00:10:35 wiz Exp $
+@comment $NetBSD: PLIST,v 1.6 2026/04/27 09:39:28 wiz Exp $
+bin/ppuzzle
 bin/puzzle
 share/doc/puzzle/tree-puzzle.pdf
 share/examples/puzzle/EF.3trees

Index: pkgsrc/biology/puzzle/distinfo
diff -u pkgsrc/biology/puzzle/distinfo:1.10 pkgsrc/biology/puzzle/distinfo:1.11
--- pkgsrc/biology/puzzle/distinfo:1.10 Sun Jan  4 00:10:35 2026
+++ pkgsrc/biology/puzzle/distinfo      Mon Apr 27 09:39:28 2026
@@ -1,6 +1,7 @@
-$NetBSD: distinfo,v 1.10 2026/01/04 00:10:35 wiz Exp $
+$NetBSD: distinfo,v 1.11 2026/04/27 09:39:28 wiz Exp $
 
 BLAKE2s (tree-puzzle-5.2.tar.gz) = 6fd972a74294fec757ff4526bd7b7903c67cac4501c918737e96e4b477000148
 SHA512 (tree-puzzle-5.2.tar.gz) = 5b9a729b120cba59f59ba426acd439cf396826ea01e75361b23387ccb9baf295d2512f21af96071a5f7b7507db4ff4d6b135cf6c5b6233a8b438532d31abe751
 Size (tree-puzzle-5.2.tar.gz) = 875142 bytes
+SHA1 (patch-configure) = 4d93f4463f1c90f6f7f6a6cb2565f320ba695842
 SHA1 (patch-src_sprng_primes-lcg64.c) = d6859be4e54329bc2191dc686178cdd81ef01279

Added files:

Index: pkgsrc/biology/puzzle/patches/patch-configure
diff -u /dev/null pkgsrc/biology/puzzle/patches/patch-configure:1.1
--- /dev/null   Mon Apr 27 09:39:28 2026
+++ pkgsrc/biology/puzzle/patches/patch-configure       Mon Apr 27 09:39:28 2026
@@ -0,0 +1,62 @@
+$NetBSD: patch-configure,v 1.1 2026/04/27 09:39:28 wiz Exp $
+
+Add header for exit().
+
+--- configure.orig     2004-07-14 19:36:33.000000000 +0000
++++ configure
+@@ -3028,6 +3028,7 @@ cat > conftest.c <<EOF
+  if test  "$MPICC0" != ""  ; then
+  if test  "$MPICCSET" = ""  ; then
+ cat > conftest.c <<EOF
++#include<stdlib.h>
+ #include<mpi.h>
+ int main (int argc, char **argv)
+ {
+@@ -3080,6 +3081,7 @@ cat > conftest.c <<EOF
+  if test  "$MPICC1" != ""  ; then
+  if test  "$MPICCSET" = ""  ; then
+ cat > conftest.c <<EOF
++#include<stdlib.h>
+ #include<mpi.h>
+ int main (int argc, char **argv)
+ {
+@@ -3132,6 +3134,7 @@ cat > conftest.c <<EOF
+  if test  "$MPICC2" != ""  ; then
+  if test  "$MPICCSET" = ""  ; then
+ cat > conftest.c <<EOF
++#include<stdlib.h>
+ #include<mpi.h>
+ int main (int argc, char **argv)
+ {
+@@ -3184,6 +3187,7 @@ cat > conftest.c <<EOF
+  if test  "$MPICC3" != ""  ; then
+  if test  "$MPICCSET" = ""  ; then
+ cat > conftest.c <<EOF
++#include<stdlib.h>
+ #include<mpi.h>
+ int main (int argc, char **argv)
+ {
+@@ -3236,6 +3240,7 @@ cat > conftest.c <<EOF
+  if test  "$MPICC4" != ""  ; then
+  if test  "$MPICCSET" = ""  ; then
+ cat > conftest.c <<EOF
++#include<stdlib.h>
+ #include<mpi.h>
+ int main (int argc, char **argv)
+ {
+@@ -3288,6 +3293,7 @@ cat > conftest.c <<EOF
+  if test  "$MPICC5" != ""  ; then
+  if test  "$MPICCSET" = ""  ; then
+ cat > conftest.c <<EOF
++#include<stdlib.h>
+ #include<mpi.h>
+ int main (int argc, char **argv)
+ {
+@@ -3340,6 +3346,7 @@ cat > conftest.c <<EOF
+  if test  "$MPICC6" != ""  ; then
+  if test  "$MPICCSET" = ""  ; then
+ cat > conftest.c <<EOF
++#include<stdlib.h>
+ #include<mpi.h>
+ int main (int argc, char **argv)
+ {