biology/molden: update to 5.8.2

Also add do-install-{option}-on targets and shadow ${MKDIR} commands.

PR:		233060
Submitted by:	yuri

1 files changed, 32 insertions, 0 deletions

diff --git a/biology/molden/files/patch-xwin.c b/biology/molden/files/patch-xwin.c
new file mode 100644
index 000000000000..482160e326b6
--- /dev/null
+++ b/biology/molden/files/patch-xwin.c
@@ -0,0 +1,32 @@
+--- xwin.c.orig	2018-11-07 12:54:20 UTC
++++ xwin.c
+@@ -4218,8 +4218,12 @@ void makeRasterFont(Display *dpy);
+ #include <math.h>
+ 
+ #include <fcntl.h>
+-#if defined(__APPLE__) || defined(__FreeBSD__)
++#if defined(__APPLE__)
+ #include <copyfile.h>
++#elif defined(__FreeBSD__)
++#include <sys/types.h>
++#include <sys/socket.h>
++#include <sys/uio.h>
+ #else
+ #include <sys/sendfile.h>
+ #endif
+@@ -4238,9 +4242,14 @@ int OSCopyFile(const char* source, const
+     }
+ 
+     //Here we use kernel-space copying for performance reasons
+-#if defined(__APPLE__) || defined(__FreeBSD__)
++#if defined(__APPLE__)
+     //fcopyfile works on FreeBSD and OS X 10.5+ 
+     int result = fcopyfile(input, output, 0, COPYFILE_ALL);
++#elif defined(__FreeBSD__)
++    off_t bytesCopied = 0;
++    struct stat fileinfo = {0};
++    fstat(input, &fileinfo);
++    int result = sendfile(output, input, 0/*ofset*/, fileinfo.st_size, 0/*hdtr*/, &bytesCopied, 0/*flags*/);
+ #else
+     //sendfile will work with non-socket output (i.e. regular file) on Linux 2.6.33+
+     off_t bytesCopied = 0;