gentoo-overlay/sci-biology/t-coffee/files/t-coffee-11.00-set_proper_dir_permissions.patch

Author: Andreas Tille <tille@debian.org>
Last-Update: Mon, 21 Dec 2015 21:30:36 +0100
Bug-Debian: https://bugs.debian.org/751579
Description: When creating subdirectories in $HOME do not
 make these world writable but keep users umask

--- a/t_coffee_source/util_lib/util.c
+++ b/t_coffee_source/util_lib/util.c
@@ -7714,6 +7714,10 @@ int my_mkdir ( char *dir_in)
   int a, buf;
   char *dir;
 
+  static char *home = getenv ("HOME");
+  static mode_t oldmask = umask(0);
+  int change_umask = 0;
+  if (strncmp (dir_in, home, strlen(home))==0) change_umask = 1;
 
   dir=(char*)vcalloc ( strlen (dir_in)+strlen (get_home_4_tcoffee())+100, sizeof (char));
   sprintf ( dir, "%s", dir_in);
@@ -7733,10 +7737,11 @@ int my_mkdir ( char *dir_in)
 
 	  if (access(dir, F_OK)==-1)
 	    {
-		  mode_t oldmask = umask(0);
-	      mkdir (dir, S_IRWXU | S_IRWXG | S_IRWXO);
-	      umask(oldmask);
-
+	      if ( change_umask == 1 ) mkdir (dir, 0777-oldmask);
+	      else {
+	        mkdir (dir, S_IRWXU | S_IRWXG | S_IRWXO);
+	        umask(oldmask);
+	      }
 	      if ( access (dir, F_OK)==-1)
 		{
 		  myexit(fprintf_error ( stderr, "\nERROR: Could Not Create Directory %s [FATAL:%s]", dir, PROGRAM));	}