diff --git a/src/zmapUtils/zmapConfigDir.c b/src/zmapUtils/zmapConfigDir.c
deleted file mode 100755
index 1fc9adf4f08f231bb5cac636f9d9e8ee12b6cd8c..0000000000000000000000000000000000000000
--- a/src/zmapUtils/zmapConfigDir.c
+++ /dev/null
@@ -1,209 +0,0 @@
-/* File: zmapConfigDir.c
- * Author: Ed Griffiths (edgrif@sanger.ac.uk)
- * Copyright (c) 2006: Genome Research Ltd.
- *-------------------------------------------------------------------
- * ZMap is free software; you can redistribute it and/or
- * modify it under the terms of the GNU General Public License
- * as published by the Free Software Foundation; either version 2
- * of the License, or (at your option) any later version.
- *
- * This program is distributed in the hope that it will be useful,
- * but WITHOUT ANY WARRANTY; without even the implied warranty of
- * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
- * GNU General Public License for more details.
- *
- * You should have received a copy of the GNU General Public License
- * along with this program; if not, write to the Free Software
- * Foundation, Inc., 59 Temple Place - Suite 330, Boston, MA 02111-1307, USA.
- * or see the on-line version at http://www.gnu.org/copyleft/gpl.txt
- *-------------------------------------------------------------------
- * This file is part of the ZMap genome database package
- * originated by
- * Ed Griffiths (Sanger Institute, UK) edgrif@sanger.ac.uk,
- * Roy Storey (Sanger Institute, UK) rds@sanger.ac.uk,
- * Rob Clack (Sanger Institute, UK) rnc@sanger.ac.uk
- *
- * Description:
- *
- * Exported functions: See ZMap/zmapConfigDir.h
- * HISTORY:
- * Last edited: Jun 24 14:26 2009 (edgrif)
- * Created: Thu Feb 10 10:05:36 2005 (edgrif)
- * CVS info: $Id: zmapConfigDir.c,v 1.7 2009-06-24 13:29:57 edgrif Exp $
- *-------------------------------------------------------------------
- */
-
-#include <glib.h>
-#include <ZMap/zmapUtils.h>
-#include <zmapConfigDir_P.h>
-
-
-
-
-
-static ZMapConfigDir dir_context_G = NULL ;
-
-
-
-/* The context is only created the first time this function is called, after that
- * it just returns a reference to the existing context.
- *
- * Note that as this routine should be called once per application it is not
- * thread safe, it could be made so but is overkill as the GUI/master thread is
- * not thread safe anyway.
- *
- * If config_dir is NULL, the default ~/.ZMap directory is used.
- * If config_file is NULL, the default ZMap file is used.
- *
- * returns FALSE if the configuration directory does not exist/read/writeable.
- *
- * */
-gboolean zMapConfigDirCreate(char *config_dir, char *config_file)
-{
- gboolean result = FALSE ;
- ZMapConfigDir dir_context = NULL ;
- gboolean home_relative = FALSE, make_dir = FALSE ;
- char *zmap_home;
-
- g_return_val_if_fail(dir_context_G == NULL, FALSE);
-
- dir_context_G = dir_context = g_new0(ZMapConfigDirStruct, 1) ;
-
- if (!config_dir)
- {
- config_dir = ZMAP_USER_CONFIG_DIR ;
- home_relative = TRUE ;
- }
- else if (*config_dir == '~' && *(config_dir + 1) == '/')
- {
- config_dir += 2 ;
- home_relative = TRUE ;
- }
-
- if (!config_file)
- config_file = ZMAP_USER_CONFIG_FILE ;
-
- if ((dir_context->config_dir = zMapGetDir(config_dir, home_relative, make_dir))
- && (dir_context->config_file = zMapGetFile(dir_context->config_dir, config_file, FALSE)))
- result = TRUE ;
-
- if((zmap_home = getenv("ZMAP_HOME")))
- {
- zmap_home = g_strdup_printf("%s/etc", zmap_home);
- if((dir_context->zmap_conf_dir = zMapGetDir(zmap_home, FALSE, FALSE)))
- dir_context->zmap_conf_file = zMapGetFile(dir_context->zmap_conf_dir, ZMAP_USER_CONFIG_FILE, FALSE);
- g_free(zmap_home);
- }
- else
- dir_context->zmap_conf_dir = dir_context->zmap_conf_file = NULL;
-
- if(!((dir_context->sys_conf_dir = zMapGetDir("/etc", FALSE, FALSE)) &&
- (dir_context->sys_conf_file = zMapGetFile(dir_context->sys_conf_dir, ZMAP_USER_CONFIG_FILE, FALSE))))
- {
- dir_context->sys_conf_dir = dir_context->sys_conf_file = NULL;
- }
-
- return result ;
-}
-
-
-
-/* Not sure if this is really necessary....maybe.... */
-/* DO NOT FREE THE RESULTING STRING...COPY IF NEED BE.... */
-const char *zMapConfigDirDefaultName(void)
-{
- char *dir_name = ZMAP_USER_CONFIG_DIR ;
-
- return dir_name ;
-}
-
-
-
-char *zMapConfigDirGetDir(void)
-{
- char *config_dir ;
- ZMapConfigDir dir_context = dir_context_G ;
-
- zMapAssert(dir_context) ;
-
- config_dir = dir_context->config_dir ;
-
- return config_dir ;
-}
-
-
-char *zMapConfigDirGetFile(void)
-{
- char *config_file ;
- ZMapConfigDir dir_context = dir_context_G ;
-
- zMapAssert(dir_context) ;
-
- config_file = dir_context->config_file ;
-
- return config_file ;
-}
-
-
-char *zMapConfigDirFindFile(char *filename)
-{
- char *file_path = NULL ;
- ZMapConfigDir dir_context = dir_context_G ;
-
- zMapAssert(dir_context) ;
-
- file_path = zMapGetFile(dir_context->config_dir, filename, FALSE) ;
-
- return file_path ;
-}
-
-
-
-char *zMapConfigDirFindDir(char *directory_in)
-{
- char *control_dir ;
-
- control_dir = zMapGetDir(directory_in, TRUE, FALSE) ;
-
- return control_dir ;
-}
-
-
-char *zMapConfigDirGetZmapHomeFile(void)
-{
- char *config_file ;
- ZMapConfigDir dir_context = dir_context_G ;
-
- zMapAssert(dir_context) ;
-
- config_file = dir_context->zmap_conf_file ;
-
- return config_file ;
-}
-
-
-char *zMapConfigDirGetSysFile(void)
-{
- char *config_file ;
- ZMapConfigDir dir_context = dir_context_G ;
-
- zMapAssert(dir_context) ;
-
- config_file = dir_context->sys_conf_file ;
-
- return config_file ;
-}
-
-
-void zMapConfigDirDestroy(void)
-{
- ZMapConfigDir dir_context = dir_context_G ;
-
- zMapAssert(dir_context) ;
-
- g_free(dir_context->config_dir) ;
-
- g_free(dir_context) ;
-
- return ;
-}
diff --git a/src/zmapUtils/zmapConfigDir_P.h b/src/zmapUtils/zmapConfigDir_P.h
deleted file mode 100755
index 0afec11fa83e43e9e5324ab2b25e4fcb2d1dd674..0000000000000000000000000000000000000000
--- a/src/zmapUtils/zmapConfigDir_P.h
+++ /dev/null
@@ -1,60 +0,0 @@
-/* File: zmapConfigDir_P.h
- * Author: Ed Griffiths (edgrif@sanger.ac.uk)
- * Copyright (c) 2006: Genome Research Ltd.
- *-------------------------------------------------------------------
- * ZMap is free software; you can redistribute it and/or
- * modify it under the terms of the GNU General Public License
- * as published by the Free Software Foundation; either version 2
- * of the License, or (at your option) any later version.
- *
- * This program is distributed in the hope that it will be useful,
- * but WITHOUT ANY WARRANTY; without even the implied warranty of
- * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
- * GNU General Public License for more details.
- *
- * You should have received a copy of the GNU General Public License
- * along with this program; if not, write to the Free Software
- * Foundation, Inc., 59 Temple Place - Suite 330, Boston, MA 02111-1307, USA.
- * or see the on-line version at http://www.gnu.org/copyleft/gpl.txt
- *-------------------------------------------------------------------
- * This file is part of the ZMap genome database package
- * originated by
- * Ed Griffiths (Sanger Institute, UK) edgrif@sanger.ac.uk,
- * Roy Storey (Sanger Institute, UK) rds@sanger.ac.uk,
- * Rob Clack (Sanger Institute, UK) rnc@sanger.ac.uk
- *
- * Description:
- *
- * Exported functions: See XXXXXXXXXXXXX.h
- * HISTORY:
- * Last edited: Aug 28 15:13 2008 (rds)
- * Created: Thu Feb 10 10:10:27 2005 (edgrif)
- * CVS info: $Id: zmapConfigDir_P.h,v 1.3 2008-09-04 09:25:43 rds Exp $
- *-------------------------------------------------------------------
- */
-#ifndef ZMAP_CONFIGDIR_P_H
-#define ZMAP_CONFIGDIR_P_H
-
-#include <ZMap/zmapConfigDir.h>
-
-
-typedef struct _ZMapConfigDirStruct
-{
- char *default_dir ;
-
- char *config_dir ;
-
- char *config_file ;
-
- char *zmap_conf_dir; /* The directory of $ZMAP_HOME/etc */
-
- char *zmap_conf_file; /* The full path of $ZMAP_HOME/etc/ZMAP_USER_CONFIG_FILE */
-
- char *sys_conf_dir; /* The directory of /etc. N.B. This should be changed to reflect any ./configure --sysconfdir=/somewhere/etc */
-
- char *sys_conf_file; /* The full path of $ZMAP_HOME/etc/ZMAP_USER_CONFIG_FILE */
-} ZMapConfigDirStruct, *ZMapConfigDir ;
-
-
-
-#endif /* !ZMAP_CONFIGDIR_P_H */