[med-svn] [gmap] 01/04: Imported Upstream version 2014-10-14

[Alex Mestiashvili]

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malex-guest pushed a commit to branch master
in repository gmap.

commit 91e40ff6676ce7f07b450db7f1bf896f77466e2d
Author: Alexandre Mestiashvili <alex at biotec.tu-dresden.de>
Date:   Tue Oct 14 14:33:22 2014 +0200

    Imported Upstream version 2014-10-14
---
 ChangeLog     |  5 +++++
 VERSION       |  2 +-
 configure     | 24 ++++++++++++------------
 src/indexdb.c |  4 ++--
 4 files changed, 20 insertions(+), 15 deletions(-)

diff --git a/ChangeLog b/ChangeLog
index 691f74d..b790bcf 100644
--- a/ChangeLog
+++ b/ChangeLog
@@ -1,3 +1,8 @@
+2014-10-14  twu
+
+    * indexdb.c: Fixed bug where munmap was called twice on positions_high for
+      GSNAPL and GMAPL.
+
 2014-10-09  twu
 
     * VERSION: Updated version number
diff --git a/VERSION b/VERSION
index 7b8758a..f787a1f 100644
--- a/VERSION
+++ b/VERSION
@@ -1 +1 @@
-2014-10-09
\ No newline at end of file
+2014-10-14
\ No newline at end of file
diff --git a/configure b/configure
index 4ec093a..d885180 100755
--- a/configure
+++ b/configure
@@ -1,6 +1,6 @@
 #! /bin/sh
 # Guess values for system-dependent variables and create Makefiles.
-# Generated by GNU Autoconf 2.63 for gmap 2014-10-09.
+# Generated by GNU Autoconf 2.63 for gmap 2014-10-14.
 #
 # Report bugs to <Thomas Wu <twu at gene.com>>.
 #
@@ -745,8 +745,8 @@ SHELL=${CONFIG_SHELL-/bin/sh}
 # Identity of this package.
 PACKAGE_NAME='gmap'
 PACKAGE_TARNAME='gmap'
-PACKAGE_VERSION='2014-10-09'
-PACKAGE_STRING='gmap 2014-10-09'
+PACKAGE_VERSION='2014-10-14'
+PACKAGE_STRING='gmap 2014-10-14'
 PACKAGE_BUGREPORT='Thomas Wu <twu at gene.com>'
 
 ac_unique_file="src/gmap.c"
@@ -1508,7 +1508,7 @@ if test "$ac_init_help" = "long"; then
   # Omit some internal or obsolete options to make the list less imposing.
   # This message is too long to be a string in the A/UX 3.1 sh.
   cat <<_ACEOF
-\`configure' configures gmap 2014-10-09 to adapt to many kinds of systems.
+\`configure' configures gmap 2014-10-14 to adapt to many kinds of systems.
 
 Usage: $0 [OPTION]... [VAR=VALUE]...
 
@@ -1579,7 +1579,7 @@ fi
 
 if test -n "$ac_init_help"; then
   case $ac_init_help in
-     short | recursive ) echo "Configuration of gmap 2014-10-09:";;
+     short | recursive ) echo "Configuration of gmap 2014-10-14:";;
    esac
   cat <<\_ACEOF
 
@@ -1711,7 +1711,7 @@ fi
 test -n "$ac_init_help" && exit $ac_status
 if $ac_init_version; then
   cat <<\_ACEOF
-gmap configure 2014-10-09
+gmap configure 2014-10-14
 generated by GNU Autoconf 2.63
 
 Copyright (C) 1992, 1993, 1994, 1995, 1996, 1998, 1999, 2000, 2001,
@@ -1725,7 +1725,7 @@ cat >config.log <<_ACEOF
 This file contains any messages produced by compilers while
 running configure, to aid debugging if configure makes a mistake.
 
-It was created by gmap $as_me 2014-10-09, which was
+It was created by gmap $as_me 2014-10-14, which was
 generated by GNU Autoconf 2.63.  Invocation command line was
 
   $ $0 $@
@@ -2095,8 +2095,8 @@ ac_compiler_gnu=$ac_cv_c_compiler_gnu
 
 { $as_echo "$as_me:$LINENO: checking package version" >&5
 $as_echo_n "checking package version... " >&6; }
-{ $as_echo "$as_me:$LINENO: result: 2014-10-09" >&5
-$as_echo "2014-10-09" >&6; }
+{ $as_echo "$as_me:$LINENO: result: 2014-10-14" >&5
+$as_echo "2014-10-14" >&6; }
 
 
 ### Read defaults
@@ -4147,7 +4147,7 @@ fi
 
 # Define the identity of the package.
  PACKAGE=gmap
- VERSION=2014-10-09
+ VERSION=2014-10-14
 
 
 cat >>confdefs.h <<_ACEOF
@@ -25797,7 +25797,7 @@ exec 6>&1
 # report actual input values of CONFIG_FILES etc. instead of their
 # values after options handling.
 ac_log="
-This file was extended by gmap $as_me 2014-10-09, which was
+This file was extended by gmap $as_me 2014-10-14, which was
 generated by GNU Autoconf 2.63.  Invocation command line was
 
   CONFIG_FILES    = $CONFIG_FILES
@@ -25860,7 +25860,7 @@ Report bugs to <bug-autoconf at gnu.org>."
 _ACEOF
 cat >>$CONFIG_STATUS <<_ACEOF || ac_write_fail=1
 ac_cs_version="\\
-gmap config.status 2014-10-09
+gmap config.status 2014-10-14
 configured by $0, generated by GNU Autoconf 2.63,
   with options \\"`$as_echo "$ac_configure_args" | sed 's/^ //; s/[\\""\`\$]/\\\\&/g'`\\"
 
diff --git a/src/indexdb.c b/src/indexdb.c
index 1509fa5..bee9c4f 100644
--- a/src/indexdb.c
+++ b/src/indexdb.c
@@ -1,4 +1,4 @@
-static char rcsid[] = "$Id: indexdb.c 134965 2014-05-02 21:39:55Z twu $";
+static char rcsid[] = "$Id: indexdb.c 150679 2014-10-14 00:46:33Z twu $";
 #ifdef HAVE_CONFIG_H
 #include <config.h>
 #endif
@@ -147,7 +147,7 @@ Indexdb_free (T *old) {
 #ifdef LARGE_GENOMES
       munmap((void *) (*old)->positions_high,(*old)->positions_high_len);
       close((*old)->positions_high_fd);
-      munmap((void *) (*old)->positions_high,(*old)->positions_low_len);
+      munmap((void *) (*old)->positions_low,(*old)->positions_low_len);
       close((*old)->positions_low_fd);
 #else
       munmap((void *) (*old)->positions,(*old)->positions_len);

-- 
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