I am having the same problem with malloc failing on my Linux From Scratch system.
Today was my first time trying cvs for mjpegtools and to get it to compile I had to 
upgrade autotools 1.6.x-1.7.x. After that it compiled fine but when I try mpeg2enc it 
keeps failing.

The biggest problem is I can't recompile the latest tarball since during autogen.sh it 
complains about using automake 1.7 instead of 1.6 and its recomendation of running 
aclocal does not help


darkshadow:~/mjpegtools-1.6.1.90$ autogen.sh 
**Warning**: I am going to run `configure' with no arguments.
If you wish to pass any to it, please specify them on the
`./autogen.sh' command line.

processing .
Running libtoolize...
You should update your `aclocal.m4' by running aclocal.
Running aclocal -I ./movtar ...
aclocal: couldn't open directory `./movtar': No such file or directory
Running autoheader...
Running automake --gnu  ...
configure.in:12: version mismatch.  This is Automake 1.7.9,
configure.in:12: but the definition used by this AM_INIT_AUTOMAKE
configure.in:12: comes from Automake 1.6.3.  You should recreate
configure.in:12: aclocal.m4 with aclocal and run automake again.
/usr/local/share/automake-1.7/am/depend2.am: am__fastdepCC does not appear in 
AM_CONDITIONAL
/usr/local/share/automake-1.7/am/depend2.am: am__fastdepCC does not appear in 
AM_CONDITIONAL
/usr/local/share/automake-1.7/am/depend2.am: am__fastdepCC does not appear in 
AM_CONDITIONAL
/usr/local/share/automake-1.7/am/depend2.am: am__fastdepCXX does not appear in 
AM_CONDITIONAL
/usr/local/share/automake-1.7/am/depend2.am: am__fastdepCXX does not appear in 
AM_CONDITIONAL
/usr/local/share/automake-1.7/am/depend2.am: am__fastdepCC does not appear in 
AM_CONDITIONAL
/usr/local/share/automake-1.7/am/depend2.am: am__fastdepCC does not appear in 
AM_CONDITIONAL
/usr/local/share/automake-1.7/am/depend2.am: am__fastdepCC does not appear in 
AM_CONDITIONAL
/usr/local/share/automake-1.7/am/depend2.am: am__fastdepCC does not appear in 
AM_CONDITIONAL
/usr/local/share/automake-1.7/am/depend2.am: am__fastdepCC does not appear in 
AM_CONDITIONAL
Running autoconf ...
#########################After this there are no errors#############################






darkshadow:~/mjpegtools-1.6.1.90$ make
cd . && /bin/sh ./config.status config.h
config.status: creating config.h
config.status: config.h is unchanged
make  all-recursive
make[1]: Entering directory `/home/darkshadow/mjpegtools-1.6.1.90'
Making all in utils
make[2]: Entering directory `/home/darkshadow/mjpegtools-1.6.1.90/utils'
Makefile:351: *** missing separator.  Stop.
make[2]: Leaving directory `/home/darkshadow/mjpegtools-1.6.1.90/utils'
make[1]: *** [all-recursive] Error 1
make[1]: Leaving directory `/home/darkshadow/mjpegtools-1.6.1.90'
make: *** [all] Error 2


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