fixed typing errors - mmff test suite a to c

added aromatic bonds in read_sdf removed TJO bailout

added call to type in rd_sdf, fixed problem in type_mmx

fixed bug in routine to recognize delocalized bonds in kbond.c

updated read_sdf type_mmx and first pass at using best practices

fixed typos

minor

minor change

deleting old h files

code merge 20081130

osx doesn't like install -D, but mingw and linux need -D (for licenses/ file)

changes for mingw

changes for mingw

Makefile.in now cleans Makefile

first check in of pdb2pqr

Add modification notice to files modified for Freemol
per mengine/smi23d license requirements

install licenses too

add mengine license file

readd apbs files after mixup

housekeeping

make apbs executable apbs.exe

first commit of APBS

tweak installation scripts

remove include malloc.h for osx compatibility

Don't write_sdf when missing parameters or other errors

correct python script to use mengine.exe

When aromatic bonds are encountered generate error on stderr and do not output sdf file.

add files for configure and make

move mengine src to reflect new freemol directory structure

changes for win32

initial checkin of mpeg_encode source