found two big bugs
- sigma lower bound was being set to the value of the upper bound
- gamma scaling factor in normal case was wrong (glitch in revision?)



git-svn-id: https://svn.salilab.org/imp/trunk@16080 e91f8c7b-0e32-4433-a9ac-4502d39a4eab
Build RMF as part of IMP build.


git-svn-id: https://svn.salilab.org/imp/trunk@16081 e91f8c7b-0e32-4433-a9ac-4502d39a4eab
Propagate cmake scons variable to building of example dependency too.


git-svn-id: https://svn.salilab.org/imp/trunk@16082 e91f8c7b-0e32-4433-a9ac-4502d39a4eab
Make sure SWIG modules are installed.


git-svn-id: https://svn.salilab.org/imp/trunk@16083 e91f8c7b-0e32-4433-a9ac-4502d39a4eab
Make sure RMF.h is installed too.


git-svn-id: https://svn.salilab.org/imp/trunk@16084 e91f8c7b-0e32-4433-a9ac-4502d39a4eab
Accept '--help' as well as 'help' to display help.


git-svn-id: https://svn.salilab.org/imp/trunk@16085 e91f8c7b-0e32-4433-a9ac-4502d39a4eab
Tidy up formatting.


git-svn-id: https://svn.salilab.org/imp/trunk@16086 e91f8c7b-0e32-4433-a9ac-4502d39a4eab
Add IMP-specific help and version information to Python applications.


git-svn-id: https://svn.salilab.org/imp/trunk@16087 e91f8c7b-0e32-4433-a9ac-4502d39a4eab
Use standard IMP option parsing.


git-svn-id: https://svn.salilab.org/imp/trunk@16088 e91f8c7b-0e32-4433-a9ac-4502d39a4eab
Use standard IMP option parsing.


git-svn-id: https://svn.salilab.org/imp/trunk@16089 e91f8c7b-0e32-4433-a9ac-4502d39a4eab
Install view_density_header application.


git-svn-id: https://svn.salilab.org/imp/trunk@16090 e91f8c7b-0e32-4433-a9ac-4502d39a4eab
Use standard IMP option parsing.


git-svn-id: https://svn.salilab.org/imp/trunk@16091 e91f8c7b-0e32-4433-a9ac-4502d39a4eab
added sigma factors to chisquare calculation



git-svn-id: https://svn.salilab.org/imp/trunk@16092 e91f8c7b-0e32-4433-a9ac-4502d39a4eab
Use more standard shell.


git-svn-id: https://svn.salilab.org/imp/trunk@16094 e91f8c7b-0e32-4433-a9ac-4502d39a4eab
Don't override user-specified cmake cxx flags with scons ones.


git-svn-id: https://svn.salilab.org/imp/trunk@16095 e91f8c7b-0e32-4433-a9ac-4502d39a4eab
Correct syntax for sh.


git-svn-id: https://svn.salilab.org/imp/trunk@16096 e91f8c7b-0e32-4433-a9ac-4502d39a4eab
Make sure build/swig/ exists before trying to link into it.


git-svn-id: https://svn.salilab.org/imp/trunk@16097 e91f8c7b-0e32-4433-a9ac-4502d39a4eab
Handle Windows-style library names.


git-svn-id: https://svn.salilab.org/imp/trunk@16098 e91f8c7b-0e32-4433-a9ac-4502d39a4eab
scons doesn't figure out dependencies properly when there are soft links and relative include paths beteween the headers. Replace references config headers by absolute paths. For scons we should probably do the same with all inter-header includes

git-svn-id: https://svn.salilab.org/imp/trunk@16100 e91f8c7b-0e32-4433-a9ac-4502d39a4eab
merge changes to imp_install.sh

git-svn-id: https://svn.salilab.org/imp/trunk@16101 e91f8c7b-0e32-4433-a9ac-4502d39a4eab