rework Merge attempt

...plications/app_specific/running_matlab_parallel_server.md

.../app_specific/running_ocean_land_atmosphere_model_olam.md

content/applications/app_specific/running_theano.md

content/applications/modules/_index.md

content/applications/modules/available_software_for_crane.md

content/applications/modules/available_software_for_rhino.md

content/applications/user_software/_index.md

...ications/user_software/compiling_an_openmp_application.md

...ent/applications/user_software/installing_perl_modules.md

...lications/user_software/using_anaconda_package_manager.md

content/applications/user_software/using_singularity.md

content/connecting/_index.md

content/connecting/basic_linux_commands.md

content/connecting/for_maclinux_users.md

content/connecting/for_windows_users.md

content/connecting/how_to_setup_x11_forwarding.md

content/connecting/mobaxterm_windows.md

...ent/connecting/reusing_ssh_connections_in_linux_or_mac.md

content/events/2013/HCC_Supercomputing_Symposium_2013.md

content/events/2013/hcc_condor_workshop_2013.md