#!/bin/csh -f
#
#   Help script
#
#help
#help frealign_help - display available Frealign commands
#help Usage: frealign_help
#
if ( -e mparameters ) then

set bin_dir		= `grep frealign_bin_dir mparameters | awk '{print $2}'`
if ( $status || $bin_dir == "" ) then
  set bin_dir		= `which frealign_v9.exe`
  set bin_dir		= ${bin_dir:h}
endif

else
  set bin_dir		= `which frealign_v9.exe`
  set bin_dir		= ${bin_dir:h}
endif
#
grep -h "#help" ${bin_dir}/frealign_help | sed 's/#help/  /' | grep -v grep
grep -h "#help" ${bin_dir}/frealign_template | sed 's/#help/  /' | grep -v grep
grep -h "#help" ${bin_dir}/frealign_helical_template | sed 's/#help/  /' | grep -v grep
grep -h "#help" ${bin_dir}/frealign_run_* | sed 's/#help/  /' | grep -v grep
grep -h "#help" ${bin_dir}/frealign_kill | sed 's/#help/  /' | grep -v grep
grep -h "#help" ${bin_dir}/frealign_calc_stats | sed 's/#help/  /' | grep -v grep
grep -h "#help" ${bin_dir}/frealign_calc_reconstructions | sed 's/#help/  /' | grep -v grep
grep -h "#help" ${bin_dir}/frealign_calc_projections | sed 's/#help/  /' | grep -v grep
grep -h "#help" ${bin_dir}/frealign_header | sed 's/#help/  /' | grep -v grep
# grep -h "#help" ${bin_dir}/*.com | sed 's/#help/  /' | grep -v grep
echo " "
