README

flex gen cases

Generates flexpart run cases based on the current default options dir and pathnames file.
(pathanmes can be edited at a later stage to accomodate different winds with the same options IMPLEMENT
)
files 
- define_<runs>: Generates flexpart run cases (groups depending on _<runs>) 
- export*: copy define* to a ifferent directory to build the run cases there.
- (pathanmes could be edited here)
- loop_on_pathnames*.sh: for a fived options-pathnames pair, create a run case (adding an executable and an output directory)
- run_all_sl*: execute the run cases generating a set of flexpart outputs
- read_joblist*.sh: verify that the runs finished properly.

input:
 options dir: 
   default located repo in the same directory 
   i.e. ../flexpart/options/
 pathname: ../flexpart/pathnames
 destinantion dir: 
  default "../flex_cases" alongside in the same directory level
  it is created every time. it it already exists from a previous run it will stop 
  (add --force option ENHANCE)

history
repo flex_gen_input cloned to ~/repos

how to run
example

./export_flexgen_0.sh

generates ../flex_cases 

containing 

Makefile
define_default_run_0.sh*
loop_on_pathnames_laptop.sh*
run_all_sl_laptop*

this by itself or a s a copy can generate a list of flexpart run cases
(only default FIXME)

just running 
make or
define_default_run_0.sh

generates: 
pathnames 
output
options

./loop_on_pathnames_laptop.sh*
generates a file (e.g. batch_dry_pathnames*.sl) that associates the executable with that patnames in a FLEXPART_run_string
(the executable is by default FLEXPART_8d70e43)
in can be configured with exporting variable $FLEXPARTvar

now all batch_dry_pathnames*.sl
can be run by

./run_all_sl_*

the stdout of flexpart is tee'd to stdoutbatch_dry_pathnames*.sl

the output* directory(es) is(are) ready to be read by flex_read