link instead copy

scripts/prep_osse.py

-
 import os, sys, shutil
 import datetime as dt
 from config.cfg import exp, cluster
@@ -7,23 +6,22 @@ import prepare_namelist
 
 # archive configuration
 os.makedirs(cluster.archivedir(), exist_ok=True)
-shutil.copy(cluster.scriptsdir+'/config/clusters.py', cluster.archivedir()+'/clusters.py')
-shutil.copy(cluster.scriptsdir+'/config/cfg.py', cluster.archivedir()+'/cfg.py')
+shutil.copy(cluster.scriptsdir+'/../config/clusters.py', cluster.archivedir()+'/clusters.py')
+shutil.copy(cluster.scriptsdir+'/../config/cfg.py', cluster.archivedir()+'/cfg.py')
 
 for iens in range(1, exp.n_ens+1):
     print('preparing ens', iens)
-    #input_prof=$USERDIR"/wrf_sounding/data/wrf/ens/from_uwyo/06610_2008073000_uwyo."$(printf "%.3d" $IENS)".wrfprof"
-    input_prof=cluster.userdir+"/wrf_sounding/data/wrf/ens/LMU+shear/raso.raso."+str(iens).zfill(3)+".wrfprof"
+    input_prof = (cluster.input_profile).replace('<iens>', str(iens).zfill(3))
 
     rundir = cluster.wrf_rundir(iens)
     os.makedirs(rundir, exist_ok=True)
-    copy_contents(cluster.srcdir, rundir)
+    link_contents(cluster.srcdir, rundir)
     print('linking ideal and wrf.exe:')
     symlink(cluster.ideal, rundir+'/ideal.exe')
     symlink(cluster.wrfexe, rundir+'/wrf.exe')
 
     prepare_namelist.run(cluster, iens, begin=dt.datetime(2008, 7, 30, 6, 0),
-                                        end=dt.datetime(2008, 7, 30, 6, 30))
+                                        end=dt.datetime(2008, 7, 30, 6, 30)) # not necessary
 
     symlink(input_prof, rundir+'/input_sounding')
 print('finished.')