From cbceb21102775a9931f493972c1b89baecf6cead Mon Sep 17 00:00:00 2001
From: Ignacio Pisso <Ignacio.Pisso@nilu.no>
Date: Sat, 25 Aug 2018 20:21:47 +0200
Subject: [PATCH] changes to E: ind runs

---
 README              |  4 +++-
 define_options_E.sh | 23 +++++++++++++++++++++++
 2 files changed, 26 insertions(+), 1 deletion(-)

diff --git a/README b/README
index 1551a57..4062941 100644
--- a/README
+++ b/README
@@ -201,7 +201,9 @@ run_batch_SLURM.sh
 ./gen_options_all.sh ; ./gen_pathnames.sh ; ./gen_batch_jobs_SLURM.sh
 4
  E unit ind fwd and bwd
-./export_flexgen.sh exportD _D
+ 
+./export_flexgen.sh exportE _E
+cd exportE
 ./gen_options_all.sh ; ./gen_pathnames.sh ; ./gen_batch_jobs_SLURM.sh
 
 5
diff --git a/define_options_E.sh b/define_options_E.sh
index 1d013ef..25a2969 100644
--- a/define_options_E.sh
+++ b/define_options_E.sh
@@ -1,3 +1,26 @@
+#E: unit indices
+
+## forward 
+#E1: ind 1 2 
+suffix=_ind_1_2
+options_new=options$suffix
+cp -r  options $options_new
+sed -i '/IND_RECEPTOR=/c\ IND_RECEPTOR=    2,' $options_new/COMMAND
+
+#E2: ind 2 1  
+suffix=_ind_2_1
+options_new=options$suffix
+cp -r  options $options_new
+sed -i "/IND_SOURCE=/c\ IND_SOURCE=    2," $options_new/COMMAND
+
+#E3: ind 2 2
+suffix=_ind_2_2
+options_new=options$suffix
+cp -r  options $options_new
+sed -i "/IND_SOURCE=/c\ IND_SOURCE=    2," $options_new/COMMAND
+sed -i "/IND_RECEPTOR=/c\ IND_RECEPTOR=    2," $options_new/COMMAND
+
+
 ## backward
 #E4: bwd 1 2 --   
 suffix=_bwd_ind_1_2
-- 
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