deleted some additional predictors that not needed

src/model_fitting/abundance_model.R

@@ -217,12 +217,6 @@ predictor_names_for_scaling <- c( "dem",
                                  "plantation_distance",
                                  "pulp_distance",
                                  "palm_distance",
-                                 "plantation_age",
-                                 "plantation_cover",
-                                 "IOPP_age",
-                                 "IOPP_cover",
-                                 "ITP_age",
-                                 "ITP_cover",
                                  "dom_T_OC",
                                  "dom_T_PH")
 

src/pipeline/submit_pipeline_model.sh

@@ -6,14 +6,13 @@
 
 
 # here somehow write the prefix depending on what we are testing
-JOB_NAME_PREFIX=ppln_ae150m_50
+JOB_NAME_PREFIX=ppln_ae4.5m_50
 
 INPUT_PATH='/data/idiv_kuehl/maria_data/pipeline'
 NAME=$JOB_NAME_PREFIX-$(date +%FT%H-%M-%S)
 
 # FIX THIS
 OUTPUT_PATH=/work/$USER/$NAME
-
 # qsub -v means that OUTPUT_PATH goes into environment (normally export, but with qsub different)
 QSUB="qsub -terse -v OUTPUT_PATH=$OUTPUT_PATH -o /work/$USER/$NAME.log -j y"
 
@@ -22,12 +21,11 @@ QSUB="qsub -terse -v OUTPUT_PATH=$OUTPUT_PATH -o /work/$USER/$NAME.log -j y"
 # model-fitting & prediction 
 # ------------------------------------------------------------------------------
 
-
 MODEL_JOB_ID_FITTING=$($QSUB \
 			   -N ${JOB_NAME_PREFIX}_fitting \
-    $HOME/orangutan_density_distribution/src/model_fitting/submit_abundance_model_ac_term.sh \
+			   $HOME/orangutan_density_distribution/src/model_fitting/submit_abundance_model.sh \
 			   -i $INPUT_PATH \
-    --ESW-aerial 0.15 \
+			   --ESW-aerial 0.0045 \
 			   --include-aerial \
 			   --stability)
 
@@ -39,5 +37,6 @@ QSUB="qsub -terse -v OUTPUT_PATH=$OUTPUT_PATH -o /work/$USER/$NAME.log -j y"
 			 -t 1999:2015 \
 			 $HOME/orangutan_density_distribution/src/prediction/submit_abundance_pred.sh \
 			 -i $INPUT_PATH \
+			 --input-model $OUTPUT_PATH \
 			 --focal-change-predictor NA)