table_gen module

experiments/erdos-biogrid/experiment.erdos-biogrid.sh

@@ -1,41 +1,34 @@
 #! /bin/bash
 
 time_out=3600
-
-output_dir=erdos-biogrid.$time_out
-experiment_name=erdos-biogrid
-
-data_dir=../../data/
-script_dir=../../scripts/
-erdos_data_set=$data_dir/erdos
-biogrid_data_set=$data_dir/biogrid
-
-rm -rf old.$output_dir
-mv $output_dir  old.$output_dir
-
-mkdir $output_dir
-
-#erdos
-$script_dir/graph.name.sh $erdos_data_set | tee $output_dir/erdos.name
-$script_dir/graph.size.sh $erdos_data_set | tee $output_dir/erdos.graph.size
-$script_dir/critical.size.sh $erdos_data_set $time_out | tee $output_dir/erdos.critical.size
-$script_dir/maxcritical.size.sh $erdos_data_set $time_out | tee $output_dir/erdos.maxcritical.size
-$script_dir/simple.size.time.sh $erdos_data_set $time_out | tee $output_dir/erdos.simple.size
-$script_dir/advanced.size.time.sh $erdos_data_set $time_out| tee $output_dir/erdos.advanced.size
-
-# biogrid
-$script_dir/graph.name.sh $biogrid_data_set | tee $output_dir/biogrid.name
-$script_dir/graph.size.sh $biogrid_data_set | tee $output_dir/biogrid.graph.size
-$script_dir/critical.size.sh $biogrid_data_set $time_out | tee $output_dir/biogrid.critical.size
-$script_dir/maxcritical.size.sh $biogrid_data_set $time_out | tee $output_dir/biogrid.maxcritical.size
-$script_dir/simple.size.time.sh $biogrid_data_set $time_out | tee $output_dir/biogrid.simple.size
-$script_dir/advanced.size.time.sh $biogrid_data_set $time_out| tee $output_dir/biogrid.advanced.size
-
-cp header.erdos-biogrid $output_dir/
-cp footer.erdos-biogrid $output_dir/
-
-cp mk_erdos_biogrid_table_data.py $output_dir/
-cd $output_dir
-cat header.$experiment_name > erdos-biogrid.table.tex
-python mk_erdos_biogrid_table_data.py >> erdos-biogrid.table.tex
-cat footer.$experiment_name >> erdos-biogrid.table.tex
+seeds=5
+seeds_minus_one=$((seeds - 1))
+
+data_dir=../../data
+script_dir=../../scripts
+
+experiments=(erdos biogrid)
+
+for item in ${experiments[*]}; do
+  output_dir=$item
+  rm -rf old.$output_dir
+  mv $output_dir  old.$output_dir
+  mkdir $output_dir
+  data_set=$data_dir/$item
+
+  for file_name in `ls -1 $data_set/*.graph`; do
+    temp=${file_name##*/}
+    temp=${temp%.*}
+    graph_name=$($script_dir/graph.name.sh $file_name)
+    graph_size=$($script_dir/graph.size.sh $file_name)
+    log_file=$output_dir/log.$temp
+    $script_dir/critical.size.sh      $file_name $time_out | tee -a $log_file
+    $script_dir/maxcritical.size.sh   $file_name $time_out | tee -a $log_file
+    $script_dir/simple.size.time.sh   $file_name $time_out | tee -a $log_file
+    $script_dir/advanced.size.time.sh   $file_name $time_out | tee -a $log_file
+    echo "$graph_size" >> $log_file
+    echo "$graph_name" >> $log_file
+  done
+done
+
+python tablegen.py

experiments/erdos-biogrid/tablegen.py

@@ -0,0 +1,32 @@
+#! /usr/bin/python
+
+from table_gen import *
+
+same_keys_list = []
+different_keys_list = []
+keys_list = ["graph-name"]
+#[data, type, operation, formating]
+columns_list = [("vertices", "int"), ("edges", "int"), ("critical-set-k", "int"), ("critical-set-time", "float"), ("maxcritical-set-k", "int"), ("maxcritical-set-time", "float"), ("simple-set-k", "int"), ("simple-set-time", "float")]
+title = "Results of Erdos and BioGRID Experiments"
+author = "Darren Strash, Daniel Gathogo (automated)"
+column_heads = [("Graph", 3), ("Critical", 2), ("Maxcritical", 2), ("Simple", 2)]
+#column_heads = [] #empty for non publication table
+column_names = ["Name", "n", "m", "k", "t", "k", "t", "k", "t"] #start with names for each key in keys_list
+
+compare_cols = ["min", 4, 6] #highlight max or min, zero-indexed count in column_names
+experiment_name = "Erdos-BioGRID"
+experiments = ["erdos", "biogrid"]
+sub_headers = ["Erdos Graphs", "BioGRID Graphs"]
+table_format = "latex" #latex, latex_publication, markdown
+caption = "We give the kernel size k and running time t for each reduction technique on synthetically- generated Sanchis data sets. We also list the data used to generate the graphs: the number of vertices n, number of edges m, and independence number q(G)."
+
+table = table_writer()
+table.initialize(experiment_name, table_format, title, author) #packages-optional last argument
+for i in range(len(experiments)):
+    temp_dir = experiments[i] + '/'
+    exp = data_cruncher()
+    exp.process_dir(temp_dir, keys_list)
+    exp.validate_data(same_keys_list, different_keys_list)
+    table.add_experiment(exp, experiments[i], sub_headers[i]) #sub_headers optional
+
+table.write_table(column_names, column_heads, columns_list, compare_cols, caption)

experiments/large-networks/experiment.large-networks.sh

@@ -3,36 +3,35 @@
 time_out=3600
 
 experiment_name=large-networks
-output_dir=$experiment_name.$time_out
 data_dir=../../data/
 script_dir=../../scripts/
 
-rm -rf old.$output_dir
-mv $output_dir  old.$output_dir
-mkdir $output_dir
-
-data_sets="konect snap law"
-
-for data_set in $data_sets
-do
-    echo "Evaluating data set $data_set..."
-
-$script_dir/graph.name.sh $data_dir/$data_set | tee $output_dir/$data_set.graph.name
-$script_dir/graph.size.sh $data_dir/$data_set | tee $output_dir/$data_set.graph.size
-#./critical.size.sh $data_dir/$data_set $time_out | tee $output_dir/$data_set.critical.size
-#./maxcritical.size.sh $data_dir/$data_set $time_out | tee $output_dir/$data_set.maxcritical.size
-$script_dir/simple.size.sh $data_dir/$data_set $time_out | tee $output_dir/$data_set.simple.size
-$script_dir/simple.solution.sh $data_dir/$data_set $time_out | tee $output_dir/$data_set.simple.solution
-$script_dir/advanced.size.sh $data_dir/$data_set $time_out | tee $output_dir/$data_set.advanced.size
-$script_dir/advanced.solution.sh $data_dir/$data_set $time_out| tee $output_dir/$data_set.advanced.solution
-
+data_sets="snap konect law"
+
+for item in $data_sets; do
+  echo "Evaluating data set $item..."
+  output_dir=$item
+  rm -rf old.$output_dir
+  mv $output_dir  old.$output_dir
+  mkdir $output_dir
+  data_set=$data_dir/$item
+
+  for file_name in `ls -1 $data_set/*.graph`; do
+    temp=${file_name##*/}
+    temp=${temp%.*}
+    graph_name=$($script_dir/graph.name.sh $file_name)
+    graph_size=$($script_dir/graph.size.sh $file_name)
+    log_file=$output_dir/log.$temp
+
+    #./critical.size.sh $data_dir/$item $time_out | tee $output_dir/$item.critical.size
+    #./maxcritical.size.sh $data_dir/$item $time_out | tee $output_dir/$item.maxcritical.size
+    $script_dir/simple.size.sh     $file_name $time_out | tee -a $log_file
+    $script_dir/simple.solution.sh   $file_name $time_out | tee -a $log_file
+    $script_dir/advanced.size.sh   $file_name $time_out | tee -a $log_file
+    $script_dir/advanced.solution.sh  $file_name $time_out | tee -a $log_file
+    echo "$graph_size" >> $log_file
+    echo "$graph_name" >> $log_file
+  done
 done
 
-cp header.$experiment_name $output_dir/
-cp footer.$experiment_name $output_dir/
-
-cp mk_large_networks_table_data.py $output_dir/
-cd $output_dir
-cat header.$experiment_name > $experiment_name.table.tex
-python mk_large_networks_table_data.py >> $experiment_name.table.tex
-cat footer.$experiment_name >> $experiment_name.table.tex
+python tablegen.py