cleaned up scripts

scripts/meta/process_gridoutputs.sh

@@ -7,8 +7,9 @@ script_dir=$(
 base_dir=`pwd`
 bin_dir="$script_dir/../bin"
 
-for dir in $(find . -type 'd' -name 'cldn*')
+for file in $(find . -type 'f' -name 'mpi_grid.out')
 do
-    echo "Processing ${dir}."
+    echo "Processing ${file}."
+    dir=$(dirname $file)
     $script_dir/operations/package_tables.sh $dir
 done

scripts/operations/package_tables.sh

@@ -23,8 +23,11 @@ fi
 
 cd $griddir
 
-if [[ -not -e "mpi_grid.out" ]]; then
+if [[ -e "mpi_grid.out" ]]; then 
-    echo "no mpi_grid.out file"
+    echo -n ""
+else
+    echo "mpi_grid.out doesn't exist"
+    cd $base_dir
     exit 6
 fi
 
@@ -32,6 +35,9 @@ mkdir -p fortfiles
 cd fortfiles
 # pwd
 
+cp ../mpi_grid.in .
+cp ../*.tab .
+
 echo "Directory ready. Calling fort file creation."
 $bin_dir/create_fort_files ../mpi_grid.out $script_dir/../reference/linelist.c17
 

src/create_fort_files.cpp

@@ -1,6 +1,10 @@
 #include "agn.hpp"
 #include "spectral_lines.hpp"
 
+// When this number of iterations is achieved, the program flags it
+// as a possible failure.
+double MAX_ITERATIONS = 15;
+
 
 int main(int argc, char const *argv[]) {
 	std::ifstream cloudy_result_file;
@@ -90,7 +94,7 @@ int main(int argc, char const *argv[]) {
         << "The following solutions probably did not converge."
         << std::endl << std::endl;
     while(result_it != grid.end()) {
-        if (result_it->second.iterations >= 40) {
+        if (result_it->second.iterations >= MAX_ITERATIONS) {
             num_unconverged++;
             cautionreportfile
                 << "hden = "