X-Git-Url: http://woldlab.caltech.edu/gitweb/?p=mussa.git;a=blobdiff_plain;f=alg%2Fnway_paths.cpp;h=85ae0071fec44caf2396a80b82c93c16b9f43207;hp=e7a8474b9ce062d7cafd47cdbe88855d81f3405b;hb=0c4b689c8f8540a6ab60d98c67637cdb13996ba2;hpb=03d92f51588c1cd45178321a86cb3aacb80a0f33

diff --git a/alg/nway_paths.cpp b/alg/nway_paths.cpp
index e7a8474..85ae007 100644
--- a/alg/nway_paths.cpp
+++ b/alg/nway_paths.cpp
@@ -173,7 +173,7 @@ NwayPaths::save(fs::path save_file_path)
   // add a function para new_thres defaults to -1 to later deal with
   // reanalysis with higher thres - if statement whether to record base thres
   // or new thres (ie if -1, then base)
-  save_file << " thres=" << threshold << " >\n";
+  save_file << " thres=" << threshold << " soft_thres=" << soft_thres << " >\n";
 
   path_i = refined_pathz.begin();
   paths_end = refined_pathz.end();
@@ -258,7 +258,23 @@ NwayPaths::load(fs::path load_file_path)
     data = file_data_line.substr(equal_split_i+1); 
     threshold = atoi (data.c_str());
     file_data_line = file_data_line.substr(space_split_i+1);
-    
+    // get cur_threshold
+    //std::cout << "file_data_line: " << file_data_line << "\n";
+    //std::cout << "find(\">\"): " << file_data_line.find(">") << "\n";
+    if (file_data_line.find(">") != 0)
+    {
+      space_split_i = file_data_line.find(" ");
+      header_data = file_data_line.substr(0,space_split_i);
+      equal_split_i =  header_data.find("=");
+      data = file_data_line.substr(equal_split_i+1);
+      soft_thres = atoi (data.c_str());
+      file_data_line = file_data_line.substr(space_split_i+1);
+    }
+    else
+    {
+      soft_thres = threshold;
+    }
+    //std::cout << "nway_soft_thres: " << soft_thres << "\n";
     //cout << "seq_num=" << species_num << " win=" << win_size;
     //cout << " thres=" << threshold << endl;