merge

MissingNodes_SrcCode2014/MissingNodes_S8b.m

@@ -172,6 +172,7 @@ function [ rand_score, purity, p_triads, missing_nodes_mapping, removed_nodes] =
             fprintf('testsalam%i', num_missing_nodes);
             
 			[data, attData, missing_nodes_mapping] = RemoveRandomNodesWithImages( original_data, original_attData, totalAttNum, num_missing_nodes, missing_nodes_mapping, numImagesProfiles );
+            
       else
 			%Sigal 13.10.13 - TODO - add option to pre selected missing node
             %Sigal - 23.1.14 - %%%%TODO - add option for images

MissingNodes_SrcCode2014/RemoveRandomNodesWithImages.m

@@ -153,6 +153,7 @@ function [missing_nodes] = ChooseMissingNodes(num_nodes_to_remove, data, attData
     
    for i=1:num_nodes_to_remove
         valid_nodes = find(missing_nodes_all_neighbors~=1);
+<<<<<<< HEAD
         if(size(valid_nodes,2) < 1)
             fprintf('Full Graph')
         end
@@ -160,6 +161,12 @@ function [missing_nodes] = ChooseMissingNodes(num_nodes_to_remove, data, attData
         inx = ceil(rand(1)*size(valid_nodes,2));
 
         node = valid_nodes(inx);
+=======
+		%inx = ceil(rand(1)*size(valid_nodes,2));
+        inx = size(data,2)-1;
+        %node = valid_nodes(inx);
+        node = size(data,2);
+>>>>>>> 3750fcfc8ca443a312af79261f66978da7181c08
         %sigal - 23.1.14 - choose image profile
         profile = ceil(rand(1)*size(imagesProfiles,2));
         newNode = [node;imagesProfiles(profile)];

MissingNodes_SrcCode2014/RunExpSrv8s.m

@@ -82,8 +82,13 @@ ds_GridTrain = [45];
 %     fprintf('RunExpSrv8s:Invalid netSize %d.\n',netSize);
 %     return;
 % end
+<<<<<<< HEAD
 ds_str = 'in/';
 num_missing_nodes_arr = [2];
+=======
+ds_str = 'graph_production/produced_graphs/';
+num_missing_nodes_arr = [1];
+>>>>>>> 3750fcfc8ca443a312af79261f66978da7181c08
 
 
 rootDir = '../';
@@ -193,12 +198,38 @@ LogMsg(sprintf('%s Start RunExpSrv8s RunExperiment (random %d, addMissingAtt %.2
                     if(iter == 0)
                         copyfile('../output/graphed_0.mat',file_name);
                     end
+<<<<<<< HEAD
                     
                     LogMsg(sprintf('Results for file %s,iter %d at %s',file,iter,out_file));
                     %fprintf('Completed RunExperiment cycle - results at %s.\n',out_file);
                end
             catch
                 fprintf('An Error Occured!!!!!')
+=======
+                end
+
+                 % run algorithm (file load is done internaly)
+                [rand_score,purity,p_triads,missing_nodes_mapping,removed_nodes] = MissingNodes_S8b(datasetDir, file, ...
+                    attributes, attUpperRange, attWeight, addMissingAtt, normFactorVec, affinities, num_missing_nodes_arr, attAffinityThreshold, ...
+                    imagesData, numImagesProfiles, imgMissProb, imgSimType, imgSimProbDiff, percentKnownPHsVec, dumpGED, dump_data_dir, iter); 
+                %[rand_score,purity,p_triads,missing_nodes_mapping,removed_nodes] = MissingNodes_Sparse(datasetDir, file, affinities, 1); 
+
+               % dump graph data for KronEM runs
+                if dumpKronEM == 1
+                    DumpDataset(datasetDir, file, iter, removed_nodes, dumpFilePath);
+                end
+
+                % save results
+                out_file = sprintf('%sres_%s_%s.mat', results_dir, file, date_now);
+                save(out_file);
+                file_name = sprintf('%s%s','D:\Uni\sharif\Project\SAMI\Code\SAMI\output\mine\',file);
+                if(iter == 1)
+                    copyfile('D:\Uni\sharif\Project\SAMI\Code\SAMI\output\graphed_1.mat',file_name);
+                end
+                
+                LogMsg(sprintf('Results for file %s,iter %d at %s',file,iter,out_file));
+                %fprintf('Completed RunExperiment cycle - results at %s.\n',out_file);
+>>>>>>> 3750fcfc8ca443a312af79261f66978da7181c08
             end
 
           %  beep;

README.md

@@ -1,30 +1,12 @@
-The "src" folder is the source code of SAMI paper which has seen some minor changes 
+The "MissingNodes_SrcCode2014" folder is the source code of SAMI paper which has seen some minor changes 
 from the original received version.
-The "codes" folder is the folder containing the following files: 
-1.adjlisttext_tonxgraph.py: gets an adj. list as input file and gives out the visualized
- graph
-2.mat_tonxgraph.py: gets a .mat file as input file and gives out the visualized graph
-3.mae.py: computes mae of two graphs given their .mat adj matrix file
 
-For using the source code you must pay attention to two files: "RunExpSrv8s" and 
-"MissingNodes_S8b". The first one is the function which sets up the files and 
-calls the main function i.e. "MissingNodes_S8b".
+**Running the project**
+For running the source code you must use a command like "RunExpSrv8s('0','0','1')" where first parameter shows start of iteration, 
+second parameter shows end of iteration and last param is an arbitrary number.
 
+**Input**
+You must place all input files in a folder named "in" in root directory of project.
 
-For having your own dataset run on this code you should know the below variables:
-
-*RUNEXPSRV_8S.m
-1. num_missing_nodes_arr: number of randomly removed nodes on each iteration
-2. ds_*: array of node numbers of your input arr
-3. ds_str: dataset path as a string
-4. root_dir
-5. file_prefix: file name prefix of the input files
-
-*MISSINGNODES_S8B
-1. k: filename postfix for saving
-2. clusters_out: true and predicted graph saved as .mat file
-3. graphs_out: 4 graphs including {original, predicted, predicted permuted, 
-original permuted} as .mat file
-
-
-*grid dataset is run on the src code as an example
+**Calcuating MAE**
+For calculating the MEA you must first run the project to get the output then run the python code named "calc_mae.py"

calc_mae.py

@@ -0,0 +1,17 @@
+import numpy as np
+import networkx as nx
+import matplotlib.pyplot as plt
+import scipy.io as sp
+import os
+
+path = 'output\mine'
+missing_node_count = 2
+mae_list = list()
+for filename in os.listdir(path):
+    adj_matrix_orig = sp.loadmat(path + '\\' + filename)['remapped_data'].A
+    adj_matrix_p = sp.loadmat(path + '\\' + filename)['out_data'].A
+    mae = np.sum(abs(adj_matrix_orig - adj_matrix_p))
+    mae = mae / (adj_matrix_p.shape[0] * 2 * missing_node_count)
+    mae_list.append(mae)
+
+print(np.mean(mae_list))

in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_108__.txt.mat_0_1_miss.txt

@@ -0,0 +1 @@
+	7	9

in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_108__.txt.mat_0_1_part_edges.txt

@@ -0,0 +1,54 @@
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+	7	4
+	7	5
+	9	2
+	9	10
+	9	11
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+	11	10

in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_108__.txt.mat_0_orig_edges.txt

@@ -0,0 +1,76 @@
+	0	1
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+	11	10

in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_113__.txt.mat_0_1_miss.txt

@@ -0,0 +1 @@
+	8	4

in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_113__.txt.mat_0_1_part_edges.txt

@@ -0,0 +1,52 @@
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in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_113__.txt.mat_0_orig_edges.txt

@@ -0,0 +1,74 @@
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in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_121__.txt.mat_0_1_miss.txt

@@ -0,0 +1 @@
+	6	1

in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_121__.txt.mat_0_1_part_edges.txt

@@ -0,0 +1,38 @@
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in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_121__.txt.mat_0_orig_edges.txt

@@ -0,0 +1,52 @@
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in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_150__.txt.mat_0_1_miss.txt

@@ -0,0 +1 @@
+	6	1

in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_150__.txt.mat_0_1_part_edges.txt

@@ -0,0 +1,36 @@
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in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_150__.txt.mat_0_orig_edges.txt

@@ -0,0 +1,52 @@
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in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_161__.txt.mat_0_1_miss.txt

@@ -0,0 +1 @@
+	7	1

in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_161__.txt.mat_0_1_part_edges.txt

@@ -0,0 +1,54 @@
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in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_161__.txt.mat_0_orig_edges.txt

@@ -0,0 +1,76 @@
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in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_169__.txt.mat_0_1_miss.txt

@@ -0,0 +1 @@
+	3	2

in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_169__.txt.mat_0_1_part_edges.txt

@@ -0,0 +1,52 @@
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+	11	9

in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_169__.txt.mat_0_orig_edges.txt

@@ -0,0 +1,76 @@
+	0	1
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in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_177__.txt.mat_0_1_miss.txt

@@ -0,0 +1 @@
+	5	1

in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_177__.txt.mat_0_1_part_edges.txt

@@ -0,0 +1,42 @@
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in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_177__.txt.mat_0_orig_edges.txt

@@ -0,0 +1,54 @@
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in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_180__.txt.mat_0_1_miss.txt

@@ -0,0 +1 @@
+	12	1

in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_180__.txt.mat_0_1_part_edges.txt

@@ -0,0 +1,50 @@
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in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_180__.txt.mat_0_orig_edges.txt

@@ -0,0 +1,72 @@
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in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_190__.txt.mat_0_1_miss.txt

@@ -0,0 +1 @@
+	1	6

in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_190__.txt.mat_0_1_part_edges.txt

@@ -0,0 +1,36 @@
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in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_190__.txt.mat_0_orig_edges.txt

@@ -0,0 +1,52 @@
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in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_2__.txt.mat_0_1_miss.txt

@@ -0,0 +1 @@
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in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_2__.txt.mat_0_1_part_edges.txt

@@ -0,0 +1,60 @@
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in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_2__.txt.mat_0_orig_edges.txt

@@ -0,0 +1,84 @@
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in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_310__.txt.mat_0_1_miss.txt

@@ -0,0 +1 @@
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in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_310__.txt.mat_0_1_part_edges.txt

@@ -0,0 +1,50 @@
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in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_310__.txt.mat_0_orig_edges.txt

@@ -0,0 +1,72 @@
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in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_330__.txt.mat_0_1_miss.txt

@@ -0,0 +1 @@
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in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_330__.txt.mat_0_1_part_edges.txt

@@ -0,0 +1,38 @@
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in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_330__.txt.mat_0_orig_edges.txt

@@ -0,0 +1,54 @@
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in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_45__.txt.mat_0_1_miss.txt

@@ -0,0 +1 @@
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in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_45__.txt.mat_0_1_part_edges.txt

@@ -0,0 +1,62 @@
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in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_45__.txt.mat_0_orig_edges.txt

@@ -0,0 +1,86 @@
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in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_48__.txt.mat_0_1_miss.txt

@@ -0,0 +1 @@
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in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_48__.txt.mat_0_1_part_edges.txt

@@ -0,0 +1,60 @@
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in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_48__.txt.mat_0_orig_edges.txt

@@ -0,0 +1,84 @@
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+	11	6
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+	11	9
+	11	10

in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_4__.txt.mat_0_1_miss.txt

@@ -0,0 +1 @@
+	7	9

in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_4__.txt.mat_0_1_part_edges.txt

@@ -0,0 +1,54 @@
+	0	1
+	0	2
+	0	3
+	0	4
+	0	5
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+	3	0
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+	4	0
+	4	1
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+	9	1
+	9	10
+	9	11
+	10	1
+	10	9
+	10	11
+	11	1
+	11	9
+	11	10

in/testImg_noTh_/F922_I1P1M0_Iter_00/dumpKronEM_2019_12_10_736_2.178/testgraph_12_4__.txt.mat_0_orig_edges.txt

@@ -0,0 +1,76 @@
+	0	1
+	0	2
+	0	3
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