Restructure modules hierarchy; Implement a very basic web UI

.editorconfig

@@ -1,9 +1,12 @@
-root = true
-
-[*]
-indent_style = space
-indent_size = 4
-charset = utf-8
-end_of_line = crlf
-trim_trailing_whitespace = true
-insert_final_newline = true
+root = true
+
+[*]
+indent_style = space
+indent_size = 4
+charset = utf-8
+end_of_line = crlf
+trim_trailing_whitespace = true
+insert_final_newline = true
+
+[*.sh]
+end_of_line = lf

.gitignore

@@ -1,9 +1,10 @@
-.idea/
-.vscode/
-*.pyc
-code_duplication/build/
-code_duplication/code_duplication_scanner.egg-info/
-code_duplication/dist/
-code_duplication/env/
-code_duplication/repos/
-venv/
+.idea/
+.vscode/
+*.pyc
+code_duplication/build/
+code_duplication/code_duplication_scanner.egg-info/
+code_duplication/dist/
+code_duplication/env/
+code_duplication/repos/
+venv/
+web/credentials.py

.gitmodules

@@ -1,8 +1,8 @@
-[submodule "code_duplication/test/repos/CodeDuplicateTest1"]
-	path = code_duplication/test/repos/CodeDuplicateTest1
+[submodule "test/repos/CodeDuplicateTest1"]
+	path = test/repos/CodeDuplicateTest1
 	url = https://github.com/SchaefferDuncan/CodeDuplicateTest1
 	branch = master
-[submodule "code_duplication/test/repos/CodeDuplicateTest2"]
-	path = code_duplication/test/repos/CodeDuplicateTest2
+[submodule "test/repos/CodeDuplicateTest2"]
+	path = test/repos/CodeDuplicateTest2
 	url = https://github.com/SchaefferDuncan/CodeDuplicateTest2
 	branch = master

cli/__main__.py

@@ -0,0 +1,4 @@
+from .app import main
+
+if __name__ == "__main__":
+    main()

code_duplication/src/app.py → cli/app.py

@@ -1,11 +1,10 @@
 import sys
-from .preprocessing.args_handler import handle_args
-from .preprocessing.module_parser import get_modules_from_dir
-from .primary_algorithm.pattern_collection import pattern_collection
-from .utils.benchmark import time_snap
-from .secondary_algorithm.fast_check import type1_check
+from engine.preprocessing.args_handler import handle_args
+from engine.preprocessing.module_parser import get_modules_from_dir
+from engine.algorithms.iodine.iodine import iodine
+from engine.utils.benchmark import time_snap
 from fastlog import log
-from .errors.UserInputError import UserInputError
+from engine.errors.UserInputError import UserInputError
 
 
 def main():
@@ -37,28 +36,9 @@ def main():
 
         time_snap("Parsed second repository")
 
-        log.info("Beginning fast analysis...")
-        type1_check(module_list_1)
-        time_snap("Type 1 check for first repository")
-
-        type1_check(module_list_2)
-        time_snap("Type 1 check for second repository")
-
         log.info("Beginning full analysis...")
-        clusters = []
-        for module_tree_1 in module_list_1:
-            for module_tree_2 in module_list_2:
-                clusters.append(pattern_collection(
-                    module_tree_1, module_tree_2))
-
+        iodine(module_list_1, module_list_2)
         time_snap("Analysis completed")
-        log.info("")
-
-        log.info("Possible clones:")
-        for cluster_list in clusters:
-            for pattern in cluster_list:
-                if pattern:
-                    log.info(pattern)
 
     except UserInputError as ex:
         if ex.message: