Added docs help and cleaning of remove sandbox

biobb_vs/fpocket/fpocket_filter.py

@@ -222,9 +222,10 @@ def launch(self) -> int:
         # Copy files to host
         self.copy_to_host()
 
-        self.tmp_files.extend(
-            [self.stage_io_dict.get("unique_dir", ""), self.tmp_folder]
-        )
+        self.tmp_files.extend([
+            # self.stage_io_dict.get("unique_dir", ""),
+            self.tmp_folder
+        ])
         self.remove_tmp_files()
 
         self.check_arguments(output_files_created=True, raise_exception=False)
@@ -250,6 +251,8 @@ def fpocket_filter(
         **kwargs,
     ).launch()
 
+    fpocket_filter.__doc__ = FPocketFilter.__doc__
+
 
 def main():
     """Command line execution of this building block. Please check the command line documentation."""

biobb_vs/fpocket/fpocket_run.py

@@ -151,7 +151,7 @@ def launch(self) -> int:
                                self.__class__.__name__)
 
         self.tmp_files.extend([
-            self.stage_io_dict.get("unique_dir", ""),
+            # self.stage_io_dict.get("unique_dir", ""),
             self.tmp_folder
         ])
         self.remove_tmp_files()
@@ -168,6 +168,8 @@ def fpocket_run(input_pdb_path: str, output_pockets_zip: str, output_summary: st
                       output_summary=output_summary,
                       properties=properties, **kwargs).launch()
 
+    fpocket_run.__doc__ = FPocketRun.__doc__
+
 
 def main():
     """Command line execution of this building block. Please check the command line documentation."""

biobb_vs/fpocket/fpocket_select.py

@@ -111,7 +111,7 @@ def launch(self) -> int:
         self.copy_to_host()
 
         self.tmp_files.extend([
-            self.stage_io_dict.get("unique_dir", ""),
+            # self.stage_io_dict.get("unique_dir", ""),
             self.tmp_folder
         ])
         self.remove_tmp_files()
@@ -130,6 +130,8 @@ def fpocket_select(input_pockets_zip: str, output_pocket_pdb: str, output_pocket
                          output_pocket_pqr=output_pocket_pqr,
                          properties=properties, **kwargs).launch()
 
+    fpocket_select.__doc__ = FPocketSelect.__doc__
+
 
 def main():
     """Command line execution of this building block. Please check the command line documentation."""

biobb_vs/utils/bindingsite.py

@@ -437,9 +437,10 @@ def launch(self) -> int:
         # Copy files to host
         self.copy_to_host()
 
-        self.tmp_files.extend(
-            [self.stage_io_dict.get("unique_dir", ""), str(unique_dir)]
-        )
+        self.tmp_files.extend([
+            # self.stage_io_dict.get("unique_dir", ""),
+            str(unique_dir)
+        ])
         self.remove_tmp_files()
 
         self.check_arguments(output_files_created=True, raise_exception=False)
@@ -465,6 +466,8 @@ def bindingsite(
         **kwargs,
     ).launch()
 
+    bindingsite.__doc__ = BindingSite.__doc__
+
 
 def main():
     """Command line execution of this building block. Please check the command line documentation."""

biobb_vs/utils/box.py

@@ -215,7 +215,7 @@ def launch(self) -> int:
         # Copy files to host
         self.copy_to_host()
 
-        self.tmp_files.extend([self.stage_io_dict.get("unique_dir", "")])
+        # self.tmp_files.extend([self.stage_io_dict.get("unique_dir", "")])
         self.remove_tmp_files()
 
         self.check_arguments(output_files_created=True, raise_exception=False)
@@ -239,6 +239,8 @@ def box(
         **kwargs,
     ).launch()
 
+    box.__doc__ = Box.__doc__
+
 
 def main():
     """Command line execution of this building block. Please check the command line documentation."""

biobb_vs/utils/box_residues.py

@@ -270,7 +270,7 @@ def launch(self) -> int:
         # Copy files to host
         self.copy_to_host()
 
-        self.tmp_files.extend([self.stage_io_dict.get("unique_dir", "")])
+        # self.tmp_files.extend([self.stage_io_dict.get("unique_dir", "")])
         self.remove_tmp_files()
 
         return 0
@@ -292,6 +292,8 @@ def box_residues(
         **kwargs,
     ).launch()
 
+    box_residues.__doc__ = BoxResidues.__doc__
+
 
 def main():
     """Command line execution of this building block. Please check the command line documentation."""

biobb_vs/utils/extract_model_pdbqt.py

@@ -167,7 +167,7 @@ def launch(self) -> int:
         # Copy files to host
         self.copy_to_host()
 
-        self.tmp_files.extend([self.stage_io_dict.get("unique_dir", "")])
+        # self.tmp_files.extend([self.stage_io_dict.get("unique_dir", "")])
         self.remove_tmp_files()
 
         self.check_arguments(output_files_created=True, raise_exception=False)
@@ -191,6 +191,8 @@ def extract_model_pdbqt(
         **kwargs,
     ).launch()
 
+    extract_model_pdbqt.__doc__ = ExtractModelPDBQT.__doc__
+
 
 def main():
     """Command line execution of this building block. Please check the command line documentation."""

biobb_vs/vina/autodock_vina_run.py

@@ -226,7 +226,7 @@ def launch(self) -> int:
         self.copy_to_host()
 
         # remove temporary folder(s)
-        self.tmp_files.extend([self.stage_io_dict.get("unique_dir", "")])
+        # self.tmp_files.extend([self.stage_io_dict.get("unique_dir", "")])
         self.remove_tmp_files()
 
         self.check_arguments(output_files_created=True, raise_exception=False)
@@ -256,6 +256,8 @@ def autodock_vina_run(
         **kwargs,
     ).launch()
 
+    autodock_vina_run.__doc__ = AutoDockVinaRun.__doc__
+
 
 def main():
     """Command line execution of this building block. Please check the command line documentation."""