Renamed tool to be more consistent with its function

bin/pdb_delaltloc.py → bin/pdb_selaltloc.py

@@ -21,11 +21,11 @@
 location using an option.
 
 Usage:
-    python pdb_selocc.py [-<option>] <pdb file>
+    python pdb_selaltloc.py [-<option>] <pdb file>
 
 Example:
-    python pdb_selocc.py 1CTF.pdb  # picks locations with highest occupancy
-    python pdb_selocc.py -A 1CTF.pdb  # picks alternate locations labelled 'A'
+    python pdb_selaltloc.py 1CTF.pdb  # picks locations with highest occupancy
+    python pdb_selaltloc.py -A 1CTF.pdb  # picks alternate locations labelled 'A'
 
 This program is part of the `pdb-tools` suite of utilities and should not be
 distributed isolatedly. The `pdb-tools` were created to quickly manipulate PDB

tests/test_pdb_delaltloc.py → tests/test_pdb_selaltloc.py

@@ -16,7 +16,7 @@
 # limitations under the License.
 
 """
-Unit Tests for `pdb_delaltloc`.
+Unit Tests for `pdb_selaltloc`.
 """
 
 import os
@@ -34,7 +34,7 @@ class TestTool(unittest.TestCase):
 
     def setUp(self):
         # Dynamically import the module
-        name = 'bin.pdb_delaltloc'
+        name = 'bin.pdb_selaltloc'
         self.module = __import__(name, fromlist=[''])
 
     def exec_module(self):
@@ -54,10 +54,10 @@ def exec_module(self):
         return
 
     def test_default(self):
-        """$ pdb_delaltloc data/dummy.pdb"""
+        """$ pdb_selaltloc data/dummy.pdb"""
 
         # Simulate input
-        # pdb_delaltloc dummy.pdb
+        # pdb_selaltloc dummy.pdb
         sys.argv = ['', os.path.join(data_dir, 'dummy.pdb')]
 
         # Execute the script
@@ -75,7 +75,7 @@ def test_default(self):
         self.assertEqual(atoms[' CA  ASN A   1'], 0.60)  # picked highest occ.
 
     def test_select_occupancy(self):
-        """$ pdb_delaltloc -A data/dummy.pdb"""
+        """$ pdb_selaltloc -A data/dummy.pdb"""
 
         sys.argv = ['', '-A', os.path.join(data_dir, 'dummy.pdb')]
 
@@ -92,7 +92,7 @@ def test_select_occupancy(self):
         self.assertEqual(atoms[' CA  ASN A   1'], 0.40)
 
     def test_file_not_found(self):
-        """$ pdb_delaltloc not_existing.pdb"""
+        """$ pdb_selaltloc not_existing.pdb"""
 
         afile = os.path.join(data_dir, 'not_existing.pdb')
         sys.argv = ['', afile]
@@ -105,7 +105,7 @@ def test_file_not_found(self):
                          "ERROR!! File not found")  # proper error message
 
     def test_file_missing(self):
-        """$ pdb_delaltloc -A"""
+        """$ pdb_selaltloc -A"""
 
         sys.argv = ['', '-A']
 
@@ -117,7 +117,7 @@ def test_file_missing(self):
                          "ERROR!! No data to process!")
 
     def test_helptext(self):
-        """$ pdb_delaltloc"""
+        """$ pdb_selaltloc"""
 
         sys.argv = ['']
 
@@ -128,7 +128,7 @@ def test_helptext(self):
         self.assertEqual(self.stderr, self.module.__doc__.split("\n")[:-1])
 
     def test_invalid_option(self):
-        """$ pdb_delaltloc -AH data/dummy.pdb"""
+        """$ pdb_selaltloc -AH data/dummy.pdb"""
 
         sys.argv = ['', '-AH', os.path.join(data_dir, 'dummy.pdb')]
 
@@ -140,7 +140,7 @@ def test_invalid_option(self):
                          "ERROR!! Alternate location identifiers must be ")
 
     def test_not_an_option(self):
-        """$ pdb_delaltloc 20 data/dummy.pdb"""
+        """$ pdb_selaltloc 20 data/dummy.pdb"""
 
         sys.argv = ['', '20', os.path.join(data_dir, 'dummy.pdb')]