From: W. Trevor King <wking@drexel.edu>
Date: Sun, 8 Aug 2010 20:17:28 +0000 (-0400)
Subject: Update ForceCommand to use flexible column names.
X-Git-Url: http://git.tremily.us/?a=commitdiff_plain;h=755cd80edb9dee0fe6005a44d662f68bd379a5a8;p=hooke.git

Update ForceCommand to use flexible column names.
---

diff --git a/hooke/plugin/vclamp.py b/hooke/plugin/vclamp.py
index 90acc97..617f09d 100644
--- a/hooke/plugin/vclamp.py
+++ b/hooke/plugin/vclamp.py
@@ -63,7 +63,7 @@ def scale(hooke, curve, block=None):
         params = {'curve':curve, 'block':block}
         b = curve.data[block]
         if ('surface distance (m)' not in b.info['columns']
-            or 'surface adjusted deflection (m)' not in b.info['columns']):
+            or 'surface deflection (m)' not in b.info['columns']):
             try:
                 contact.run(hooke, inqueue, outqueue, **params)
             except PoorFit, e:
@@ -273,17 +273,17 @@ Name of the column (without units) to use as the deflection output.
                 Argument(name='distance info name', type='string',
                          default='surface distance offset',
                          help="""
-Name of the column (without units) for storing the distance offset in the `.info` dictionary.
+Name (without units) for storing the distance offset in the `.info` dictionary.
 """.strip()),
                 Argument(name='deflection info name', type='string',
                          default='surface deflection offset',
                          help="""
-Name of the column (without units) for storing the deflection offset in the `.info` dictionary.
+Name (without units) for storing the deflection offset in the `.info` dictionary.
 """.strip()),
                 Argument(name='fit parameters info name', type='string',
                          default='surface deflection offset',
                          help="""
-Name of the column (without units) for storing the deflection offset in the `.info` dictionary.
+Name (without units) for storing the deflection offset in the `.info` dictionary.
 """.strip()),
                 ],
             help=self.__doc__, plugin=plugin)
@@ -462,11 +462,9 @@ Name of the column (without units) for storing the deflection offset in the `.in
             surface_index = len(d_data)-1-surface_index
         return (numpy.round(surface_index), deflection_offset, info)
 
-class ForceCommand (Command):
-    """Calculate a block's `deflection (N)` array.
 
-    Uses the block's `deflection (m)` array and
-    `spring constant (N/m)`.
+class ForceCommand (Command):
+    """Convert a deflection column from meters to newtons.
     """
     def __init__(self, plugin):
         super(ForceCommand, self).__init__(
@@ -478,6 +476,21 @@ class ForceCommand (Command):
 Data block for which the force should be calculated.  For an
 approach/retract force curve, `0` selects the approaching curve and `1`
 selects the retracting curve.
+""".strip()),
+                Argument(name='input deflection column', type='string',
+                         default='surface deflection (m)',
+                         help="""
+Name of the column to use as the deflection input.
+""".strip()),
+                Argument(name='output deflection column', type='string',
+                         default='deflection',
+                         help="""
+Name of the column (without units) to use as the deflection output.
+""".strip()),
+                Argument(name='spring constant info name', type='string',
+                         default='spring constant (N/m)',
+                         help="""
+Name of the spring constant in the `.info` dictionary.
 """.strip()),
                 ],
             help=self.__doc__, plugin=plugin)
@@ -492,9 +505,11 @@ selects the retracting curve.
         new = Data((data.shape[0], data.shape[1]+1), dtype=data.dtype)
         new.info = copy.deepcopy(data.info)
         new[:,:-1] = data
-        new.info['columns'].append('deflection (N)')
-        d_data = data[:,data.info['columns'].index('surface adjusted deflection (m)')]
-        new[:,-1] = d_data * data.info['spring constant (N/m)']
+        new.info['columns'].append(
+            join_data_label(params['output deflection column'], 'N'))
+        d_data = data[:,data.info['columns'].index(
+                params['input deflection column'])]
+        new[:,-1] = d_data * data.info[params['spring constant info name']]
         params['curve'].data[params['block']] = new