Add calibcant-calibrate.py, now that we have a configurable default AFM to calibrate.

diff --git a/bin/calibcant-calibrate.py b/bin/calibcant-calibrate.py
new file mode 100755 (executable)
index 0000000..f12112f
--- /dev/null
+++ b/bin/calibcant-calibrate.py
@@ -0,0 +1,46 @@
+#!/usr/bin/env python
+# calibcant - tools for thermally calibrating AFM cantilevers
+#
+# Copyright
+
+"""Run a cantilever calibration using the default AFM
+(``pyafm.storage.load_afm()``).
+"""
+
+import os
+import time as _time
+
+from calibcant.calibrate import Calibrator as _Calibrator
+from pyafm.storage import load_afm as _load_afm
+import calibcant.config as _config
+
+
+def main(args):
+    timestamp = '{0}-{1:02d}-{2:02d}T{3:02d}-{4:02d}-{5:02d}'.format(
+        *_time.localtime())
+    filename = '{}-calibcant-data.h5'.format(timestamp)
+    config = _config.CalibrateConfig()
+    config['bump'] = _config.BumpConfig()
+    config['bump'].update(
+        {'model':_config.Linear, 'initial-position':-150e-9})
+    config['temperature'] = _config.TemperatureConfig()
+    config['vibration'] = _config.VibrationConfig()
+    devices = []
+    try:
+        afm = _load_afm()
+        afm.load_from_config(devices=devices)
+        calibrator = _Calibrator(config=config, afm=afm)
+        calibrator.setup_config()
+        deflection = afm.piezo.read_deflection()
+        afm.stepper_approach(target_deflection=deflection + 1e3)
+        k,k_s,data = calibrator.calibrate(filename=filename)
+    finally:
+        for device in devices:
+            device.close()
+    print 'k: {:g} +/- {:g}'.format(k, k_s)
+    return 0
+
+if __name__ == '__main__':
+    import sys
+
+    sys.exit(main(sys.argv[1:]))