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test_hdfwriterpart.py
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test_hdfwriterpart.py
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import os
import sys
sys.path.append(os.path.join(os.path.dirname(__file__), "..", ".."))
import setup_malcolm_paths
import unittest
from mock import Mock, MagicMock, call, ANY
from malcolm.parts.ADCore.hdfwriterpart import HDFWriterPart, \
NDArrayDatasetInfo, CalculatedNDAttributeDatasetInfo
from scanpointgenerator import LineGenerator, CompoundGenerator, SpiralGenerator
class TestHDFWriterPart(unittest.TestCase):
maxDiff = None
def setUp(self):
self.process = MagicMock()
self.child = MagicMock()
def getitem(name):
return name
self.child.__getitem__.side_effect = getitem
self.params = MagicMock()
self.params.mri = "BLOCK-HDF5"
self.process.get_block.return_value = self.child
self.o = HDFWriterPart(self.process, self.params)
list(self.o.create_attributes())
def test_configure(self):
task = MagicMock()
params = MagicMock()
energy = LineGenerator("energy", "kEv", 13.0, 15.2, 2)
spiral = SpiralGenerator(
["x", "y"], ["mm", "mm"], [0., 0.], 5., scale=2.0)
params.generator = CompoundGenerator([energy, spiral], [], [], 0.1)
params.fileDir = "/tmp"
params.formatName = "file"
params.fileTemplate = "thing-%s.h5"
params.generator.prepare()
completed_steps = 0
steps_to_do = 38
part_info = {
"DET": [NDArrayDatasetInfo("xspress3", 2)],
"STAT": [CalculatedNDAttributeDatasetInfo("sum", "StatsTotal")],
}
infos = self.o.configure(
task, completed_steps, steps_to_do, part_info, params)
self.assertEqual(len(infos), 5)
self.assertEquals(infos[0].name, "xspress3.data")
self.assertEquals(infos[0].filename, "thing-file.h5")
self.assertEquals(infos[0].type, "primary")
self.assertEquals(infos[0].rank, 4)
self.assertEquals(infos[0].path, "/entry/detector/detector")
self.assertEquals(infos[0].uniqueid,
"/entry/NDAttributes/NDArrayUniqueId")
self.assertEquals(infos[1].name, "xspress3.sum")
self.assertEquals(infos[1].filename, "thing-file.h5")
self.assertEquals(infos[1].type, "secondary")
self.assertEquals(infos[1].rank, 4)
self.assertEquals(infos[1].path, "/entry/sum/sum")
self.assertEquals(infos[1].uniqueid,
"/entry/NDAttributes/NDArrayUniqueId")
self.assertEquals(infos[2].name, "energy.value_set")
self.assertEquals(infos[2].filename, "thing-file.h5")
self.assertEquals(infos[2].type, "position_set")
self.assertEquals(infos[2].rank, 1)
self.assertEquals(infos[2].path, "/entry/detector/energy_set")
self.assertEquals(infos[2].uniqueid, "")
self.assertEquals(infos[3].name, "x.value_set")
self.assertEquals(infos[3].filename, "thing-file.h5")
self.assertEquals(infos[3].type, "position_set")
self.assertEquals(infos[3].rank, 1)
self.assertEquals(infos[3].path, "/entry/detector/x_set")
self.assertEquals(infos[3].uniqueid, "")
self.assertEquals(infos[4].name, "y.value_set")
self.assertEquals(infos[4].filename, "thing-file.h5")
self.assertEquals(infos[4].type, "position_set")
self.assertEquals(infos[4].rank, 1)
self.assertEquals(infos[4].path, "/entry/detector/y_set")
self.assertEquals(infos[4].uniqueid, "")
self.assertEqual(task.put.call_args_list, [
call(self.child["positionMode"], True),
call(self.child["numCapture"], 0),
call('flushDataPerNFrames', 10.0),
call('flushAttrPerNFrames', 10.0)])
self.assertEqual(task.put_many_async.call_count, 2)
self.assertEqual(task.put_many_async.call_args_list[0],
call(self.child, dict(
enableCallbacks=True,
fileWriteMode="Stream",
swmrMode=True,
positionMode=True,
dimAttDatasets=True,
lazyOpen=True,
arrayCounter=0,
filePath="/tmp/",
fileName="file",
fileTemplate="%sthing-%s.h5")))
self.assertEqual(task.put_many_async.call_args_list[1],
call(self.child, dict(
numExtraDims=1,
posNameDimN="d1",
extraDimSizeN=20,
posNameDimX="d0",
extraDimSizeX=2,
posNameDimY="",
extraDimSizeY=1,
posNameDim3="",
extraDimSize3=1,
posNameDim4="",
extraDimSize4=1,
posNameDim5="",
extraDimSize5=1,
posNameDim6="",
extraDimSize6=1,
posNameDim7="",
extraDimSize7=1,
posNameDim8="",
extraDimSize8=1,
posNameDim9="",
extraDimSize9=1)))
expected_xml = """<?xml version="1.0" ?>
<hdf5_layout>
<group name="entry">
<attribute name="NX_class" source="constant" type="string" value="NXentry" />
<group name="detector">
<attribute name="signal" source="constant" type="string" value="detector" />
<attribute name="axes" source="constant" type="string" value="energy_set,.,.,." />
<attribute name="NX_class" source="constant" type="string" value="NXdata" />
<attribute name="energy_set_indices" source="constant" type="string" value="0" />
<dataset name="energy_set" source="constant" type="float" value="13,15.2">
<attribute name="units" source="constant" type="string" value="kEv" />
</dataset>
<attribute name="x_set_indices" source="constant" type="string" value="1" />
<dataset name="x_set" source="constant" type="float" value="0.473264298891,-1.28806365331,-1.11933765723,0.721339144968,2.26130106714,2.3717213098,1.08574712174,-0.863941392256,-2.59791589857,-3.46951769442,-3.22399679412,-1.98374931946,-0.132541097885,1.83482458567,3.45008680308,4.36998121172,4.42670524204,3.63379270355,2.15784413199,0.269311496406">
<attribute name="units" source="constant" type="string" value="mm" />
</dataset>
<attribute name="y_set_indices" source="constant" type="string" value="1" />
<dataset name="y_set" source="constant" type="float" value="-0.64237113553,-0.500750778455,1.38930992616,1.98393756064,0.784917470231,-1.17377831157,-2.66405897615,-2.9669684623,-2.01825893141,-0.24129368636,1.72477821509,3.27215424484,3.98722048131,3.71781556747,2.5610299588,0.799047653518,-1.18858453138,-3.01284626565,-4.34725663835,-4.9755042398">
<attribute name="units" source="constant" type="string" value="mm" />
</dataset>
<dataset det_default="true" name="detector" source="detector">
<attribute name="NX_class" source="constant" type="string" value="SDS" />
</dataset>
</group>
<group name="sum">
<attribute name="signal" source="constant" type="string" value="sum" />
<attribute name="axes" source="constant" type="string" value="energy_set,.,.,." />
<attribute name="NX_class" source="constant" type="string" value="NXdata" />
<attribute name="energy_set_indices" source="constant" type="string" value="0" />
<hardlink name="energy_set" target="/entry/detector/energy_set" />
<attribute name="x_set_indices" source="constant" type="string" value="1" />
<hardlink name="x_set" target="/entry/detector/x_set" />
<attribute name="y_set_indices" source="constant" type="string" value="1" />
<hardlink name="y_set" target="/entry/detector/y_set" />
<dataset name="sum" ndattribute="StatsTotal" source="ndattribute" />
</group>
<group name="NDAttributes" ndattr_default="true">
<attribute name="NX_class" source="constant" type="string" value="NXcollection" />
</group>
</group>
</hdf5_layout>"""
expected_filename = "/tmp/BLOCK-HDF5-layout.xml"
self.assertEqual(
task.put_async.call_args_list[0][0][1], expected_filename)
actual_xml = open(expected_filename).read().replace(">", ">\n")
self.assertEqual(actual_xml.splitlines(), expected_xml.splitlines())
def test_run(self):
task = MagicMock()
update = MagicMock()
self.o.done_when_reaches = 38
self.o.run(task, update)
task.subscribe.assert_called_once_with(
self.child["uniqueId"], update, self.o)
task.when_matches.assert_called_once_with(
self.child["uniqueId"], 38)
def test_post_run(self):
self.o.start_future = MagicMock()
fname = "/tmp/test_filename"
with open(fname, "w") as f:
f.write("thing")
assert os.path.isfile(fname)
self.o.layout_filename = fname
task = MagicMock()
self.o.post_run_idle(task)
task.wait_all.assert_called_once_with(self.o.start_future)
assert not os.path.isfile(fname)
if __name__ == "__main__":
unittest.main(verbosity=2)