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# -*- coding: utf-8 -*-
# Copyright © 2014, German Neuroinformatics Node (G-Node)
#
# All rights reserved.
#
# Redistribution and use in section and binary forms, with or without
# modification, are permitted under the terms of the BSD License. See
# LICENSE file in the root of the Project.
import os
import time
import unittest
import nixio as nix
from .tmp import TempDir
class TestSections(unittest.TestCase):
def setUp(self):
self.tmpdir = TempDir("sectiontest")
self.testfilename = os.path.join(self.tmpdir.path, "sectiontest.nix")
self.file = nix.File.open(self.testfilename, nix.FileMode.Overwrite)
self.section = self.file.create_section("test section",
"recordingsession")
self.other = self.file.create_section("other section",
"recordingsession")
def tearDown(self):
del self.file.sections[self.section.id]
del self.file.sections[self.other.id]
self.file.close()
self.tmpdir.cleanup()
def test_section_eq(self):
assert self.section == self.section
assert not self.section == self.other
assert self.section is not None
def test_section_id(self):
assert self.section.id is not None
# Check setting id on section via file create
oid = "4a6e8483-0a9a-464d-bdd9-b39818334bcd"
sec = self.file.create_section("assign id", "sec type", oid)
assert sec.id == oid
nonid = "I am not a proper uuid"
sec = self.file.create_section("invalid id", "sec type", nonid)
assert sec.id != nonid
# Check setting id on section via section create
oid = "4a6e8483-0a9a-464d-bdd9-b39818334bcd"
sub_sec = sec.create_section("assign id", "sec type", oid)
assert sub_sec.id == oid
nonid = "I am not a proper uuid"
sub_sec = sec.create_section("invalid id", "sec type", nonid)
assert sub_sec.id != nonid
def test_section_name(self):
assert self.section.name is not None
def test_section_type(self):
def set_none():
self.section.type = None
assert self.section.type is not None
self.assertRaises(Exception, set_none)
self.section.type = "foo type"
assert self.section.type == "foo type"
def test_section_definition(self):
assert self.section.definition is None
self.section.definition = "definition"
assert self.section.definition == "definition"
self.section.definition = None
assert self.section.definition is None
def test_section_repository(self):
assert self.section.repository is None
self.section.repository = "repository"
assert self.section.repository == "repository"
self.section.repository = None
assert self.section.repository is None
def test_property_reference(self):
assert self.section.reference is None
self.section.reference = "reference"
assert self.section.reference == "reference"
self.section.reference = None
assert self.section.reference is None
self.section.reference = None
def test_section_sections(self):
assert len(self.section.sections) == 0
child = self.section.create_section("test section", "electrode")
assert child.parent == self.section
assert len(self.section.sections) == 1
assert child in self.section.sections
assert child.id in self.section.sections
assert "notexist" not in self.section.sections
assert child.id == self.section.sections[0].id
assert child.id == self.section.sections[-1].id
del self.section.sections[0]
assert len(self.section.sections) == 0
self.section['easy subsection'] = nix.S('electrode')
subject = self.section['subject'] = nix.S('subject')
assert self.section['subject'] == subject
assert self.section['subject'].id == subject.id
assert('easy subsection' in
[v.name for k, v in self.section.sections.items()])
assert 'easy subsection' in self.section.sections
assert self.section['easy subsection'].name == 'easy subsection'
def test_section_find_sections(self):
for i in range(2):
self.section.create_section("level1-p0-s" + str(i), "dummy")
for i in range(2):
self.section.sections[0].create_section("level2-p1-s" + str(i),
"dummy")
for i in range(2):
self.section.sections[1].create_section("level2-p2-s" + str(i),
"dummy")
for i in range(2):
self.section.sections[0].sections[0].create_section(
"level3-p1-s" + str(i), "dummy"
)
assert len(self.section.find_sections()) == 9
assert len(self.section.find_sections(limit=1)) == 3
assert(len(self.section.find_sections(
filtr=lambda x: "level2-p1-s" in x.name)) == 2
)
assert(len(self.section.find_sections(
filtr=lambda x: "level2-p1-s" in x.name, limit=1)) == 0
)
assert len(self.section.find_related()) == 3
assert len(self.section.sections[0].find_related()) == 5
def test_section_properties(self):
assert len(self.section) == 0
prop = self.section.create_property("test prop", nix.DataType.String)
assert len(self.section) == 1
for prop in self.section:
assert prop in self.section
assert "test prop" in self.section
assert "notexist" not in self.section
assert self.section["test prop"] is not None
# NOTE: the following raises KeyError: Do we want it to return None?
# assert self.section["notexist"] is None
assert len(self.section.inherited_properties()) == 1
assert prop in self.section
assert prop.id in self.section
assert prop.name in self.section
assert "notexist" not in self.section
props = dict(self.section.items())
assert props["test prop"] == prop
assert prop.id == self.section.props[0].id
assert prop.id == self.section.props[-1].id
# easy prop creation
self.section['ep_str'] = 'str'
self.section['ep_int'] = 23
self.section['ep_float'] = 42.0
self.section['ep_list'] = [1, 2, 3]
self.section['ep_val'] = 1.0
self.section['ep_val'] = 2.0
# prop creation through create_property
self.section.create_property('cp_str', 'str')
self.section.create_property('cp_int', 23)
self.section.create_property('cp_float', 42.0)
self.section.create_property('cp_list', [1, 2, 3])
self.section.create_property('cp_val', 1.0)
self.section.props["cp_str"].values = "anotherstr"
assert all([name in self.section for name in ['ep_str', 'ep_int', 'ep_float']])
assert self.section['ep_str'] == 'str'
assert self.section['ep_int'] == 23
assert self.section['ep_float'] == 42.0
assert self.section['ep_list'] == [1, 2, 3]
def create_hetero_section():
self.section['ep_ex'] = [1, 1.0]
self.assertRaises(TypeError, create_hetero_section)
section_ids = [sec.id for sec in self.section]
for s_id in section_ids:
del self.section[s_id]
assert len(self.section) == 0
def test_parent(self):
self.assertIs(self.section.parent, None)
child = self.section.create_section("child section", "sect")
self.assertEqual(self.section, child.parent)
block = self.file.create_block("block", "section parent test")
mdsection = self.file.create_section("block md", "metadata sect")
block.metadata = mdsection
self.assertIs(block.metadata.parent, None)
grp = block.create_group("group", "section parent test")
grp.metadata = child
self.assertEqual(grp.metadata.parent, self.section)
# indirect access parent check
self.assertEqual(block.groups["group"].metadata.parent, self.section)
def test_inverse_search(self):
block = self.file.create_block("a block", "block with metadata")
block.metadata = self.section
otherblock = self.file.create_block("b block", "block with metadata")
otherblock.metadata = self.other
self.file.create_block("c block", "block without metadata")
self.assertEqual(len(self.section.referring_blocks), 1)
self.assertEqual(len(self.other.referring_blocks), 1)
self.assertEqual(self.section.referring_blocks[0], block)
self.assertEqual(self.other.referring_blocks[0], otherblock)
da_one = block.create_data_array("foo", "data_array", data=range(10))
da_one.metadata = self.other
da_two = block.create_data_array("foobar", "data_array", data=[1])
da_two.metadata = self.other
block.create_data_array("nomd", "data_array", data=[9])
self.assertEqual(len(self.other.referring_data_arrays), 2)
self.assertIn(da_one, self.other.referring_data_arrays)
self.assertIn(da_two, self.other.referring_data_arrays)
tag = block.create_tag("tago", "tagtype", [1, 1])
tag.metadata = self.section
block.create_tag("tagi", "tagtype", [1, 10])
self.assertEqual(len(self.section.referring_tags), 1)
self.assertEqual(len(self.other.referring_tags), 0)
self.assertEqual(self.section.referring_tags[0].id, tag.id)
mtag = block.create_multi_tag("MultiTagName", "MultiTagType", da_one)
mtag.metadata = self.section
block.create_multi_tag("MtagNOMD", "MultiTagType", da_one)
self.assertEqual(len(self.section.referring_multi_tags), 1)
self.assertEqual(len(self.other.referring_multi_tags), 0)
self.assertEqual(self.section.referring_multi_tags[0].id, mtag.id)
src = block.create_source("sauce", "stype")
src.metadata = self.other
block.create_source("nosauce", "stype")
self.assertEqual(len(self.other.referring_sources), 1)
self.assertEqual(len(self.section.referring_sources), 0)
self.assertEqual(self.other.referring_sources[0].id, src.id)
def test_section_link(self):
self.section.create_property("PropOnSection", "value")
self.assertIn("PropOnSection", self.section)
self.assertEqual("value", self.section["PropOnSection"])
self.assertNotIn("PropOnSection", self.other)
with self.assertRaises(KeyError):
_ = self.other["PropOnSection"]
self.other.link = self.section
self.assertNotIn("PropOnSection", self.other)
with self.assertRaises(KeyError):
_ = self.other["PropOnSection"]
inhpropnames = [p.name for p in self.other.inherited_properties()]
self.assertIn("PropOnSection", inhpropnames)
# Test for copying props and sections on sections
def test_copy_on_sections(self):
tarfilename = os.path.join(self.tmpdir.path, "destination.nix")
tarfile = nix.File.open(tarfilename, nix.FileMode.Overwrite)
sec1 = self.section
prop1 = sec1.create_property("prop from origin",
values_or_dtype=[1, 2, 3])
sec2 = sec1.create_section("nested sec", 'test nested')
tarsec = tarfile.create_section("tar sec", "tar")
tarsec.create_property(copy_from=prop1)
assert prop1 == tarsec.props[0]
tarsec.copy_section(sec1)
tarsec.copy_section(sec2)
assert sec1 == tarsec.sections[0]
assert sec2 == tarsec.sections[1]
assert sec1.sections[0] == tarsec.sections[1]
tarfile.close()
def test_timestamp_autoupdate(self):
section = self.file.create_section("section.time", "test.time")
sectime = section.updated_at
time.sleep(1) # wait for time to change
section.reference = "whatever"
self.assertNotEqual(sectime, section.updated_at)
sectime = section.updated_at
linksec = self.file.create_section("link.section.time", "test.time")
time.sleep(1) # wait for time to change
section.link = linksec
self.assertNotEqual(sectime, section.updated_at)
sectime = section.updated_at
time.sleep(1) # wait for time to change
section.repository = "repo"
self.assertNotEqual(sectime, section.updated_at)
def test_timestamp_noautoupdate(self):
self.file.auto_update_timestamps = False
section = self.file.create_section("section.time", "test.time")
sectime = section.updated_at
time.sleep(1) # wait for time to change
section.reference = "whatever"
self.assertEqual(sectime, section.updated_at)
sectime = section.updated_at
time.sleep(1) # wait for time to change
linksec = self.file.create_section("link.section.time", "test.time")
section.link = linksec
self.assertEqual(sectime, section.updated_at)
sectime = section.updated_at
time.sleep(1) # wait for time to change
section.repository = "repo"
self.assertEqual(sectime, section.updated_at)
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