def test_run_mgo_scf_folder(db_test_app, sanitise_calc_attr, data_regression):
# type: (AiidaTestApp) -> None
"""Test running a calculation."""
# set up calculation
builder = db_test_app.get_or_create_code("crystal17.newk").get_builder()
builder.metadata = get_metadata()
builder.parameters = Dict(dict={"k_points": [18, 36]})
wf_folder = FolderData()
with open_resource_binary("newk", "mgo_sto3g_scf", "fort.9") as handle:
wf_folder.put_object_from_filelike(handle, "fort.9", mode="wb")
builder.wf_folder = wf_folder
output = run_get_node(builder)
calc_node = output.node
db_test_app.check_calculation(calc_node, ["results"])
calc_attributes = sanitise_calc_attr(calc_node.attributes)
results = {
k: round(i, 7) if isinstance(i, float) else i
for k, i in calc_node.outputs.results.attributes.items()
if k not in ["execution_time_seconds"]
}
data_regression.check({
"calc": calc_attributes,
"results": results,
})
def test_empty_log(db_test_app, plugin_name):
"""Check if the lammps log is empty."""
retrieved = FolderData()
for filename in [
'log.lammps',
'trajectory.lammpstrj',
'_scheduler-stdout.txt',
'_scheduler-stderr.txt',
]:
retrieved.put_object_from_filelike(io.StringIO(''), filename)
calc_node = db_test_app.generate_calcjob_node(plugin_name, retrieved)
parser = ParserFactory(plugin_name)
with db_test_app.sandbox_folder() as temp_path:
with temp_path.open('x-trajectory.lammpstrj', 'w'):
pass
results, calcfunction = parser.parse_from_node( # pylint: disable=unused-variable
calc_node,
retrieved_temporary_folder=temp_path.abspath,
)
assert calcfunction.is_finished, calcfunction.exception
assert calcfunction.is_failed, calcfunction.exit_status
assert (calcfunction.exit_status ==
calc_node.process_class.exit_codes.ERROR_LOG_PARSING.status)
def test_single(db_test_app):
# type: (AiidaTestApp) -> None
retrieved = FolderData()
with open_resource_binary("gulp", "optimize_reaxff_pyrite",
"main.gout") as handle:
retrieved.put_object_from_filelike(handle, "main.gout", mode="wb")
node = db_test_app.generate_calcjob_node("gulp.single", retrieved)
results, calcfunction = db_test_app.parse_from_node("gulp.single", node)
assert calcfunction.is_finished_ok
assert "results" in results
def test_optimize_no_cif(db_test_app):
# type: (AiidaTestApp) -> None
calc_cls = db_test_app.get_calc_cls("gulp.optimize")
retrieved = FolderData()
with open_resource_binary("gulp", "optimize_reaxff_pyrite",
"main.gout") as handle:
retrieved.put_object_from_filelike(handle, "main.gout", mode="wb")
node = db_test_app.generate_calcjob_node("gulp.optimize", retrieved)
results, calcfunction = db_test_app.parse_from_node("gulp.optimize", node)
assert calcfunction.is_finished
assert not calcfunction.is_finished_ok
assert calcfunction.exit_status == calc_cls.exit_codes.ERROR_CIF_FILE_MISSING.status
def test_empty_output(db_test_app, plugin_name):
retrieved = FolderData()
retrieved.put_object_from_filelike(StringIO(""), "main.out")
calc_node = db_test_app.generate_calcjob_node(plugin_name, retrieved)
results, calcfunction = db_test_app.parse_from_node(plugin_name, calc_node)
assert calcfunction.is_finished, calcfunction.exception
assert calcfunction.is_failed, calcfunction.exit_status
assert (calcfunction.exit_status ==
calc_node.process_class.exit_codes.ERROR_PARSING_STDOUT.status)
def test_failed_pbs(db_test_app, plugin_name, fcontent, error_msg):
retrieved = FolderData()
retrieved.put_object_from_filelike(StringIO(fcontent), "_scheduler-stderr.txt")
calc_node = db_test_app.generate_calcjob_node(plugin_name, retrieved)
results, calcfunction = db_test_app.parse_from_node(plugin_name, calc_node)
assert calcfunction.is_finished, calcfunction.exception
assert calcfunction.is_failed, calcfunction.exit_status
assert (
calcfunction.exit_status == calc_node.process_class.exit_codes[error_msg].status
)
def test_missing_traj(db_test_app, plugin_name):
retrieved = FolderData()
with retrieved.open('log.lammps', 'w'):
pass
calc_node = db_test_app.generate_calcjob_node(plugin_name, retrieved)
parser = db_test_app.get_parser_cls(plugin_name)
results, calcfunction = parser.parse_from_node(calc_node)
assert calcfunction.is_finished, calcfunction.exception
assert calcfunction.is_failed, calcfunction.exit_status
assert calcfunction.exit_status == calc_node.process_class.exit_codes.ERROR_TRAJ_FILE_MISSING.status
def test_get_scheduler_stderr(self):
"""Verify that the repository sandbox folder is cleaned after the node instance is garbage collected."""
option_key = 'scheduler_stderr'
option_value = '_scheduler-error.txt'
stderr = 'some\nstandard error'
# Note: cannot use pytest.mark.parametrize in unittest classes, so I just do a loop here
for with_file in [True, False]:
for with_option in [True, False]:
node = CalcJobNode(computer=self.computer, )
node.set_option('resources', {
'num_machines': 1,
'num_mpiprocs_per_machine': 1
})
retrieved = FolderData()
if with_file:
retrieved.put_object_from_filelike(io.StringIO(stderr),
option_value)
if with_option:
node.set_option(option_key, option_value)
node.store()
retrieved.store()
retrieved.add_incoming(node,
link_type=LinkType.CREATE,
link_label='retrieved')
# It should return `None` if no scheduler output is there (file not there, or option not set),
# while it should return the content if both are set
self.assertEqual(node.get_scheduler_stderr(),
stderr if with_file and with_option else None)
def test_missing_isofile(db_test_app, plugin_name):
retrieved = FolderData()
with open_resource_binary("doss", "cubic_rocksalt_orbitals",
"cubic-rocksalt_2x1_pdos.doss.out") as handle:
retrieved.put_object_from_filelike(handle, "main.out", mode="wb")
calc_node = db_test_app.generate_calcjob_node(plugin_name, retrieved)
results, calcfunction = db_test_app.parse_from_node(plugin_name, calc_node)
assert calcfunction.is_finished, calcfunction.exception
assert calcfunction.is_failed, calcfunction.exit_status
assert (calcfunction.exit_status == calc_node.process_class.exit_codes.
ERROR_ISOVALUE_FILE_MISSING.status)
def test_missing_density(db_test_app, plugin_name):
retrieved = FolderData()
with open_resource_binary("ech3", "mgo_sto3g_scf", "main.out") as handle:
retrieved.put_object_from_filelike(handle, "main.out", mode="wb")
calc_node = db_test_app.generate_calcjob_node(plugin_name, retrieved)
with db_test_app.sandbox_folder() as temp_folder:
results, calcfunction = db_test_app.parse_from_node(
plugin_name, calc_node, retrieved_temp=temp_folder.abspath)
assert calcfunction.is_finished, calcfunction.exception
assert calcfunction.is_failed, calcfunction.exit_status
assert (calcfunction.exit_status == calc_node.process_class.exit_codes.
ERROR_DENSITY_FILE_MISSING.status)
def test_failed_scf_convergence(db_test_app, plugin_name):
retrieved = FolderData()
with open_resource_binary("crystal", "failed", "FAILED_SCF_bcc_iron.out") as handle:
retrieved.put_object_from_filelike(handle, "main.out", mode="wb")
calc_node = db_test_app.generate_calcjob_node(plugin_name, retrieved)
results, calcfunction = db_test_app.parse_from_node(plugin_name, calc_node)
assert calcfunction.is_finished, calcfunction.exception
assert calcfunction.is_failed, calcfunction.exit_status
assert (
calcfunction.exit_status
== calc_node.process_class.exit_codes.UNCONVERGED_SCF.status
)
def _fixture_folderdata(dir_path, replacement_mapping=None):
if replacement_mapping is None:
replacement_mapping = {}
dir_path = str(
dir_path
) # TODO: Remove cast to 'str' when Python2 support is dropped.
from aiida.orm import FolderData
folder = FolderData()
for file_path in os.listdir(dir_path):
abs_path = os.path.abspath(os.path.join(dir_path, file_path))
res_file_path = file_path
for old, new in replacement_mapping.items():
res_file_path = res_file_path.replace(old, new)
folder.put_object_from_file(abs_path, res_file_path)
return folder
def recollect_atomic_calculations(**kwargs):
"""
Collect dynamical matrix files into a single folder, putting a different number at the end of
each final dynamical matrix file, obtained from the input link, which corresponds to its place
in the list of q-points originally generated by distribute_qpoints.
:param kwargs: keys are the string representation of the hubbard atom index and the value is the
corresponding retrieved folder object.
:return: FolderData object containing the perturbation files of the computed HpBaseWorkChain
"""
import os
import errno
output_folder_sub = HpCalculation._OUTPUT_SUBFOLDER
output_folder_raw = HpCalculation._FOLDER_RAW
output_prefix = HpCalculation()._PREFIX
# Initialize the merged folder, by creating the subdirectory for the perturbation files
merged_folder = FolderData()
folder_path = os.path.normpath(merged_folder.get_abs_path('.'))
output_path = os.path.join(folder_path, output_folder_raw)
try:
os.makedirs(output_path)
except OSError as error:
if error.errno == errno.EEXIST and os.path.isdir(output_path):
pass
else:
raise
for atomic_site_index, retrieved_folder in kwargs.iteritems():
filepath = os.path.join(output_folder_raw, '{}.chi.pert_{}.dat'.format(output_prefix, atomic_site_index))
filepath_src = retrieved_folder.get_abs_path(filepath)
filepath_dst = filepath
merged_folder.add_path(filepath_src, filepath_dst)
# TODO: currently the Hp code requires the .save folder that is written by the original
# PwCalculation, for the final post-processing matrix collection step. It doesn't really need all
# the information contained in that folder, and requiring it means, copying it from remote to a
# local folder and then reuploading it to remote folder. This is unnecessarily heavy
retrieved_folder = kwargs.values()[0]
dirpath = os.path.join(output_folder_sub, output_prefix + '.save')
dirpath_src = retrieved_folder.get_abs_path(dirpath)
dirpath_dst = dirpath
merged_folder.add_path(dirpath_src, dirpath_dst)
retrieved_folder = kwargs.values()[0]
filepath = os.path.join(output_folder_sub, output_prefix + '.occup')
filepath_src = retrieved_folder.get_abs_path(filepath)
filepath_dst = filepath
merged_folder.add_path(filepath_src, filepath_dst)
return merged_folder
def parse(self, **kwargs):
"""Receives in input a dictionary of retrieved nodes. Does all the logic here."""
retrieved_folders = []
try:
retrieved_folder = self.retrieved
retrieved_folders.append(retrieved_folder)
except NotExistent:
return self.exit_codes.ERROR_NO_RETRIEVED_FOLDER
retrieve_temp_list_input = self.node.get_attribute(
'retrieve_temporary_list', None)
# If temporary files were specified, check that we have them
if retrieve_temp_list_input:
try:
retrieved_temp_folder_path = kwargs[
'retrieved_temporary_folder']
# create a folderdata object to treat this the same way
temp_fd = FolderData(tree=retrieved_temp_folder_path)
retrieved_folders.append(temp_fd)
except KeyError:
return self.exit_codes.ERROR_NO_RETRIEVED_TEMPORARY_FOLDER
if "parser_params" in self.node.inputs:
parser_params = dict(self.node.inputs.parser_params)
else:
parser_params = {}
self._parse_folders(retrieved_folders, parser_params)
return ExitCode(0)
def test_optimize_1d_molecule(db_test_app, get_structure):
# type: (AiidaTestApp) -> None
retrieved = FolderData()
with open_resource_binary("gulp", "s2_polymer_opt", "main.gout") as handle:
retrieved.put_object_from_filelike(handle, "main.gout", mode="wb")
node = db_test_app.generate_calcjob_node(
"gulp.optimize",
retrieved,
input_nodes={"structure": get_structure("s2_molecule")},
)
results, calcfunction = db_test_app.parse_from_node("gulp.optimize", node)
if not calcfunction.is_finished_ok:
raise AssertionError(calcfunction.attributes)
assert "results" in results
assert "structure" in results
def test_success(db_test_app, plugin_name, data_regression):
retrieved = FolderData()
with open_resource_binary("doss", "cubic_rocksalt_orbitals",
"cubic-rocksalt_2x1_pdos.doss.out") as handle:
retrieved.put_object_from_filelike(handle, "main.out", mode="wb")
calc_node = db_test_app.generate_calcjob_node(plugin_name, retrieved)
results, calcfunction = db_test_app.parse_from_node(plugin_name, calc_node)
assert calcfunction.is_finished_ok, calcfunction.exception
assert "results" in results
results_attr = {
k: round(i, 7) if isinstance(i, float) else i
for k, i in results["results"].attributes.items()
}
data_regression.check({"results": results_attr})
def test_single_no_file(db_test_app):
# type: (AiidaTestApp) -> None
retrieved = FolderData()
calc_cls = db_test_app.get_calc_cls("gulp.single")
node = db_test_app.generate_calcjob_node("gulp.single", retrieved)
results, calcfunction = db_test_app.parse_from_node("gulp.single", node)
assert calcfunction.is_finished
assert not calcfunction.is_finished_ok
assert (calcfunction.exit_status ==
calc_cls.exit_codes.ERROR_OUTPUT_FILE_MISSING.status)
def _generate_lua_folder():
"""Return `FolderData` node."""
from aiida.orm import FolderData
foldername = os.path.join('tests', 'fixtures', 'lua_scripts',
'neb-data')
folderpath = os.path.abspath(foldername)
lua_folder = FolderData(tree=folderpath)
return lua_folder
def test_success(db_test_app, plugin_name, data_regression):
retrieved = FolderData()
with open_resource_binary("ech3", "mgo_sto3g_scf", "main.out") as handle:
retrieved.put_object_from_filelike(handle, "main.out", mode="wb")
calc_node = db_test_app.generate_calcjob_node(plugin_name, retrieved)
with resource_context("ech3", "mgo_sto3g_scf") as path:
results, calcfunction = db_test_app.parse_from_node(
plugin_name, calc_node, retrieved_temp=str(path))
assert calcfunction.is_finished_ok, calcfunction.exception
assert "results" in results
assert "charge" in results
data_regression.check({
"results":
recursive_round(results["results"].attributes, 7),
"charge":
recursive_round(results["charge"].attributes, 7),
})
def test_missing_stdout(db_test_app, plugin_name):
retrieved = FolderData()
calc_node = db_test_app.generate_calcjob_node(plugin_name, retrieved)
results, calcfunction = db_test_app.parse_from_node(plugin_name, calc_node)
assert calcfunction.is_finished, calcfunction.exception
assert calcfunction.is_failed, calcfunction.exit_status
assert (calcfunction.exit_status == calc_node.process_class.exit_codes.
ERROR_OUTPUT_FILE_MISSING.status)
def test_fleurinp_modifier_instance_modifications_node(create_fleurinp):
"""Tests if set_nmmpmat works on fleurinp modifier works, with right interface"""
from aiida.orm import FolderData
fleurinp_tmp = create_fleurinp(inpxmlfilefolder2)
n_mmp_mat_folder = os.path.dirname(os.path.abspath(__file__))
n_mmp_mat_folder = os.path.abspath(os.path.join(n_mmp_mat_folder, '../files/n_mmp_mat'))
n_mmp_mat_folder = FolderData(tree=n_mmp_mat_folder)
n_mmp_mat_folder.store()
fm = FleurinpModifier(fleurinp_tmp)
fm.set_file('n_mmp_mat_GaAsMultiForceXML', dst_filename='n_mmp_mat', node=n_mmp_mat_folder)
new_fleurinp = fm.freeze()
assert 'n_mmp_mat' in new_fleurinp.files
fm = FleurinpModifier(new_fleurinp)
fm.del_file('n_mmp_mat')
new_fleurinp = fm.freeze()
assert 'n_mmp_mat' not in new_fleurinp.files
def folder_data():
"""Create a `FolderData` instance with basic file and directory structure."""
node = FolderData()
node.put_object_from_filelike(io.StringIO(''), 'nested/file.txt')
node.put_object_from_filelike(io.StringIO(''), 'file.txt')
return node
def test_failed_optimisation(db_test_app, plugin_name, data_regression):
"""Test that if the optimisation is killed before completion, the trajectory data is still available."""
retrieved = FolderData()
with open_resource_binary(
"crystal", "nio_sto3g_afm_opt_walltime", "main.out"
) as handle:
retrieved.put_object_from_filelike(handle, "main.out", mode="wb")
with open_resource_binary(
"crystal", "nio_sto3g_afm_opt_walltime", "_scheduler-stderr.txt"
) as handle:
retrieved.put_object_from_filelike(handle, "_scheduler-stderr.txt", mode="wb")
calc_node = db_test_app.generate_calcjob_node(plugin_name, retrieved)
with resource_context("crystal", "nio_sto3g_afm_opt_walltime") as path:
results, calcfunction = db_test_app.parse_from_node(
plugin_name, calc_node, retrieved_temp=str(path)
)
# print(get_calcjob_report(calc_node))
assert calcfunction.is_finished, calcfunction.exception
assert calcfunction.is_failed, calcfunction.exit_status
assert (
calcfunction.exit_status
== calc_node.process_class.exit_codes.ERROR_OUT_OF_WALLTIME.status
)
assert "optimisation" in results, results
data_regression.check(results["optimisation"].attributes)
def test_run_error(db_test_app, plugin_name):
"""Check if the parser runs without producing errors."""
retrieved = FolderData()
retrieved.put_object_from_filelike(
io.StringIO(get_log()),
'log.lammps',
)
retrieved.put_object_from_filelike(
io.StringIO(get_traj_force()),
'x-trajectory.lammpstrj',
)
retrieved.put_object_from_filelike(
io.StringIO('ERROR description'),
'_scheduler-stdout.txt',
)
retrieved.put_object_from_filelike(
io.StringIO(''),
'_scheduler-stderr.txt',
)
calc_node = db_test_app.generate_calcjob_node(plugin_name, retrieved)
parser = ParserFactory(plugin_name)
with db_test_app.sandbox_folder() as temp_path:
with temp_path.open('x-trajectory.lammpstrj', 'w') as handle:
handle.write(get_traj_force())
results, calcfunction = parser.parse_from_node( # pylint: disable=unused-variable
calc_node,
retrieved_temporary_folder=temp_path.abspath,
)
print(get_calcjob_report(calc_node))
assert calcfunction.is_finished, calcfunction.exception
assert calcfunction.is_failed, calcfunction.exit_status
assert (calcfunction.exit_status ==
calc_node.process_class.exit_codes.ERROR_LAMMPS_RUN.status)
def test_missing_log(db_test_app, plugin_name):
"""Check if the log file is produced during calculation."""
retrieved = FolderData()
calc_node = db_test_app.generate_calcjob_node(plugin_name, retrieved)
parser = ParserFactory(plugin_name)
with db_test_app.sandbox_folder() as temp_path:
results, calcfunction = parser.parse_from_node( # pylint: disable=unused-variable
calc_node,
retrieved_temporary_folder=temp_path.abspath,
)
assert calcfunction.is_finished, calcfunction.exception
assert calcfunction.is_failed, calcfunction.exit_status
assert (calcfunction.exit_status ==
calc_node.process_class.exit_codes.ERROR_LOG_FILE_MISSING.status)
def test_missing_traj(db_test_app, plugin_name):
"""Check if the trajectory file is produced during calculation."""
retrieved = FolderData()
retrieved.put_object_from_filelike(io.StringIO(get_log()), 'log.lammps')
retrieved.put_object_from_filelike(io.StringIO(''),
'_scheduler-stdout.txt')
retrieved.put_object_from_filelike(io.StringIO(''),
'_scheduler-stderr.txt')
calc_node = db_test_app.generate_calcjob_node(plugin_name, retrieved)
parser = ParserFactory(plugin_name)
with db_test_app.sandbox_folder() as temp_path:
results, calcfunction = parser.parse_from_node( # pylint: disable=unused-variable
calc_node,
retrieved_temporary_folder=temp_path.abspath,
)
assert calcfunction.is_finished, calcfunction.exception
assert calcfunction.is_failed, calcfunction.exit_status
assert (calcfunction.exit_status ==
calc_node.process_class.exit_codes.ERROR_TRAJ_FILE_MISSING.status)
def _inner(file_path, input_settings=None):
# Create a test computer
computer = localhost
process_type = 'aiida.calculations:{}'.format('vasp.vasp')
node = CalcJobNode(computer=computer, process_type=process_type)
node.set_attribute('input_filename', 'INCAR')
node.set_attribute('output_filename', 'OUTCAR')
#node.set_attribute('error_filename', 'aiida.err')
node.set_attribute('scheduler_stderr', '_scheduler-stderr.txt')
node.set_attribute('scheduler_stdout', '_scheduler-stdout.txt')
node.set_option('resources', {
'num_machines': 1,
'num_mpiprocs_per_machine': 1
})
node.set_option('max_wallclock_seconds', 1800)
if input_settings is None:
input_settings = {}
settings = Dict(dict=input_settings)
node.add_incoming(settings,
link_type=LinkType.INPUT_CALC,
link_label='settings')
settings.store()
node.store()
# Create a `FolderData` that will represent the `retrieved` folder. Store the test
# output fixture in there and link it.
retrieved = FolderData()
retrieved.put_object_from_tree(file_path)
retrieved.add_incoming(node,
link_type=LinkType.CREATE,
link_label='retrieved')
retrieved.store()
return node
def test_optimize_success(db_test_app):
# type: (AiidaTestApp) -> None
retrieved = FolderData()
with open_resource_binary("gulp", "optimize_reaxff_pyrite",
"main.gout") as handle:
retrieved.put_object_from_filelike(handle, "main.gout", mode="wb")
with open_resource_binary("gulp", "optimize_reaxff_pyrite",
"output.cif") as handle:
retrieved.put_object_from_filelike(handle, "output.cif", mode="wb")
node = db_test_app.generate_calcjob_node(
"gulp.optimize", retrieved, options={"use_input_kinds": False})
results, calcfunction = db_test_app.parse_from_node("gulp.optimize", node)
if not calcfunction.is_finished_ok:
raise AssertionError(calcfunction.attributes)
assert "results" in results
assert "structure" in results
def test_get_scheduler_stderr(self):
"""Verify that the repository sandbox folder is cleaned after the node instance is garbage collected."""
option_key = 'scheduler_stderr'
option_value = '_scheduler-error.txt'
stderr = 'some\nstandard error'
node = CalcJobNode(computer=self.computer, )
node.set_option('resources', {
'num_machines': 1,
'num_mpiprocs_per_machine': 1
})
retrieved = FolderData()
# No scheduler error filename option so should return `None`
self.assertEqual(node.get_scheduler_stderr(), None)
# No retrieved folder so should return `None`
node.set_option(option_key, option_value)
self.assertEqual(node.get_scheduler_stderr(), None)
# Now it has retrieved folder, but file does not actually exist in it, should not except but return `None
node.store()
retrieved.store()
retrieved.add_incoming(node,
link_type=LinkType.CREATE,
link_label='retrieved')
self.assertEqual(node.get_scheduler_stderr(), None)
# Add the file to the retrieved folder
with tempfile.NamedTemporaryFile(mode='w+') as handle:
handle.write(stderr)
handle.flush()
handle.seek(0)
retrieved.put_object_from_filelike(handle,
option_value,
force=True)
self.assertEqual(node.get_scheduler_stderr(), stderr)
def _fixture_calc_job_node(entry_point_name, computer, test_name, attributes=None):
"""Fixture to generate a mock `CalcJobNode` for testing parsers.
:param entry_point_name: entry point name of the calculation class
:param computer: a `Computer` instance
:param test_name: relative path of directory with test output files in the `fixtures/{entry_point_name}` folder
:param attributes: any optional attributes to set on the node
:return: `CalcJobNode` instance with an attached `FolderData` as the `retrieved` node
"""
from aiida.common.links import LinkType
from aiida.orm import CalcJobNode, FolderData
from aiida.plugins.entry_point import format_entry_point_string
entry_point = format_entry_point_string('aiida.calculations', entry_point_name)
node = CalcJobNode(computer=computer, process_type=entry_point)
node.set_attribute('input_filename', 'aiida.in')
node.set_attribute('output_filename', 'aiida.out')
node.set_attribute('error_filename', 'aiida.err')
node.set_option('resources', {'num_machines': 1, 'num_mpiprocs_per_machine': 1})
node.set_option('max_wallclock_seconds', 1800)
if attributes:
node.set_attribute_many(attributes)
node.store()
basepath = os.path.dirname(os.path.abspath(__file__))
filepath = os.path.join(basepath, 'parsers', 'fixtures', entry_point_name[len('codtools.'):], test_name)
retrieved = FolderData()
retrieved.put_object_from_tree(filepath)
retrieved.add_incoming(node, link_type=LinkType.CREATE, link_label='retrieved')
retrieved.store()
return node
