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"""
Loading a report from JSON
This manual marshalling/de-marshalling is not awesome.
"""
import json
import logging
import uuid as U
from pbcommand.models.report import (Report, Plot, PlotGroup, Attribute,
Table, Column, ReportSpec, PlotlyPlot)
from pbcommand.schemas import validate_report, validate_report_spec
log = logging.getLogger(__name__)
__all__ = [
"load_report_from_json",
"load_report_from",
"load_report_spec_from_json",
]
def _to_id(s):
if '.' in s:
return s.split('.')[-1]
else:
return s
def _to_plot(d):
id_ = _to_id(d['id'])
caption = d.get('caption', None)
image = d['image']
thumbnail = d.get('thumbnail', None)
title = d.get('title', None)
plot_type = d.get("plotType", Plot.PLOT_TYPE)
plotly_version = d.get("plotlyVersion", None)
if plot_type == Plot.PLOT_TYPE:
return Plot(id_, image, caption=caption,
thumbnail=thumbnail, title=title)
elif plot_type == PlotlyPlot.PLOT_TYPE:
return PlotlyPlot(id_, image, caption=caption, thumbnail=thumbnail,
title=title, plotly_version=plotly_version)
else:
raise ValueError("Unrecognized plotType '{t}'".format(t=plot_type))
def _to_plot_group(d):
id_ = _to_id(d['id'])
legend = d.get('legend', None)
thumbnail = d.get('thumbnail', None)
# is this optional?
title = d.get('title', None)
if 'plots' in d:
plots = [_to_plot(pd) for pd in d['plots']]
else:
plots = []
return PlotGroup(id_, title=title, legend=legend, plots=plots,
thumbnail=thumbnail)
def _to_attribute(d):
id_ = _to_id(d['id'])
name = d.get('name', None)
# this can't be none
value = d['value']
return Attribute(id_, value, name=name)
def _to_column(d):
id_ = _to_id(d['id'])
header = d.get('header', None)
values = d.get('values', [])
return Column(id_, header=header, values=values)
def _to_table(d):
id_ = _to_id(d['id'])
title = d.get('title', None)
columns = []
for column_d in d.get('columns', []):
c = _to_column(column_d)
columns.append(c)
# assert that all the columns have the same number of values
nvalues = {len(c.values) for c in columns}
assert len(nvalues) == 1
return Table(id_, title=title, columns=columns)
def dict_to_report(dct):
# Use `load_report_from` instead.
# FIXME. Add support for different version schemas in a cleaner, more
# concrete manner.
report_id = dct['id']
# Make this optional for now
report_uuid = dct.get('uuid', str(U.uuid4()))
tags = dct.get('tags', [])
# Make sure the UUID is well formed
_ = U.UUID(report_uuid)
# Legacy Reports > 0.3.9 will not have the title key
title = dct.get('title', "Report {i}".format(i=report_id))
plot_groups = []
if 'plotGroups' in dct:
pg = dct['plotGroups']
if pg:
plot_groups = [_to_plot_group(d) for d in pg]
attributes = []
for r_attr in dct.get('attributes', []):
attr = _to_attribute(r_attr)
attributes.append(attr)
tables = []
for table_d in dct.get('tables', []):
t = _to_table(table_d)
tables.append(t)
report = Report(report_id,
title=title,
plotgroups=plot_groups,
tables=tables,
attributes=attributes,
dataset_uuids=dct.get('dataset_uuids', ()),
uuid=report_uuid, tags=tags)
return report
def __load_json_or_dict(processor_func):
def wrapper(json_path_or_dict):
if isinstance(json_path_or_dict, dict):
return processor_func(json_path_or_dict)
else:
with open(json_path_or_dict, 'r') as f:
d = json.loads(f.read())
return processor_func(d)
return wrapper
def load_report_from(json_path_or_dict):
"""
Load a Report from a raw dict or path to JSON file
:param json_path_or_dict:
:type json_path_or_dict: dict | str
:return:
"""
return __load_json_or_dict(dict_to_report)(json_path_or_dict)
def load_report_from_json(json_file):
"""Convert a report json file to Report instance."""
# This should go way in favor of `load_report_from`
return load_report_from(json_file)
def _to_report(nfiles, attribute_id, report_id):
# this should have version of the bax/bas files, chemistry
attributes = [Attribute(attribute_id, nfiles)]
return Report(report_id, attributes=attributes)
def fofn_to_report(nfofns):
return _to_report(nfofns, "nfofns", "fofn_report")
def load_report_spec_from_json(json_file, validate=True):
with open(json_file, 'r') as f:
d = json.loads(f.read())
if validate:
validate_report_spec(d)
return ReportSpec.from_dict(d)
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