diff --git a/doc/source/getting-started/interface.rst b/doc/source/getting-started/interface.rst index 99d743eee..74ee9eb29 100644 --- a/doc/source/getting-started/interface.rst +++ b/doc/source/getting-started/interface.rst @@ -64,8 +64,7 @@ regarding the protocols executed. ^^^^^^^^^^^ The previous commands are put together using ``qq auto`` which will perform data acquisition, post-processing and report generation. -When executing multiple protocols they are executed following the graph described in the action runcard. -The report is generated iteratively as soon as each protocol finished. +When executing multiple protocols they are executed following the actions specified in the runcard. .. code-block:: @@ -103,3 +102,18 @@ your public ssh key (from the machine(s) you are planning to upload the report) use the ``qq upload `` command. You can also add a tag to be displayed on the server using ``qq upload --tag ``. This program will upload your report to the server and generate an unique URL. + + +``qq compare`` +^^^^^^^^^^^^^ + + +Using ``qq compare`` it is possible to compare together two ``Qibocal`` reports. + +.. code-block:: + + qq compare + + +The folder with the report comparison can be specified with the option ``-o``, otherwise a default +name will be assigned similarly to the ``qq acquire`` command. diff --git a/poetry.lock b/poetry.lock index d0c2c9963..deb03225e 100644 --- a/poetry.lock +++ b/poetry.lock @@ -1,4 +1,4 @@ -# This file is automatically @generated by Poetry 1.8.2 and should not be changed by hand. +# This file is automatically @generated by Poetry 1.8.3 and should not be changed by hand. 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adea9855b..57fdb9da1 100644 --- a/src/qibocal/cli/_base.py +++ b/src/qibocal/cli/_base.py @@ -9,6 +9,7 @@ from ..auto.runcard import Runcard from .acquisition import acquire as acquisition from .autocalibration import autocalibrate +from .compare import compare_reports from .fit import fit as fitting from .report import report as reporting from .update import update as updating @@ -208,3 +209,30 @@ def upload(path, tag, author): - FOLDER: input folder. """ upload_report(path, tag, author) + + +@command.command(context_settings=CONTEXT_SETTINGS) +@click.argument( + "report_1_path", + metavar="RUNCARD_1_PATH", + type=click.Path(exists=True, path_type=pathlib.Path), +) +@click.argument( + "report_2_path", + metavar="RUNCARD_2_PATH", + type=click.Path(exists=True, path_type=pathlib.Path), +) +@click.option( + "folder", + "-o", + type=click.Path(path_type=pathlib.Path), + help="Output folder. If not provided a standard name will generated.", +) +@click.option( + "force", + "-f", + is_flag=True, + help="Use --force option to overwrite the output folder.", +) +def compare(report_1_path, report_2_path, folder, force): + compare_reports(folder, report_1_path, report_2_path, force) diff --git a/src/qibocal/cli/compare.py b/src/qibocal/cli/compare.py new file mode 100644 index 000000000..07554aa7c --- /dev/null +++ b/src/qibocal/cli/compare.py @@ -0,0 +1,65 @@ +from pathlib import Path + +from jinja2 import Environment, FileSystemLoader + +from qibocal.auto.history import DummyHistory +from qibocal.auto.output import Output +from qibocal.web.compared_report import ComparedReport +from qibocal.web.report import STYLES, TEMPLATES, report_css_styles + + +def initialize_combined_report( + report_path: Path, output_folder: Path, force: bool +) -> tuple[Output, Path]: + """Initialisation of the output. + + Create the report directory and set up start-finish time, report title. + + Args: + report_path (pathlib.Path): path of the folder containing one of the initial reports. + output_folder (pathlib.Path): path of the folder containing the combined report. + force (bool): if set to true, overwrites output_folder (if it already exists). + """ + combined_meta = Output.load(report_path).meta + combined_meta.start() + combined_report = Output(history=DummyHistory(), meta=combined_meta) + combined_report_path = combined_report.mkdir(output_folder, force) + combined_meta.title = combined_report_path.name + combined_meta.end() + combined_report.meta = combined_meta + return combined_report, combined_report_path + + +def compare_reports(folder: Path, path_1: Path, path_2: Path, force: bool): + """Report comparison generation. + + Currently only two reports can be combined together. Only tasks with the same id can be merged. + Tables display data from both reports side by side. + Plots display data from both reports. + + Args: + folder (pathlib.Path): path of the folder containing the combined report. + path_1 (pathlib.Path): path of the first report to be compared. + path_2 (pathlib.Path): path of the second report to be compared. + force (bool): if set to true, overwrites folder (if it already exists). + """ + paths = [path_1, path_2] + env = Environment(loader=FileSystemLoader(TEMPLATES)) + template = env.get_template("template.html") + combined_report, combined_report_path = initialize_combined_report( + path_1, output_folder=folder, force=force + ) + + html = template.render( + is_static=True, + css_styles=report_css_styles(STYLES), + path=combined_report_path, + title=combined_report.meta.title, + report=ComparedReport( + report_paths=paths, + folder=combined_report_path, + meta=combined_report.meta.dump(), + ), + ) + combined_report.dump(combined_report_path) + (combined_report_path / "index.html").write_text(html) diff --git a/src/qibocal/cli/report.py b/src/qibocal/cli/report.py index cb6d89e42..b6c4e6e20 100644 --- a/src/qibocal/cli/report.py +++ b/src/qibocal/cli/report.py @@ -10,7 +10,7 @@ from qibocal.auto.output import Output from qibocal.auto.task import Completed from qibocal.config import log -from qibocal.web.report import STYLES, TEMPLATES, Report +from qibocal.web.report import STYLES, TEMPLATES, Report, report_css_styles ReportOutcome = tuple[str, list[go.Figure]] """Report produced by protocol.""" @@ -70,13 +70,11 @@ def report(path: pathlib.Path, history: Optional[History] = None): if history is None: history = output.history - css_styles = f"" - env = Environment(loader=FileSystemLoader(TEMPLATES)) template = env.get_template("template.html") html = template.render( is_static=True, - css_styles=css_styles, + css_styles=report_css_styles(STYLES), path=path, title=path.name, report=Report( diff --git a/src/qibocal/web/compared_report.py b/src/qibocal/web/compared_report.py new file mode 100644 index 000000000..562416c22 --- /dev/null +++ b/src/qibocal/web/compared_report.py @@ -0,0 +1,232 @@ +import io +from dataclasses import dataclass, field +from pathlib import Path +from typing import Union + +import numpy as np +import pandas as pd +import plotly.graph_objects as go +from plotly.subplots import make_subplots +from qibolab.qubits import QubitId, QubitPairId + +from qibocal.auto.history import History +from qibocal.auto.output import Output +from qibocal.auto.task import Completed, TaskId +from qibocal.cli.report import generate_figures_and_report + + +@dataclass +class ComparedReport: + """Class for comparison of two qibocal reports.""" + + report_paths: list[Path] + """List of paths of qibocal reports to compare.""" + folder: Path + """Generated report path.""" + meta: dict + """Meta data.""" + history: dict = field(default_factory=dict) + """History of protocols with same id in both reports.""" + + def __post_init__(self): + """Store only protocols with same id in all the reports.""" + self.history = self.create_common_history() + + def history_uids(self) -> set[TaskId]: + """Find the set of TakId in common between the reports.""" + experiment_ids = [] + for path in self.report_paths: + report = Output.load(path) + experiment_ids.append({x for x in report.history}) + + common_experiment_ids = experiment_ids[0] + for exp_id in experiment_ids[1:]: + common_experiment_ids = common_experiment_ids & exp_id + return common_experiment_ids + + def create_common_history(self) -> dict[TaskId, list[History]]: + """Obtain histories of common TaskIds from the reports.""" + common_experiment_ids = self.history_uids() + history = {} + # create a dictionary of task_uid: List[Completed(...)] + for common_experiment_id in common_experiment_ids: + history[common_experiment_id] = [] + for path in self.report_paths: + report = Output.load(path) + history[common_experiment_id].append( + report.history[common_experiment_id] + ) + return history + + @staticmethod + def routine_name(routine: TaskId) -> str: + """Prettify routine's name for report headers.""" + return routine.id.title() + + def routine_targets(self, task_id: TaskId): + """Extract local targets parameter from Task. + + If not available use the global ones. + """ + local_targets = self.history[task_id][0].task.targets + return local_targets if len(local_targets) > 0 else self.meta["targets"] + + def merge_plots(self, plots: list[list[go.Figure]]) -> list[go.Figure]: + """Merge plots from different reports. + + Scatter plots are plotted in the same figure. + Heatmaps are vertically stacked. + """ + merged_figures = [] + for fig0, fig1 in zip(plots[0], plots[1]): + for trace_0, trace_1 in zip(fig0.data, fig1.data): + trace_0.legendgroup = None + trace_1.legendgroup = None + trace_0.legend = "legend" + trace_1.legend = "legend2" + + if any(isinstance(trace, go.Heatmap) for trace in fig0.data): + # TODO: check if this is valid for all protocols + fig = make_subplots(rows=2, cols=2) + for j, trace in enumerate(fig0.data): + # TODO: remove harcoded + # usually with heatmap first should be signal col = 1 + # then phase (col = 2) + # if there is another element it should be a fit done on the first column + if isinstance(trace, go.Heatmap): + flatten_trace = np.array(trace.z).flatten() + flatten_fig_data = np.array(fig1.data[j].z).flatten() + trace.zmin = min(min(flatten_trace), min(flatten_fig_data)) + trace.zmax = max(max(flatten_trace), max(flatten_fig_data)) + fig.add_trace( + trace, + row=1, + col=1 if j % 2 == 0 else 2, + ) + + for j, trace in enumerate(fig1.data): + # same as before but for second report everything goes + # on second row + if isinstance(trace, go.Heatmap): + trace.showscale = False + flatten_trace = np.array(trace.z).flatten() + flatten_fig_data = np.array(fig1.data[j].z).flatten() + trace.zmin = min(min(flatten_trace), min(flatten_fig_data)) + trace.zmax = max(max(flatten_trace), max(flatten_fig_data)) + fig.add_trace( + trace, + row=2, + col=1 if j % 2 == 0 else 2, + ) + fig.update_layout( + dict( + legend={ + "title": f"{self.report_paths[0].name}", + "xref": "container", + "yref": "container", + "y": 0.8, + }, + legend2={ + "title": f"{self.report_paths[1].name}", + "xref": "container", + "yref": "container", + "y": 0.2, + }, + showlegend=None, + ) + ) + merged_figures.append(fig) + + else: + for trace in fig1.data: + fig0.add_trace(trace) + + fig0.update_layout( + dict( + legend={ + "title": f"{self.report_paths[0].name}", + "xref": "container", + "yref": "container", + "y": 0.8, + }, + legend2={ + "title": f"{self.report_paths[1].name}", + "xref": "container", + "yref": "container", + "y": 0.2, + }, + showlegend=None, + ) + ) + + # this fixes weird behavior for comparing classification protocols + if any(isinstance(trace, go.Contour) for trace in fig0.data): + fig0.update_layout( + dict( + legend={ + "font": {"size": None}, + "x": None, + "xanchor": None, + "yanchor": None, + "orientation": None, + }, + ) + ) + for trace in fig0.data: + if isinstance(trace, go.Scatter): + if trace.legend == "legend": + if trace.name == "Qubit Fit: state 0": + trace.legendgroup = "legend0_q0" + else: + trace.legendgroup = "legend0_q1" + else: + if trace.name == "Qubit Fit: state 0": + trace.legendgroup = "legend1_q0" + else: + trace.legendgroup = "legend1_q1" + merged_figures.append(fig0) + + buffer = io.StringIO() + html_list = [] + for figure in merged_figures: + figure.write_html(buffer, include_plotlyjs=True, full_html=False) + buffer.seek(0) + html_list.append(buffer.read()) + buffer.close() + return "".join(html_list) + + def plotter( + self, nodes: list[Completed], target: Union[QubitId, QubitPairId, list[QubitId]] + ) -> tuple[str, str]: + tables = [] + plots = [] + for node in nodes: + report_figures, fitting_report = generate_figures_and_report(node, target) + tables.append(fitting_report) + plots.append(report_figures) + + figures_html = self.merge_plots(plots) + + try: + merged_table = None + merge_columns = {"Qubit", "Parameters"} + for i, table in enumerate(tables): + a = pd.read_html(io.StringIO(table))[0] + a = a.rename( + columns={ + col: f"{col}\n{self.report_paths[i].name}" + for col in set(a.columns) - merge_columns + } + ) + if merged_table is None: + merged_table = a + else: + merged_table = pd.merge(merged_table, a, on=list(merge_columns)) + except ValueError: + merged_table = pd.DataFrame( + [], columns=["An error occurred when performing the fit."] + ) + fitting_report = merged_table.to_html( + classes="fitting-table", index=False, border=0, escape=False + ) + return figures_html, fitting_report diff --git a/src/qibocal/web/report.py b/src/qibocal/web/report.py index 61f93981e..64a54ffaa 100644 --- a/src/qibocal/web/report.py +++ b/src/qibocal/web/report.py @@ -10,6 +10,11 @@ TEMPLATES = WEB_DIR / "templates" +def report_css_styles(styles_path: pathlib.Path): + """HTML string containing path of css file.""" + return f"" + + @dataclass class Report: """Report generation class.""" diff --git a/tests/runcards/dummy_compare.yml b/tests/runcards/dummy_compare.yml new file mode 100644 index 000000000..022f2bfe0 --- /dev/null +++ b/tests/runcards/dummy_compare.yml @@ -0,0 +1,32 @@ +backend: qibolab +platform: dummy + +targets: [0] + +actions: + + - id: resonator high power + operation: resonator_spectroscopy + parameters: + freq_width: 10_000_000 + freq_step: 100_000 + amplitude: 0.4 + power_level: high + nshots: 10 + + - id: resonator punchout + operation: resonator_punchout + parameters: + freq_width: 10_000_000 + freq_step: 1_000_000 + amplitude: 0.04 + min_amp_factor: 0.005 + max_amp_factor: 0.3 + step_amp_factor: 0.005 + nshots: 100 + + - id: single shot classification + operation: single_shot_classification + parameters: + unrolling: False + nshots: 100 diff --git a/tests/test_cli.py b/tests/test_cli.py index 42f8274bf..398aca13c 100644 --- a/tests/test_cli.py +++ b/tests/test_cli.py @@ -6,7 +6,9 @@ from qibocal.cli._base import command -DUMMY_ACTION = pathlib.Path(__file__).parent / "runcards" / "dummy_action.yml" +test_runcards_dir = pathlib.Path(__file__).parent / "runcards" +DUMMY_ACTION = test_runcards_dir / "dummy_action.yml" +DUMMY_COMPARE = test_runcards_dir / "dummy_compare.yml" @pytest.mark.parametrize("update", ["--update", "--no-update"]) @@ -75,3 +77,18 @@ def test_fit_command(tmp_path): catch_exceptions=False, ) # fit after acquisition different folder + + +def test_compare_report_dates(tmp_path): + report_dir_1 = tmp_path / "report_dir_1" + report_dir_2 = tmp_path / "report_dir_2" + compare_dir = tmp_path / "compare_dir" + + runner = CliRunner() + runner.invoke(command, ["auto", str(DUMMY_COMPARE), "-o", str(report_dir_1), "-f"]) + runner.invoke(command, ["auto", str(DUMMY_COMPARE), "-o", str(report_dir_2), "-f"]) + + runner.invoke( + command, + ["compare", str(report_dir_1), str(report_dir_2), "-o", str(compare_dir), "-f"], + )