diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml index 8e03175..925f5b8 100644 --- a/.github/workflows/tests.yml +++ b/.github/workflows/tests.yml @@ -22,8 +22,8 @@ jobs: matrix: # Test all supported Python versions under Ubuntu os: [ubuntu-latest] - python-version: ['3.9', '3.10', '3.11'] -# python-version: ['3.9', '3.10', '3.11', '3.12'] +# python-version: ['3.9', '3.10', '3.11'] + python-version: ['3.11', '3.12'] # # Additionally, test one Python version under MacOS and Windows, to detect OS-specific issues # include: # - os: macos-latest @@ -52,8 +52,35 @@ jobs: - name: Install SNEWS_Coincidence_System run: | python -m poetry install - + + - name: Install hop-client + run: | + python -m pip install setuptools wheel + python -m pip install hop-client==0.9.0 + cd /home/runner/work/SNEWS_Coincidence_System/SNEWS_Coincidence_System + + - shell: bash + env: + USERNAME: ${{ secrets.hop_user_name }} + PASSWORD: ${{ secrets.hop_user_password }} + run: | + sudo apt-get install -y expect + which expect + /usr/bin/expect << HOP + spawn hop auth add + expect "Username:" + send "$USERNAME\n" + expect "Password:" + send "$PASSWORD\n" + expect "Hostname (may be empty):" + send "kafka.scimma.org\n" + expect "Token endpoint (empty if not applicable):" + send "\n" + expect eof + HOP + hop auth locate + # Run the unit tests - name: Test with pytest run: | - python -m poetry run pytest + python -m poetry run pytest snews_cs diff --git a/logs/.gitignore b/logs/.gitignore deleted file mode 100644 index 8b13789..0000000 --- a/logs/.gitignore +++ /dev/null @@ -1 +0,0 @@ - diff --git a/poetry.lock b/poetry.lock index d0da0e4..18ac15b 100644 --- a/poetry.lock +++ b/poetry.lock @@ -2,13 +2,13 @@ [[package]] name = "adc-streaming" -version = "2.3.2" +version = "2.4.0" description = "Astronomy Data Commons streaming client libraries" optional = false python-versions = "*" files = [ - {file = "adc-streaming-2.3.2.tar.gz", hash = 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"c1d8846ec6881e654de2f13ce4753f5abd2665dd27c1cd8f812f70ce0e746ca3" diff --git a/pyproject.toml b/pyproject.toml index b159848..66772f8 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -29,20 +29,20 @@ classifiers = [ snews_cs = "snews_cs.__main__:main" [tool.poetry.dependencies] -python = ">=3.9, <3.13" +python = ">=3.11, <3.13" click = "^8.1.7" -hop-client = "^0.8.0" +hop-client = "^0.9.0" ipython = "<7.33.0" # Constrained by snews_pt numpy = "^1.26.0" pandas = "^2.1.1" python-dotenv = "0.19.2" # Constrained by snews_pt pymongo = "^4.5.0" -slack-sdk = "^3.22.0" -snews-pt = "^1.3.3" +slack-sdk = "^3.26.2" matplotlib = "^3.8.0" scipy = "^1.11.3" sqlalchemy = "^2.0.32" tabulate = "^0.9.0" +snews-pt = { git = "https://github.com/SNEWS2/SNEWS_Publishing_Tools.git", branch = "main" } [tool.poetry.group.dev.dependencies] autopep8 = "^2.0.4" diff --git a/requirements.txt b/requirements.txt index 5fe169d..2566685 100644 --- a/requirements.txt +++ b/requirements.txt @@ -1,114 +1,65 @@ -adc-streaming==2.3.2 ; python_version >= "3.9" and python_version < "3.13" -alabaster==0.7.16 ; python_version >= "3.9" and python_version < "3.13" -ansicon==1.89.0 ; python_version >= "3.9" and python_version < "3.13" and platform_system == "Windows" -appnope==0.1.3 ; python_version >= "3.9" and python_version < "3.13" and sys_platform == "darwin" -astroid==3.0.2 ; python_version >= "3.9" and python_version < "3.13" -atomicwrites==1.4.1 ; python_version >= "3.9" and python_version < "3.13" and sys_platform == "win32" -attrs==21.4.0 ; python_version >= "3.9" and python_version < "3.13" -authlib==1.3.0 ; python_version >= "3.9" and python_version < "3.13" -babel==2.14.0 ; python_version >= "3.9" and python_version < "3.13" -backcall==0.2.0 ; python_version >= "3.9" and python_version < "3.13" -blessed==1.20.0 ; python_version >= "3.9" and python_version < "3.13" -certifi==2024.2.2 ; python_version >= "3.9" and python_version < "3.13" -cffi==1.16.0 ; python_version >= "3.9" and python_version < "3.13" and platform_python_implementation != "PyPy" -charset-normalizer==3.3.2 ; python_version >= "3.9" and python_version < "3.13" -click==8.1.7 ; python_version >= "3.9" and python_version < "3.13" -colorama==0.4.6 ; python_version >= "3.9" and python_version < "3.13" and (platform_system == "Windows" or sys_platform == "win32") -confluent-kafka==2.3.0 ; python_version >= "3.9" and python_version < "3.13" -contourpy==1.2.0 ; python_version >= "3.9" and python_version < "3.13" -cryptography==42.0.2 ; python_version >= "3.9" and python_version < "3.13" -cycler==0.12.1 ; python_version >= "3.9" and python_version < "3.13" -decorator==5.1.1 ; python_version >= "3.9" and python_version < "3.13" -distlib==0.3.8 ; python_version >= "3.9" and python_version < "3.13" -dnspython==2.5.0 ; python_version >= "3.9" and python_version < "3.13" -docutils==0.17.1 ; python_version >= "3.9" and python_version < "3.13" -editor==1.6.6 ; python_version >= "3.9" and python_version < "3.13" -extras==1.0.0 ; python_version >= "3.9" and python_version < "3.13" -fastavro==1.9.3 ; python_version >= "3.9" and python_version < "3.13" -filelock==3.13.1 ; python_version >= "3.9" and python_version < "3.13" -fixtures==3.0.0 ; python_version >= "3.9" and python_version < "3.13" -fonttools==4.47.2 ; python_version >= "3.9" and python_version < "3.13" -greenlet==3.0.3 ; python_version < "3.13" and (platform_machine == "aarch64" or platform_machine == "ppc64le" or platform_machine == "x86_64" or platform_machine == "amd64" or platform_machine == "AMD64" or platform_machine == "win32" or platform_machine == "WIN32") and python_version >= "3.9" -hop-client==0.8.0 ; python_version >= "3.9" and python_version < "3.13" -idna==3.6 ; python_version >= "3.9" and python_version < "3.13" -imagesize==1.4.1 ; python_version >= "3.9" and python_version < "3.13" -importlib-metadata==7.0.1 ; python_version >= "3.9" and python_version < "3.10" -importlib-resources==6.1.1 ; python_version >= "3.9" and python_version < "3.10" -iniconfig==2.0.0 ; python_version >= "3.9" and python_version < "3.13" -inquirer==3.2.3 ; python_version >= "3.9" and python_version < "3.13" -ipython==7.32.0 ; python_version >= "3.9" and python_version < "3.13" -iso8601==2.1.0 ; python_version >= "3.9" and python_version < "3.13" -jedi==0.19.1 ; python_version >= "3.9" and python_version < "3.13" -jinja2==3.1.3 ; python_version >= "3.9" and python_version < "3.13" -jinxed==1.2.1 ; python_version >= "3.9" and python_version < "3.13" and platform_system == "Windows" -kiwisolver==1.4.5 ; python_version >= "3.9" and python_version < "3.13" -markdown-it-py==2.2.0 ; python_version >= "3.9" and python_version < "3.13" -markupsafe==2.1.4 ; python_version >= "3.9" and python_version < "3.13" -matplotlib-inline==0.1.6 ; python_version >= "3.9" and python_version < "3.13" -matplotlib==3.8.2 ; python_version >= "3.9" and python_version < "3.13" -mdit-py-plugins==0.3.5 ; python_version >= "3.9" and python_version < "3.13" -mdurl==0.1.2 ; python_version >= "3.9" and python_version < "3.13" -mock==4.0.3 ; python_version >= "3.9" and python_version < "3.13" -myst-parser==0.16.1 ; python_version >= "3.9" and python_version < "3.13" -nose==1.3.7 ; python_version >= "3.9" and python_version < "3.13" -numpy==1.26.3 ; python_version >= "3.9" and python_version < "3.13" -packaging==23.2 ; python_version >= "3.9" and python_version < "3.13" -pandas==2.2.0 ; python_version >= "3.9" and python_version < "3.13" -parso==0.8.3 ; python_version >= "3.9" and python_version < "3.13" -pbr==6.0.0 ; python_version >= "3.9" and python_version < "3.13" -pexpect==4.9.0 ; python_version >= "3.9" and python_version < "3.13" and sys_platform != "win32" -pickleshare==0.7.5 ; python_version >= "3.9" and python_version < "3.13" -pillow==10.2.0 ; python_version >= "3.9" and python_version < "3.13" -platformdirs==2.6.2 ; python_version >= "3.9" and python_version < "3.13" -pluggy==1.4.0 ; python_version >= "3.9" and python_version < "3.13" -prompt-toolkit==3.0.43 ; python_version >= "3.9" and python_version < "3.13" -ptyprocess==0.7.0 ; python_version >= "3.9" and python_version < "3.13" and sys_platform != "win32" -py==1.11.0 ; python_version >= "3.9" and python_version < "3.13" -pycparser==2.21 ; python_version >= "3.9" and python_version < "3.13" and platform_python_implementation != "PyPy" -pygments==2.17.2 ; python_version >= "3.9" and python_version < "3.13" -pymongo==4.6.1 ; python_version >= "3.9" and python_version < "3.13" -pyparsing==3.1.1 ; python_version >= "3.9" and python_version < "3.13" -pytest==6.2.5 ; python_version >= "3.9" and python_version < "3.13" -python-dateutil==2.8.2 ; python_version >= "3.9" and python_version < "3.13" -python-dotenv==0.19.2 ; python_version >= "3.9" and python_version < "3.13" -python-subunit==1.4.4 ; python_version >= "3.9" and python_version < "3.13" -pytz==2024.1 ; python_version >= "3.9" and python_version < "3.13" -pyyaml==6.0.1 ; python_version >= "3.9" and python_version < "3.13" -readchar==4.0.5 ; python_version >= "3.9" and python_version < "3.13" -requests==2.31.0 ; python_version >= "3.9" and python_version < "3.13" -runs==1.2.2 ; python_version >= "3.9" and python_version < "3.13" -scipy==1.12.0 ; python_version >= "3.9" and python_version < "3.13" -setuptools==62.1.0 ; python_version >= "3.9" and python_version < "3.13" -six==1.14.0 ; python_version >= "3.9" and python_version < "3.13" -slack-sdk==3.26.2 ; python_version >= "3.9" and python_version < "3.13" -snews-pt==1.3.3 ; python_version >= "3.9" and python_version < "3.13" -snowballstemmer==2.2.0 ; python_version >= "3.9" and python_version < "3.13" -sphinx-autoapi==1.8.4 ; python_version >= "3.9" and python_version < "3.13" -sphinx-rtd-theme==1.0.0 ; python_version >= "3.9" and python_version < "3.13" -sphinx==4.5.0 ; python_version >= "3.9" and python_version < "3.13" -sphinxcontrib-applehelp==1.0.8 ; python_version >= "3.9" and python_version < "3.13" -sphinxcontrib-devhelp==1.0.6 ; python_version >= "3.9" and python_version < "3.13" -sphinxcontrib-htmlhelp==2.0.5 ; python_version >= "3.9" and python_version < "3.13" -sphinxcontrib-jsmath==1.0.1 ; python_version >= "3.9" and python_version < "3.13" -sphinxcontrib-programoutput==0.17 ; python_version >= "3.9" and python_version < "3.13" -sphinxcontrib-qthelp==1.0.7 ; python_version >= "3.9" and python_version < "3.13" -sphinxcontrib-serializinghtml==1.1.10 ; python_version >= "3.9" and python_version < "3.13" -sqlalchemy==2.0.32 ; python_version >= "3.9" and python_version < "3.13" -tabulate==0.9.0 ; python_version >= "3.9" and python_version < "3.13" -testrepository==0.0.20 ; python_version >= "3.9" and python_version < "3.13" -testresources==2.0.1 ; python_version >= "3.9" and python_version < "3.13" -testscenarios==0.5.0 ; python_version >= "3.9" and python_version < "3.13" -testtools==2.5.0 ; python_version >= "3.9" and python_version < "3.13" -toml==0.10.2 ; python_version >= "3.9" and python_version < "3.13" -tqdm==4.66.1 ; python_version >= "3.9" and python_version < "3.13" -traitlets==5.14.1 ; python_version >= "3.9" and python_version < "3.13" -typing-extensions==4.9.0 ; python_version >= "3.9" and python_version < "3.13" -tzdata==2023.4 ; python_version >= "3.9" and python_version < "3.13" -unidecode==1.3.8 ; python_version >= "3.9" and python_version < "3.13" -urllib3==2.2.0 ; python_version >= "3.9" and python_version < "3.13" -virtualenv==20.13.0 ; python_version >= "3.9" and python_version < "3.13" -wcwidth==0.2.13 ; python_version >= "3.9" and python_version < "3.13" -wheel==0.34.2 ; python_version >= "3.9" and python_version < "3.13" -xmltodict==0.13.0 ; python_version >= "3.9" and python_version < "3.13" -xmod==1.8.1 ; python_version >= "3.9" and python_version < "3.13" -zipp==3.17.0 ; python_version >= "3.9" and python_version < "3.10" +adc-streaming==2.4.0 ; python_version >= "3.11" and python_version < "3.13" +ansicon==1.89.0 ; python_version >= "3.11" and python_version < "3.13" and platform_system == "Windows" +appnope==0.1.4 ; python_version >= "3.11" and python_version < "3.13" and sys_platform == "darwin" +authlib==1.3.1 ; python_version >= "3.11" and python_version < "3.13" +backcall==0.2.0 ; python_version >= "3.11" and python_version < "3.13" +blessed==1.20.0 ; python_version >= "3.11" and python_version < "3.13" +certifi==2024.7.4 ; python_version >= "3.11" and python_version < "3.13" +cffi==1.17.0 ; python_version >= "3.11" and python_version < "3.13" and platform_python_implementation != "PyPy" +charset-normalizer==3.3.2 ; python_version >= "3.11" and python_version < "3.13" +click==8.1.7 ; python_version >= "3.11" and python_version < "3.13" +colorama==0.4.6 ; python_version >= "3.11" and python_version < "3.13" and (platform_system == "Windows" or sys_platform == "win32") +confluent-kafka==2.5.0 ; python_version >= "3.11" and python_version < "3.13" +contourpy==1.2.1 ; python_version >= "3.11" and python_version < "3.13" +cryptography==43.0.0 ; python_version >= "3.11" and python_version < "3.13" +cycler==0.12.1 ; python_version >= "3.11" and python_version < "3.13" +decorator==5.1.1 ; python_version >= "3.11" and python_version < "3.13" +dnspython==2.6.1 ; python_version >= "3.11" and python_version < "3.13" +fastavro==1.9.5 ; python_version >= "3.11" and python_version < "3.13" +fonttools==4.53.1 ; python_version >= "3.11" and python_version < "3.13" +greenlet==3.0.3 ; python_version < "3.13" and (platform_machine == "aarch64" or platform_machine == "ppc64le" or platform_machine == "x86_64" or platform_machine == "amd64" or platform_machine == "AMD64" or platform_machine == "win32" or platform_machine == "WIN32") and python_version >= "3.11" +hop-client==0.9.0 ; python_version >= "3.11" and python_version < "3.13" +idna==3.7 ; python_version >= "3.11" and python_version < "3.13" +inquirer==2.10.1 ; python_version >= "3.11" and python_version < "3.13" +ipython==7.32.0 ; python_version >= "3.11" and python_version < "3.13" +jedi==0.19.1 ; python_version >= "3.11" and python_version < "3.13" +jinxed==1.3.0 ; python_version >= "3.11" and python_version < "3.13" and platform_system == "Windows" +kiwisolver==1.4.5 ; python_version >= "3.11" and python_version < "3.13" +matplotlib-inline==0.1.7 ; python_version >= "3.11" and python_version < "3.13" +matplotlib==3.9.2 ; python_version >= "3.11" and python_version < "3.13" +numpy==1.26.4 ; python_version >= "3.11" and python_version < "3.13" +packaging==24.1 ; python_version >= "3.11" and python_version < "3.13" +pandas==2.2.2 ; python_version >= "3.11" and python_version < "3.13" +parso==0.8.4 ; python_version >= "3.11" and python_version < "3.13" +pexpect==4.9.0 ; python_version >= "3.11" and python_version < "3.13" and sys_platform != "win32" +pickleshare==0.7.5 ; python_version >= "3.11" and python_version < "3.13" +pillow==10.4.0 ; python_version >= "3.11" and python_version < "3.13" +pluggy==1.5.0 ; python_version >= "3.11" and python_version < "3.13" +prompt-toolkit==3.0.47 ; python_version >= "3.11" and python_version < "3.13" +ptyprocess==0.7.0 ; python_version >= "3.11" and python_version < "3.13" and sys_platform != "win32" +pycparser==2.22 ; python_version >= "3.11" and python_version < "3.13" and platform_python_implementation != "PyPy" +pygments==2.18.0 ; python_version >= "3.11" and python_version < "3.13" +pymongo==4.8.0 ; python_version >= "3.11" and python_version < "3.13" +pyparsing==3.1.2 ; python_version >= "3.11" and python_version < "3.13" +python-dateutil==2.9.0.post0 ; python_version >= "3.11" and python_version < "3.13" +python-dotenv==0.19.2 ; python_version >= "3.11" and python_version < "3.13" +python-editor==1.0.4 ; python_version >= "3.11" and python_version < "3.13" +pytz==2024.1 ; python_version >= "3.11" and python_version < "3.13" +readchar==4.2.0 ; python_version >= "3.11" and python_version < "3.13" +requests==2.32.3 ; python_version >= "3.11" and python_version < "3.13" +scipy==1.14.0 ; python_version >= "3.11" and python_version < "3.13" +setuptools==62.1.0 ; python_version >= "3.11" and python_version < "3.13" +six==1.16.0 ; python_version >= "3.11" and python_version < "3.13" +slack-sdk==3.31.0 ; python_version >= "3.11" and python_version < "3.13" +snews-pt @ git+https://github.com/SNEWS2/SNEWS_Publishing_Tools.git@e513fb7561ad1a037c06489a8e4ecb20ef5efb88 ; python_version >= "3.11" and python_version < "3.13" +sqlalchemy==2.0.32 ; python_version >= "3.11" and python_version < "3.13" +tabulate==0.9.0 ; python_version >= "3.11" and python_version < "3.13" +toml==0.10.2 ; python_version >= "3.11" and python_version < "3.13" +tqdm==4.66.5 ; python_version >= "3.11" and python_version < "3.13" +traitlets==5.14.3 ; python_version >= "3.11" and python_version < "3.13" +typing-extensions==4.12.2 ; python_version >= "3.11" and python_version < "3.13" +tzdata==2024.1 ; python_version >= "3.11" and python_version < "3.13" +urllib3==2.2.2 ; python_version >= "3.11" and python_version < "3.13" +wcwidth==0.2.13 ; python_version >= "3.11" and python_version < "3.13" +wheel==0.34.2 ; python_version >= "3.11" and python_version < "3.13" +xmltodict==0.13.0 ; python_version >= "3.11" and python_version < "3.13" diff --git a/snews_cs/alert_pub.py b/snews_cs/alert_pub.py index 6391ca5..d8a912d 100644 --- a/snews_cs/alert_pub.py +++ b/snews_cs/alert_pub.py @@ -15,7 +15,7 @@ class AlertPublisher: """ Class to publish SNEWS SuperNova Alerts based on coincidence """ - def __init__(self, env_path=None, verbose=True, auth=True, firedrill_mode=True): + def __init__(self, env_path=None, verbose=True, auth=True, firedrill_mode=True, is_test=False): """ Alert publisher constructor Parameters @@ -36,6 +36,11 @@ def __init__(self, env_path=None, verbose=True, auth=True, firedrill_mode=True): self.alert_topic = os.getenv("ALERT_TOPIC") self.verbose = verbose + if is_test: + # use a test topic + self.alert_topic = os.getenv("CONNECTION_TEST_TOPIC") + + def __enter__(self): self.stream = Stream(until_eos=True, auth=self.auth).open(self.alert_topic, 'w') return self diff --git a/snews_cs/core/logging.py b/snews_cs/core/logging.py index e61082b..8985ab3 100644 --- a/snews_cs/core/logging.py +++ b/snews_cs/core/logging.py @@ -25,6 +25,15 @@ log_dir = os.path.abspath(os.path.join(os.path.dirname(os.path.realpath(__file__)), "../../logs")) log_file = f"{log_dir}/snews_cs.log" + +# Check if the directory exists, if not, create it +if not os.path.exists(log_dir): + os.makedirs(log_dir) + +# Check if the log file exists, if not, create it +if not os.path.isfile(log_file): + open(log_file, 'w').close() + fh = FileHandler(log_file) formatter = Formatter( diff --git a/snews_cs/cs_alert_schema.py b/snews_cs/cs_alert_schema.py index 1030568..404a479 100644 --- a/snews_cs/cs_alert_schema.py +++ b/snews_cs/cs_alert_schema.py @@ -34,7 +34,7 @@ def id_format(self, num_detectors): else: return f'SNEWS_Coincidence_ALERT-UPDATE {date_time}' - def get_cs_alert_schema(self, data): + def get_cs_alert_schema(self, data, is_test=False): """ Create a message schema for alert. Internally called in hop_pub @@ -50,10 +50,15 @@ def get_cs_alert_schema(self, data): """ id = self.id_format(len(data['detector_names'])) + alert_type = "TEST "+ data['alert_type'] if is_test else data['alert_type'] + try: + far = f"Would happen every {data['false_alarm_prob']:.2e} year" + except: + far = data['false_alarm_prob'] return {"_id": id, - "alert_type":data['alert_type'], + "alert_type":alert_type, "server_tag": data['server_tag'], - "False Alarm Prob": f"Would happen every {data['false_alarm_prob']:.2e} year", + "False Alarm Prob": far, "detector_names": data['detector_names'], "sent_time": id.split(' ')[1], "p_values": data['p_vals'], diff --git a/snews_cs/cs_remote_commands.py b/snews_cs/cs_remote_commands.py index 1fd4ab5..95593f4 100644 --- a/snews_cs/cs_remote_commands.py +++ b/snews_cs/cs_remote_commands.py @@ -1,7 +1,7 @@ import os import json import click -from snews_pt.snews_format_checker import SnewsFormat +from .snews_format_checker import SnewsFormat import pandas as pd from .heartbeat_feedbacks import check_frequencies_and_send_mail, delete_old_figures from .core.logging import getLogger @@ -95,9 +95,17 @@ def hard_reset(self, message, CoincDeciderInstance): """ Authorized User (passing a correct password) """ authorized = self._check_rights(message) + if "meta" in message.keys(): + is_test = message['meta'].get('is_test', False) + else: + if "is_test" in message.keys(): + is_test = message['is_test'] + else: + is_test = False + if authorized: log.info("\t> Cache wanted to be reset. User is authorized.") - CoincDeciderInstance.clear_cache() + CoincDeciderInstance.clear_cache(is_test) log.info("\t> Cache is reset.") return None else: @@ -213,13 +221,12 @@ def handle(self, CoincDeciderInstance): # if passed, there has to be an _id field log.info(f"\t> Message is in SnewsFormat. '_id':{self.input_message['_id']} ") # temporary fix for the test messages - if "meta" in self.input_message.keys(): - self.is_test = self.input_message['meta'].get('is_test', False) + if "is_test" in self.input_message.keys(): + self.is_test = self.input_message['is_test'] + elif "meta" in self.input_message.keys() and "is_test" in self.input_message['meta'].keys(): + self.is_test = self.input_message['meta']['is_test'] else: - if "is_test" in self.input_message.keys(): - self.is_test = self.input_message['is_test'] - else: - self.is_test = False + self.is_test = False log.info(f"\t> Received Message is {'NOT ' if not self.is_test else ''}a test message!") # check what the _id field specifies @@ -244,6 +251,10 @@ def check_command(self, CoincDeciderInstance): elif self.command_name in ["CoincidenceTier", "Retraction"]: log.info(f"\t> {self.command_name} message is received, coincidence check is GO!") + if self.is_test: + # do not register heartbeat, just return to coincidence search + return True + #- Register heartbeat corresponding to this message. # Idea is that when a message comes in, it automatically logs a HB here. # Then we log it and get the correct coincidence probability. diff --git a/snews_cs/snews_coinc.py b/snews_cs/snews_coinc.py index d5c55e7..f10e054 100644 --- a/snews_cs/snews_coinc.py +++ b/snews_cs/snews_coinc.py @@ -409,10 +409,13 @@ def __init__(self, env_path=None, drop_db=False, firedrill_mode=True, hb_path=No self.exit_on_error = False # True self.initial_set = False self.alert = AlertPublisher(env_path=env_path, firedrill_mode=firedrill_mode) + self.test_alert = AlertPublisher(env_path=env_path, is_test=True) # overwrites with connection test topic if firedrill_mode: self.observation_topic = os.getenv("FIREDRILL_OBSERVATION_TOPIC") else: self.observation_topic = os.getenv("OBSERVATION_TOPIC") + # for testing, the alerts will be sent to this topic + self.test_topic = os.getenv("CONNECTION_TEST_TOPIC") self.alert_schema = CoincidenceTierAlert(env_path) # handle heartbeat self.store_heartbeat = bool(os.getenv("STORE_HEARTBEAT", "True")) @@ -420,19 +423,26 @@ def __init__(self, env_path=None, drop_db=False, firedrill_mode=True, hb_path=No self.stash_time = 86400 self.coinc_data = CacheManager() + self.test_coinc_data = CacheManager() # a separate cache for testing self.message_count = {} + self.test_message_count = {} + ## don't use a storage for the test cache - def clear_cache(self): + def clear_cache(self, is_test=False): """ When a reset cache is passed, recreate the CoincidenceDataHandler instance """ - log.info("\t > [RESET] Resetting the cache.") - del self.coinc_data - self.coinc_data = CacheManager() + if not is_test: + log.info("\t > [RESET] Resetting the cache.") + del self.coinc_data + self.coinc_data = CacheManager() + else: + del self.test_coinc_data + self.test_coinc_data = CacheManager() # ---------------------------------------------------------------------------------------------------------------- - def display_table(self): + def display_table(self, is_test=False): """ Display each sub list individually using a markdown table. @@ -440,21 +450,35 @@ def display_table(self): click.secho( f'Here is the current coincident table\n', fg='magenta', bold=True, ) - for sub_list in self.coinc_data.cache['sub_group'].unique(): - sub_df = self.coinc_data.cache.query(f'sub_group=={sub_list}') + if not is_test: + cache_data = self.coinc_data + else: + cache_data = self.test_coinc_data + for sub_list in cache_data.cache['sub_group'].unique(): + sub_df = cache_data.cache.query(f'sub_group=={sub_list}') sub_df = sub_df.drop(columns=['meta', 'machine_time', 'schema_version', 'neutrino_time_as_datetime']) sub_df = sub_df.sort_values(by=['neutrino_time']) # snews_bot.send_table(sub_df) # no need to print the table on the server. Logs have the full content print(sub_df.to_markdown()) print('=' * 168) - def send_alert(self, sub_group_tag, alert_type): - sub_df = self.coinc_data.cache.query('sub_group==@sub_group_tag') + def send_alert(self, sub_group_tag, alert_type, is_test=False): + if not is_test: + sub_df = self.coinc_data.cache.query('sub_group==@sub_group_tag') + try: + false_alarm_prob = cache_false_alarm_rate(cache_sub_list=sub_df, hb_cache=self.heartbeat.cache_df) + except: + false_alarm_prob = "(couldn't compute)" + alert_publisher = self.alert + else: + sub_df = self.test_coinc_data.cache.query('sub_group==@sub_group_tag') + false_alarm_prob = "N/A" + alert_publisher = self.test_alert + p_vals = sub_df['p_val'].to_list() p_vals_avg = np.round(sub_df['p_val'].mean(), decimals=5) nu_times = sub_df['neutrino_time'].to_list() detector_names = sub_df['detector_name'].to_list() - false_alarm_prob = cache_false_alarm_rate(cache_sub_list=sub_df, hb_cache=self.heartbeat.cache_df) alert_data = dict(p_vals=p_vals, p_val_avg=p_vals_avg, sub_list_num=int(sub_group_tag), @@ -464,88 +488,126 @@ def send_alert(self, sub_group_tag, alert_type): server_tag=self.server_tag, alert_type=alert_type) - with self.alert as pub: - alert = self.alert_schema.get_cs_alert_schema(data=alert_data) + + with alert_publisher as pub: + alert = self.alert_schema.get_cs_alert_schema(data=alert_data, is_test=is_test) pub.send(alert) - if self.send_email: - send_email(alert) - if self.send_slack: - snews_bot.send_table(alert_data, - alert, - is_test=True, - topic=self.observation_topic) + # only check to see if email or slack should be sent if the alert is not a test alert + if not is_test: + if self.send_email: + send_email(alert) + if self.send_slack: + snews_bot.send_table(alert_data, + alert, + is_test=True, + topic=self.observation_topic) # ------------------------------------------------------------------------------------------------------------------ - def alert_decider(self): + def alert_decider(self, is_test=False): """ - This method will publish an alert every time a new detector - submits an observation message - + This method will publish an alert every time a new detector submits an observation message. """ - # mkae a pretty terminal output click.secho(f'{"=" * 100}', fg='bright_red') - # loop through the sub group tag and state - # print(f'TEST {self.coinc_data.sub_group_state}') - for sub_group_tag, state in self.coinc_data.sub_group_state.items(): - print('CHECKING FOR ALERTS IN SUB GROUP: ', sub_group_tag) - # if state is none skip the sub group + # Determine which cache to use + cache_data = self.test_coinc_data if is_test else self.coinc_data + _message_count = self.test_message_count if is_test else self.message_count + log_info = " [TEST] " if is_test else " " + + def publish_alert(sub_group_tag, state, message): + click.secho(f'SUB GROUP {sub_group_tag}: {message:^100}'.upper(), bg='bright_green', fg='red') + click.secho(f'{"Publishing an Alert!!!".upper():^100}', bg='bright_green', fg='red') + click.secho(f'{"=" * 100}', fg='bright_red') + log.info(f"\t> {log_info} An alert was published: {state} !") + self.send_alert(sub_group_tag=sub_group_tag, alert_type=state, is_test=is_test) + + for sub_group_tag, state in cache_data.sub_group_state.items(): + print(f'CHECKING FOR ALERTS IN SUB GROUP: {sub_group_tag}') + if state is None: print(f'NO ALERTS IN SUB GROUP: {sub_group_tag}') continue - # check if sub_cache is COINC_MSG_STAGGERED - elif state == 'COINC_MSG_STAGGERED': - # yet another pretty terminal output - click.secho(f'SUB GROUP {sub_group_tag}:{"COINCIDENT DETECTOR.. ".upper():^100}', bg='bright_green', - fg='red') - click.secho(f'{"Publishing an Alert!!!".upper():^100}', bg='bright_green', fg='red') - click.secho(f'{"=" * 100}', fg='bright_red') - # publish coincidence alert - log.info(f"\t> An alert was published: {state} !") - self.send_alert(sub_group_tag=sub_group_tag, alert_type=state) - continue - # publish a retraction alert for the sub group is its state is RETRACTION - elif state == 'RETRACTION' and len(self.coinc_data.cache.query('sub_group==@sub_group_tag')) < self.message_count[sub_group_tag]: - # yet another pretty terminal output - click.secho(f'SUB GROUP {sub_group_tag}:{"RETRACTION HAS BEEN MADE".upper():^100}', bg='bright_green', - fg='red') - click.secho(f'{"Publishing an updated alert..".upper():^100}', bg='bright_green', fg='red') - click.secho(f'{"=" * 100}', fg='bright_red') - # publish retraction alert - self.send_alert(sub_group_tag=sub_group_tag, alert_type=state) - continue - # Don't publish alert for the sub group is its state is INITIAL + + message_count = len(cache_data.cache.query('sub_group==@sub_group_tag')) + + if state == 'COINC_MSG_STAGGERED': + publish_alert(sub_group_tag, state, 'COINCIDENT DETECTOR..') + + elif state == 'RETRACTION' and message_count < _message_count[sub_group_tag]: + publish_alert(sub_group_tag, state, 'RETRACTION HAS BEEN MADE') + elif state == 'INITIAL': - # yet another pretty terminal output - log.debug(f'\t> Initial message in sub group:{sub_group_tag}') - click.secho(f'SUB GROUP {sub_group_tag}:{"Initial message received".upper():^100}', bg='bright_green', + log.debug(f'\t> {log_info} Initial message in sub group:{sub_group_tag}') + click.secho(f'SUB GROUP {sub_group_tag}: {"Initial message received".upper():^100}', bg='bright_green', fg='red') click.secho(f'{"=" * 100}', fg='bright_red') - continue - elif state == 'UPDATE' and len(self.coinc_data.cache.query('sub_group==@sub_group_tag')) == self.message_count[sub_group_tag]: - # yet another pretty terminal output - click.secho(f'SUB GROUP {sub_group_tag}:{"A MESSAGE HAS BEEN UPDATED".upper():^100}', bg='bright_green', - fg='red') - log.debug('\t> An UPDATE message is received') - # only publish an alert if the sub group has more than 1 message - if len(self.coinc_data.cache.query('sub_group==@sub_group_tag')) > 1: - click.secho(f'{"Publishing an updated Alert!!!".upper():^100}', bg='bright_green', fg='red') - click.secho(f'{"=" * 100}', fg='bright_red') - # publish update alert - self.send_alert(sub_group_tag=sub_group_tag, alert_type=state) - log.debug('\t> An alert is updated!') - continue - elif state == 'COINC_MSG' and len(self.coinc_data.cache.query('sub_group==@sub_group_tag')) > self.message_count[sub_group_tag]: - # yet another pretty terminal output - click.secho(f'SUB GROUP {sub_group_tag}:{"NEW COINCIDENT DETECTOR.. ".upper():^100}', bg='bright_green', fg='red') - click.secho(f'{"Published an Alert!!!".upper():^100}', bg='bright_green', fg='red') - click.secho(f'{"=" * 100}', fg='bright_red') - # publish coincidence alert - log.info(f"\t> An alert was published: {state} !") - self.send_alert(sub_group_tag=sub_group_tag, alert_type=state) - continue + + elif state == 'UPDATE' and message_count == _message_count[sub_group_tag]: + click.secho(f'SUB GROUP {sub_group_tag}: {"A MESSAGE HAS BEEN UPDATED".upper():^100}', + bg='bright_green', fg='red') + log.debug(f'\t> {log_info} An UPDATE message is received') + if message_count > 1: + publish_alert(sub_group_tag, state, 'Publishing an updated Alert!!!') + log.debug(f'\t> {log_info} An alert is updated!') + + elif state == 'COINC_MSG' and message_count > _message_count[sub_group_tag]: + publish_alert(sub_group_tag, state, 'NEW COINCIDENT DETECTOR..') # ------------------------------------------------------------------------------------------------------------------ + def deal_with_the_cache(self, snews_message): + """ Check if the message is a test or not, then add it to the cache and run the alert decider + + Parameters + ---------- + snews_message: dict read from the Kafka stream. + + Returns + ------- + adds messages to cache and runs the coincidence decider + """ + if "is_test" in snews_message.keys(): + is_test = snews_message['is_test'] + elif "meta" in snews_message.keys() and "is_test" in snews_message['meta'].keys(): + is_test = snews_message['meta']['is_test'] + else: + is_test = False + + if not is_test: + self.coinc_data.add_to_cache(message=snews_message) + # run the search + self.alert_decider(is_test=is_test) + # update message count + for sub_group_tag in self.coinc_data.cache['sub_group'].unique(): + self.message_count[sub_group_tag] = len( + self.coinc_data.cache.query('sub_group==@sub_group_tag')) + self.coinc_data.sub_group_state[sub_group_tag] = None + + self.coinc_data.updated = [] + # do not have a storage for the tests + if not is_test: + self.storage.insert_coinc_cache(self.coinc_data.cache) + sys.stdout.flush() + self.coinc_data.updated = [] + if self.show_table: + self.display_table('main') ## don't display on the server + else: + self.test_coinc_data.add_to_cache(message=snews_message) + # run the search + self.alert_decider(is_test=is_test) + # update message count + for sub_group_tag in self.test_coinc_data.cache['sub_group'].unique(): + self.test_message_count[sub_group_tag] = len( + self.test_coinc_data.cache.query('sub_group==@sub_group_tag')) + self.test_coinc_data.sub_group_state[sub_group_tag] = None + self.test_coinc_data.updated = [] + # do not have a storage for the tests + sys.stdout.flush() + self.test_coinc_data.updated = [] + if self.show_table: + self.display_table('test') ## don't display on the server + + + #------------------------------------------------------------------------------------------------------------------- def run_coincidence(self): """ As the name states this method runs the coincidence system. @@ -586,22 +648,8 @@ def run_coincidence(self): terminal_output += click.style(f"\t>{snews_message['detector_name']}, {snews_message['received_time']}", fg='bright_blue') click.secho(terminal_output) # add to cache - self.coinc_data.add_to_cache(message=snews_message) - if self.show_table: - self.display_table() ## don't display on the server - self.alert_decider() - # update message count - for sub_group_tag in self.coinc_data.cache['sub_group'].unique(): - self.message_count[sub_group_tag] = len( - self.coinc_data.cache.query('sub_group==@sub_group_tag')) - self.coinc_data.sub_group_state[sub_group_tag] = None - - self.coinc_data.updated = [] - - self.storage.insert_coinc_cache(self.coinc_data.cache) - sys.stdout.flush() - - self.coinc_data.updated = [] + ### if actual observation, use coincidence cache, else if testing use test cache + self.deal_with_the_cache(snews_message) # for each read message reduce the retriable err count if self.retriable_error_count > 1: diff --git a/snews_cs/snews_format_checker.py b/snews_cs/snews_format_checker.py new file mode 100644 index 0000000..5cb5cb5 --- /dev/null +++ b/snews_cs/snews_format_checker.py @@ -0,0 +1,274 @@ + +from datetime import datetime +try: + fromisoformat = datetime.fromisoformat +except AttributeError: + from dateutil.parser import isoparse as fromisoformat + +import os, json +from .core.logging import getLogger, log_file +import warnings +import click +import numpy as np +import re + +log_default = getLogger(__name__) + +def is_valid_iso_utc(text): + """ + Checks if a string is a valid ISO 8601 UTC datetime string, + accepting any precision up to 12 digits and an optional Z. + + Args: + text: The string to check. + + Returns: + True if the string is a valid ISO 8601 UTC datetime string, + False otherwise. + """ + pattern = r"^" \ + r"(?P\d{4})" \ + r"(?:-(?P\d{2}))" \ + r"(?:-(?P\d{2}))" \ + r"(?:[Tt ](?P\d{2})" \ + r"(?::(?P\d{2}))" \ + r"(?::(?P\d{2}))" \ + r"(?:\.(?P\d{1,12})?)?)?" \ + r"(?:Z)?" \ + r"$" + match = re.match(pattern, text) + if not match: + return False + # Check if mandatory components are present + if not all([match.group(comp) for comp in ("year", "month", "day", "hour", "minute", "second")]): + return False + # Check if precision part is within limits (max 12 digits) + if match.group("precision") and len(match.group("precision")) > 12: + return False + return True + +# Check if detector name is in registered list. +detector_file = os.path.abspath(os.path.join(os.path.dirname(__file__), 'auxiliary/detector_properties.json')) +with open(detector_file) as file: + snews_detectors = json.load(file) +snews_detectors = list(snews_detectors.keys()) + + +class SnewsFormat: + """ Class to validate message formats. It checks; + ID + Detector name + Message type + Times in the message + p values + + """ + def __init__(self, message, log=None): + self.message = message + self.message_keys = message.keys() + self.log = log or log_default + self.bypass = False # bypass if retraction, or remote command (bypasses all time checks!) + self.is_test = self.check_if_test() # if True, don't check if times are reasonable (still checks format!) + + def __call__(self, *args, **kwargs): + msg_as_json = json.dumps(self.message, sort_keys=True, indent=4) + test_str = " -TEST- " if self.is_test else " " + self.log.debug("*"*40+f" LOGS FOR THE{test_str}MESSAGE\n"+ msg_as_json) + valid = True + try: + assert self.check_id() is valid, "_id not valid" # if _id exists + assert self.check_detector() is valid, "detector_name not valid" # if detector name is known + assert self.check_message_type() is valid, "types not valid" # if valid type; check name and times + assert self.check_times() is valid, "neutrino_time not valid" # if times are ISO format and reasonable + assert self.check_pvals() is valid, "p_val not valid"# if exists, pvals are float and reasonable + self.log.info("\t> All checks are passed. Message is in SnewsFormat.") + # self.log.debug("*" * 40 + " END OF lOGS\n") + return valid + except AssertionError as ae: + self.log.error(f"\t> Following check failed: {ae}") + warnings.warn(f"\n\n Following check failed: {click.style(ae, fg='red')} " + f"\nSee the full logs {click.style(log_file, fg='blue')}", UserWarning) + self.log.debug("*" * 40 + " END OF lOGS\n") + return False + except Exception as e: + self.log.error(f"\t> Something went wrong! {e}") + warnings.warn(f"\n\n Something went wrong! \nSee the full logs {click.style(log_file, fg='blue')}", UserWarning) + self.log.debug("*" * 40 + " END OF lOGS\n") + return False + + def check_if_test(self): + """ Check if the submitted message is a test message + + Returns + ------- + True if the message contains ['meta']['is_test'] = True, else False + """ + if "is_test" in self.message_keys: + return self.message['is_test'] + + if "meta" in self.message_keys: + if "is_test" in self.message['meta'].keys(): + return self.message["meta"]["is_test"] + return False + + def check_id(self): + """ check if the id is correct + snews_pt sends messages in mongodb format + which has ti contain an _id field + """ + self.log.debug(f"\t> Checking _id ..") + if "_id" not in self.message_keys: + self.log.error(f"\t> Message without '_id' field") + return False + else: + self.log.info(f"\t> Message has an '_id' field") + idsplit = self.message['_id'].split('_') + if len(idsplit) < 2: + self.log.error(f"\t> Message '_id' has different format. Expected '#_string' got {self.message['_id']}") + return False + return True + + def check_detector(self): + """ Check if the detector name is valid + """ + self.log.debug(f"\t> Checking detector name.") + if self.bypass: + self.log.info(f"\t> Detector name check bypassed.") + return True + if 'detector_name' not in self.message_keys: + self.log.error(f'\t> Does not have required key: "detector_name"') + return False + if self.message['detector_name'] not in snews_detectors: + self.log.error(f'\t> Detector not found: {self.message["detector_name"]}') + return False + self.log.info(f'\t> Detector: {self.message["detector_name"]} valid') + return True + + def check_message_type(self): + """ We expect Tier messages, and Commands, and Tier messages require different checks. + Check what the message type is. + """ + self.log.debug(f"\t> Checking message type..") + if "hard-reset" in self.message['_id']: + self.log.debug("\t> Hard reset. Skipping format check.") + self.bypass = True + + elif "test-connection" in self.message['_id']: + self.log.debug("\t> Test Connection. Skipping format check.") + self.bypass = True + + elif "Retraction" in self.message['_id']: + self.log.debug(f"\t> Retraction Passed. Skipping format check.") + self.bypass = True + + elif "Get-Feedback" in self.message['_id']: + self.log.debug(f"\t> Get-Feedback Passed. Skipping format check.") + self.bypass = True + + elif 'Heartbeat' in self.message['_id']: + self.log.debug("\t> Heartbeat Passed. Checking time and status.") + if not self.check_detector_status(): # if detector_status does not exist, return False + self.log.error("\t> Heartbeat not valid!") + return False + self.bypass = True + + elif "display-heartbeats" in self.message['_id']: + self.log.debug(f"\t> display-heartbeat is passed. Skipping format check.") + self.bypass = True + + elif [i in self.message['_id'] for i in ['TimeTier', 'SigTier', 'CoincidenceTier']]: + self.log.debug(f"\t> Tier message Passed. Checking times.") + + else: + self.log.error(f"\t> Unknown id Passed : {self.message['_id']}.") + return False + self.log.info(f"\t> Message type : {self.message['_id']} valid.") + return True + + def check_detector_status(self): + """ if _id is for heartbeat, + check detector status field and neutrino time + """ + self.log.debug(f"\t> Checking detector status..") + if "detector_status" not in self.message_keys: + self.log.error(f"\t> Heartbeat Message but detector_status not in keys.") + return False + if self.message["detector_status"].upper() not in ["ON", "OFF"]: + self.log.error(f"\t> detector_status not ON or OFF.") + return False + self.log.info(f"\t> detector_status is valid.") + return True + + def check_times(self): + """ Check the neutrino times. Unless it is a test message, + the times should be within last 24 hours to be valid. + + """ + self.log.debug(f"\t> Checking Times..") + if self.bypass: + self.log.info(f"\t> Time checks bypassed.") + return True + + # check if neutrino times exists and in string format + if 'neutrino_time' not in self.message_keys: + self.log.error(f"\t> neutrino_time does not exist!.") + return False + if type(self.message['neutrino_time']) is not str: + self.log.error(f"\t> neutrino_time is not a string!.") + return False + self.log.info(f"\t> neutrino_time exists and is string.") + + # it exists and string, check if ISO format, and reasonable + try: + dateobj = np.datetime64(self.message['neutrino_time']) + self.log.info(f"\t> neutrino_time is ISO formattable.") + except Exception as e: + self.log.error("\t> neutrino_time does not match " + f"SNEWS 2.0 (ISO) format: '%Y-%m-%dT%H:%M:%S.%f'\n\t{e}") + return False + + # neutrino_times exists, and in str - ISO format, check dates + if self.is_test: + # for tests, exact time is irrelevant + self.log.info(f"\t> neutrino_time is checked for is_test=True, not checking time interval.") + return True + now_datetime = datetime.utcnow() + now_datetime64 = np.datetime64(now_datetime) + time_delta = dateobj- now_datetime64 + total_seconds = time_delta / np.timedelta64(1, 's') + + if total_seconds <= -172800.0: + self.log.error(f'\t> neutrino time is more than 48 hrs olds !\n') + return False + + if total_seconds > 0: + self.log.error(f'\t> neutrino time comes from the future, please stop breaking causality.') + return False + # if all passed, return True + self.log.info(f"\t> neutrino_time passed all time checks.") + return True + + def check_pvals(self): + """ check if `p_val` exists, and valid + + """ + self.log.debug(f"\t> Checking p_val..") + if 'p_val' in self.message_keys: + if self.message['p_val'] is None: + self.log.info(f"\t> p_val is defaulted to None.") + return True # does not exist/default to None + + pval = self.message['p_val'] + pval_type = type(pval) + + if pval_type is not float: + self.log.error(f'\t> p value needs to be a float type, type given: {pval_type}.') + return False + if pval >= 1.0 or pval <= 0: + self.log.error(f'\t> {pval} is not a valid p value !') + return False + self.log.info(f"\t> p_val={pval} is valid!") + self.log.info(f"\t> no p_val in message keys.") + # still return True, it is not a must + return True + diff --git a/snews_cs/test/test_01_connection_to_server.py b/snews_cs/test/test_01_connection_to_server.py new file mode 100644 index 0000000..b9ea696 --- /dev/null +++ b/snews_cs/test/test_01_connection_to_server.py @@ -0,0 +1,21 @@ +# -*- coding: utf-8 -*- +"""Initialization unit tests for the snews_cs module. +""" +import unittest + +import snews_cs +import snews_pt.remote_commands as sptrc + +import io +import contextlib + +class TestServer(unittest.TestCase): + def test_connection(self): + f = io.StringIO() + with contextlib.redirect_stdout(f): + #- Connect to server + sptrc.test_connection(detector_name='XENONnT', firedrill=False, start_at='LATEST', patience=8) + + #- Check the output message; it should say "You (XENONnT) have a connection" + confirm_msg = 'You (XENONnT) have a connection to the server' + self.assertTrue(confirm_msg in f.getvalue())