runtime-reporting-utils 0.1.2

Usage

from runtime_reporting_utils import RuntimeReporter

rr = RuntimeReporter()

rr.add_file(file=logfile, name="log file")
rr.add_file(file=config_file, name="configuration file")
rr.add_file(file=outfile, name="main output file")

rr.count(name="gene", desc="Number of genes processed")
rr.count(name="missing-annotation", desc="Number of genes that do not have annotation")

# Set the output directory.
# Default will be /tmp/[USER]/runtime-reporting-utils/[basename of executable]/YYYY-MM-DD-HHMMSS/
rr.outdir(outdir)

rr.generate_report()
# The RuntimeReport will write the runtime report to the output directory.
# The file will be named report.json.

Invocation:

python main.py
Runtime report written to /tmp/sundaram/runtime-reporting-utils/main.py/2025-02-15-084121/report.json
Execution completed: '/tmp/runtime-reporting-utils-test/main.py'

Contents of runtime report file:

{
    "provenance": {
        "executable": "/tmp/runtime-reporting-utils-test/main.py",
        "hostname": "MSI",
        "outdir": "/tmp/sundaram/runtime-reporting-utils/main.py/2025-02-15-084121",
        "username": "sundaram",
        "start_time": "2025-02-15T08:41:21.573171",
        "end_time": "2025-02-15T08:41:21.575894",
        "elapsed_time": "0:00:00.002726"
    },
    "command-line arguments": [],
    "counters": {
        "gene": {
            "count": 3,
            "desc": "Number of genes processed"
        },
        "missing-annotation": {
            "count": 1,
            "desc": "Number of genes that do not have annotation"
        }
    },
    "files": {
        "/tmp/runtime-reporting-utils-test/log.txt": {
            "path": "/tmp/runtime-reporting-utils-test/log.txt",
            "name": "log file",
            "bytesize": 12,
            "is_binary": false,
            "line_count": 1,
            "md5sum": "e59ff97941044f85df5297e1c302d260"
        },
        "/tmp/runtime-reporting-utils-test/conf/config.yaml": {
            "path": "/tmp/runtime-reporting-utils-test/conf/config.yaml",
            "name": "configuration file",
            "bytesize": 64,
            "is_binary": false,
            "line_count": 6,
            "md5sum": "910974117394282bc6997ddfeb2cfa68"
        },
        "/tmp/runtime-reporting-utils-test/output.txt": {
            "path": "/tmp/runtime-reporting-utils-test/output.txt",
            "name": "main output file",
            "bytesize": 37,
            "is_binary": false,
            "line_count": 1,
            "md5sum": "3babe83376c82b909666b064284024d2"
        }
    }
}