Summarize LSF job properties by parsing log files.

Related tags

Logginglsf_stats
Overview

lsf_stats

PyPI Tests

Summarize LSF job properties by parsing log files of workflows executed by Snakemake.

Installation

$ pip install lsf_stats

Usage

$ lsf_stats --help
Usage: lsf_stats [OPTIONS] COMMAND [ARGS]...

  Summarize LSF job properties by parsing log files.

Options:
  --version  Show the version and exit.
  --help     Show this message and exit.

Commands:
  gather     Aggregate information from log files in single dataframe.
  summarize  Summarize and visualize aggregated information.

Example

Assume that you executed your Snakemake workflow using the lsf-profile and all generated log files are stored in the directory ./logs/:

$ snakemake --profile lsf
[..]

You can then quickly aggregate resource, rule and other types of information about the workflow execution into a single dataframe:

$ lsf_stats gather -o workflow_stats.csv.gz ./logs/
[..]

This dataframe can then be summarized in various ways:

$ lsf_stats summarize \
    --query 'status == "Successfully completed."' \
    --split-wildcards \
    --grouping-variable category \
    workflow_stats.csv.gz
[..]

For example, the following plots will be generated:

Job execution Job resources
Job execution Job resources
Owner
Kim
:(){ :|: & };:
Kim
GTK and Python based, system performance and usage monitoring tool

System Monitoring Center GTK3 and Python 3 based, system performance and usage monitoring tool. Features: Detailed system performance and usage usage

Hakan Dündar 649 Jan 03, 2023
A demo of Prometheus+Grafana for monitoring an ML model served with FastAPI.

ml-monitoring Jeremy Jordan This repository provides an example setup for monitoring an ML system deployed on Kubernetes.

Jeremy Jordan 176 Jan 01, 2023
Monitor and log Network and Disks statistics in MegaBytes per second.

iometrics Monitor and log Network and Disks statistics in MegaBytes per second. Install pip install iometrics Usage Pytorch-lightning integration from

Leo Gallucci 17 May 03, 2022
A very basic esp32-based logic analyzer capable of sampling digital signals at up to ~3.2MHz.

A very basic esp32-based logic analyzer capable of sampling digital signals at up to ~3.2MHz.

Davide Della Giustina 43 Dec 27, 2022
蓝鲸日志平台(BK-LOG)是为解决分布式架构下日志收集、查询困难的一款日志产品,基于业界主流的全文检索引擎

蓝鲸日志平台(BK-LOG)是为解决分布式架构下日志收集、查询困难的一款日志产品,基于业界主流的全文检索引擎,通过蓝鲸智云的专属 Agent 进行日志采集,提供多种场景化的采集、查询功能。

腾讯蓝鲸 102 Dec 22, 2022
Command-line tool that instantly fetches Stack Overflow results when an exception is thrown

rebound Rebound is a command-line tool that instantly fetches Stack Overflow results when an exception is thrown. Just use the rebound command to exec

Jonathan Shobrook 3.9k Jan 03, 2023
metovlogs is a very simple logging library

metovlogs is a very simple logging library. Setup is one line, then you can use it as a drop-in print replacement. Sane and useful log format out of the box. Best for small or early projects.

Azat Akhmetov 1 Mar 01, 2022
A Prometheus exporter for monitoring & analyzing Grafana Labs' technical documentation

grafana-docs-exporter A Prometheus exporter for monitoring & analyzing Grafana Labs' technical documentation Here is the public endpoint.

Matt Abrams 5 May 02, 2022
Integrates a UPS monitored by NUT into OctoPrint

OctoPrint UPS This OctoPrint plugin interfaces with a UPS monitored by NUT (Network UPS Tools). Requirements NUT must be configured by the user. This

Shawn Bruce 11 Jul 05, 2022
Small toolkit for python multiprocessing logging to file

Small Toolkit for Python Multiprocessing Logging This is a small toolkit for solving unsafe python mutliprocess logging (file logging and rotation) In

Qishuai 1 Nov 10, 2021
Log processor for nginx or apache that extracts user and user sessions and calculates other types of useful data for bot detection or traffic analysis

Log processor for nginx or apache that extracts user and user sessions and calculates other types of useful data for bot detection or traffic analysis

David Puerta Martín 1 Nov 11, 2021
Lazy Profiler is a simple utility to collect CPU, GPU, RAM and GPU Memory stats while the program is running.

lazyprofiler Lazy Profiler is a simple utility to collect CPU, GPU, RAM and GPU Memory stats while the program is running. Installation Use the packag

Shankar Rao Pandala 28 Dec 09, 2022
This open-source python3 script is a builder to the very popular token logger that is on my github that many people use.

Discord-Logger-Builder This open-source python3 script is a builder to the very popular token logger that is on my github that many people use. This i

Local 4 Nov 17, 2021
🐑 Syslog Simulator hazır veya kullanıcıların eklediği logları belirtilen adreslere ve port'a seçilen döngüde syslog ile gönderilmesini sağlayan araçtır. | 🇹🇷

syslogsimulator hazır ürün loglarını SIEM veya log toplayıcısına istediğiniz portta belirli sürelerde göndermeyi sağlayan küçük bir araçtır.

Enes Aydın 3 Sep 28, 2021
Translating symbolicated Apple JSON format crash log into our old friends :)

CrashTranslation Translating symbolicated Apple JSON format crash log into our old friends :) Usage python3 translation.py -i {input_sybolicated_json_

Kam-To 11 May 16, 2022
Ultimate Logger - A Discord bot that logs lots of events in a channel written in python

Ultimate Logger - A Discord bot that logs lots of events in a channel written in python

Luca 2 Mar 27, 2022
Python script to scan log files/system for unauthorized access around system

checkLogs Python script to scan log files/system for unauthorized access around Linux systems Table of contents General info Getting started Usage Gen

James Kelly 1 Feb 25, 2022
Track Nano accounts and notify via log file or email

nano-address-notifier Track accounts and notify via log file or email Required python libs

Joohansson (Json) 4 Nov 08, 2021
HTTP(s) "monitoring" webpage via FastAPI+Jinja2. Inspired by https://github.com/RaymiiOrg/bash-http-monitoring

python-http-monitoring HTTP(s) "monitoring" powered by FastAPI+Jinja2+aiohttp. Inspired by bash-http-monitoring. Installation can be done with pipenv

itzk 39 Aug 26, 2022
Progressbar 2 - A progress bar for Python 2 and Python 3 - "pip install progressbar2"

Text progress bar library for Python. Travis status: Coverage: Install The package can be installed through pip (this is the recommended method): pip

Rick van Hattem 795 Dec 18, 2022