Tuple-sum-filter - Library to play with filtering numeric sequences by sums of their pairs, triplets, etc. With a bonus CLI demo

Overview

Tuple Sum Filter

A library to play with filtering numeric sequences by sums of their pairs, triplets, etc.

Comes with a bonus CLI to demo the functionality.

Requires (and CI tests on) python 3.8 to 3.10. If you need to use python 3.7 then try replacing math.prod(some_iterable) with functools.reduce(lambda x, y: x * y, some_iterable)

Approach

We're thinking of this mostly as a library with the CLI as only for demo purposes. Ways you can see this in the code:

  • logging should really handled by the consumer,
    • our get_logger should be something that is passed into the lib
  • the CLI is pretty light on automated tests
  • we use pretty loose production dependency pinning
    • rather than pip freeze > requirements.txt of a deployed app
    • we want to keep things loose so that consumers can keep installing us alongside other things
    • we should probably set up tox/nox test runs against v.latest of our dependencies

Running the demo

in a fresh virtualenv (python>=3.8)

# install project and deps
pip install git+https://github.com/lbillingham/tuple-sum-filter.git

# create a suitable input file
echo "1721\n979\n366\n299\n675\n1456\n" > example.txt

# run the demo
filter_demo --input_file=example.txt --sum_target=2020 --dimension=2

you should see output like

checking for pairs of numbers that sum to 2020 in example.txt
Results pair (1721, 299) match: sum to 2020 and multiply to 514579

Consuming the library

The main filtering functions are pairs_that_sum_to and triplets_that_sum_to. They both have signatures (numbers: Sequence[int|float], sum_target: int|float) -> things_that_passed_the_filter list[tuple].

There is also a file-reading helper numbers_in_file exported at the top level.

Developing

Run the following to install the project (and dev dependencies) into your active virtualenv:

make dev_install

day-to-day development tasks can be orchestrated via make

  • dependency management
  • test/lint/typecheck running
  • coverage reporting
  • run make without any arguments to see a list

There is a CI suite which runs lint and test on several python versions. We don't run typechecking as a gate in CI because we think that turns a sometimes-useful tool into a Goodhart target.

Performance

We have not been optimizing for performance and it kind of shows.

When we run the benchmarking suite we see ~0.4 seconds fairly consistently for the triplet/3D problem.

We have at least 3 ideas of how to speed things up: several of them include dropping floating-point support.

$ make benchmark

tests/performance_check.py ..                                                                                                                                [100%]


------------------------------------------------------------------------------------- benchmark: 2 tests ------------------------------------------------------------------------------------
Name (time in ms)             Min                 Max                Mean            StdDev              Median               IQR            Outliers       OPS            Rounds  Iterations
---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
test_input1_pairs          5.4665 (1.0)        6.2297 (1.0)        5.6687 (1.0)      0.1018 (1.0)        5.6575 (1.0)      0.1289 (1.0)          47;3  176.4077 (1.0)         172           1
test_input1_triplets     384.6154 (70.36)    386.5000 (62.04)    385.4776 (68.00)    0.8287 (8.14)     385.4333 (68.13)    1.5047 (11.67)         2;0    2.5942 (0.01)          5           1
---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------

--

🍪 ✂️ cookiecut from lbillingham's python-cli-template

You might also like...
Linux GUI app to codon optimize many single-fasta files with coding sequences , using many taxonomy ids
Linux GUI app to codon optimize many single-fasta files with coding sequences , using many taxonomy ids

codon_optimize_cds_with_many_taxids_singlefasta Linux GUI app to codon optimize many single-fasta files with coding sequences, using many taxonomy ids

Ingestinator is my personal VFX pipeline tool for ingesting folders containing frame sequences that have been pulled and downloaded to a local folder

Ingestinator Ingestinator is my personal VFX pipeline tool for ingesting folders containing frame sequences that have been pulled and downloaded to a

Python Common things by Problem Fighter Library, (Exception, Debug Log, etc.)

In the name of God, the Most Gracious, the Most Merciful. PF-PY-Common Documentation Install and update using pip: pip install -U xxxx Please find the

Devil - Very Semple Auto Filter V1 Bot
Devil - Very Semple Auto Filter V1 Bot

Devil Very Semple Auto Filter V1 Bot

Cairo-bloom - A naive bloom filter implementation in Cairo

🥀 cairo-bloom A naive bloom filter implementation in Cairo. A Bloom filter is a

Snakemake worflow to process and filter long read data from Oxford Nanopore Technologies.
Snakemake worflow to process and filter long read data from Oxford Nanopore Technologies.

Nanopore-Workflow Snakemake workflow to process and filter long read data from Oxford Nanopore Technologies. It is designed to compare whole human gen

Runnable Python demo of ArtLine

artline-demo How to run? pip3 install -r requirements.txt python3 app.py How to use? Run the Flask app Open localhost:5000 in browser Select an image(

Tiny demo site for exploring SameSite=Lax

samesite-lax-demo Background on my blog: Exploring the SameSite cookie attribute for preventing CSRF This repo holds some tools for exploring the impl

An extended version of the hotkeys demo code using action classes

An extended version of the hotkeys application using action classes. In adafruit's Hotkeys code, a macro is using a series of integers, assumed to be

Comments
  • Perf: :zap:  merge if you want to go faster but don't need float support

    Perf: :zap: merge if you want to go faster but don't need float support

    This moves away from the shared itertools implimentations for finding pairs, triplets of the input numbers that sum to a given target.

    Instead, we

    • 1st expose the underlying $~O^{dimensions}$ nested loops
    • trade some extra memory and some $O^{1}$ lookups to give us $~O^{dimensions-1}$
    • get a >= 170x speedup in our benchmarks

    However, we:

    • loose the ability to properly work with floating point input
      • the fast lookup uses hasing and hashing floats gets weird due to floating point equality
    • can't trivially extend to higher-dimension problems: 4-element-tuples etc.

    I've moved the float input tests out the their own file and away from the CI test path

    Performance benchmarks

    with these changes:

    $ make benchmark
    tests/performance_check.py ..                                                                                                                             [100%]
    
    -------------------------------------------------------------------------------------------- benchmark: 2 tests --------------------------------------------------------------------------------------------
    Name (time in us)               Min                   Max                  Mean              StdDev                Median                 IQR            Outliers          OPS            Rounds  Iterations
    ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
    test_input1_pairs           22.1660 (1.0)        166.3790 (1.0)         23.6089 (1.0)        5.0170 (1.0)         23.0000 (1.0)        0.5123 (1.0)        87;521  42,356.8183 (1.0)        7677           1
    test_input1_triplets     1,994.8000 (89.99)    3,561.1120 (21.40)    2,152.1272 (91.16)    204.1428 (40.69)    2,033.1040 (88.40)    299.1878 (584.07)       41;4     464.6565 (0.01)        341           1
    ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
    

    itertools, but non-float supporting version

    $ make benchmark
    tests/performance_check.py ..                                                                                                      [100%]
    
    ------------------------------------------------------------------------------------- benchmark: 2 tests ------------------------------------------------------------------------------------
    Name (time in ms)             Min                 Max                Mean            StdDev              Median               IQR            Outliers       OPS            Rounds  Iterations
    ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
    test_input1_pairs          2.8727 (1.0)        4.2386 (1.0)        3.1265 (1.0)      0.1638 (1.0)        3.1067 (1.0)      0.1888 (1.0)          78;9  319.8414 (1.0)         326           1
    test_input1_triplets     211.6325 (73.67)    213.3950 (50.35)    212.4042 (67.94)    0.6555 (4.00)     212.2717 (68.33)    0.8081 (4.28)          2;0    4.7080 (0.01)          5           1
    ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
    =========================================================== 2 passed in 3.59s ============================================================
    

    Note the change in units this branch is in microseconds, the itertools version is in milliseconds

    opened by lbillingham 0
Releases(v0.0.1)
  • v0.0.1(Feb 17, 2022)

    Initial release. Lib allows filtering by sum over pairs and triplets of numbers loaded from a local file. Plus a bonus CLI app that can be used for demoing the lib.

    Solution is itertools-y and rather slow (probably $O^{n}$ where pairs->n=2 and triplets->n=3).

    This is the version shown to MM

    Source code(tar.gz)
    Source code(zip)
Owner
Laurence Billingham
+ sustainable software + data science
Laurence Billingham
Open-source library for analyzing the results produced by ABINIT

Package Continuous Integration Documentation About AbiPy is a python library to analyze the results produced by Abinit, an open-source program for the

ABINIT 91 Dec 09, 2022
This tool allows you to do goole dorking much easier

This tool allows you to do goole dorking much easier

Steven 8 Mar 06, 2022
Cross-platform MachO/ObjC Static binary analysis tool & library. class-dump + otool + lipo + more

ktool Static Mach-O binary metadata analysis tool / information dumper pip3 install k2l Development is currently taking place on the @python3.10 branc

Kritanta 301 Dec 28, 2022
BridgeWalk is a partially-observed reinforcement learning environment with dynamics of varying stochasticity.

BridgeWalk is a partially-observed reinforcement learning environment with dynamics of varying stochasticity. The player needs to walk along a bridge to reach a goal location. When the player walks o

Danijar Hafner 6 Jun 13, 2022
An Android app that runs Elm in a webview. And a Python script to build the app or install it on the device.

Requirements You need to have installed: the Android SDK Elm Python git Starting a project Clone this repo and cd into it: $ git clone https://github.

Benjamin Le Forestier 11 Mar 17, 2022
Google Fit Sensor Component

Google Fit Sensor Component

Ivan Vojtko 21 Dec 20, 2022
OB_Template is a vault template reference for using Obsidian.

Obsidian Template OB_Template is a vault template reference for using Obsidian. If you've tested out Obsidian. and worked through the "Obsidian Help"

323 Dec 27, 2022
Python MQTT v5.0 async client

gmqtt: Python async MQTT client implementation. Installation The latest stable version is available in the Python Package Index (PyPi) and can be inst

Gurtam 306 Jan 03, 2023
Lightweight Scheduled Blocks Checker for Current Epoch. No cardano-node Required, data is taken from blockfrost.io

ReLeaderLogs For Cardano Stakepool Operators: Lightweight Scheduled Blocks Checker for Current Epoch. No cardano-node Required, data is taken from blo

SNAKE (Cardano Stakepool) 2 Oct 19, 2021
An example of Connecting a MySQL Database with Python Code

An example of Connecting And Query Data a MySQL Database with Python Code And How to install Table of contents General info Technologies Setup General

Mohammad Hosseinzadeh 1 Nov 23, 2021
Mute your mic while you're typing. An app for Ubuntu.

Hushboard Mute your microphone while typing, for Ubuntu. Install from kryogenix.org/code/hushboard/. Installation We recommend you install Hushboard t

Stuart Langridge 142 Jan 05, 2023
Solutions for the Advent of Code 2021 event.

About 📋 This repository holds all of the solution code for the Advent of Code 2021 event. All solutions are done in Python 3.9.9 and done in non-real

robert yin 0 Mar 21, 2022
Utility to play with ADCS, allows to request tickets and collect information about related objects

certi Utility to play with ADCS, allows to request tickets and collect information about related objects. Basically, it's the impacket copy of Certify

Eloy 185 Dec 29, 2022
Just messing around with AI for fun coding 😂

Python-AI Projects 🤖 World Clock ⏰ ⚙︎ Steps to run world-clock.py file Download and open the file in your Python IDE. Run the file a type the name of

Danish Saleem 0 Feb 10, 2022
A basic interpreted programming language written in python

shin A basic interpreted programming language written in python. extension You can use our own extension ".shin". Example: main.shin How to start Clon

12 Nov 04, 2022
Packaging tools for shanty services.

parcel Packaging tools for shanty services. What? Services are docker containers deployed by shanty on a hosting appliance. Each service consists of t

0 Jan 20, 2022
Very Simple Zoom Spam Pinger!

Very Simple Zoom Spam Pinger!

Syntax. 2 Mar 05, 2022
This is a Python package named - calculator

Calculator Python Package This is a Calculator Package of Python. How To Install The Package? Install calchundred with pip (Package Installer Of Pytho

Arinjoy_Programmer 1 Nov 21, 2021
This repository contains a lot of short scripting programs implemented both in Python (Flask) and TypeScript (NodeJS).

fast-scripts This repository contains a lot of short scripting programs implemented both in Python (Flask) and TypeScript (NodeJS). In python These wi

Nahum Maurice 3 Dec 10, 2022