chubek / gophymmr

PhyMMR reimplemented in Go

Chubak Bidpaa's Libre Project Showcase

Welcome to my Github profile, where I host git repositoriies of my libre projects. Please use the menu below to navigate to the several interweaving sections of this document. All the repos listed in this page are released under either GPLv3 or MIT license.

• Introduction
• Special Showcase
• Projects by Topic
• • Eclectic Engineering
• • • Electronics and Embedded Programming
• • • Math
• • • Cryptography
• • • Bioinformatics
• • • Machine Learning, Auditory and Vision
• • Systems and Network
• • • Web and System Automation
• • • Networking, Internet, and Web
• • Graphics Programming and Gaming
• • Small Projects in Gist
• • Projects I Contribute to
• Codes and Projects by Language
• • Multilingual
• • Assembly
• • C
• • Rust
• • Python
• • Go
• • Misc.
• Donation
• Sites and Social Media

Introduction

Hi, I go by Chubak but you can call me anything you want. I do systems programming, mostly with C. I know a good amount of *NIX and POSIX system calls, the STDC library, Windows 32 and 64 API, shell scripting, x86-64 and Aarch64 Assembly, Python scripting, and also, I am learning electronics --- enough so I can make my own embedded devices.

I really enjoy venturing into the world of the unknown and coming back with a sackfull of knowledge. Kinda like Indiana Jones. I read up on a lot of computational theory, discrete mathematics, language development, electronics, digital design, etc. These are my favorite books, or 'Pentateuch' on the subject:

1- Sipser's book on computational theory

2- The Dragon Book

3- The Wizard Book

4- Digital Design and Computer Architecture

5- Art of Electronics

And I guess for now the Apocrypha would be AST's OS Dev Books (The MINIX book, Modern OS Book, Distributed Systems book).

Special Showcase

Below are some of my curated sizable projects that you will find more details about in the latter sections, and inside their repository as well:

• Stackls -> List process stack frame in Win32 API and Linux
• PoxHash -> A custom block hashing algorithm implemented in C, Rust, Go, Nim, Python and JS
• TransGatacca -> A DNA/Protein [Reverse] Translator, ABI in Aarch64 and x86-64 Assembly with C/Rust/Python API
• mathcord -> A Discord bot in Go with Shunting Yard, SHA-512 and Edwards-512 implemented manually
• PuertoRECO -> A face recognition system with liveness decetion in Python
• ProtoGen -> A series of generic application-layer protocols in Go
• Samovar -> A WIP web framework in Rust
• Profiterole -> An overhead-free profiler in C with native interface for Python

And below are some of my special small code pieces in Github Gist form:

• ShibaJS1.h -> A quick 'n dirty JSON parser in C
• DJB2-ASM -> An implementation DJB2 hash in Aarch64 and x86-64 assembly languages
• CodonEncode -> A way to encode Codon table in 8bit and 64bit integers
• Go MD5 -> An implementation of MD5 in Go
• DynoFiler -> A metaprogram in Bash for Python's line_profiler
• XUtils-1 -> PRNG for x86-64 Assembly and Hash for Aarch64 Assembly
• DNSRezulf -> A DNS Resolver in Python
• MangoMacs -> Macros and Assembly Wrappers for Linux Syscalls
• xvDSO -> Manually loading the vDSO by looking up auxillary vectors and parsing the ELF
• sGrant -> Static memory region grants based on A. Tannenbaum's paper

I have many more projects you can view below.

Projects by Topic

Eclectic Engineering

Electronics and Embedded Programming

• Scheesim -> A WIP electronics circuit simulator written entirely in Rust. As of this moment, the linear an algebraic equation solution systems have been written. Parser is at work. Next is the element stamps. Is it like SPICE? Well, kind of! You be the judge when it's done.

Math

• auster-integer [WIP] -> Big Math library. Right now contains implementations for binary operations only.

Cryptography

• PoxHash -> My very own block hashing algorithm implemented in Go, Rust, Python, Nim, JS, and C.

Bioinformatics

• ProteinToCodonTranslator and pn2codon -> Translating Amino Acid PEPs to Dash-Aligned Codons, FFI for Python in Rust.
• pylibfastcompare -> Lazy Hamming written in C for Python for bioinformatics.
• pylibfastadedupe -> Successor to pylibfastcompare (note: one is 'fast'compare one is 'fasta'dedupe.
• PhyMMR Tools -> Tools for PhyMMR in Rust. Most of it is done by @mvalentine but I did some stuff too.

Machine Learning, Auditory and Vision

• PuertoRECO -> Despite the lame pun, this is a very intricate face recognition API. It's in Python so it's not very fast. In the recent months I have decided to do less and less projects in Python because of how slow and inefficient it is. But if you are going to give me a job in Python I will do it. I especially like training using Python and predicting and doing the MLOps in Rust or Go.
• WillSh3B33 -> Basically a backend and a fronted for a model I made. This shows my skills in MLOps. The model itself, it's not very strong but I have learned a lot about training and structuring models since then.
• Arriv-O-Pred -> Basic train time arrival tool which Felix helped me make in my early days. After Tanami, I owe most my professional life to Felix. This man's a behemoth of ML!
• SongOfSprockets -> A voice conversion tool using GMM, a fork of Sprocker-VC with a UI using Dear Imgui.
• ClickBait Generator -> A very simple click-bait generator project.
• pyramid-anomaly-detection -> Anomaly detection in Python that makes heavy use of vectorization.
• intresignia -> Traffic sign detection.
• SummerSavory -> Shape irregularity index score, contains implementation of several algorithms in classical vision, WIP

Systems and Network

Web and System Automation

• Upsc3ne -> An obscenity detector written in Rust. It's kinda incomplete but already contains implementation for Levenshtein distance and fuzzy string matching.
• mathcord -> My pride and joy. A Discord math bot that includes CUSTOM implementation of Edwards-25519, SHA-512, Shunting Yard and communication with Discord API.
• potpourri -> A webscraper library for Python. Can search Google too. Can do a lot of stuff.
• CroonJoobGoo -> A cron job automator written entirely in Go. Right now it only does SQL queries/commands.
• rusty-bot-swarm -> Intricate bot project.
• Kaibash -> Very WIP Proxy in C
• ProtoGen -> A couple of application-layer potocols in Go. First is ProtoQuore (TCP) and the second is ProtoDir ( UDM). I will add a UDP one soon I just need an idea.
• Slitherbain -> Python code runner in C++. It is WIP but nearly done.
• Profiterole -> An overhead-free profiler in C with native interface for Python
• Broshelli -> A shell for the browser (mostly experimental)
• Stackls -> List process stack frame in Win32 API and Linux

Networking, Internet, and Web

• Samovar -> A full-fledged Web Framework in Rust that I keep working on until it becomes viable.
• Mongoose Jumblator -> A Typescript NPM package that encrypts MongoDB database content.
• rusty-csv-protcol -> A protocol in the application layer of OSI.
• hmac-tree -> Merkle Trees, but with HMAC! Also contains the implementation of SHA-512 and HMAC besdies MT.
• rusty-you-dee-pee -> UDP implementation in Rust with a TAP/TUN interface, includes implementation of IPv4 too, sends packets without a link layer.
• FourChidori -> A browser extension for 4chan.
• HDTP -> A WIP application-layer protocol in C. The spec document is not exactly going to be what it's going to be. But it should give you a clear idea. It's almost 40% complete, the lexer/parser is done for config files.
• Panah -> A packet wrangler and tunnel in C and Assembly.

Graphics Programming and Gaming

• Expelligraphicus -> Software rasterizer [WIP]
• Bedlam Noise Apparatus -> A pretty solid After Effects plugin that generates noise using OpenGL and GLSL. I think it's one of the few FOSS After Effects plugins out there.
• Rusty Random Pattern Generator -> A simple pattern generator in Rust.
• Pong Q-Learning -> This is a composite of ML and Game Dev. It uses Reinforcement learning to play Pong. Written in Nim using SDL.
• cep-panel and its backend -> Invisible Adobe Premiere Panel and its backend.
• NaqshSmit Renderer -> A software renderer, it's currently WIP and right now I am just following tutorials to get a foothold in rendering algos. But soon it will spiral into something worthwhile.

Small Projects in Gist

• ShibaJS1.h -> A quick 'n dirty JSON parser in C
• CUDA Gaussian Elimination -> Guassian Elmination for CUDA
• DynoFiler -> A wrapper for line_profiler around PhyMMR for easier profiling.
• PerioDetect -> For removing period-terminated sequences from FASTA files (made for PhyMMR but anyone can use it).
• Stinky -> An extremely small Morse Code translator API with a custom HTTP framework, built upon Python Streaming API
• BitwiseWord -> A small script, bitwise operations in Python on words, on binary lists of size 16
• Newton-Rhapson Intrinsics -> Newton-Rhapson method with Intel Intrinsics in C and Assembly
• Delphia Scripts -> Utility for my brother
• Go MD5 -> MD5 Implementation in Go
• LazySplit -> Lazy string/bytearray splitting in Python.
• CodonEncode -> Assembly-friendly encoding for Codons tables and their frequency.
• Zinteger -> Typed ctypes integers wrappers, dynamically-generated.
• DJB2-ASM -> An implementation DJB2 hash in Aarch64 and x86-64 assembly languages.
• SpudMacs -> Cross-architecture (x64 an a64) macros for GAS.
• XUtils-1 -> PRNG for x86-64 Assembly and Hash for Aarch64 Assembly
• DNSRezulf -> A DNS Resolver in Python
• PommeMacs -> C Preprocessor macros to make C/x86-64 Assembly cross-programming easier
• MangoMacs -> Macros and Assembly Wrappers for Linux Syscalls
• xvDSO -> Manually loading the vDSO by looking up auxillary vectors and parsing the ELF

Projects I Contribute to

• Cherry-Node -> for my work in Cherry.
• PhyMMR -> A bioinformatics project that I actively participate to for my work.

Codes and Projects by Language

Multilingual

Topic	Assembly	C	Rust	Go	Python	Nim	JS	Repo	Description	Status
Cryptography	Neither	✓	✓	✓	✓	✓	✓	PoxHash	A block hash algorithm with high avalanche effect	Finished
Bioinformatics	Both	✓	✓	✘	✓	✘	✘	TransGatacca	DNA/Protein [Reverse] Translator	Active Development
Network	x64	✓	✘	✘	✘	✘	✘	Panah	A packet wrangler and tunnel	Suspended

Assembly

Topic	x86-64	Aarh64	Repo	Description	Status
Utility/Snippet	✓	✓	DJB2 Hash	DJB2, a non-cryptographic hash function	Finished
Metaprogramming	✓	✓	SpudMacs	Cross-architecture (x64 an a64) macros for GAS	Finished
Utility/Subroutine	✓	✓	XUtils-1	PRNG for x86-64 Assembly and Hash for Aarch64 Assembly	Finished
Metaprogramming	✓	✘	PommeMacs	C Preprocessor macros to make cross-programming C and x64 Assembly easier	Finished
Metaprogramming	✓	✘	MangoMacs	Macros and Assembly Wrappers for Linux Syscalls	FInished
Math/Calculus	✓	✘	Newton-Rhapson Intrinsics	Newton-Rhapson method with Intel Intrinsics in C and Assembly	Finished

C

Topic	Repo	Description	Status
Grammars	ShibaJS1.h	A quick 'n dirty JSON parser	Finished
Systems/Network	Slitherbrain	Pythcode code runner in C++	Indefinite Development
Graphics Programming	Bedlam Noise Apparatus	Noise-generating After Effects plugin	Finished
Bioinformatics	pylibfastcompare	Lazy-hamming multi-threaded DNA sequence deduper	Terminated
Bioinformatics	pylibfastadedupe	Same as above, C++ version with updated perforomance	Terminated
Network	HDTP	WIP, Hyper Data Transfer Protocol spec and implementation	Indefinite Development
Network	Kaibash	Very WIP proxy	Rough Draft
Math	CUDA Gaussian Elimination	Gaussian elimination in CUDA	Finished
System/Linux	xvDSO	Manually loading the vDSO by looking up auxillary vectors and parsing the ELF	Finished
Systems/Tracing	Profiterole	An overhead-free profiler in C with native interface for Python	Mostly Done
System/Shell	Broshelli	A shell for the browser (mostly experimental)	Experimental
Memory	sGrant	Static memory region grants based on A. Tannenbaum's paper	Finished
System/Memory	Stackls	List process stack frame in Win32 API and Linux	Finished

Rust

Topic	Repo	Description	Status
Electronics	Scheesim	Electronics circuit simulator similar to SPICE	Indefinite Development
Network	Samovar	HTTP 1.1 framework, WIP	Revision Considered
Network	rusty-csv-protcol	Application-level protcol	Finished
Cryptography	hmac-tree	Merkle trees with HMAC	Finished
Network	rusty-you-dee-pee	UDP implementation, WIP	Indefinite Development
Bioinformatics	pn2codon	Revese-Translate Protein to DNA	Finished
Graphics Programming	Rusty Random Pattern Generator	Pattern generator	Finished
Graphics Programming	NaqshSmit Renderer	Software rendered, concept	Terminated
Automation	rusty-bot-swarm	Prototype for Twitter bot pre-Musk	Terminated
Graphics Programming	Expelligraphicus	Another concept for a rasterizer	Finished
Automation	Upsc3ne	An early Rust code, an obscenity detector	Terminated
Math	auster-integer	Big math WIP	Indefinite Development
Bioinformatics	PhyMMR Tools	FFI tools for PhyMMR, some by me	Active Development
Classical Vision	SummerSavory	Shape irregularity index score, WIP	Active Development

Python

Topic	Repo	Description	Status
AI Vision	PuertoRECO	Face recognition framework	Finished
Automation	potpourri	Web scraping framework	Finished
AI NLP	WillSh3B33	AI model deployed with a frontend	Finished
AI Classical	Arriv-O-Pred	Train time arrival prediction	Finished
Automation	PerioDetect	Period (I mean dot!) detection script	Finished
AI Auditory	SongOfSprockets	Voice conversion tool	Finished
AI NLP	ClickBait Generator	Very simple clickbait AI model Colab notebook	Finished
Vision Classical	intresignia	Red traffic sign detection	Finished
Math	pyramid-anomaly-detection	Anomaly detection tool for Python, vetorized	Finished
Network	Stinky	Simple Python API with custom HTTP backend	Finished
Math	BitwiseWord	Bitwise operations on word-sized binary lists	Finished
Linux Utility	Delphia Scripts	Sripts for my brother	Active Development
Byte Utils	LazySplit	Lazy string/bytearray splitting in Python	Finished
Bioinformatics	CodonEncode	Assembly-friendly Cododn encoding	Finished
Bioinformatics	ProteinToCodonTranslator	Frontend for pn2codon	Finished
Zinteger	Zinteger	Dynamically-generated typed integers	Finished
Internet Protocol	DNSRezulf	A DNS Resolver in Python	Finished

Go

Topic	Repo	Description	Status
Network	mathcord	Discord bot with everything written from scratch	Finished
Automation	CroonJoobGoo	SQL cron job	Finished
Network	ProtoGen	Application-layer protocols in Go	Expansion Considered

Misc.

Language	Topic	Repo	Description	Status
VanillaJS	Browser Addon	FourChidori	A browser add-on for 4chan	Finished
NodeJS	Databases	Mongoose Jumblator	A plugin for Mongoose for encrpyting MongoDB	Finished
AdobeExtendScript	Extensions	cep-panel and its backend	Concept projects for an Adobe Premiere panel	Terminated
Bash	System Script	DynoFiler	Script for wrapaping line_profiler around PhyMMR	Finished
Nim	ClassicalLearning	Pong Q-Learning	A test project in Nim	Finished

Donation

If you like my work, please consider donating any amount to these wallets:

Ethereum and Binance Network:

0x503A3B99c0c086fD81186a0d5ac815eBd15e5983

TRX:

TABihfZH9tHWJnCDAK3tkpFwmSxocgn25A

BTC:

13xM3LbEFjbjwMSAs9Ybz4T6pdmJtB8F9m

BEP2 address and tags:

BEP2 Address -> bnb13eqrynp3rls3m6dsw58d3y5l7z6zfdw5zj3sdy
BEP2 Tag -> 136103027

Your donation is appreciated, and is delegated towards development of stiff libre software. Thanks in advance in case you make a donation!

Sites and Social Media

• Website -> https://chubakbidpaa.com
• Twitter -> @gvlside
• Discord -> .chubak
• Telegram -> @bidpaafx
• Email -> [email protected]

Thanks, and please take care.