Programming

TIOBE Index

• https://www.tiobe.com/tiobe-index/
• https://en.wikipedia.org/wiki/TIOBE_index
• Why fortran and cobol are still used? Fortran is still used because they are specialized for high-performance computing. Ninety-two percent of organizations view their COBOL application workloads as being strategic for their business operations.

Developer tools

34 Best Developer Tools for Building Modern Apps

Learn any programming language

• 5 steps to learn any programming language
• Ten simple rules for biologists learning to program
• A cartoon guide to bioinformatics by a novice coder
• The 10 Best Free Udemy Courses
• PROGRAMMING by MakeUseOf.

Variable naming

Data Scientists, Your Variable Names Are a Mess. Clean Up Your Code

Alternatives to "tmp"

• tempVar
• buffer
• placeholder
• interim
• transient
• auxiliary
• provisional

Collaboration

9 ways to improve collaboration between developers and designers

Code review

• Code Review Developer Guide - Google's Engineering Practices documentation
• Code Review Checklist R Code Edition Top 3, Code Review Example R Code Caret
• Ten simple rules for scientific code review PLOS 2024

Deployment environment

• https://en.wikipedia.org/wiki/Deployment_environment
• Docker Clustering Approaches

Manifest file 清單檔案

Manifest file. A manifest file in computing is a file containing metadata for a group of accompanying files that are part of a set or coherent unit. For example, the files of a computer program may have a manifest describing the name, version number, license and the constituent files of the program.

Coding Standards

• STAT:7400 Computer Intensive Statistics, Luke Tierney
• 50 Coding Laws That Would Make You A Decent Programmer

Be a good programmer

• One secret to becoming a great software engineer: read code
• Ten simple rules for quick and dirty scientific programming
• My 15 practical tips for a bioinformatician

Organize your utility files and functions

Stop Writing Utility Functions in Python (Here's the Better Pattern)

Instead of

source("utils.R") 
format_date(x) # 你完全不知道：format 的是哪種日期？
validate_input(df)  # validate 的是什麼資料？
process_data(df)    # process 的是哪種資料流程？

Replacing utility.R with

users/validation.R
billing/dates.R
orders/processing.R

and use them like

billing::format_invoice_date()
orders::process_pending_orders()

Python 用 class 來處理有規則的邏輯。在 R 裡，你可以用：

• R6 class
• S3 method
• S4 class

R 裡真正適合放 utils 的只有：

• 純函式（pure function）
• 無狀態
• 與 domain 無關
• 在任何專案都適用

Research code

The Good Research Code Handbook

Code club

Ten simple rules to increase computational skills among biologists with Code Clubs

Tutorials

• https://www.w3schools.com
• TutorialsPoint Offline Version Download 2018 [Full Website] 3GB download. The index.html file shows the bundle is done by HTTrack Website Copier.

Keeping Your Code Clean With Prettier

Keeping Your Code Clean With Prettier, the playground.

$ cat > tmp.js <<EOF
(function ()
{
    window.alert('ok')
}())
EOF
$ npx prettier --write tmp.js
$ cat tmp.js
(function () {
  window.alert("ok");
})();