shell-scripting-fundamentals
Use when writing or modifying Bash/shell scripts. Covers script structure, variables, quoting, conditionals, and loops with modern best practices.
What this skill does
# Shell Scripting Fundamentals
Core patterns and best practices for writing robust, maintainable shell scripts.
## Script Structure
Always start scripts with a proper shebang and safety options:
```bash
#!/usr/bin/env bash
set -euo pipefail
# Script description here
```
### Safety Options Explained
- `set -e`: Exit on any command failure
- `set -u`: Error on undefined variables
- `set -o pipefail`: Pipeline fails if any command fails
## Variables
### Declaration and Assignment
```bash
# No spaces around =
name="value"
# readonly for constants
readonly CONFIG_DIR="/etc/myapp"
# local in functions
my_function() {
local result="computed"
echo "$result"
}
```
### Always Quote Variables
```bash
# Good - prevents word splitting and glob expansion
echo "$variable"
cp "$source" "$destination"
# Bad - can break on spaces or special characters
echo $variable
cp $source $destination
```
### Default Values
```bash
# Use default if unset
name="${NAME:-default}"
# Use default if unset or empty
name="${NAME:-}"
# Assign default if unset
: "${NAME:=default}"
# Error if unset
: "${REQUIRED_VAR:?Error: REQUIRED_VAR must be set}"
```
## Conditionals
### Test Syntax
```bash
# Modern syntax - preferred
if [[ -f "$file" ]]; then
echo "File exists"
fi
# String comparison
if [[ "$string" == "value" ]]; then
echo "Match"
fi
# Numeric comparison
if (( count > 10 )); then
echo "Greater than 10"
fi
# Regex matching
if [[ "$input" =~ ^[0-9]+$ ]]; then
echo "Numeric input"
fi
```
### Common Test Operators
| Operator | Description |
|----------|-------------|
| `-f` | File exists and is regular file |
| `-d` | Directory exists |
| `-e` | Path exists |
| `-r` | Readable |
| `-w` | Writable |
| `-x` | Executable |
| `-z` | String is empty |
| `-n` | String is not empty |
## Loops
### For Loops
```bash
# Iterate over list
for item in one two three; do
echo "$item"
done
# Iterate over files (use glob, not ls)
for file in *.txt; do
[[ -e "$file" ]] || continue # Handle no matches
process "$file"
done
# C-style for loop
for (( i = 0; i < 10; i++ )); do
echo "$i"
done
```
### While Loops
```bash
# Read lines from file
while IFS= read -r line; do
echo "$line"
done < "$filename"
# Read with process substitution
while IFS= read -r line; do
echo "$line"
done < <(some_command)
```
## Arrays
```bash
# Declare array
declare -a files=()
# Add elements
files+=("file1.txt")
files+=("file2.txt")
# Iterate all elements
for file in "${files[@]}"; do
echo "$file"
done
# Get array length
echo "${#files[@]}"
# Access by index
echo "${files[0]}"
```
## Command Substitution
```bash
# Modern syntax - preferred
result=$(command)
# Nested substitution
result=$(echo $(date))
# Avoid legacy backticks
result=`command` # Don't use this
```
## Functions
```bash
# Function definition
process_file() {
local file="$1"
local output_dir="${2:-./output}"
if [[ ! -f "$file" ]]; then
echo "Error: File not found: $file" >&2
return 1
fi
# Process the file
cp "$file" "$output_dir/"
}
# Call with arguments
process_file "input.txt" "/tmp/output"
```
## Best Practices Summary
1. Always use `#!/usr/bin/env bash` for portability
2. Enable strict mode: `set -euo pipefail`
3. Quote all variable expansions
4. Use `[[ ]]` instead of `[ ]` for tests
5. Use `$(command)` instead of backticks
6. Declare local variables in functions
7. Use arrays for lists of items
8. Check command existence before use: `command -v cmd >/dev/null`
Related in Writing & Docs
jax-development
IncludedUse this skill when the user is writing, debugging, profiling, refactoring, reviewing, benchmarking, parallelising, exporting, or explaining JAX code, or when they mention JAX, jax.numpy, jit, grad, value_and_grad, vmap, scan, lax, random keys, pytrees, jax.Array, sharding, Mesh, PartitionSpec, NamedSharding, pmap, shard_map, Pallas, XLA, StableHLO, checkify, profiler, or the JAX repo. It helps turn NumPy or PyTorch-style code into pure functional JAX, fix tracer/control-flow/shape/PRNG bugs, remove recompiles and host-device syncs, choose transforms and sharding strategies, inspect jaxpr/lowering/IR, and benchmark compiled code correctly.
nature-article-writer
IncludedDrafts, rewrites, diagnostically critiques, and style-calibrates primary research manuscripts for Nature and Nature Portfolio journals. Use when the user wants a Nature-style title, summary paragraph or abstract, introduction, results, discussion, methods, figure legends, presubmission enquiry, cover letter, reviewer response, or when a scientific draft sounds generic, jargon-heavy, structurally weak, or AI-ish and needs precise, broad-reader-friendly prose without inventing data, analyses, or references. Best for primary research articles and letters rather than reviews or press releases unless explicitly adapting one.
deckrd
IncludedDocument-driven framework that derives requirements, specifications, implementation plans, and executable tasks from goals through structured AI dialogue. Use when user says "write requirements", "create spec", "plan implementation", "derive tasks", "structure this feature", "break down into tasks", or "document this module". Also use for reverse engineering existing code into docs (/deckrd rev). Do NOT use for direct code writing — use /deckrd-coder after tasks are generated. Do NOT use when the user only wants to run or fix existing code without planning.
clinical-decision-support
IncludedGenerate professional clinical decision support (CDS) documents for pharmaceutical and clinical research settings, including patient cohort analyses (biomarker-stratified with outcomes) and treatment recommendation reports (evidence-based guidelines with decision algorithms). Supports GRADE evidence grading, statistical analysis (hazard ratios, survival curves, waterfall plots), biomarker integration, and regulatory compliance. Outputs publication-ready LaTeX/PDF format optimized for drug development, clinical research, and evidence synthesis.
handling-sf-data
IncludedSalesforce data operations with 130-point scoring. Use this skill to create, update, delete, bulk import/export, generate test data, and clean up org records using sf CLI and anonymous Apex. TRIGGER when: user creates test data, performs bulk import/export, uses sf data CLI commands, needs data factory patterns for Apex tests, or needs to seed/clean records in a Salesforce org. DO NOT TRIGGER when: SOQL query writing only (use querying-soql), Apex test execution (use running-apex-tests), or metadata deployment (use deploying-metadata).
accelint-ac-to-playwright
IncludedConvert and validate acceptance criteria for Playwright test automation. Use when user asks to (1) review/evaluate/check if AC are ready for automation, (2) assess if AC can be converted as-is, (3) validate AC quality for Playwright, (4) turn AC into tests, (5) generate tests from acceptance criteria, (6) convert .md bullets or .feature Gherkin files to Playwright specs, (7) create test automation from requirements. Handles both bullet-style markdown and Gherkin syntax with JSON test plan generation and validation.