fix: correct hardcoded folder paths to use underscores

- Fix transcript-extract.sh: `00 Inbox/Clippings` → `00_Inbox/Clippings/`
- Fix firecrawl-batch.sh: `00 Inbox/Clippings` → `00_Inbox/Clippings/`
- Add `-o|--output-dir` flag to firecrawl-batch.sh for custom paths
- Fix update-attachment-links.js: `05 Attachments` → `05_Attachments`
- Fix fix-renamed-links.js: `05 Attachments` → `05_Attachments`
- Fix GEMINI_VISION_QUICK_START.md example paths
- Update README.md with new flag documentation

All folder paths now match actual repo structure (underscores not spaces).
This prevents scripts from failing due to incorrect directory references.

Fixes #9

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude <noreply@anthropic.com>

.claude/mcp-servers/GEMINI_VISION_QUICK_START.md

@@ -145,7 +145,7 @@ After adding, you'll need to edit the `.mcp.json` file to add your API key:
 
 3. **Test with an actual command**:
    ```
-   Use gemini-vision to extract text from 05 Attachments/[any-image.png]
+   Use gemini-vision to extract text from 05_Attachments/[any-image.png]
    ```
 
 ## Troubleshooting
@@ -230,7 +230,7 @@ After adding, you'll need to edit the `.mcp.json` file to add your API key:
 
 2. **Check file paths**:
    - Use absolute paths from vault root
-   - Example: `05 Attachments/image.png` not `./05 Attachments/image.png`
+   - Example: `05_Attachments/image.png` not `./05_Attachments/image.png`
 
 ## Available Tools
 
@@ -240,10 +240,10 @@ Once working, you can use these in Claude:
 
 ```
 # Analyze an image
-Use gemini-vision to analyze 05 Attachments/screenshot.png
+Use gemini-vision to analyze 05_Attachments/screenshot.png
 
 # Extract text (OCR)
-Use gemini-vision to extract text from 05 Attachments/document.jpg
+Use gemini-vision to extract text from 05_Attachments/document.jpg
 
 # Compare images
 Use gemini-vision to compare image1.png and image2.png
@@ -259,7 +259,7 @@ Use gemini-vision to analyze multiple: image1.png, image2.png, image3.png
 
 ```
 # Analyze a local video file
-Use gemini-vision to analyze video 05 Attachments/video.mp4
+Use gemini-vision to analyze video 05_Attachments/video.mp4
 
 # Analyze a YouTube video
 Use gemini-vision to analyze YouTube video https://www.youtube.com/watch?v=VIDEO_ID
@@ -298,9 +298,7 @@ Then open a new Claude window and test.
 
 - **Server code**: `.claude/mcp-servers/gemini-vision.mjs`
 - **Dependencies**: `package.json`
-- **This guide**: `07 Readme/GEMINI_VISION_QUICK_START.md`
-- **Detailed docs**: `07 Readme/GEMINI_VISION_INSTALLATION.md`
-- **Development guide**: `07 Readme/MCP_DEVELOPMENT_GUIDE.md`
+- **This guide**: `.claude/mcp-servers/GEMINI_VISION_QUICK_START.md`
 
 ## Need Help?
 

.scripts/README.md

@@ -30,8 +30,13 @@ Scrapes multiple URLs and auto-generates filenames.
 
 ```bash
 # Requires FIRECRAWL_API_KEY environment variable
+
+# Basic usage - saves to 00_Inbox/Clippings/
 .scripts/firecrawl-batch.sh <url1> <url2> <url3>
-# Files saved to 00_Inbox/Clippings/
+
+# Custom output directory
+.scripts/firecrawl-batch.sh -o 01_Projects/Research/ <url1> <url2>
+.scripts/firecrawl-batch.sh --output-dir 03_Resources/Articles/ <url1> <url2>
 ```
 
 ### Transcript Extraction
@@ -41,7 +46,11 @@ Scrapes multiple URLs and auto-generates filenames.
 Extracts transcripts from YouTube videos.
 
 ```bash
+# Basic usage - saves to 00_Inbox/Clippings/
 .scripts/transcript-extract.sh <youtube-url>
+
+# Custom output directory
+.scripts/transcript-extract.sh <youtube-url> 01_Projects/Research/
 ```
 
 ## NPM Scripts

.scripts/firecrawl-batch.sh

@@ -1,16 +1,34 @@
 #!/bin/bash
 
 # Firecrawl batch scraper script
-# Usage: ./firecrawl-batch.sh <url1> <url2> ... 
+# Usage: ./firecrawl-batch.sh [-o|--output-dir <dir>] <url1> <url2> ...
 # Automatically generates filenames based on page titles and dates
 # Requires: FIRECRAWL_API_KEY environment variable
 
-# Source .zshrc to get the API key
-source ~/.zshrc
+# Default output directory
+OUTPUT_DIR="00_Inbox/Clippings/"
+URLS=()
 
-if [ $# -eq 0 ]; then
-    echo "Usage: $0 <url1> <url2> ..."
-    echo "Scrapes multiple URLs and saves them to 00 Inbox/Clippings/"
+# Parse arguments
+while [[ $# -gt 0 ]]; do
+    case $1 in
+        -o|--output-dir)
+            OUTPUT_DIR="$2"
+            shift 2
+            ;;
+        *)
+            URLS+=("$1")
+            shift
+            ;;
+    esac
+done
+
+if [ ${#URLS[@]} -eq 0 ]; then
+    echo "Usage: $0 [-o|--output-dir <dir>] <url1> <url2> ..."
+    echo "Default output directory: 00_Inbox/Clippings/"
+    echo ""
+    echo "Options:"
+    echo "  -o, --output-dir <dir>  Specify custom output directory"
     exit 1
 fi
 
@@ -21,7 +39,7 @@ fi
 
 # Get today's date
 TODAY=$(date +"%Y-%m-%d")
-CLIPPINGS_DIR="00 Inbox/Clippings"
+CLIPPINGS_DIR="$OUTPUT_DIR"
 
 # Create clippings directory if it doesn't exist
 mkdir -p "$CLIPPINGS_DIR"
@@ -41,7 +59,7 @@ SUCCESS_COUNT=0
 FAIL_COUNT=0
 
 # Process each URL
-for URL in "$@"; do
+for URL in "${URLS[@]}"; do
     echo "Processing: $URL"
     
     # Make the API call and save to temp file

.scripts/fix-renamed-links.js

@@ -23,7 +23,7 @@ if (args.length !== 2) {
 }
 
 const [oldName, newName] = args
-const newPath = `05 Attachments/Organized/${newName}`
+const newPath = `05_Attachments/Organized/${newName}`
 
 console.log(`Fixing links: ${oldName} → ${newName}`)
 
@@ -59,9 +59,9 @@ walkDir('.', (filepath) => {
     const pattern1 = new RegExp(`!\\[\\[${escapedOld}\\]\\]`, 'g')
     content = content.replace(pattern1, `![[${newPath}]]`)
 
-    // Pattern 2: ![[05 Attachments/oldname]]
+    // Pattern 2: ![[05_Attachments/oldname]]
     const pattern2 = new RegExp(
-      `!\\[\\[05 Attachments/${escapedOld}\\]\\]`,
+      `!\\[\\[05_Attachments/${escapedOld}\\]\\]`,
       'g',
     )
     content = content.replace(pattern2, `![[${newPath}]]`)
@@ -70,9 +70,9 @@ walkDir('.', (filepath) => {
     const pattern3 = new RegExp(`(?<!!)\\[\\[${escapedOld}\\]\\]`, 'g')
     content = content.replace(pattern3, `[[${newPath}]]`)
 
-    // Pattern 4: [[05 Attachments/oldname]] without !
+    // Pattern 4: [[05_Attachments/oldname]] without !
     const pattern4 = new RegExp(
-      `(?<!!)\\[\\[05 Attachments/${escapedOld}\\]\\]`,
+      `(?<!!)\\[\\[05_Attachments/${escapedOld}\\]\\]`,
       'g',
     )
     content = content.replace(pattern4, `[[${newPath}]]`)

.scripts/transcript-extract.sh

@@ -2,16 +2,16 @@
 
 # Transcript extraction script for YouTube videos
 # Usage: .scripts/transcript-extract.sh <youtube-url> [output-path]
-# Default output: 00 Inbox/Clippings/
+# Default output: 00_Inbox/Clippings/
 
 set -e
 
 URL="$1"
-OUTPUT_PATH="${2:-00 Inbox/Clippings}"
+OUTPUT_PATH="${2:-00_Inbox/Clippings/}"
 
 if [ -z "$URL" ]; then
     echo "Usage: $0 <youtube-url> [output-path]"
-    echo "Default output path: 00 Inbox/Clippings/"
+    echo "Default output path: 00_Inbox/Clippings/"
     exit 1
 fi
 

.scripts/update-attachment-links.js

@@ -11,7 +11,7 @@
 import fs from 'node:fs'
 import path from 'node:path'
 
-const organizedDir = '05 Attachments/Organized'
+const organizedDir = '05_Attachments/Organized'
 const args = process.argv.slice(2)
 const specificFile = args[0]
 
@@ -69,24 +69,24 @@ walkDir('.', (filepath) => {
       const pattern1 = new RegExp(`!\\[\\[${escapedFile}\\]\\]`, 'g')
       content = content.replace(
         pattern1,
-        `![[05 Attachments/Organized/${filename}]]`,
+        `![[05_Attachments/Organized/${filename}]]`,
       )
 
-      // Pattern 2: ![[05 Attachments/filename]] (file in root being moved)
+      // Pattern 2: ![[05_Attachments/filename]] (file in root being moved)
       const pattern2 = new RegExp(
-        `!\\[\\[05 Attachments/${escapedFile}\\]\\]`,
+        `!\\[\\[05_Attachments/${escapedFile}\\]\\]`,
         'g',
       )
       content = content.replace(
         pattern2,
-        `![[05 Attachments/Organized/${filename}]]`,
+        `![[05_Attachments/Organized/${filename}]]`,
       )
 
       // Pattern 3: [[filename]] without ! (for PDFs and other non-embedded links)
       // Only if not already pointing to Organized
       const pattern3 = new RegExp(`\\[\\[${escapedFile}\\]\\]`, 'g')
       const pattern3Organized = new RegExp(
-        `\\[\\[05 Attachments/Organized/${escapedFile}\\]\\]`,
+        `\\[\\[05_Attachments/Organized/${escapedFile}\\]\\]`,
         'g',
       )
 
@@ -94,18 +94,18 @@ walkDir('.', (filepath) => {
       if (!pattern3Organized.test(content)) {
         content = content.replace(
           pattern3,
-          `[[05 Attachments/Organized/${filename}]]`,
+          `[[05_Attachments/Organized/${filename}]]`,
         )
       }
 
-      // Pattern 4: [[05 Attachments/filename]] without !
+      // Pattern 4: [[05_Attachments/filename]] without !
       const pattern4 = new RegExp(
-        `\\[\\[05 Attachments/${escapedFile}\\]\\]`,
+        `\\[\\[05_Attachments/${escapedFile}\\]\\]`,
         'g',
       )
       content = content.replace(
         pattern4,
-        `[[05 Attachments/Organized/${filename}]]`,
+        `[[05_Attachments/Organized/${filename}]]`,
       )
     })
 

CHANGELOG.md

@@ -12,8 +12,8 @@ and this project adheres to
 
 ### Added
 
-- New `/install-claudesidian-command` for creating shell alias/function to launch
-  vault from anywhere
+- New `/install-claudesidian-command` for creating shell alias/function to
+  launch vault from anywhere
 - iCloud Drive vault detection and import support in `/init-bootstrap` (macOS
   only)
 - Fish shell support for launcher command with proper function syntax