compare

paper-deepstudy: compare workflow

Invoke after /paper:study has produced the focal paper's analysis. Each invocation produces one comparison markdown file at compares/vs-<other-slug>.md.

Required positional arg: <other-paper> (slug, paper-folder path, PDF path, or URL). Optional flags:

• --paper <slug>: set the focal paper (default: most recently modified paper folder).
• --lang en|zh: output language for the prose (default: en).

---

Stage 1: Resolve focal paper

Resolve target paper folder

Source the shared helper and resolve which paper folder this invocation targets:

source $CLAUDE_PLUGIN_ROOT/scripts/lib/resolve-paper.sh
resolve_paper "$@"
# After: $PAPER_DIR, $PAPER_SLUG, $PAPER_AUTODETECTED are set.
# If $PAPER_AUTODETECTED is "true", the helper already printed a warning to stderr.

If resolve_paper returns non-zero, abort with the helper's stderr message.

Set THIS_PAPER_DIR=$PAPER_DIR and THIS_SLUG=$PAPER_SLUG.

Verify $THIS_PAPER_DIR/analysis/00-paper-profile.md exists. If not, abort: "Focal paper has no analysis directory. Run /paper:study first."

---

Stage 2: Resolve other paper (handle 4 input types)

<other-paper> is the first positional argument. Detect its kind:

Pattern	Kind
Starts with http:// or https://	URL
Ends in .pdf (case-insensitive)	PDF path
Contains / and matches ~/claude-papers/papers/<slug>	existing paper folder path
Otherwise (no / and no .pdf suffix)	slug

2.1 If kind = slug

Set OTHER_PAPER_DIR=~/claude-papers/papers/<other-paper>. Verify it exists with analysis/00-paper-profile.md. If not, abort: "<slug> has no analysis directory in ~/claude-papers/papers/. Run /paper:study <slug> first or pass a PDF/URL to auto-study."

2.2 If kind = paper folder path

Strip trailing /. Set OTHER_PAPER_DIR=<the-path>. Verify analysis exists.

2.3 If kind = PDF path or URL — auto-study

Inform the user (in their invocation language):

The other paper has not been studied yet. Auto-studying it now via /paper:study; this may take a few minutes.

Invoke /paper:study via the Skill tool:

Skill(skill: "paper-deepstudy:study-deep", args: "<other-paper> --yes")

(--yes skips the Stage 0 confirmation prompt for the auto-detected profile, since we don't want a second user-interaction during a compare invocation.)

After it returns, locate the new paper folder (most recently modified):

source $CLAUDE_PLUGIN_ROOT/scripts/lib/resolve-paper.sh
resolve_paper
OTHER_PAPER_DIR="$PAPER_DIR"

Verify it's a different folder from THIS_PAPER_DIR (defensive). If they match, abort: "Auto-study did not produce a distinct paper folder. Check /paper:study output."

2.4 Set OTHER_SLUG

OTHER_SLUG=$(basename $OTHER_PAPER_DIR).

---

Stage 3: Resolve language flag and output path

Source the log-dispatch helper and extract plugin version:

source $CLAUDE_PLUGIN_ROOT/scripts/lib/log-dispatch.sh
PLUGIN_VERSION=$(grep -m1 '"version"' $CLAUDE_PLUGIN_ROOT/.claude-plugin/plugin.json | sed -E 's/.*"version"[^"]*"([^"]+)".*/\1/')

Capture --lang en or --lang zh (default en). Set LANG=english or LANG=chinese.

COMPARES_DIR="$THIS_PAPER_DIR/compares"
mkdir -p "$COMPARES_DIR"
OUTPUT_PATH="$COMPARES_DIR/vs-${OTHER_SLUG}.md"

If OUTPUT_PATH already exists, back it up to <file>.bak.NN first:

NN=1
while [ -e "$OUTPUT_PATH.bak.$NN" ]; do
  NN=$((NN + 1))
done
cp "$OUTPUT_PATH" "$OUTPUT_PATH.bak.$NN"

(If OUTPUT_PATH doesn't exist yet, skip the backup.)

---

Stage 4: Dispatch compare-agent

Agent(
  description: "compare-agent: <THIS_SLUG> vs <OTHER_SLUG>",
  subagent_type: "general-purpose",
  prompt: <contents of $PLUGIN_ROOT/prompts/compare-agent.md> + concrete inputs:
    THIS_ANALYSIS_DIR=$THIS_PAPER_DIR/analysis
    OTHER_ANALYSIS_DIR=$OTHER_PAPER_DIR/analysis
    THIS_SLUG=$THIS_SLUG
    OTHER_SLUG=$OTHER_SLUG
    OUTPUT_PATH=$OUTPUT_PATH
    TEMPLATE_PATH=$PLUGIN_ROOT/templates/compare.md
    LANG=$LANG
    PLUGIN_VERSION=$PLUGIN_VERSION
)

Wait for completion. Log the dispatch:

log_dispatch compare-agent compares/vs-${OTHER_SLUG}.md ok

If the agent produced no output: log_dispatch compare-agent compares/vs-${OTHER_SLUG}.md failed

---

Stage 5: Verify and report

If $OUTPUT_PATH does not exist or is empty, restore from backup (if a backup exists) and report failure:

if [ ! -s "$OUTPUT_PATH" ] && [ -e "$OUTPUT_PATH.bak.$NN" ]; then
  cp "$OUTPUT_PATH.bak.$NN" "$OUTPUT_PATH"
  echo "WARN: compare-agent produced empty output; restored from backup."
fi

Otherwise, print to chat (in user's invocation language):

✓ Comparison complete.
  This:  <THIS_SLUG>
  Other: <OTHER_SLUG>
  Output: $OUTPUT_PATH
  Language: $LANG
  Length: <wc -w on the file> words

Run /paper:compare again with a different paper to add another comparison.

---

Notes

• Translation: Chat-facing prose (status messages, errors, final summary) is rendered in the user's invocation language. The compare output file itself is English by default, Chinese if --lang zh was set.
• Auto-study side effect: When <other-paper> is a PDF path or URL, this skill auto-studies the other paper via /paper:study --yes. That produces the full Plan 1 outputs for the other paper (12 artifacts), not just the analysis directory. The auto-study is a documented side effect — once-per-paper.
• Idempotence: Each invocation backs up an existing compares/vs-<other-slug>.md to .bak.NN before overwriting. Same-pair comparisons accumulate as .bak.1, .bak.2, etc.