thinkpack 0.2.1

A framework for training, parsing, and evaluating explicit reasoning models — focused on reasoning collapse.

ThinkPack

A lightweight framework for reasoning-aware training, parsing, and evaluation of explicit reasoning language models. Focussed on the characterisation and mitigation of reasoning-trace collapse.

ThinkPack provides four focused modules:

• 💬 Chat templating (thinkpack.chat) — applies chat templates with optional thought-steering and reasoning history embedding.
• 🔍 Response parsing (thinkpack.parse) — splits raw model output into reasoning and answer components, with flags for presence, validity, and truncation.
• 📊 Statistics (thinkpack.stats) — aggregates parsed responses into VR, ER, TR, MR, and Rpass@1, making reasoning-trace collapse measurable.
• 🎭 Loss masking (thinkpack.mask) — the core method; prevents reasoning-trace collapse during fine-tuning by masking think blocks from the loss.

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reasoning-trace collapse

Reasoning collapse is the progressive loss of a model's ability to produce valid reasoning traces during fine-tuning. A model may still answer correctly, but stop producing a complete reasoning trace:

before fine-tuning:  x → <think> reasoning </think> answer
after naive SFT:     x → <think> </think> answer
or simply:           x → answer

This can happen when a reasoning model is adapted with ordinary instruction–response data that contains final answers, but no explicit reasoning traces. Standard supervised fine-tuning then gives the model a clear signal to produce the answer, but no signal to preserve the reasoning structure it learned during post-training.

ThinkPack helps make this behaviour visible by parsing outputs into reasoning and answer segments, then tracking whether reasoning is:

• valid: complete, non-empty, and extractable
• empty: delimiters are present, but contain no reasoning
• truncated: reasoning starts, but does not close
• missing: no reasoning trace can be extracted

It also supports reasoning-aware loss masking, so you can fine-tune on non-reasoning data without directly rewarding the model for producing empty or missing reasoning.

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installation

Requires Python 3.11+, install directly from PyPI:

pip install thinkpack

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modules

thinkpack.chat — Chat templating

A model-aware wrapper around tokenizer.apply_chat_template(). Handles reasoning tag injection, thought-steering, and reasoning history embedding uniformly across all model types — no manual per-model configuration needed.

# basic usage — applies the correct template for the model automatically
prompt = thinkpack.apply_chat_template(
    conversation=conversation,  # list of {"role": ..., "content": ...} dicts
    tokenizer=tokenizer,
)

# thought-steering — seed the model's reasoning before generation
prompt = thinkpack.apply_chat_template(
    conversation=conversation,
    tokenizer=tokenizer,
    think_prefix="Let me break this down step by step.",  # seeds reasoning block
    response_prefix="The answer is",                       # seeds final response
)

# embed reasoning into assistant messages for multi-turn conversations
conversation = [
    {"role": "user", "content": "What is 2 + 2?"},
    {"role": "assistant", "reasoning": "2 + 2 = 4", "content": "4"},
    {"role": "user", "content": "And 3 + 3?"},
]
prompt = thinkpack.apply_chat_template(conversation=conversation, tokenizer=tokenizer)

# batch variant accepts a list of conversations
prompts = thinkpack.apply_chat_templates(conversations=conversations, tokenizer=tokenizer)

The add_generation_reasoning parameter controls the reasoning tag in the generation prompt:

Value	Effect
True (default)	Ensure the opening reasoning tag is present — add it if needed
False	Ensure no opening tag — strip it if a prefixed template injected one
None	Leave the template output unchanged

See examples/notebooks/apply_chat.ipynb for interactive examples.

---

thinkpack.parse — Response parsing

Parse raw model outputs into structured components. Each ParsedResponse carries flags that directly support reasoning-trace collapse analysis.

# single response
parsed = thinkpack.parse(response=raw_text, tokenizer=tokenizer)
parsed.answer                   # str — text after the closing reasoning tag
parsed.reasoning                # str — content of the reasoning block
parsed.has_valid_reasoning      # bool — non-empty, completed reasoning block (→ VR)
parsed.has_missing_reasoning    # bool — no reasoning block found at all
parsed.has_truncated_reasoning  # bool — reasoning block opened but never closed
parsed.has_empty_reasoning      # bool — reasoning block opened and closed, but blank

# batch of responses (list accepted directly)
parsed_list = thinkpack.parse(response=responses, tokenizer=tokenizer)

Handles all four output formats:

Format	Example
Standard	<think>reasoning</think>answer
Prefixed template	reasoning</think>answer (opening tag injected by template)
Truncated standard	<think>reasoning... (no closing tag)
Truncated prefixed	reasoning... (detected automatically for prefixed models)

Recognises tag variants: think, thinking, reasoning, thought (case-insensitive).

See examples/notebooks/parse_and_stats.ipynb for interactive examples.

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thinkpack.stats — Response statistics

Aggregates a batch of parsed responses into counts, exposing the structural metrics used to measure reasoning-trace collapse.

parsed_list = thinkpack.parse(response=responses, tokenizer=tokenizer)
s = thinkpack.compute_stats(responses=parsed_list)

# reasoning-trace collapse metrics — all rates in [0, 1]
s.valid_reasoning_rate     # float — VR: fraction with complete, non-blank reasoning
s.missing_reasoning_rate   # float — MR: fraction with no reasoning block at all
s.total                    # int — total responses

# additional breakdown
s.truncated_reasoning_rate  # float — TR: block opened but never closed
s.empty_reasoning_rate      # float — ER: block opened and closed, but blank
s.answer_rate               # float — fraction with a non-blank answer

valid_reasoning_rate and the three invalid sub-types (ER, TR, MR) sum to 1.

Key metrics for the paper:

Metric	Definition	Interpretation
VR	valid_reasoning_rate	Fraction with structurally valid reasoning (primary structural metric)
ER	empty_reasoning_rate	Fraction with an empty reasoning block (delimiters present, no content)
TR	truncated_reasoning_rate	Fraction where reasoning starts but is never closed
MR	missing_reasoning_rate	Fraction with no reasoning block at all
pass@1	accuracy on first sample	Standard answer correctness
Rpass@1	accuracy among VR=True samples	Accuracy conditioned on valid reasoning

Reasoning collapse is observable as VR → 0 over training steps or data size.

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thinkpack.mask — Training-time loss masking

The core method. When fine-tuning a reasoning model, apply_mask() formats training records into a pretokenized HuggingFace dataset with selected sections excluded from the loss. Masking the think block prevents the model from learning to skip it.

import thinkpack

# masking-based SFT — prevents reasoning-trace collapse
dataset = thinkpack.apply_mask(
    conversations=conversations,  # list of conversation dicts with "role" and "content" keys
    tokenizer=tokenizer,
    masked=thinkpack.MaskType.THINK,  # mask the think block from the loss
)

# naive SFT — causes reasoning-trace collapse (use as baseline)
naive_dataset = thinkpack.apply_mask(
    conversations=conversations,
    tokenizer=tokenizer,
    masked=None,  # no masking — all tokens contribute to the loss
)

The masked parameter is a composable flag — combine sections with |:

Value	Effect
MaskType.THINK	Think block hidden from loss; model trains on prompt + response
MaskType.PROMPT | MaskType.THINK	Train on response only
None	No masking; all tokens contribute to the loss (naive baseline)

See examples/notebooks/loss_masking.ipynb for interactive examples.

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agent skill

thinkpack ships with an llms.txt file and a CLI command to install it as an agent skill in your project. This gives AI coding assistants (Claude Code, Cursor, Windsurf) immediate, accurate context about the library.

Install the skill for your preferred tool from your project root:

thinkpack skill --tool claude     # .claude/commands/thinkpack.md
thinkpack skill --tool cursor     # .cursor/rules/thinkpack.mdc
thinkpack skill --tool windsurf   # .windsurf/rules/thinkpack.md

Or print the raw llms.txt content to stdout:

thinkpack skill

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contributing

Contributions are welcome! See CONTRIBUTING.md for how to get involved, and DEVELOPMENT.md for environment setup.