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config/a1_science_biology_standardized.yaml

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+operators:
+- id: load_hf
+  config:
+    type: hf_source
+    dataset: AdapterOcean/biology_dataset_standardized_unified
+    split: train
+- id: rename_task_column
+  config:
+    type: function
+    function: data_strategies.commons.force_rename_columns
+    function_config:
+      column_maps:
+        text: instruction_seed
+  input_ids:
+  - load_hf
+- id: sample_dataset_pre
+  config:
+    type: function
+    function: data_strategies.commons.upsample_dataset
+    function_config:
+      num_samples: 40_000
+  input_ids:
+  - rename_task_column
+- id: annotate_r1_distill_70b
+  config:
+    type: completions
+    map: deepseek_reasoner
+    map_config:
+      input_problem_column: instruction_seed
+    model: deepseek-reasoner
+    batch: false
+    temperature: 1.0
+    require_all_responses: false
+    backend: openai
+    backend_params:
+      max_requests_per_minute: 500
+      max_tokens_per_minute: 1_000_000_000
+      base_url: "https://api.deepseek.com/"
+      invalid_finish_reasons: ['content_filter']
+  input_ids:
+    - sample_dataset_pre
+- id: add_source_name
+  config:
+    type: function
+    function: data_strategies.commons.add_constant_columns
+    function_config:
+      source: "AdapterOcean/biology_dataset_standardized_unified"
+  input_ids:
+  - annotate_r1_distill_70b
+- id: decontaminate
+  config:
+    type: cpu_function
+    sharded: false
+    num_cpus: 32
+    function:  data_strategies._A1_Source.utils.decontaminate_fuzzy_w_ngram
+    function_config:
+      column: instruction_seed
+      eval_datasets:
+        - HuggingFaceH4/MATH-500
+        - Maxwell-Jia/AIME_2024
+        - AI-MO/aimo-validation-amc
+        - livecodebench/code_generation_lite
+        - mlfoundations-dev/AIME2025_combined
+        - cais/hle
+        - open-r1/codeforces
+        - Idavidrein/gpqa
+        - daman1209arora/jeebench
+        - mlfoundations-dev/mmlu_pro_eval_full
+        - Qwen/CodeElo
+        - open-r1/ioi
+      eval_columns:
+        - problem
+        - Problem
+        - problem
+        - question_content
+        - question
+        - question
+        - description
+        - Question
+        - question
+        - prompt
+        - description
+        - statement
+      eval_splits:
+        - test
+        - train
+        - train
+        - test
+        - train
+        - test
+        - test
+        - train
+        - test
+        - test
+        - test
+        - test
+      eval_subsets:
+        Idavidrein/gpqa: gpqa_diamond
+      similarity_threshold: 75.0
+      ngram_size: 13
+  input_ids:
+  - add_source_name
+- id: remove_duplicates
+  config:
+    type: function
+    function: data_strategies._A1_Source.utils.remove_duplicates
+    function_config:
+      column_name: instruction_seed
+  input_ids:
+  - decontaminate
+- id: sample_dataset
+  config:
+    type: function
+    function: data_strategies.commons.upsample_dataset
+    function_config:
+      num_samples: 31_600  # 1.25% of 10000 target from stage 1
+  input_ids: ["remove_duplicates"]
+- id: convert_reasoning_trace_to_final
+  config:
+    type: function
+    function: data_strategies.commons.convert_reasoning_trace_to_final
+    function_config:
+      reasoning_column: reasoning
+      solution_column: deepseek_solution
+      output_column: final_reasoning_trace
+  input_ids:
+  - sample_dataset
+- id: convert_to_sharegpt
+  config:
+    type: function
+    function: data_strategies.commons.convert_instruction_response_to_sharegpt
+    function_config:
+      input_instruction_column: instruction_seed
+      input_response_column: final_reasoning_trace
+      output_sharegpt_column: conversations
+  input_ids:
+    - convert_reasoning_trace_to_final