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Functions951 in github.com/HKUDS/AI-Researcher

↓ 2 callersMethodset_end
(self, end)
research_agent/inno/workflow/flowgraph.py:186
↓ 2 callersMethodset_start
(self, start)
research_agent/inno/workflow/flowgraph.py:182
↓ 2 callersFunctionsetup_dataset
(category: str, local_workplace: str)
research_agent/inno/environment/utils.py:21
↓ 2 callersFunctionsingle_select_menu
(options, message: str = "")
research_agent/inno/util.py:79
↓ 2 callersFunctionsp_mat_to_torch_sparse
Convert scipy sparse matrix to torch sparse tensor
examples/hgcl/project/data_processing/dataset.py:50
↓ 2 callersFunctionsparse_dropout
(mat, dropout)
examples/dccf/project/model/utils.py:27
↓ 2 callersFunctionspmm
(sp, emb, device)
examples/dccf/project/model/utils.py:35
↓ 2 callersFunctiontruncate_text
Truncate text to fit within token limit.
benchmark_collection/utils/pdf_utils.py:344
↓ 2 callersFunctionunpickle
(file)
examples/rotation_vq/project/data_processing/cifar10.py:7
↓ 2 callersMethodupdate_nodes
(self, nodes)
research_agent/inno/workflow/flowgraph.py:36
↓ 2 callersMethodvelocity_field
Compute velocity field v_θ(t, x_t)
examples/con_flowmatching/project/model/resnet_velocity.py:128
↓ 2 callersFunctionwrite_file_in_chunks
(file_content, output_path, env: DockerEnv, chunk_size=100000)
research_agent/inno/tools/terminal_tools.py:152
↓ 1 callersMethod__init__
(self, in_features, out_features, dropout=0.5)
examples/gnn_nodeformer/project/model/graph_model.py:12
↓ 1 callersMethod__init__
(self, velocity_net, sigma_min=0.1, n_steps=100)
examples/con_flowmatching/project/model/network.py:33
↓ 1 callersMethod__init__
(self, in_channels, out_channels)
examples/rotation_vq/project/model/vqvae.py:7
↓ 1 callersMethod__init__
(self, message)
research_agent/inno/fn_call_converter.py:22
↓ 1 callersMethod__init__
(self, project_path: str, db_name: str = '.sa', platform: str = 'OpenAI', api_key: str = None, embedding_model
research_agent/inno/memory/code_memory.py:8
↓ 1 callersMethod__init__
(self, model: str = None)
research_agent/inno/memory/codetree_memory.py:90
↓ 1 callersMethod__init__
(self, browsergym_eval_env: str | None = None, local_root: str | None = None, workplace_name: str | None = Non
research_agent/inno/environment/browser_env.py:347
↓ 1 callersMethod__init__
( self, requests_session: Optional[requests.Session] = None, mlm_client: O
research_agent/inno/environment/mdconvert.py:814
↓ 1 callersMethod__init__
( self, requests_session: Optional[requests.Session] = None, mlm_client: Optional[Any]
research_agent/inno/environment/markdown_browser/mdconvert.py:807
↓ 1 callersMethod_aggregate_embeddings
(self)
examples/dccf/project/model/intentgcl.py:108
↓ 1 callersMethod_api_search
Search Bing using the API, and return the results formatted in Markdown. Args: query: The search query to issue Returns:
research_agent/inno/environment/markdown_browser/markdown_search.py:72
↓ 1 callersMethod_bing_api_call
Make a Bing API call, and return a Python representation of the JSON response." Args: query: The search query to issue R
research_agent/inno/environment/markdown_browser/markdown_search.py:214
↓ 1 callersMethod_clean_references
Clean reference section formatting.
benchmark_collection/utils/pdf_utils.py:133
↓ 1 callersMethod_clean_text
Clean and format the text.
benchmark_collection/utils/pdf_utils.py:290
↓ 1 callersMethod_convert_local_to_docker
(self, path: str)
research_agent/inno/environment/markdown_browser/requests_markdown_browser.py:141
↓ 1 callersMethod_detect_and_split_columns
Detect and split text into columns.
benchmark_collection/utils/pdf_utils.py:243
↓ 1 callersFunction_encode_image
Encode an image to base64.
research_agent/inno/tools/file_surfer_tool.py:131
↓ 1 callersFunction_extract_and_validate_params
( matching_tool: dict, param_matches: Iterable[re.Match], fn_name: str )
research_agent/inno/fn_call_converter.py:489
↓ 1 callersMethod_extract_equations
Extract mathematical equations from text.
benchmark_collection/utils/pdf_utils.py:79
↓ 1 callersMethod_extract_figures
Extract figures and their captions.
benchmark_collection/utils/pdf_utils.py:109
↓ 1 callersMethod_extract_references
Extract references section.
benchmark_collection/utils/pdf_utils.py:121
↓ 1 callersMethod_extract_special_elements
Extract equations, tables, figures, and references.
benchmark_collection/utils/pdf_utils.py:282
↓ 1 callersMethod_extract_tables
Extract tables from text.
benchmark_collection/utils/pdf_utils.py:96
↓ 1 callersMethod_extract_text_with_fallback
Try multiple extraction methods with fallback.
benchmark_collection/utils/pdf_utils.py:192
↓ 1 callersMethod_extract_with_columns
Extract text with column awareness.
benchmark_collection/utils/pdf_utils.py:221
↓ 1 callersMethod_extract_with_layout
Extract text while preserving layout.
benchmark_collection/utils/pdf_utils.py:213
↓ 1 callersMethod_fallback_search
When no Bing API key is provided, we issue a simple HTTPs GET call to the Bing landing page and convert it to Markdown. Args: que
research_agent/inno/environment/markdown_browser/markdown_search.py:246
↓ 1 callersMethod_fetch_local_dir
Render a local directory listing in HTML to assist with local file browsing via the "file://" protocol. Through rendered in HTML, later parts
research_agent/inno/environment/markdown_browser/requests_markdown_browser.py:452
↓ 1 callersMethod_fetch_page
Fetch a page using the requests library. Then convert it to Markdown, and set `page_content` (which splits the content into pages as necessary.
research_agent/inno/environment/markdown_browser/requests_markdown_browser.py:327
↓ 1 callersMethod_findKey
(self, json: Any, key: str)
research_agent/inno/environment/mdconvert.py:360
↓ 1 callersMethod_findKey
(self, json: Any, key: str)
research_agent/inno/environment/markdown_browser/mdconvert.py:350
↓ 1 callersMethod_find_introduction
Find the starting position of the introduction section.
benchmark_collection/utils/pdf_utils.py:51
↓ 1 callersMethod_get_mlm_description
(self, local_path, extension, client, model, prompt=None)
research_agent/inno/environment/mdconvert.py:769
↓ 1 callersMethod_get_mlm_description
(self, local_path, extension, client, model, prompt=None)
research_agent/inno/environment/markdown_browser/mdconvert.py:762
↓ 1 callersMethod_get_response
(self, messages: list, temperature: float, max_tokens: int)
benchmark_collection/utils/openai_utils.py:44
↓ 1 callersMethod_has_merged_columns
Check if text has incorrectly merged columns.
benchmark_collection/utils/pdf_utils.py:230
↓ 1 callersMethod_is_picture
(self, shape)
research_agent/inno/environment/mdconvert.py:576
↓ 1 callersMethod_is_picture
(self, shape)
research_agent/inno/environment/markdown_browser/mdconvert.py:569
↓ 1 callersMethod_is_section_title
Enhanced section title detection.
benchmark_collection/utils/pdf_utils.py:318
↓ 1 callersMethod_is_table
(self, shape)
research_agent/inno/environment/mdconvert.py:584
↓ 1 callersMethod_is_table
(self, shape)
research_agent/inno/environment/markdown_browser/mdconvert.py:577
↓ 1 callersMethod_load_cache
(self)
benchmark_collection/0_crawl_paper.py:36
↓ 1 callersMethod_load_progress
(self)
benchmark_collection/0_crawl_paper.py:151
↓ 1 callersMethod_merge_columns
Merge columns with proper formatting.
benchmark_collection/utils/pdf_utils.py:271
↓ 1 callersMethod_message_passing
(self, layer_idx)
examples/dccf/project/model/intentgcl.py:62
↓ 1 callersMethod_print_assistant_message
(self, message, timestamp: str)
research_agent/inno/logger.py:66
↓ 1 callersMethod_print_tool_call
(self, tool_calls: List, timestamp: str)
research_agent/inno/logger.py:75
↓ 1 callersMethod_print_tool_execution
(self, message, timestamp: str)
research_agent/inno/logger.py:57
↓ 1 callersMethod_process_text
Process and clean extracted text.
benchmark_collection/utils/pdf_utils.py:275
↓ 1 callersMethod_register_hooks
(self)
examples/rotation_vq/project/run_visualization_experiments.py:21
↓ 1 callersFunction_register_signal_handler
(sig: signal.Signals)
research_agent/inno/environment/shutdown_listener.py:16
↓ 1 callersMethod_remove_pre_introduction
Remove content before the introduction section.
benchmark_collection/utils/pdf_utils.py:59
↓ 1 callersMethod_restore_special_elements
Restore extracted special elements to the text.
benchmark_collection/utils/pdf_utils.py:330
↓ 1 callersMethod_save_assistant_message
(self, message, timestamp: str)
research_agent/inno/logger.py:71
↓ 1 callersMethod_save_cache
(self)
benchmark_collection/0_crawl_paper.py:45
↓ 1 callersMethod_save_tool_call
(self, tool_calls: List, timestamp: str)
research_agent/inno/logger.py:83
↓ 1 callersMethod_save_tool_execution
(self, message, timestamp: str)
research_agent/inno/logger.py:63
↓ 1 callersMethod_simple_extraction
Simple PDF text extraction method.
benchmark_collection/utils/pdf_utils.py:66
↓ 1 callersMethod_split_pages
Split the page contents into pages that are approximately the viewport size. Small deviations are permitted to ensure words are not broken.
research_agent/inno/environment/markdown_browser/requests_markdown_browser.py:309
↓ 1 callersFunctionablation_study
Run comprehensive ablation study.
examples/gnn_nodeformer/project/experiments/run_ablation_study.py:90
↓ 1 callersMethodadapt_levels
(self, quantization_loss)
examples/fsq/project/run_adaptive_quantization.py:22
↓ 1 callersMethodadd_code_files
Add all code files in the specified directory to the memory. Args: directory (str): The directory path containin
research_agent/inno/memory/code_memory.py:12
↓ 1 callersMethodadd_dataframe
(self, df: pd.DataFrame, collection: str = None, batch_size: int = 100)
research_agent/inno/memory/tool_memory.py:29
↓ 1 callersMethodadd_paper_content
(self, paper_content: str, batch_size: int = 100, collection = None)
research_agent/inno/memory/paper_memory.py:28
↓ 1 callersFunctionadjust_markdown_headers
调整markdown标题级别,确保不与主标题冲突
web_ai_researcher.py:211
↓ 1 callersFunctionanalyze_representation_evolution
Analyze how representations evolve during diffusion process
examples/gnn_difformer/project/run_visualization_study.py:89
↓ 1 callersFunctionanalyze_results
Analyze and visualize all experimental results.
examples/gnn_nodeformer/project/experiments/analyze_results.py:98
↓ 1 callersFunctionanonymize_paper
Anonymize a paper and its source papers
benchmark_collection/1_create_inno_graph.py:284
↓ 1 callersMethodbounding_function
Project encoder output to bounded range using temperature-scaled tanh. Args: z (torch.Tensor): Encoder output tensor Retu
examples/fsq/project/model/quantization.py:37
↓ 1 callersMethodcalc_bpr_loss
Calculate Bayesian Personalized Ranking loss
examples/hgcl/project/model/contrastive_model.py:46
↓ 1 callersMethodcalc_ssl_loss
Calculate contrastive loss for self-supervised learning
examples/hgcl/project/model/contrastive_model.py:31
↓ 1 callersMethodcalculate_fid
Calculate FID score between real and generated images. Args: real_images: Batch of real images generated_imag
examples/fsq/project/testing/evaluator.py:43
↓ 1 callersMethodcalculate_loss
Calculate total loss combining BPR and contrastive loss
examples/hgcl/project/model/contrastive_model.py:58
↓ 1 callersFunctioncase_resolved
Use this function when the case is resolved and no further actions are needed. Please encapsulate your final answer (answer ONLY) within <solutio
research_agent/inno/tools/inner.py:4
↓ 1 callersMethodcheck_alive
(self, timeout: float = 60)
research_agent/inno/environment/browser_env.py:561
↓ 1 callersMethodcheck_auth
Check if the token is valid
research_agent/inno/tools/github_client.py:27
↓ 1 callersMethodcheck_cache
(self, agent_name, iter_times: int = None)
research_agent/inno/workflow/flowcache.py:54
↓ 1 callersMethodcheck_cache
(self, tool_name: str)
research_agent/inno/workflow/flowcache.py:95
↓ 1 callersFunctioncheck_container_ports
check if the container has port mapping return format: - if the container exists and has port mapping: '0.0.0.0:12345->12345/tcp' - i
research_agent/inno/environment/docker_env.py:223
↓ 1 callersFunctionchunking_by_token_size
( content: str, overlap_token_size=128, max_token_size=1024, tiktoken_model="gpt-4o" )
research_agent/inno/memory/utils.py:18
↓ 1 callersFunctionclean_latex_string
(text)
benchmark/process/dataset_candidate/reasoning/math_reasoning/get_score.py:65
↓ 1 callersFunctionclean_tex_file
清理 .tex 文件开头和结尾包含 ``` 的行
paper_agent/writing_fix.py:3
↓ 1 callersFunctionclean_tex_files_in_folder
遍历文件夹,处理所有 .tex 文件
paper_agent/writing_fix.py:24
↓ 1 callersFunctionclean_title
Replace all punctuation with spaces and clean up multiple spaces
benchmark_collection/1_create_inno_graph.py:25
↓ 1 callersFunctionclean_title
Replace all punctuation with spaces and clean up multiple spaces
benchmark_collection/0_crawl_paper.py:273
↓ 1 callersFunctioncomparative_study
Run comparative study across datasets.
examples/gnn_nodeformer/project/experiments/run_comparative_study.py:98
↓ 1 callersFunctioncompile_latex_project
编译包含多个文件的LaTeX项目 Args: project_dir (str): 项目目录的路径 main_tex_file (str): 主tex文件的名称
paper_agent/tex_writer_ori.py:6
↓ 1 callersFunctioncompile_latex_project
(project_dir, main_tex_file)
paper_agent/tex_writer.py:64
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