@synsci/cli-darwin-x64 1.1.97 → 1.1.99

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (1549) hide show
  1. package/bin/synsc +0 -0
  2. package/package.json +1 -1
  3. package/bin/skills/accelerate/SKILL.md +0 -332
  4. package/bin/skills/accelerate/references/custom-plugins.md +0 -453
  5. package/bin/skills/accelerate/references/megatron-integration.md +0 -489
  6. package/bin/skills/accelerate/references/performance.md +0 -525
  7. package/bin/skills/adaptyv/SKILL.md +0 -114
  8. package/bin/skills/adaptyv/reference/api_reference.md +0 -308
  9. package/bin/skills/adaptyv/reference/examples.md +0 -913
  10. package/bin/skills/adaptyv/reference/experiments.md +0 -360
  11. package/bin/skills/adaptyv/reference/protein_optimization.md +0 -637
  12. package/bin/skills/aeon/SKILL.md +0 -374
  13. package/bin/skills/aeon/references/anomaly_detection.md +0 -154
  14. package/bin/skills/aeon/references/classification.md +0 -144
  15. package/bin/skills/aeon/references/clustering.md +0 -123
  16. package/bin/skills/aeon/references/datasets_benchmarking.md +0 -387
  17. package/bin/skills/aeon/references/distances.md +0 -256
  18. package/bin/skills/aeon/references/forecasting.md +0 -140
  19. package/bin/skills/aeon/references/networks.md +0 -289
  20. package/bin/skills/aeon/references/regression.md +0 -118
  21. package/bin/skills/aeon/references/segmentation.md +0 -163
  22. package/bin/skills/aeon/references/similarity_search.md +0 -187
  23. package/bin/skills/aeon/references/transformations.md +0 -246
  24. package/bin/skills/alphafold-database/SKILL.md +0 -513
  25. package/bin/skills/alphafold-database/references/api_reference.md +0 -423
  26. package/bin/skills/anndata/SKILL.md +0 -400
  27. package/bin/skills/anndata/references/best_practices.md +0 -525
  28. package/bin/skills/anndata/references/concatenation.md +0 -396
  29. package/bin/skills/anndata/references/data_structure.md +0 -314
  30. package/bin/skills/anndata/references/io_operations.md +0 -404
  31. package/bin/skills/anndata/references/manipulation.md +0 -516
  32. package/bin/skills/arboreto/SKILL.md +0 -243
  33. package/bin/skills/arboreto/references/algorithms.md +0 -138
  34. package/bin/skills/arboreto/references/basic_inference.md +0 -151
  35. package/bin/skills/arboreto/references/distributed_computing.md +0 -242
  36. package/bin/skills/arboreto/scripts/basic_grn_inference.py +0 -97
  37. package/bin/skills/astropy/SKILL.md +0 -331
  38. package/bin/skills/astropy/references/coordinates.md +0 -273
  39. package/bin/skills/astropy/references/cosmology.md +0 -307
  40. package/bin/skills/astropy/references/fits.md +0 -396
  41. package/bin/skills/astropy/references/tables.md +0 -489
  42. package/bin/skills/astropy/references/time.md +0 -404
  43. package/bin/skills/astropy/references/units.md +0 -178
  44. package/bin/skills/astropy/references/wcs_and_other_modules.md +0 -373
  45. package/bin/skills/audiocraft/SKILL.md +0 -564
  46. package/bin/skills/audiocraft/references/advanced-usage.md +0 -666
  47. package/bin/skills/audiocraft/references/troubleshooting.md +0 -504
  48. package/bin/skills/autogpt/SKILL.md +0 -403
  49. package/bin/skills/autogpt/references/advanced-usage.md +0 -535
  50. package/bin/skills/autogpt/references/troubleshooting.md +0 -420
  51. package/bin/skills/awq/SKILL.md +0 -310
  52. package/bin/skills/awq/references/advanced-usage.md +0 -324
  53. package/bin/skills/awq/references/troubleshooting.md +0 -344
  54. package/bin/skills/axolotl/SKILL.md +0 -158
  55. package/bin/skills/axolotl/references/api.md +0 -5548
  56. package/bin/skills/axolotl/references/dataset-formats.md +0 -1029
  57. package/bin/skills/axolotl/references/index.md +0 -15
  58. package/bin/skills/axolotl/references/other.md +0 -3563
  59. package/bin/skills/benchling-integration/SKILL.md +0 -480
  60. package/bin/skills/benchling-integration/references/api_endpoints.md +0 -883
  61. package/bin/skills/benchling-integration/references/authentication.md +0 -379
  62. package/bin/skills/benchling-integration/references/sdk_reference.md +0 -774
  63. package/bin/skills/bigcode-evaluation-harness/SKILL.md +0 -405
  64. package/bin/skills/bigcode-evaluation-harness/references/benchmarks.md +0 -393
  65. package/bin/skills/bigcode-evaluation-harness/references/custom-tasks.md +0 -424
  66. package/bin/skills/bigcode-evaluation-harness/references/issues.md +0 -394
  67. package/bin/skills/biopython/SKILL.md +0 -443
  68. package/bin/skills/biopython/references/advanced.md +0 -577
  69. package/bin/skills/biopython/references/alignment.md +0 -362
  70. package/bin/skills/biopython/references/blast.md +0 -455
  71. package/bin/skills/biopython/references/databases.md +0 -484
  72. package/bin/skills/biopython/references/phylogenetics.md +0 -566
  73. package/bin/skills/biopython/references/sequence_io.md +0 -285
  74. package/bin/skills/biopython/references/structure.md +0 -564
  75. package/bin/skills/biorxiv-database/SKILL.md +0 -483
  76. package/bin/skills/biorxiv-database/references/api_reference.md +0 -280
  77. package/bin/skills/biorxiv-database/scripts/biorxiv_search.py +0 -445
  78. package/bin/skills/bioservices/SKILL.md +0 -361
  79. package/bin/skills/bioservices/references/identifier_mapping.md +0 -685
  80. package/bin/skills/bioservices/references/services_reference.md +0 -636
  81. package/bin/skills/bioservices/references/workflow_patterns.md +0 -811
  82. package/bin/skills/bioservices/scripts/batch_id_converter.py +0 -347
  83. package/bin/skills/bioservices/scripts/compound_cross_reference.py +0 -378
  84. package/bin/skills/bioservices/scripts/pathway_analysis.py +0 -309
  85. package/bin/skills/bioservices/scripts/protein_analysis_workflow.py +0 -408
  86. package/bin/skills/bitsandbytes/SKILL.md +0 -411
  87. package/bin/skills/bitsandbytes/references/memory-optimization.md +0 -521
  88. package/bin/skills/bitsandbytes/references/qlora-training.md +0 -521
  89. package/bin/skills/bitsandbytes/references/quantization-formats.md +0 -447
  90. package/bin/skills/blip-2/SKILL.md +0 -564
  91. package/bin/skills/blip-2/references/advanced-usage.md +0 -680
  92. package/bin/skills/blip-2/references/troubleshooting.md +0 -526
  93. package/bin/skills/brenda-database/SKILL.md +0 -719
  94. package/bin/skills/brenda-database/references/api_reference.md +0 -537
  95. package/bin/skills/brenda-database/scripts/brenda_queries.py +0 -844
  96. package/bin/skills/brenda-database/scripts/brenda_visualization.py +0 -772
  97. package/bin/skills/brenda-database/scripts/enzyme_pathway_builder.py +0 -1053
  98. package/bin/skills/cellxgene-census/SKILL.md +0 -511
  99. package/bin/skills/cellxgene-census/references/census_schema.md +0 -182
  100. package/bin/skills/cellxgene-census/references/common_patterns.md +0 -351
  101. package/bin/skills/chembl-database/SKILL.md +0 -389
  102. package/bin/skills/chembl-database/references/api_reference.md +0 -272
  103. package/bin/skills/chembl-database/scripts/example_queries.py +0 -278
  104. package/bin/skills/chroma/SKILL.md +0 -406
  105. package/bin/skills/chroma/references/integration.md +0 -38
  106. package/bin/skills/cirq/SKILL.md +0 -346
  107. package/bin/skills/cirq/references/building.md +0 -307
  108. package/bin/skills/cirq/references/experiments.md +0 -572
  109. package/bin/skills/cirq/references/hardware.md +0 -515
  110. package/bin/skills/cirq/references/noise.md +0 -515
  111. package/bin/skills/cirq/references/simulation.md +0 -350
  112. package/bin/skills/cirq/references/transformation.md +0 -416
  113. package/bin/skills/citation-management/SKILL.md +0 -1109
  114. package/bin/skills/citation-management/assets/bibtex_template.bib +0 -264
  115. package/bin/skills/citation-management/assets/citation_checklist.md +0 -386
  116. package/bin/skills/citation-management/references/bibtex_formatting.md +0 -908
  117. package/bin/skills/citation-management/references/citation_validation.md +0 -794
  118. package/bin/skills/citation-management/references/google_scholar_search.md +0 -725
  119. package/bin/skills/citation-management/references/metadata_extraction.md +0 -870
  120. package/bin/skills/citation-management/references/pubmed_search.md +0 -839
  121. package/bin/skills/citation-management/scripts/doi_to_bibtex.py +0 -182
  122. package/bin/skills/citation-management/scripts/extract_metadata.py +0 -570
  123. package/bin/skills/citation-management/scripts/format_bibtex.py +0 -349
  124. package/bin/skills/citation-management/scripts/search_google_scholar.py +0 -251
  125. package/bin/skills/citation-management/scripts/search_pubmed.py +0 -348
  126. package/bin/skills/citation-management/scripts/validate_citations.py +0 -494
  127. package/bin/skills/clinical-decision-support/README.md +0 -129
  128. package/bin/skills/clinical-decision-support/SKILL.md +0 -506
  129. package/bin/skills/clinical-decision-support/assets/biomarker_report_template.tex +0 -380
  130. package/bin/skills/clinical-decision-support/assets/clinical_pathway_template.tex +0 -222
  131. package/bin/skills/clinical-decision-support/assets/cohort_analysis_template.tex +0 -359
  132. package/bin/skills/clinical-decision-support/assets/color_schemes.tex +0 -149
  133. package/bin/skills/clinical-decision-support/assets/example_gbm_cohort.md +0 -208
  134. package/bin/skills/clinical-decision-support/assets/recommendation_strength_guide.md +0 -328
  135. package/bin/skills/clinical-decision-support/assets/treatment_recommendation_template.tex +0 -529
  136. package/bin/skills/clinical-decision-support/references/biomarker_classification.md +0 -719
  137. package/bin/skills/clinical-decision-support/references/clinical_decision_algorithms.md +0 -604
  138. package/bin/skills/clinical-decision-support/references/evidence_synthesis.md +0 -840
  139. package/bin/skills/clinical-decision-support/references/outcome_analysis.md +0 -640
  140. package/bin/skills/clinical-decision-support/references/patient_cohort_analysis.md +0 -427
  141. package/bin/skills/clinical-decision-support/references/treatment_recommendations.md +0 -521
  142. package/bin/skills/clinical-decision-support/scripts/biomarker_classifier.py +0 -383
  143. package/bin/skills/clinical-decision-support/scripts/build_decision_tree.py +0 -417
  144. package/bin/skills/clinical-decision-support/scripts/create_cohort_tables.py +0 -509
  145. package/bin/skills/clinical-decision-support/scripts/generate_survival_analysis.py +0 -441
  146. package/bin/skills/clinical-decision-support/scripts/validate_cds_document.py +0 -326
  147. package/bin/skills/clinical-reports/IMPLEMENTATION_SUMMARY.md +0 -641
  148. package/bin/skills/clinical-reports/README.md +0 -236
  149. package/bin/skills/clinical-reports/SKILL.md +0 -1127
  150. package/bin/skills/clinical-reports/assets/case_report_template.md +0 -352
  151. package/bin/skills/clinical-reports/assets/clinical_trial_csr_template.md +0 -353
  152. package/bin/skills/clinical-reports/assets/clinical_trial_sae_template.md +0 -359
  153. package/bin/skills/clinical-reports/assets/consult_note_template.md +0 -305
  154. package/bin/skills/clinical-reports/assets/discharge_summary_template.md +0 -453
  155. package/bin/skills/clinical-reports/assets/hipaa_compliance_checklist.md +0 -395
  156. package/bin/skills/clinical-reports/assets/history_physical_template.md +0 -305
  157. package/bin/skills/clinical-reports/assets/lab_report_template.md +0 -309
  158. package/bin/skills/clinical-reports/assets/pathology_report_template.md +0 -249
  159. package/bin/skills/clinical-reports/assets/quality_checklist.md +0 -338
  160. package/bin/skills/clinical-reports/assets/radiology_report_template.md +0 -318
  161. package/bin/skills/clinical-reports/assets/soap_note_template.md +0 -253
  162. package/bin/skills/clinical-reports/references/case_report_guidelines.md +0 -570
  163. package/bin/skills/clinical-reports/references/clinical_trial_reporting.md +0 -693
  164. package/bin/skills/clinical-reports/references/data_presentation.md +0 -530
  165. package/bin/skills/clinical-reports/references/diagnostic_reports_standards.md +0 -629
  166. package/bin/skills/clinical-reports/references/medical_terminology.md +0 -588
  167. package/bin/skills/clinical-reports/references/patient_documentation.md +0 -744
  168. package/bin/skills/clinical-reports/references/peer_review_standards.md +0 -585
  169. package/bin/skills/clinical-reports/references/regulatory_compliance.md +0 -577
  170. package/bin/skills/clinical-reports/scripts/check_deidentification.py +0 -332
  171. package/bin/skills/clinical-reports/scripts/compliance_checker.py +0 -78
  172. package/bin/skills/clinical-reports/scripts/extract_clinical_data.py +0 -97
  173. package/bin/skills/clinical-reports/scripts/format_adverse_events.py +0 -97
  174. package/bin/skills/clinical-reports/scripts/generate_report_template.py +0 -149
  175. package/bin/skills/clinical-reports/scripts/terminology_validator.py +0 -126
  176. package/bin/skills/clinical-reports/scripts/validate_case_report.py +0 -323
  177. package/bin/skills/clinical-reports/scripts/validate_trial_report.py +0 -88
  178. package/bin/skills/clinicaltrials-database/SKILL.md +0 -507
  179. package/bin/skills/clinicaltrials-database/references/api_reference.md +0 -358
  180. package/bin/skills/clinicaltrials-database/scripts/query_clinicaltrials.py +0 -215
  181. package/bin/skills/clinpgx-database/SKILL.md +0 -638
  182. package/bin/skills/clinpgx-database/references/api_reference.md +0 -757
  183. package/bin/skills/clinpgx-database/scripts/query_clinpgx.py +0 -518
  184. package/bin/skills/clinvar-database/SKILL.md +0 -362
  185. package/bin/skills/clinvar-database/references/api_reference.md +0 -227
  186. package/bin/skills/clinvar-database/references/clinical_significance.md +0 -218
  187. package/bin/skills/clinvar-database/references/data_formats.md +0 -358
  188. package/bin/skills/clip/SKILL.md +0 -253
  189. package/bin/skills/clip/references/applications.md +0 -207
  190. package/bin/skills/cobrapy/SKILL.md +0 -463
  191. package/bin/skills/cobrapy/references/api_quick_reference.md +0 -655
  192. package/bin/skills/cobrapy/references/workflows.md +0 -593
  193. package/bin/skills/colab-finetuning/SKILL.md +0 -153
  194. package/bin/skills/colab-finetuning/references/bridge-setup.md +0 -68
  195. package/bin/skills/colab-finetuning/references/gpu-tiers.md +0 -54
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  197. package/bin/skills/constitutional-ai/SKILL.md +0 -290
  198. package/bin/skills/cosmic-database/SKILL.md +0 -336
  199. package/bin/skills/cosmic-database/references/cosmic_data_reference.md +0 -220
  200. package/bin/skills/cosmic-database/scripts/download_cosmic.py +0 -231
  201. package/bin/skills/crewai/SKILL.md +0 -498
  202. package/bin/skills/crewai/references/flows.md +0 -438
  203. package/bin/skills/crewai/references/tools.md +0 -429
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  205. package/bin/skills/dask/SKILL.md +0 -456
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  209. package/bin/skills/dask/references/dataframes.md +0 -368
  210. package/bin/skills/dask/references/futures.md +0 -541
  211. package/bin/skills/dask/references/schedulers.md +0 -504
  212. package/bin/skills/datacommons-client/SKILL.md +0 -255
  213. package/bin/skills/datacommons-client/references/getting_started.md +0 -417
  214. package/bin/skills/datacommons-client/references/node.md +0 -250
  215. package/bin/skills/datacommons-client/references/observation.md +0 -185
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  217. package/bin/skills/datamol/SKILL.md +0 -706
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  224. package/bin/skills/deepchem/SKILL.md +0 -597
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  227. package/bin/skills/deepchem/scripts/graph_neural_network.py +0 -338
  228. package/bin/skills/deepchem/scripts/predict_solubility.py +0 -224
  229. package/bin/skills/deepchem/scripts/transfer_learning.py +0 -375
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- # Paper2Poster: Academic Poster Generation
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-
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- ## Overview
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-
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- Paper2Poster automatically generates professional academic posters from research papers. The system extracts key content, designs visually appealing layouts, and creates print-ready posters suitable for conferences, symposiums, and academic presentations.
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-
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- ## Core Capabilities
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-
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- ### 1. Content Extraction
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- - Identifies key findings and contributions
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- - Extracts important figures and tables
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- - Summarizes methodology
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- - Highlights results and conclusions
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- - Preserves citations and references
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-
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- ### 2. Layout Design
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- - Creates balanced, professional layouts
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- - Optimizes content density and white space
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- - Establishes clear visual hierarchy
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- - Supports multiple poster sizes
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- - Adapts to different content types
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-
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- ### 3. Visual Design
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- - Applies color schemes and branding
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- - Optimizes typography for readability
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- - Ensures figure quality and sizing
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- - Creates cohesive visual identity
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- - Maintains academic presentation standards
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-
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- ## Usage
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-
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- ### Basic Poster Generation
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-
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- ```bash
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- python pipeline_all.py \
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- --input-dir "path/to/papers" \
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- --output-dir "path/to/output" \
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- --model-choice 1 \
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- --generate-poster
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- ```
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-
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- ### Custom Poster Dimensions
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-
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- ```bash
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- python pipeline_all.py \
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- --input-dir "path/to/papers" \
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- --output-dir "path/to/output" \
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- --model-choice 2 \
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- --generate-poster \
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- --poster-width-inches 60 \
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- --poster-height-inches 40
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- ```
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-
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- ### Parameters
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-
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- **Basic Configuration:**
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- - `--input-dir`: Directory containing paper files
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- - `--output-dir`: Directory for generated posters
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- - `--model-choice`: LLM model selection (1=GPT-4, 2=GPT-4.1)
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- - `--generate-poster`: Enable poster generation
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-
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- **Poster Dimensions:**
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- - `--poster-width-inches`: Width in inches (default: 48)
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- - `--poster-height-inches`: Height in inches (default: 36)
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- - `--poster-orientation`: Portrait or landscape (default: landscape)
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- - `--poster-dpi`: Resolution in DPI (default: 300)
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-
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- **Design Options:**
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- - `--poster-template`: Template style (default: modern)
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- - `--color-scheme`: Color palette selection
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- - `--institution-branding`: Include institution colors and logos
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- - `--font-family`: Typography selection
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-
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- ## Standard Poster Sizes
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-
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- ### Conference Standard Sizes
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- - **4' × 3'** (48" × 36"): Most common conference poster
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- - **5' × 4'** (60" × 48"): Large format for major conferences
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- - **3' × 4'** (36" × 48"): Portrait orientation for narrow spaces
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- - **A0** (841mm × 1189mm): International standard
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- - **A1** (594mm × 841mm): Compact conference poster
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-
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- ### Custom Sizes
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- The system supports any custom dimensions. Specify using:
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- ```bash
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- --poster-width-inches [width] --poster-height-inches [height]
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- ```
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-
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- ## Input Requirements
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-
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- ### Supported Input Formats
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- 1. **LaTeX source** (preferred)
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- - Main `.tex` file with complete paper
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- - All figures and tables referenced
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- - Compiled successfully
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-
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- 2. **PDF**
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- - High-quality PDF with embedded fonts
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- - Selectable text (not scanned)
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- - High-resolution figures
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-
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- ### Required Content Elements
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- - Title and authors
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- - Abstract or summary
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- - Methodology description
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- - Key results
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- - Conclusions
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- - References (optional but recommended)
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-
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- ### Recommended Assets
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- - High-resolution figures (300 DPI minimum)
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- - Vector graphics (PDF, SVG, EPS)
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- - Institution logo
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- - Author photos (optional)
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- - QR codes for website/repo links
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-
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- ## Output Structure
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-
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- ```
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- output/paper_name/poster/
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- ├── poster_final.pdf # Print-ready poster
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- ├── poster_final.png # High-res PNG version
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- ├── poster_preview.pdf # Low-res preview
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- ├── poster_source/ # Source files
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- │ ├── layout.pptx # Editable PowerPoint
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- │ ├── layout.svg # Vector graphics
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- │ └── layout.json # Layout specification
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- ├── assets/ # Extracted assets
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- │ ├── figures/ # Poster figures
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- │ ├── logos/ # Institution logos
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- │ └── qrcodes/ # Generated QR codes
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- └── metadata/
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- ├── design_spec.json # Design specifications
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- └── content_map.json # Content organization
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- ```
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-
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- ## Poster Layout Sections
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-
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- ### Standard Sections
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- 1. **Header**
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- - Title (large, prominent)
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- - Authors and affiliations
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- - Institution logos
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- - Conference information
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-
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- 2. **Introduction/Background**
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- - Problem statement
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- - Research motivation
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- - Brief literature context
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-
151
- 3. **Methods**
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- - Experimental design
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- - Key procedures
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- - Important parameters
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- - Visual workflow diagram
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-
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- 4. **Results**
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- - Key findings (largest section)
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- - Primary figures and tables
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- - Statistical summaries
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- - Visual data representations
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-
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- 5. **Conclusions**
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- - Main takeaways
165
- - Implications
166
- - Future work
167
-
168
- 6. **References & Contact**
169
- - Selected key references
170
- - Author contact information
171
- - QR codes for paper/website
172
- - Acknowledgments
173
-
174
- ## Design Templates
175
-
176
- ### Modern Template (Default)
177
- - Clean, minimalist design
178
- - Bold colors for headers
179
- - Ample white space
180
- - Modern typography
181
- - Focus on visual hierarchy
182
-
183
- ### Academic Template
184
- - Traditional academic styling
185
- - Conservative color palette
186
- - Dense information layout
187
- - Classic serif typography
188
- - Standard section organization
189
-
190
- ### Visual Template
191
- - Image-focused layout
192
- - Large figure displays
193
- - Minimal text density
194
- - Infographic elements
195
- - Story-driven flow
196
-
197
- ### Technical Template
198
- - Equation-friendly layout
199
- - Code snippet support
200
- - Detailed methodology sections
201
- - Technical figure emphasis
202
- - Engineering/CS aesthetic
203
-
204
- ## Color Schemes
205
-
206
- ### Predefined Schemes
207
- - **Institutional**: Uses institution branding colors
208
- - **Professional**: Navy blue and gray palette
209
- - **Vibrant**: Bold, eye-catching colors
210
- - **Nature**: Green and earth tones
211
- - **Tech**: Modern blue and cyan
212
- - **Warm**: Orange and red accents
213
- - **Cool**: Blue and purple tones
214
-
215
- ### Custom Color Schemes
216
- Specify custom colors in configuration:
217
- ```json
218
- {
219
- "primary": "#1E3A8A",
220
- "secondary": "#3B82F6",
221
- "accent": "#F59E0B",
222
- "background": "#FFFFFF",
223
- "text": "#1F2937"
224
- }
225
- ```
226
-
227
- ## Typography Options
228
-
229
- ### Font Families
230
- - **Sans-serif** (default): Clean, modern, highly readable
231
- - **Serif**: Traditional academic appearance
232
- - **Mixed**: Serif for body, sans-serif for headers
233
- - **Monospace**: For code and technical content
234
-
235
- ### Size Hierarchy
236
- - **Title**: 72-96pt
237
- - **Section headers**: 48-60pt
238
- - **Subsection headers**: 36-48pt
239
- - **Body text**: 24-32pt
240
- - **Captions**: 18-24pt
241
- - **References**: 16-20pt
242
-
243
- ## Quality Assurance
244
-
245
- ### Automated Checks
246
- - **Text readability**: Minimum font size verification
247
- - **Color contrast**: Accessibility compliance
248
- - **Figure quality**: Resolution and clarity checks
249
- - **Layout balance**: Content distribution analysis
250
- - **Branding consistency**: Logo and color verification
251
-
252
- ### Manual Review Checklist
253
- 1. ☐ All figures are high resolution and clear
254
- 2. ☐ Text is readable from 3-6 feet away
255
- 3. ☐ Color scheme is professional and consistent
256
- 4. ☐ No text overlaps or layout issues
257
- 5. ☐ Institution logos are correct and high quality
258
- 6. ☐ QR codes work and link to correct URLs
259
- 7. ☐ Author information is accurate
260
- 8. ☐ Key findings are prominently displayed
261
- 9. ☐ References are properly formatted
262
- 10. ☐ File is correct size and resolution for printing
263
-
264
- ## Print Preparation
265
-
266
- ### File Specifications
267
- - **Format**: PDF/X-1a or PDF/X-4 for professional printing
268
- - **Resolution**: 300 DPI minimum, 600 DPI for fine details
269
- - **Color mode**: CMYK for print (system auto-converts from RGB)
270
- - **Bleed**: 0.125" bleed on all sides (automatically added)
271
- - **Fonts**: All fonts embedded in PDF
272
-
273
- ### Printing Recommendations
274
- 1. **Print shop**: Use professional poster printing service
275
- 2. **Paper type**: Matte or satin finish for academic posters
276
- 3. **Backing**: Foam core or rigid backing for stability
277
- 4. **Protection**: Lamination optional but recommended
278
- 5. **Test print**: Print A4/Letter size preview first
279
-
280
- ### Budget Options
281
- - **Standard**: $50-100 for 4'×3' poster at professional shop
282
- - **Economy**: $20-40 for print-only (no mounting)
283
- - **Premium**: $150-300 for high-end materials and mounting
284
- - **DIY**: <$10 for multiple pages tiled and assembled
285
-
286
- ## Advanced Features
287
-
288
- ### QR Code Generation
289
- Automatically generates QR codes for:
290
- - Paper PDF or DOI
291
- - Project website
292
- - GitHub repository
293
- - Data repository
294
- - Author profiles (ORCID, Google Scholar)
295
-
296
- ### Institution Branding
297
- When enabled:
298
- - Extracts institution from author affiliations
299
- - Searches for official logos (requires Google Search API)
300
- - Applies institution color schemes
301
- - Matches brand guidelines
302
-
303
- ### Interactive Elements (Digital Posters)
304
- For digital display or virtual conferences:
305
- - Clickable links and references
306
- - Embedded videos in figures
307
- - Interactive data visualizations
308
- - Animated transitions
309
-
310
- ## Best Practices
311
-
312
- ### Content Optimization
313
- 1. **Focus on key findings**: Poster should tell story at a glance
314
- 2. **Limit text**: Use bullet points, avoid paragraphs
315
- 3. **Prioritize visuals**: Figures should dominate the space
316
- 4. **Clear flow**: Guide viewer through logical progression
317
- 5. **Highlight contributions**: Make novelty obvious
318
-
319
- ### Design Optimization
320
- 1. **Use contrast**: Ensure text is easily readable
321
- 2. **Maintain hierarchy**: Size indicates importance
322
- 3. **Balance content**: Avoid crowding any section
323
- 4. **Consistent styling**: Same fonts, colors throughout
324
- 5. **White space**: Don't fill every inch
325
-
326
- ### Figure Optimization
327
- 1. **Large enough**: Minimum 6" width for main figures
328
- 2. **High resolution**: 300 DPI minimum
329
- 3. **Clear labels**: Axis labels, legends readable
330
- 4. **Remove clutter**: Simplify for poster format
331
- 5. **Use captions**: Brief, informative descriptions
332
-
333
- ## Limitations
334
-
335
- - Complex equations may need manual adjustment for readability
336
- - Very long papers may require content prioritization
337
- - Custom branding requires manual specification or API access
338
- - Multi-language support limited to common languages
339
- - 3D visualizations may lose quality in 2D poster format
340
-
341
- ## Integration with Other Components
342
-
343
- Combine Paper2Poster with:
344
- - **Paper2Web**: Use matching visual design and color scheme
345
- - **Paper2Video**: Create poster walk-through video
346
- - **AutoPR**: Generate social media graphics from poster
@@ -1,305 +0,0 @@
1
- # Paper2Video: Presentation Video Generation
2
-
3
- ## Overview
4
-
5
- Paper2Video generates presentation videos from LaTeX sources, transforming academic papers into engaging video presentations. The system processes papers through multiple specialized modules to create professional presentation videos complete with slides, narration, and optional talking-head video.
6
-
7
- ## Core Components
8
-
9
- ### 1. Slide Generation Module
10
- - Extracts key content from paper structure
11
- - Creates visually appealing presentation slides
12
- - Organizes content in logical flow
13
- - Includes figures, tables, and equations
14
- - Optimizes text density for readability
15
-
16
- ### 2. Subtitle Generation Module
17
- - Generates natural presentation script
18
- - Synchronizes text with slide transitions
19
- - Creates speaker notes and timing
20
- - Supports multiple languages
21
- - Optimizes for speech synthesis
22
-
23
- ### 3. Speech Synthesis Module
24
- - Converts subtitles to natural-sounding speech
25
- - Supports multiple voices and accents
26
- - Controls pacing and emphasis
27
- - Generates audio track for video
28
- - Handles technical terminology
29
-
30
- ### 4. Cursor Movement Module
31
- - Simulates presenter cursor movements
32
- - Highlights key points on slides
33
- - Guides viewer attention
34
- - Creates natural presentation flow
35
- - Synchronizes with narration
36
-
37
- ### 5. Talking-Head Video Generation (Optional)
38
- - Uses Hallo2 for realistic presenter video
39
- - Lip-syncs with generated audio
40
- - Requires reference image or video
41
- - GPU-intensive (NVIDIA A6000 48GB minimum)
42
- - Creates engaging presenter presence
43
-
44
- ## Usage
45
-
46
- ### Basic Video Generation (Without Talking-Head)
47
-
48
- ```bash
49
- python pipeline_light.py \
50
- --model_name_t gpt-4.1 \
51
- --model_name_v gpt-4.1 \
52
- --result_dir /path/to/output \
53
- --paper_latex_root /path/to/paper
54
- ```
55
-
56
- ### Full Video Generation (With Talking-Head)
57
-
58
- ```bash
59
- python pipeline_all.py \
60
- --input-dir "path/to/papers" \
61
- --output-dir "path/to/output" \
62
- --model-choice 1 \
63
- --enable-talking-head
64
- ```
65
-
66
- ### Parameters
67
-
68
- **Model Configuration:**
69
- - `--model_name_t`: Model for text/subtitle generation (default: gpt-4.1)
70
- - `--model_name_v`: Model for visual/slide generation (default: gpt-4.1)
71
- - `--model-choice`: Preset model configuration (1=GPT-4, 2=GPT-4.1)
72
-
73
- **Input/Output:**
74
- - `--paper_latex_root`: Root directory of LaTeX paper source
75
- - `--result_dir` or `--output-dir`: Output directory for generated videos
76
- - `--input-dir`: Directory containing multiple papers to process
77
-
78
- **Video Options:**
79
- - `--enable-talking-head`: Enable talking-head video generation (requires GPU)
80
- - `--video-duration`: Target video duration in seconds (default: auto-calculated)
81
- - `--slides-per-minute`: Control presentation pacing (default: 2-3)
82
- - `--voice`: Voice selection for speech synthesis
83
-
84
- **Quality Settings:**
85
- - `--video-resolution`: Output resolution (default: 1920x1080)
86
- - `--video-fps`: Frame rate (default: 30)
87
- - `--audio-quality`: Audio bitrate (default: 192kbps)
88
-
89
- ## Input Requirements
90
-
91
- ### LaTeX Source Structure
92
- ```
93
- paper_directory/
94
- ├── main.tex # Main paper file
95
- ├── sections/ # Section files (if split)
96
- │ ├── introduction.tex
97
- │ ├── methods.tex
98
- │ └── results.tex
99
- ├── figures/ # Figure files
100
- │ ├── fig1.pdf
101
- │ ├── fig2.png
102
- │ └── ...
103
- ├── tables/ # Table files
104
- └── bibliography.bib # References
105
- ```
106
-
107
- ### Required Elements
108
- - Valid LaTeX source that compiles
109
- - Proper section structure (abstract, introduction, methods, results, conclusion)
110
- - High-quality figures (vector formats preferred)
111
- - Complete bibliography
112
-
113
- ### Optional Elements
114
- - Author photos for talking-head generation
115
- - Custom slide templates
116
- - Background music or sound effects
117
- - Institution branding assets
118
-
119
- ## Output Structure
120
-
121
- ```
122
- output/paper_name/video/
123
- ├── final_video.mp4 # Complete presentation video
124
- ├── slides/ # Generated slide images
125
- │ ├── slide_001.png
126
- │ ├── slide_002.png
127
- │ └── ...
128
- ├── audio/ # Audio components
129
- │ ├── narration.mp3 # Speech synthesis output
130
- │ └── background.mp3 # Optional background audio
131
- ├── subtitles/ # Subtitle files
132
- │ ├── subtitles.srt # Standard subtitle format
133
- │ └── subtitles.vtt # WebVTT format
134
- ├── script/ # Presentation script
135
- │ ├── full_script.txt # Complete narration text
136
- │ └── slide_notes.json # Slide-by-slide notes
137
- └── metadata/ # Video metadata
138
- ├── timings.json # Slide timing information
139
- └── video_info.json # Video properties
140
- ```
141
-
142
- ## Video Generation Process
143
-
144
- ### Phase 1: Content Analysis
145
- 1. Parse LaTeX source structure
146
- 2. Extract key concepts and findings
147
- 3. Identify important figures and equations
148
- 4. Determine logical presentation flow
149
-
150
- ### Phase 2: Slide Creation
151
- 1. Design slide layouts based on content
152
- 2. Allocate content across appropriate number of slides
153
- 3. Incorporate figures and visual elements
154
- 4. Apply consistent styling and branding
155
-
156
- ### Phase 3: Script Generation
157
- 1. Write natural presentation narration
158
- 2. Time script sections to slides
159
- 3. Add transitions and emphasis
160
- 4. Optimize for speech synthesis
161
-
162
- ### Phase 4: Audio Production
163
- 1. Generate speech from script
164
- 2. Add emphasis and pacing
165
- 3. Include pauses for slide transitions
166
- 4. Mix with optional background audio
167
-
168
- ### Phase 5: Video Assembly
169
- 1. Combine slides with timing information
170
- 2. Synchronize audio track
171
- 3. Add cursor movements and highlights
172
- 4. Generate talking-head video (if enabled)
173
- 5. Render final video file
174
-
175
- ## Customization Options
176
-
177
- ### Presentation Style
178
- - **Academic**: Formal, detailed, comprehensive
179
- - **Conference**: Focused on key findings, faster pace
180
- - **Public**: Simplified language, engaging storytelling
181
- - **Tutorial**: Step-by-step explanation, educational focus
182
-
183
- ### Voice Configuration
184
- Available voice options (via speech synthesis):
185
- - Multiple languages and accents
186
- - Male/female voice selection
187
- - Speaking rate adjustment
188
- - Pitch and tone customization
189
-
190
- ### Visual Themes
191
- - Institution branding colors
192
- - Conference template matching
193
- - Custom backgrounds and fonts
194
- - Dark mode presentations
195
-
196
- ## Quality Assessment
197
-
198
- ### Content Quality Metrics
199
- - **Completeness**: Coverage of paper content
200
- - **Clarity**: Explanation quality and coherence
201
- - **Flow**: Logical progression of ideas
202
- - **Engagement**: Visual appeal and pacing
203
-
204
- ### Technical Quality Metrics
205
- - **Audio quality**: Speech clarity and naturalness
206
- - **Video quality**: Resolution and encoding
207
- - **Synchronization**: Audio-visual alignment
208
- - **Timing**: Appropriate slide duration
209
-
210
- ## Advanced Features
211
-
212
- ### Multi-Language Support
213
- - Generate presentations in multiple languages
214
- - Automatic translation of script
215
- - Language-appropriate voice selection
216
- - Cultural adaptation of presentation style
217
-
218
- ### Talking-Head Generation with Hallo2
219
- Requires:
220
- - NVIDIA A6000 GPU (48GB minimum)
221
- - Reference image or short video of presenter
222
- - Additional processing time (2-3x longer)
223
-
224
- Benefits:
225
- - More engaging presentation
226
- - Professional presenter appearance
227
- - Natural gestures and expressions
228
- - Lip-sync accuracy
229
-
230
- ### Interactive Elements
231
- - Embedded clickable links
232
- - Navigation menu
233
- - Chapter markers
234
- - Supplementary material links
235
-
236
- ## Best Practices
237
-
238
- ### Input Preparation
239
- 1. **Clean LaTeX source**: Remove unnecessary comments and artifacts
240
- 2. **High-quality figures**: Use vector formats when possible
241
- 3. **Clear structure**: Well-organized sections and subsections
242
- 4. **Complete content**: Include all necessary files and references
243
-
244
- ### Model Selection
245
- - **Text generation (model_name_t)**: GPT-4.1 for best script quality
246
- - **Visual generation (model_name_v)**: GPT-4.1 for optimal slide design
247
- - For faster processing with acceptable quality: GPT-3.5-turbo
248
-
249
- ### Video Optimization
250
- 1. **Target duration**: 10-15 minutes for conference talks, 30-45 for detailed presentations
251
- 2. **Pacing**: 2-3 slides per minute for technical content
252
- 3. **Resolution**: 1920x1080 for standard, 3840x2160 for high-quality
253
- 4. **Audio**: 192kbps minimum for clear speech
254
-
255
- ### Quality Review
256
- Before finalizing:
257
- 1. Watch entire video for content accuracy
258
- 2. Check audio synchronization with slides
259
- 3. Verify figure quality and readability
260
- 4. Test subtitle accuracy and timing
261
- 5. Review cursor movements for natural flow
262
-
263
- ## Performance Considerations
264
-
265
- ### Processing Time
266
- - **Without talking-head**: 10-30 minutes per paper (depending on length)
267
- - **With talking-head**: 30-120 minutes per paper
268
- - **Factors**: Paper length, figure count, model speed, GPU availability
269
-
270
- ### Resource Requirements
271
- - **CPU**: Multi-core recommended for parallel processing
272
- - **RAM**: 16GB minimum, 32GB for large papers
273
- - **GPU**: Optional for standard, required for talking-head (A6000 48GB)
274
- - **Storage**: 1-5GB per video depending on length and quality
275
-
276
- ## Troubleshooting
277
-
278
- ### Common Issues
279
-
280
- **1. LaTeX parsing errors**
281
- - Ensure LaTeX source compiles successfully
282
- - Check for special packages or custom commands
283
- - Verify all referenced files are present
284
-
285
- **2. Speech synthesis problems**
286
- - Check audio quality settings
287
- - Verify text is properly formatted
288
- - Test with different voice options
289
-
290
- **3. Video rendering failures**
291
- - Check available disk space
292
- - Verify all dependencies are installed
293
- - Review error logs for specific issues
294
-
295
- **4. Talking-head generation errors**
296
- - Confirm GPU memory (48GB required)
297
- - Check CUDA drivers are up to date
298
- - Verify reference image quality and format
299
-
300
- ## Integration with Other Components
301
-
302
- Combine Paper2Video with:
303
- - **Paper2Web**: Embed video in generated website
304
- - **Paper2Poster**: Use matching visual style
305
- - **AutoPR**: Create promotional clips from full video