scitex 2.14.0__py3-none-any.whl → 2.15.3__py3-none-any.whl
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.
- scitex/__init__.py +71 -17
- scitex/_env_loader.py +156 -0
- scitex/_mcp_resources/__init__.py +37 -0
- scitex/_mcp_resources/_cheatsheet.py +135 -0
- scitex/_mcp_resources/_figrecipe.py +138 -0
- scitex/_mcp_resources/_formats.py +102 -0
- scitex/_mcp_resources/_modules.py +337 -0
- scitex/_mcp_resources/_session.py +149 -0
- scitex/_mcp_tools/__init__.py +4 -0
- scitex/_mcp_tools/audio.py +66 -0
- scitex/_mcp_tools/diagram.py +11 -95
- scitex/_mcp_tools/introspect.py +210 -0
- scitex/_mcp_tools/plt.py +260 -305
- scitex/_mcp_tools/scholar.py +74 -0
- scitex/_mcp_tools/social.py +27 -0
- scitex/_mcp_tools/template.py +24 -0
- scitex/_mcp_tools/writer.py +17 -210
- scitex/ai/_gen_ai/_PARAMS.py +10 -7
- scitex/ai/classification/reporters/_SingleClassificationReporter.py +45 -1603
- scitex/ai/classification/reporters/_mixins/__init__.py +36 -0
- scitex/ai/classification/reporters/_mixins/_constants.py +67 -0
- scitex/ai/classification/reporters/_mixins/_cv_summary.py +387 -0
- scitex/ai/classification/reporters/_mixins/_feature_importance.py +119 -0
- scitex/ai/classification/reporters/_mixins/_metrics.py +275 -0
- scitex/ai/classification/reporters/_mixins/_plotting.py +179 -0
- scitex/ai/classification/reporters/_mixins/_reports.py +153 -0
- scitex/ai/classification/reporters/_mixins/_storage.py +160 -0
- scitex/ai/classification/timeseries/_TimeSeriesSlidingWindowSplit.py +30 -1550
- scitex/ai/classification/timeseries/_sliding_window_core.py +467 -0
- scitex/ai/classification/timeseries/_sliding_window_plotting.py +369 -0
- scitex/audio/README.md +40 -36
- scitex/audio/__init__.py +129 -61
- scitex/audio/_branding.py +185 -0
- scitex/audio/_mcp/__init__.py +32 -0
- scitex/audio/_mcp/handlers.py +59 -6
- scitex/audio/_mcp/speak_handlers.py +238 -0
- scitex/audio/_relay.py +225 -0
- scitex/audio/_tts.py +18 -10
- scitex/audio/engines/base.py +17 -10
- scitex/audio/engines/elevenlabs_engine.py +7 -2
- scitex/audio/mcp_server.py +228 -75
- scitex/canvas/README.md +1 -1
- scitex/canvas/editor/_dearpygui/__init__.py +25 -0
- scitex/canvas/editor/_dearpygui/_editor.py +147 -0
- scitex/canvas/editor/_dearpygui/_handlers.py +476 -0
- scitex/canvas/editor/_dearpygui/_panels/__init__.py +17 -0
- scitex/canvas/editor/_dearpygui/_panels/_control.py +119 -0
- scitex/canvas/editor/_dearpygui/_panels/_element_controls.py +190 -0
- scitex/canvas/editor/_dearpygui/_panels/_preview.py +43 -0
- scitex/canvas/editor/_dearpygui/_panels/_sections.py +390 -0
- scitex/canvas/editor/_dearpygui/_plotting.py +187 -0
- scitex/canvas/editor/_dearpygui/_rendering.py +504 -0
- scitex/canvas/editor/_dearpygui/_selection.py +295 -0
- scitex/canvas/editor/_dearpygui/_state.py +93 -0
- scitex/canvas/editor/_dearpygui/_utils.py +61 -0
- scitex/canvas/editor/flask_editor/_core/__init__.py +27 -0
- scitex/canvas/editor/flask_editor/_core/_bbox_extraction.py +200 -0
- scitex/canvas/editor/flask_editor/_core/_editor.py +173 -0
- scitex/canvas/editor/flask_editor/_core/_export_helpers.py +353 -0
- scitex/canvas/editor/flask_editor/_core/_routes_basic.py +190 -0
- scitex/canvas/editor/flask_editor/_core/_routes_export.py +332 -0
- scitex/canvas/editor/flask_editor/_core/_routes_panels.py +252 -0
- scitex/canvas/editor/flask_editor/_core/_routes_save.py +218 -0
- scitex/canvas/editor/flask_editor/_core.py +25 -1684
- scitex/canvas/editor/flask_editor/templates/__init__.py +32 -70
- scitex/cli/__init__.py +38 -43
- scitex/cli/audio.py +160 -41
- scitex/cli/capture.py +133 -20
- scitex/cli/introspect.py +488 -0
- scitex/cli/main.py +200 -109
- scitex/cli/mcp.py +60 -34
- scitex/cli/plt.py +414 -0
- scitex/cli/repro.py +15 -8
- scitex/cli/resource.py +15 -8
- scitex/cli/scholar/__init__.py +154 -8
- scitex/cli/scholar/_crossref_scitex.py +296 -0
- scitex/cli/scholar/_fetch.py +25 -3
- scitex/cli/social.py +355 -0
- scitex/cli/stats.py +136 -11
- scitex/cli/template.py +129 -12
- scitex/cli/tex.py +15 -8
- scitex/cli/writer.py +49 -299
- scitex/cloud/__init__.py +41 -2
- scitex/config/README.md +1 -1
- scitex/config/__init__.py +16 -2
- scitex/config/_env_registry.py +256 -0
- scitex/context/__init__.py +22 -0
- scitex/dev/__init__.py +20 -1
- scitex/diagram/__init__.py +42 -19
- scitex/diagram/mcp_server.py +13 -125
- scitex/gen/__init__.py +50 -14
- scitex/gen/_list_packages.py +4 -4
- scitex/introspect/__init__.py +82 -0
- scitex/introspect/_call_graph.py +303 -0
- scitex/introspect/_class_hierarchy.py +163 -0
- scitex/introspect/_core.py +41 -0
- scitex/introspect/_docstring.py +131 -0
- scitex/introspect/_examples.py +113 -0
- scitex/introspect/_imports.py +271 -0
- scitex/{gen/_inspect_module.py → introspect/_list_api.py} +48 -56
- scitex/introspect/_mcp/__init__.py +41 -0
- scitex/introspect/_mcp/handlers.py +233 -0
- scitex/introspect/_members.py +155 -0
- scitex/introspect/_resolve.py +89 -0
- scitex/introspect/_signature.py +131 -0
- scitex/introspect/_source.py +80 -0
- scitex/introspect/_type_hints.py +172 -0
- scitex/io/_save.py +1 -2
- scitex/io/bundle/README.md +1 -1
- scitex/logging/_formatters.py +19 -9
- scitex/mcp_server.py +98 -5
- scitex/os/__init__.py +4 -0
- scitex/{gen → os}/_check_host.py +4 -5
- scitex/plt/__init__.py +245 -550
- scitex/plt/_subplots/_AxisWrapperMixins/_SeabornMixin/_wrappers.py +5 -10
- scitex/plt/docs/EXTERNAL_PACKAGE_BRANDING.md +149 -0
- scitex/plt/gallery/README.md +1 -1
- scitex/plt/utils/_hitmap/__init__.py +82 -0
- scitex/plt/utils/_hitmap/_artist_extraction.py +343 -0
- scitex/plt/utils/_hitmap/_color_application.py +346 -0
- scitex/plt/utils/_hitmap/_color_conversion.py +121 -0
- scitex/plt/utils/_hitmap/_constants.py +40 -0
- scitex/plt/utils/_hitmap/_hitmap_core.py +334 -0
- scitex/plt/utils/_hitmap/_path_extraction.py +357 -0
- scitex/plt/utils/_hitmap/_query.py +113 -0
- scitex/plt/utils/_hitmap.py +46 -1616
- scitex/plt/utils/_metadata/__init__.py +80 -0
- scitex/plt/utils/_metadata/_artists/__init__.py +25 -0
- scitex/plt/utils/_metadata/_artists/_base.py +195 -0
- scitex/plt/utils/_metadata/_artists/_collections.py +356 -0
- scitex/plt/utils/_metadata/_artists/_extract.py +57 -0
- scitex/plt/utils/_metadata/_artists/_images.py +80 -0
- scitex/plt/utils/_metadata/_artists/_lines.py +261 -0
- scitex/plt/utils/_metadata/_artists/_patches.py +247 -0
- scitex/plt/utils/_metadata/_artists/_text.py +106 -0
- scitex/plt/utils/_metadata/_csv.py +416 -0
- scitex/plt/utils/_metadata/_detect.py +225 -0
- scitex/plt/utils/_metadata/_legend.py +127 -0
- scitex/plt/utils/_metadata/_rounding.py +117 -0
- scitex/plt/utils/_metadata/_verification.py +202 -0
- scitex/schema/README.md +1 -1
- scitex/scholar/__init__.py +8 -0
- scitex/scholar/_mcp/crossref_handlers.py +265 -0
- scitex/scholar/core/Scholar.py +63 -1700
- scitex/scholar/core/_mixins/__init__.py +36 -0
- scitex/scholar/core/_mixins/_enrichers.py +270 -0
- scitex/scholar/core/_mixins/_library_handlers.py +100 -0
- scitex/scholar/core/_mixins/_loaders.py +103 -0
- scitex/scholar/core/_mixins/_pdf_download.py +375 -0
- scitex/scholar/core/_mixins/_pipeline.py +312 -0
- scitex/scholar/core/_mixins/_project_handlers.py +125 -0
- scitex/scholar/core/_mixins/_savers.py +69 -0
- scitex/scholar/core/_mixins/_search.py +103 -0
- scitex/scholar/core/_mixins/_services.py +88 -0
- scitex/scholar/core/_mixins/_url_finding.py +105 -0
- scitex/scholar/crossref_scitex.py +367 -0
- scitex/scholar/docs/EXTERNAL_PACKAGE_BRANDING.md +149 -0
- scitex/scholar/examples/00_run_all.sh +120 -0
- scitex/scholar/jobs/_executors.py +27 -3
- scitex/scholar/pdf_download/ScholarPDFDownloader.py +38 -416
- scitex/scholar/pdf_download/_cli.py +154 -0
- scitex/scholar/pdf_download/strategies/__init__.py +11 -8
- scitex/scholar/pdf_download/strategies/manual_download_fallback.py +80 -3
- scitex/scholar/pipelines/ScholarPipelineBibTeX.py +73 -121
- scitex/scholar/pipelines/ScholarPipelineParallel.py +80 -138
- scitex/scholar/pipelines/ScholarPipelineSingle.py +43 -63
- scitex/scholar/pipelines/_single_steps.py +71 -36
- scitex/scholar/storage/_LibraryManager.py +97 -1695
- scitex/scholar/storage/_mixins/__init__.py +30 -0
- scitex/scholar/storage/_mixins/_bibtex_handlers.py +128 -0
- scitex/scholar/storage/_mixins/_library_operations.py +218 -0
- scitex/scholar/storage/_mixins/_metadata_conversion.py +226 -0
- scitex/scholar/storage/_mixins/_paper_saving.py +456 -0
- scitex/scholar/storage/_mixins/_resolution.py +376 -0
- scitex/scholar/storage/_mixins/_storage_helpers.py +121 -0
- scitex/scholar/storage/_mixins/_symlink_handlers.py +226 -0
- scitex/security/README.md +3 -3
- scitex/session/README.md +1 -1
- scitex/session/__init__.py +26 -7
- scitex/session/_decorator.py +1 -1
- scitex/sh/README.md +1 -1
- scitex/sh/__init__.py +7 -4
- scitex/social/__init__.py +155 -0
- scitex/social/docs/EXTERNAL_PACKAGE_BRANDING.md +149 -0
- scitex/stats/_mcp/_handlers/__init__.py +31 -0
- scitex/stats/_mcp/_handlers/_corrections.py +113 -0
- scitex/stats/_mcp/_handlers/_descriptive.py +78 -0
- scitex/stats/_mcp/_handlers/_effect_size.py +106 -0
- scitex/stats/_mcp/_handlers/_format.py +94 -0
- scitex/stats/_mcp/_handlers/_normality.py +110 -0
- scitex/stats/_mcp/_handlers/_posthoc.py +224 -0
- scitex/stats/_mcp/_handlers/_power.py +247 -0
- scitex/stats/_mcp/_handlers/_recommend.py +102 -0
- scitex/stats/_mcp/_handlers/_run_test.py +279 -0
- scitex/stats/_mcp/_handlers/_stars.py +48 -0
- scitex/stats/_mcp/handlers.py +19 -1171
- scitex/stats/auto/_stat_style.py +175 -0
- scitex/stats/auto/_style_definitions.py +411 -0
- scitex/stats/auto/_styles.py +22 -620
- scitex/stats/descriptive/__init__.py +11 -8
- scitex/stats/descriptive/_ci.py +39 -0
- scitex/stats/power/_power.py +15 -4
- scitex/str/__init__.py +2 -1
- scitex/str/_title_case.py +63 -0
- scitex/template/README.md +1 -1
- scitex/template/__init__.py +25 -10
- scitex/template/_code_templates.py +147 -0
- scitex/template/_mcp/handlers.py +81 -0
- scitex/template/_mcp/tool_schemas.py +55 -0
- scitex/template/_templates/__init__.py +51 -0
- scitex/template/_templates/audio.py +233 -0
- scitex/template/_templates/canvas.py +312 -0
- scitex/template/_templates/capture.py +268 -0
- scitex/template/_templates/config.py +43 -0
- scitex/template/_templates/diagram.py +294 -0
- scitex/template/_templates/io.py +107 -0
- scitex/template/_templates/module.py +53 -0
- scitex/template/_templates/plt.py +202 -0
- scitex/template/_templates/scholar.py +267 -0
- scitex/template/_templates/session.py +130 -0
- scitex/template/_templates/session_minimal.py +43 -0
- scitex/template/_templates/session_plot.py +67 -0
- scitex/template/_templates/session_stats.py +77 -0
- scitex/template/_templates/stats.py +323 -0
- scitex/template/_templates/writer.py +296 -0
- scitex/template/clone_writer_directory.py +5 -5
- scitex/ui/_backends/_email.py +10 -2
- scitex/ui/_backends/_webhook.py +5 -1
- scitex/web/_search_pubmed.py +10 -6
- scitex/writer/README.md +1 -1
- scitex/writer/__init__.py +43 -34
- scitex/writer/_mcp/handlers.py +11 -744
- scitex/writer/_mcp/tool_schemas.py +5 -335
- scitex-2.15.3.dist-info/METADATA +667 -0
- {scitex-2.14.0.dist-info → scitex-2.15.3.dist-info}/RECORD +241 -120
- scitex/canvas/editor/flask_editor/templates/_scripts.py +0 -4933
- scitex/canvas/editor/flask_editor/templates/_styles.py +0 -1658
- scitex/diagram/_compile.py +0 -312
- scitex/diagram/_diagram.py +0 -355
- scitex/diagram/_mcp/__init__.py +0 -4
- scitex/diagram/_mcp/handlers.py +0 -400
- scitex/diagram/_mcp/tool_schemas.py +0 -157
- scitex/diagram/_presets.py +0 -173
- scitex/diagram/_schema.py +0 -182
- scitex/diagram/_split.py +0 -278
- scitex/gen/_ci.py +0 -12
- scitex/gen/_title_case.py +0 -89
- scitex/plt/_mcp/__init__.py +0 -4
- scitex/plt/_mcp/_handlers_annotation.py +0 -102
- scitex/plt/_mcp/_handlers_figure.py +0 -195
- scitex/plt/_mcp/_handlers_plot.py +0 -252
- scitex/plt/_mcp/_handlers_style.py +0 -219
- scitex/plt/_mcp/handlers.py +0 -74
- scitex/plt/_mcp/tool_schemas.py +0 -497
- scitex/plt/mcp_server.py +0 -231
- scitex/scholar/examples/SUGGESTIONS.md +0 -865
- scitex/scholar/examples/dev.py +0 -38
- scitex-2.14.0.dist-info/METADATA +0 -1238
- /scitex/{gen → context}/_detect_environment.py +0 -0
- /scitex/{gen → context}/_get_notebook_path.py +0 -0
- /scitex/{gen/_shell.py → sh/_shell_legacy.py} +0 -0
- {scitex-2.14.0.dist-info → scitex-2.15.3.dist-info}/WHEEL +0 -0
- {scitex-2.14.0.dist-info → scitex-2.15.3.dist-info}/entry_points.txt +0 -0
- {scitex-2.14.0.dist-info → scitex-2.15.3.dist-info}/licenses/LICENSE +0 -0
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#!/usr/bin/env python3
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# File: src/scitex/scholar/_mcp/crossref_handlers.py
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"""CrossRef-SciTeX handler implementations via crossref-local delegation.
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These handlers delegate to crossref-local for fast access to 167M+ papers.
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Branded as crossref-scitex to distinguish from official CrossRef API.
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"""
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import asyncio
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__all__ = [
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"crossref_search_handler",
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"crossref_get_handler",
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"crossref_count_handler",
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"crossref_citations_handler",
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]
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def _ensure_crossref():
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"""Ensure crossref_scitex module is available."""
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try:
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from scitex.scholar import crossref_scitex
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async def crossref_search_handler(
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"""Search CrossRef database (167M+ papers) via crossref-local.
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query: Search query string (full-text search)
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"total": total,
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"source": "crossref_local",
|
|
107
|
+
"timestamp": datetime.now().isoformat(),
|
|
108
|
+
}
|
|
109
|
+
|
|
110
|
+
except Exception as e:
|
|
111
|
+
return {"success": False, "error": str(e)}
|
|
112
|
+
|
|
113
|
+
|
|
114
|
+
async def crossref_get_handler(
|
|
115
|
+
doi: str,
|
|
116
|
+
include_citations: bool = False,
|
|
117
|
+
include_references: bool = False,
|
|
118
|
+
) -> dict:
|
|
119
|
+
"""Get a paper by DOI from CrossRef database.
|
|
120
|
+
|
|
121
|
+
Args:
|
|
122
|
+
doi: DOI of the paper
|
|
123
|
+
include_citations: Include list of citing DOIs
|
|
124
|
+
include_references: Include list of referenced DOIs
|
|
125
|
+
"""
|
|
126
|
+
try:
|
|
127
|
+
crossref = _ensure_crossref()
|
|
128
|
+
loop = asyncio.get_running_loop()
|
|
129
|
+
|
|
130
|
+
def do_get():
|
|
131
|
+
work = crossref.get(doi)
|
|
132
|
+
if not work:
|
|
133
|
+
return None
|
|
134
|
+
|
|
135
|
+
result = {
|
|
136
|
+
"doi": work.doi,
|
|
137
|
+
"title": work.title,
|
|
138
|
+
"authors": work.authors,
|
|
139
|
+
"year": work.year,
|
|
140
|
+
"journal": work.journal,
|
|
141
|
+
"abstract": work.abstract,
|
|
142
|
+
"citation_count": work.citation_count,
|
|
143
|
+
"reference_count": work.reference_count,
|
|
144
|
+
"type": work.type,
|
|
145
|
+
"publisher": work.publisher,
|
|
146
|
+
"url": work.url,
|
|
147
|
+
}
|
|
148
|
+
|
|
149
|
+
if include_citations:
|
|
150
|
+
result["citing_dois"] = crossref.get_citing(doi)
|
|
151
|
+
|
|
152
|
+
if include_references:
|
|
153
|
+
result["referenced_dois"] = crossref.get_cited(doi)
|
|
154
|
+
|
|
155
|
+
return result
|
|
156
|
+
|
|
157
|
+
result = await loop.run_in_executor(None, do_get)
|
|
158
|
+
|
|
159
|
+
if result is None:
|
|
160
|
+
return {
|
|
161
|
+
"success": False,
|
|
162
|
+
"error": f"DOI not found: {doi}",
|
|
163
|
+
"doi": doi,
|
|
164
|
+
}
|
|
165
|
+
|
|
166
|
+
return {
|
|
167
|
+
"success": True,
|
|
168
|
+
"paper": result,
|
|
169
|
+
"source": "crossref_local",
|
|
170
|
+
"timestamp": datetime.now().isoformat(),
|
|
171
|
+
}
|
|
172
|
+
|
|
173
|
+
except Exception as e:
|
|
174
|
+
return {"success": False, "error": str(e)}
|
|
175
|
+
|
|
176
|
+
|
|
177
|
+
async def crossref_count_handler(query: str) -> dict:
|
|
178
|
+
"""Count papers matching a search query.
|
|
179
|
+
|
|
180
|
+
Args:
|
|
181
|
+
query: Search query string
|
|
182
|
+
"""
|
|
183
|
+
try:
|
|
184
|
+
crossref = _ensure_crossref()
|
|
185
|
+
loop = asyncio.get_running_loop()
|
|
186
|
+
|
|
187
|
+
count = await loop.run_in_executor(None, crossref.count, query)
|
|
188
|
+
|
|
189
|
+
return {
|
|
190
|
+
"success": True,
|
|
191
|
+
"query": query,
|
|
192
|
+
"count": count,
|
|
193
|
+
"source": "crossref_local",
|
|
194
|
+
"timestamp": datetime.now().isoformat(),
|
|
195
|
+
}
|
|
196
|
+
|
|
197
|
+
except Exception as e:
|
|
198
|
+
return {"success": False, "error": str(e)}
|
|
199
|
+
|
|
200
|
+
|
|
201
|
+
async def crossref_citations_handler(
|
|
202
|
+
doi: str,
|
|
203
|
+
direction: str = "citing", # "citing", "cited", or "both"
|
|
204
|
+
limit: int = 100,
|
|
205
|
+
) -> dict:
|
|
206
|
+
"""Get citation relationships for a paper.
|
|
207
|
+
|
|
208
|
+
Args:
|
|
209
|
+
doi: DOI of the paper
|
|
210
|
+
direction: "citing" (papers that cite this), "cited" (references), or "both"
|
|
211
|
+
limit: Maximum number of results per direction
|
|
212
|
+
"""
|
|
213
|
+
try:
|
|
214
|
+
crossref = _ensure_crossref()
|
|
215
|
+
loop = asyncio.get_running_loop()
|
|
216
|
+
|
|
217
|
+
def do_citations():
|
|
218
|
+
result = {"doi": doi}
|
|
219
|
+
|
|
220
|
+
if direction in ("citing", "both"):
|
|
221
|
+
citing = crossref.get_citing(doi)
|
|
222
|
+
result["citing_dois"] = citing[:limit]
|
|
223
|
+
result["citing_count"] = len(citing)
|
|
224
|
+
|
|
225
|
+
if direction in ("cited", "both"):
|
|
226
|
+
cited = crossref.get_cited(doi)
|
|
227
|
+
result["cited_dois"] = cited[:limit]
|
|
228
|
+
result["cited_count"] = len(cited)
|
|
229
|
+
|
|
230
|
+
return result
|
|
231
|
+
|
|
232
|
+
result = await loop.run_in_executor(None, do_citations)
|
|
233
|
+
|
|
234
|
+
return {
|
|
235
|
+
"success": True,
|
|
236
|
+
**result,
|
|
237
|
+
"direction": direction,
|
|
238
|
+
"source": "crossref_local",
|
|
239
|
+
"timestamp": datetime.now().isoformat(),
|
|
240
|
+
}
|
|
241
|
+
|
|
242
|
+
except Exception as e:
|
|
243
|
+
return {"success": False, "error": str(e)}
|
|
244
|
+
|
|
245
|
+
|
|
246
|
+
async def crossref_info_handler() -> dict:
|
|
247
|
+
"""Get information about CrossRef database configuration and status."""
|
|
248
|
+
try:
|
|
249
|
+
crossref = _ensure_crossref()
|
|
250
|
+
loop = asyncio.get_running_loop()
|
|
251
|
+
|
|
252
|
+
info = await loop.run_in_executor(None, crossref.info)
|
|
253
|
+
|
|
254
|
+
return {
|
|
255
|
+
"success": True,
|
|
256
|
+
"info": info,
|
|
257
|
+
"mode": crossref.get_mode(),
|
|
258
|
+
"timestamp": datetime.now().isoformat(),
|
|
259
|
+
}
|
|
260
|
+
|
|
261
|
+
except Exception as e:
|
|
262
|
+
return {"success": False, "error": str(e)}
|
|
263
|
+
|
|
264
|
+
|
|
265
|
+
# EOF
|