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LernerLab/GuPPy

https://github.com/LernerLab/GuPPy · scanned 2026-06-05 17:54 UTC (4 days, 21 hours ago) · 10 languages

305 raw signals (115 security + 190 graph) 92nd percentile · Python · medium (20-100K LoC) System graph score 89 (lower by 4)

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UNIFIED Repobility · multi-layer engine · AI coders

Complete repo analysis

Last scanned 4 days, 21 hours ago · v2 · 128 actionable findings from 2 signal sources. 57 repeated signals grouped for readability. Security checks, system graph analysis, and verified AI-agent feedback are merged into one review queue.

JSON
Combined
88.0
/100
Security checks
87
48 findings
System graph
89
77.8% cov · 80 findings
Critical
0
click to filter
Agents
6
0 votes
Crowd
0
reported
Score breakdown â 2026-05-18-v5
Component Sub-score Weight Contribution
structure_score 85.0 0.15 12.75
security_score 91.0 0.25 22.75
testing_score 100.0 0.20 20.00
documentation_score 93.0 0.15 13.95
practices_score 75.0 0.15 11.25
code_quality 39.2 0.10 3.92
Overall 1.00 84.6
Severity distribution — click a segment to filter
Active filters: excluding tests × Reset all
Severity: Critical 0 High 5 Medium 6 Low 67 9-Layer: Software Security Quality Integrity Frontend Hardware Data Network Cicd Source: Security checks 48 System graph 80 Crowd 0 Layer: Quality 95 Security 3 Software 22 Cicd 6 Api 1 Frontend 1

All 1941 nodes from the latest scan, grouped by kind. Each node is a unit the engine identified (file, function, endpoint, table…). Most users won't need this view — it's primarily for debugging the engine's graph extraction or for AI agents that want to enumerate the project structure.

LabelLayerStatusPath
panel_extension software healthy tests/conftest.py:36
_make_stores_list software healthy tests/integration/test_integration_build_event_to_extractor…
test_doric_session_routes_all_events_to_doric_extractor software healthy tests/integration/test_integration_build_event_to_extractor…
test_csv_session_routes_all_events_to_csv_extractor software healthy tests/integration/test_integration_build_event_to_extractor…
test_tdt_session_routes_all_events_to_tdt_extractor software healthy tests/integration/test_integration_build_event_to_extractor…
test_npm_session_routes_all_events_to_npm_extractor software healthy tests/integration/test_integration_build_event_to_extractor…
test_mixed_tdt_csv_session_partitions_events_correctly software healthy tests/integration/test_integration_build_event_to_extractor…
test_nwb_session_routes_all_events_to_nwb_extractor software healthy tests/integration/test_integration_build_event_to_extractor…
patched_stream_nwb software healthy tests/integration/test_integration_dandi.py:41
local_stream_nwb software healthy tests/integration/test_integration_dandi.py:53
dandi_pipeline_state software healthy tests/integration/test_integration_dandi.py:62
step2_dandi_output software healthy tests/integration/test_integration_dandi.py:75
step3_dandi_output software healthy tests/integration/test_integration_dandi.py:89
test_step2_writes_stores_list software healthy tests/integration/test_integration_dandi.py:103
test_step3_writes_hdf5_per_event software healthy tests/integration/test_integration_dandi.py:114
test_step2_writes_stores_list_for_each_session software healthy tests/integration/test_integration_dandi.py:130
test_zscore_method software healthy tests/integration/test_integration_zscore_method.py:32
test_group_analysis software healthy tests/integration/test_integration_group_analysis.py:28
capturing_init software healthy tests/integration/test_integration_group_analysis.py:91
test_step3_reproduces_split_events_from_persisted_params software healthy tests/integration/test_integration_npm_params_persistence.p…
csv_session_copy software healthy tests/integration/test_integration_parametrized_outputs.py:…
test_explicit_run_name_creates_named_directory software healthy tests/integration/test_integration_parametrized_outputs.py:…
test_two_run_names_coexist software healthy tests/integration/test_integration_parametrized_outputs.py:…
test_create_policy_raises_on_existing_run_name software healthy tests/integration/test_integration_parametrized_outputs.py:…
test_overwrite_policy_replaces_existing_run_name software healthy tests/integration/test_integration_parametrized_outputs.py:…
test_legacy_unspecified_run_name_uses_integer_suffix software healthy tests/integration/test_integration_parametrized_outputs.py:…
test_selected_runs_processes_only_chosen_dir software healthy tests/integration/test_integration_parametrized_outputs.py:…
test_selected_runs_unknown_name_raises software healthy tests/integration/test_integration_parametrized_outputs.py:…
_locate_output_directory software healthy tests/integration/conftest.py:77
_prepare_pipeline_state software healthy tests/integration/conftest.py:89
_run_step2 software healthy tests/integration/conftest.py:121
_selected_runs_for_session software healthy tests/integration/conftest.py:134
_run_step3 software healthy tests/integration/conftest.py:140
_run_step4 software healthy tests/integration/conftest.py:153
step2_output_csv software healthy tests/integration/conftest.py:167
step2_output_tdt software healthy tests/integration/conftest.py:173
step2_output_npm software healthy tests/integration/conftest.py:179
step2_output_doric software healthy tests/integration/conftest.py:185
step2_output_nwb software healthy tests/integration/conftest.py:191
step3_output_csv software healthy tests/integration/conftest.py:197
step3_output_tdt software healthy tests/integration/conftest.py:202
step3_output_npm software healthy tests/integration/conftest.py:207
step3_output_doric software healthy tests/integration/conftest.py:212
step3_output_nwb software healthy tests/integration/conftest.py:217
step4_output_csv software healthy tests/integration/conftest.py:222
step4_output_tdt software healthy tests/integration/conftest.py:227
step4_output_npm software healthy tests/integration/conftest.py:232
step4_output_doric software healthy tests/integration/conftest.py:237
step4_output_nwb software healthy tests/integration/conftest.py:242
_run_step5 software healthy tests/integration/conftest.py:246

Showing first 50 of this kind. Full payload available via the JSON button at the top of the page.

LabelLayerStatusPath
README.md software healthy README.md
.pre-commit-config.yaml software healthy .pre-commit-config.yaml
.readthedocs.yaml software healthy .readthedocs.yaml
pyproject.toml software healthy pyproject.toml
CHANGELOG.md software healthy CHANGELOG.md
codecov.yml software healthy codecov.yml
conftest.py software healthy tests/conftest.py
test_integration_build_event_to_extractor.py software healthy tests/integration/test_integration_build_event_to_extractor…
test_integration_dandi.py software healthy tests/integration/test_integration_dandi.py
test_integration_zscore_method.py software healthy tests/integration/test_integration_zscore_method.py
test_integration_group_analysis.py software healthy tests/integration/test_integration_group_analysis.py
test_integration_npm_params_persistence.py software healthy tests/integration/test_integration_npm_params_persistence.py
test_integration_parametrized_outputs.py software healthy tests/integration/test_integration_parametrized_outputs.py
conftest.py software healthy tests/integration/conftest.py
test_integration_intra_session_mixed_modality.py software healthy tests/integration/test_integration_intra_session_mixed_moda…
test_integration_bin_psth_trials.py software healthy tests/integration/test_integration_bin_psth_trials.py
test_integration_parallel.py software healthy tests/integration/test_integration_parallel.py
test_integration_no_isosbestic.py software healthy tests/integration/test_integration_no_isosbestic.py
test_integration_step4.py software healthy tests/integration/test_integration_step4.py
test_integration_dff.py software healthy tests/integration/test_integration_dff.py
test_integration_step2_idempotent.py software healthy tests/integration/test_integration_step2_idempotent.py
test_integration_step5.py software healthy tests/integration/test_integration_step5.py
test_integration_step3.py software healthy tests/integration/test_integration_step3.py
test_integration_combine_data.py software healthy tests/integration/test_integration_combine_data.py
test_integration_step1.py software healthy tests/integration/test_integration_step1.py
test_integration_step2.py software healthy tests/integration/test_integration_step2.py
test_integration_inter_session_mixed_modality.py software healthy tests/integration/test_integration_inter_session_mixed_moda…
test_integration_home.py software healthy tests/integration/test_integration_home.py
test_integration_cross_correlation.py software healthy tests/integration/test_integration_cross_correlation.py
test_integration_step6.py software healthy tests/integration/test_integration_step6.py
test_integration_artifact_removal.py software healthy tests/integration/test_integration_artifact_removal.py
__init__.py software healthy tests/unit/__init__.py
test_dandi_selector.py software healthy tests/unit/frontend/test_dandi_selector.py
test_input_parameters.py software healthy tests/unit/frontend/test_input_parameters.py
test_storenames_config.py software healthy tests/unit/frontend/test_storenames_config.py
__init__.py software healthy tests/unit/frontend/__init__.py
conftest.py software healthy tests/unit/frontend/conftest.py
test_artifact_removal.py software healthy tests/unit/frontend/test_artifact_removal.py
test_storenames_selector.py software healthy tests/unit/frontend/test_storenames_selector.py
test_sidebar.py software healthy tests/unit/frontend/test_sidebar.py
test_npm_gui_prompts.py software healthy tests/unit/frontend/test_npm_gui_prompts.py
test_visualization_dashboard.py software healthy tests/unit/frontend/test_visualization_dashboard.py
test_frontend_utils.py software healthy tests/unit/frontend/test_frontend_utils.py
test_progress.py software healthy tests/unit/frontend/test_progress.py
test_storenames_instructions.py software healthy tests/unit/frontend/test_storenames_instructions.py
test_parameterized_plotter.py software healthy tests/unit/frontend/test_parameterized_plotter.py
__init__.py software healthy tests/unit/visualization/__init__.py
conftest.py software healthy tests/unit/visualization/conftest.py
test_transients.py software healthy tests/unit/visualization/test_transients.py
test_preprocessing.py software healthy tests/unit/visualization/test_preprocessing.py

Showing first 50 of this kind. Full payload available via the JSON button at the top of the page.

LabelLayerStatusPath
TestDandiIntegration software healthy tests/integration/test_integration_dandi.py:100
TestDandiIntegrationMultiAsset software healthy tests/integration/test_integration_dandi.py:127
TestStep2RunName software healthy tests/integration/test_integration_parametrized_outputs.py:…
TestStep3SelectedRuns software healthy tests/integration/test_integration_parametrized_outputs.py:…
TestStep4SelectedRuns software healthy tests/integration/test_integration_parametrized_outputs.py:…
TestStep3ProgressFileAccounting software healthy tests/integration/test_integration_step3.py:50
FakeAsset software healthy tests/unit/frontend/test_dandi_selector.py:12
FakeDandiset software healthy tests/unit/frontend/test_dandi_selector.py:17
FakeDandiAPIClient software healthy tests/unit/frontend/test_dandi_selector.py:26
TestDandiSelector software healthy tests/unit/frontend/test_dandi_selector.py:64
TrackingClient software healthy tests/unit/frontend/test_dandi_selector.py:146
TestParameterForm software healthy tests/unit/frontend/test_input_parameters.py:106
_FakeAsset software healthy tests/unit/frontend/test_input_parameters.py:276
_FakeDandiset software healthy tests/unit/frontend/test_input_parameters.py:281
_FakeDandiAPIClient software healthy tests/unit/frontend/test_input_parameters.py:289
TestParameterFormDandiMode software healthy tests/unit/frontend/test_input_parameters.py:312
TestOutputsSelector software healthy tests/unit/frontend/test_input_parameters.py:361
TestRebuildPerSessionWidgets software healthy tests/unit/frontend/test_input_parameters.py:468
TestFolderSelectionCards software healthy tests/unit/frontend/test_input_parameters.py:509
TestStorenamesConfig software healthy tests/unit/frontend/test_storenames_config.py:23
FakeEvent software healthy tests/unit/frontend/test_artifact_removal.py:16
TestArtifactRemovalWidget software healthy tests/unit/frontend/test_artifact_removal.py:40
TestStorenamesSelector software healthy tests/unit/frontend/test_storenames_selector.py:4
TestSidebar software healthy tests/unit/frontend/test_sidebar.py:14
TestValidateTimestampConfiguration software healthy tests/unit/frontend/test_npm_gui_prompts.py:8
TestVisualizationDashboard software healthy tests/unit/frontend/test_visualization_dashboard.py:14
_MockProgressBar software healthy tests/unit/frontend/test_progress.py:30
TestSubprocessMainHandler software healthy tests/unit/frontend/test_progress.py:63
TestStorenamesInstructions software healthy tests/unit/frontend/test_storenames_instructions.py:11
TestStorenamesInstructionsNPM software healthy tests/unit/frontend/test_storenames_instructions.py:28
TestParameterizedPlotter software healthy tests/unit/frontend/test_parameterized_plotter.py:61
FakeArtifactRemovalWidget software healthy tests/unit/orchestration/test_preprocess.py:14
TestExecuteVisualizePeaks software healthy tests/unit/orchestration/test_transients.py:51
TestExecuteVisualizePeaksCombined software healthy tests/unit/orchestration/test_transients.py:117
FakePath software healthy tests/unit/orchestration/test_storenames.py:31
CapturingStorenamesSelector software healthy tests/unit/orchestration/test_storenames.py:530
FakeStorenamesInstructions software healthy tests/unit/orchestration/test_storenames.py:592
FakeBootstrapTemplate software healthy tests/unit/orchestration/test_storenames.py:597
TrackingSelector software healthy tests/unit/orchestration/test_storenames.py:616
TestOrchestrateReadRawDataErrorEnrichment software healthy tests/unit/orchestration/test_read_raw_data.py:17
TestProgressPoller software healthy tests/unit/orchestration/test_read_raw_data.py:53
TestProgressFileAccountingEndToEnd software healthy tests/unit/orchestration/test_read_raw_data.py:100
_SleepingExtractor software healthy tests/unit/orchestration/test_read_raw_data.py:120
TdtRecordingExtractorTestMixin software healthy tests/unit/extractors/test_tdt_recording_extractor.py:116
TestTdtRecordingExtractor software healthy tests/unit/extractors/test_tdt_recording_extractor.py:156
TestTdtRecordingExtractorSample2 software healthy tests/unit/extractors/test_tdt_recording_extractor.py:168
TdtRecordingExtractorSplitTestMixin software healthy tests/unit/extractors/test_tdt_recording_extractor.py:180
TestTdtRecordingExtractorSplitEvent software healthy tests/unit/extractors/test_tdt_recording_extractor.py:226
TestTdtRecordingExtractorSplitFloat software healthy tests/unit/extractors/test_tdt_recording_extractor.py:240
TestDandiLiveContract software healthy tests/unit/extractors/test_dandi_nwb_live.py:42

Showing first 50 of this kind. Full payload available via the JSON button at the top of the page.

LabelLayerStatusPath
tests software healthy tests
integration software healthy tests/integration
unit software healthy tests/unit
frontend software healthy tests/unit/frontend
visualization software healthy tests/unit/visualization
orchestration software healthy tests/unit/orchestration
extractors software healthy tests/unit/extractors
testing software healthy tests/unit/testing
utils software healthy tests/unit/utils
analysis software healthy tests/unit/analysis
UI software healthy tests/UI
consistency software healthy tests/consistency
docs software healthy docs
reference software healthy docs/reference
scripts software healthy docs/scripts
explanation software healthy docs/explanation
tutorials software healthy docs/tutorials
how-to software healthy docs/how-to
stubbed_testing_data software healthy stubbed_testing_data
tdt software healthy stubbed_testing_data/tdt
Photo_63_207-181030-103332 software healthy stubbed_testing_data/tdt/Photo_63_207-181030-103332
.github software healthy .github
workflows software healthy .github/workflows
actions software healthy .github/actions
load-full-data software healthy .github/actions/load-full-data
load-stubbed-data software healthy .github/actions/load-stubbed-data
src software healthy src
guppy software healthy src/guppy
frontend software healthy src/guppy/frontend
visualization software healthy src/guppy/visualization
orchestration software healthy src/guppy/orchestration
extractors software healthy src/guppy/extractors
testing software healthy src/guppy/testing
scripts software healthy src/guppy/testing/scripts
utils software healthy src/guppy/utils
analysis software healthy src/guppy/analysis

LabelLayerStatusPath
load_python_and_os_versions cicd healthy .github/workflows/pr-tests.yml
assess-file-changes cicd healthy .github/workflows/pr-tests.yml
detect-changelog-updates cicd healthy .github/workflows/pr-tests.yml
run-tests cicd healthy .github/workflows/pr-tests.yml
check-final-status cicd healthy .github/workflows/pr-tests.yml
run cicd healthy .github/workflows/run-tests.yml
build cicd healthy .github/workflows/assess-file-changes.yml
deploy cicd healthy .github/workflows/auto-publish.yml
claude cicd healthy .github/workflows/claude.yml
load_python_and_os_versions cicd healthy .github/workflows/dailies.yml
run-daily-tests cicd healthy .github/workflows/dailies.yml
notify-test-failure cicd healthy .github/workflows/dailies.yml

LabelLayerStatusPath
gha::pr-tests cicd healthy .github/workflows/pr-tests.yml
gha::run-tests cicd healthy .github/workflows/run-tests.yml
gha::assess-file-changes cicd healthy .github/workflows/assess-file-changes.yml
gha::auto-publish cicd healthy .github/workflows/auto-publish.yml
gha::claude cicd healthy .github/workflows/claude.yml
gha::dailies cicd healthy .github/workflows/dailies.yml

LabelLayerStatusPath
CODECOV_TOKEN cicd healthy —
CLAUDE_CODE_OAUTH_TOKEN cicd healthy —
MAIL_USERNAME cicd healthy —
MAIL_PASSWORD cicd healthy —
DAILY_FAILURE_EMAIL_LIST cicd healthy —
RCLONE_CONFIG cicd healthy —

LabelLayerStatusPath
repobility-clone-ikwo_s95 software healthy /tmp/repobility-clone-ikwo_s95

LabelLayerStatusPath
127.0.0.1 network healthy src/guppy/frontend/frontend_utils.py
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