phas 0.98.0__tar.gz
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.
- phas-0.98.0/.dockerignore +9 -0
- phas-0.98.0/.github/workflows/python-publish.yml +38 -0
- phas-0.98.0/.gitignore +16 -0
- phas-0.98.0/.readthedocs.yaml +28 -0
- phas-0.98.0/LICENSE.txt +674 -0
- phas-0.98.0/PKG-INFO +34 -0
- phas-0.98.0/README.md +2 -0
- phas-0.98.0/docker/histo_proc_base/Dockerfile +38 -0
- phas-0.98.0/docker/histo_proc_simple/Dockerfile +5 -0
- phas-0.98.0/docker/histo_proc_simple/README.md +12 -0
- phas-0.98.0/docker/histo_proc_simple/os_thumb.py +9 -0
- phas-0.98.0/docker/histo_proc_simple/prep_bucket.sh +209 -0
- phas-0.98.0/docker/phas/Dockerfile +52 -0
- phas-0.98.0/docker/phas/env.sh +8 -0
- phas-0.98.0/docker/phas/nginx.conf +66 -0
- phas-0.98.0/docker/phas/phas_nginx.conf +16 -0
- phas-0.98.0/docker/phas/phas_uwsgi.ini +48 -0
- phas-0.98.0/docker/phas/slide_server.sh +2 -0
- phas-0.98.0/docker/phas/supervisord.conf +22 -0
- phas-0.98.0/docs/Makefile +19 -0
- phas-0.98.0/docs/source/conf.py +182 -0
- phas-0.98.0/docs/source/index.rst +28 -0
- phas-0.98.0/docs/source/notes_tval.rst +30 -0
- phas-0.98.0/docs/source/org_data.rst +193 -0
- phas-0.98.0/docs/source/org_data_local.rst +195 -0
- phas-0.98.0/docs/source/production.rst +155 -0
- phas-0.98.0/docs/source/quick_start.rst +306 -0
- phas-0.98.0/docs/source/quick_start_docker.rst +187 -0
- phas-0.98.0/docs/source/requirements.txt +1 -0
- phas-0.98.0/docs/source/upgrading.rst +35 -0
- phas-0.98.0/libs/os_affine/src/CMakeLists.txt +28 -0
- phas-0.98.0/libs/os_affine/src/FastLinearInterpolator.h +900 -0
- phas-0.98.0/libs/os_affine/src/os_affine.cxx +202 -0
- phas-0.98.0/libs/os_affine/src/os_affine_api.h +207 -0
- phas-0.98.0/libs/os_affine/src/os_affine_impl.cxx +62 -0
- phas-0.98.0/libs/os_affine/src/setup.py +12 -0
- phas-0.98.0/phas/__init__.py +128 -0
- phas-0.98.0/phas/admin.py +278 -0
- phas-0.98.0/phas/auth.py +593 -0
- phas-0.98.0/phas/common.py +37 -0
- phas-0.98.0/phas/db.py +39 -0
- phas-0.98.0/phas/default_settings.py +7 -0
- phas-0.98.0/phas/delegate.py +141 -0
- phas-0.98.0/phas/dltrain.py +1625 -0
- phas-0.98.0/phas/dzi.py +706 -0
- phas-0.98.0/phas/gcs_handler.py +510 -0
- phas-0.98.0/phas/project_cli.py +1327 -0
- phas-0.98.0/phas/project_ref.py +395 -0
- phas-0.98.0/phas/requirements.txt +17 -0
- phas-0.98.0/phas/schema.sql +225 -0
- phas-0.98.0/phas/schema_dltrain.sql +102 -0
- phas-0.98.0/phas/schema_views.sql +34 -0
- phas-0.98.0/phas/slide.py +1792 -0
- phas-0.98.0/phas/slideref.py +170 -0
- phas-0.98.0/phas/sqlmod/add_access_level.sql +10 -0
- phas-0.98.0/phas/sqlmod/add_api_keys.sql +7 -0
- phas-0.98.0/phas/sqlmod/add_projects.sql +100 -0
- phas-0.98.0/phas/sqlmod/add_sample_and_sroi_views.sql +34 -0
- phas-0.98.0/phas/sqlmod/add_sampling_rois.sql +18 -0
- phas-0.98.0/phas/sqlmod/add_specimen_anon.sql +74 -0
- phas-0.98.0/phas/sqlmod/add_tags_and_task_slide_index.sql +21 -0
- phas-0.98.0/phas/sqlmod/add_user_task_slide_prefs.sql +11 -0
- phas-0.98.0/phas/static/DataTables/datatables.min.css +24 -0
- phas-0.98.0/phas/static/DataTables/datatables.min.js +42 -0
- phas-0.98.0/phas/static/colormaps.js +257 -0
- phas-0.98.0/phas/static/ellipsis_button.css +31 -0
- phas-0.98.0/phas/static/ellipsis_button.js +5 -0
- phas-0.98.0/phas/static/fabric/fabric.adapted.js +27108 -0
- phas-0.98.0/phas/static/favicon.ico +0 -0
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- phas-0.98.0/phas/static/jquery-3.6.4.min.js +2 -0
- phas-0.98.0/phas/static/jquery-contextMenu/font/context-menu-icons.eot +0 -0
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- phas-0.98.0/phas/static/jquery-contextMenu/font/context-menu-icons.woff2 +0 -0
- phas-0.98.0/phas/static/jquery-contextMenu/jquery.contextMenu.min.css +16 -0
- phas-0.98.0/phas/static/jquery-contextMenu/jquery.contextMenu.min.css.map +1 -0
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- phas-0.98.0/phas/static/jquery-contextMenu/jquery.contextMenu.min.js.map +1 -0
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- phas-0.98.0/phas/static/jquery-ui/jquery-hex-colorpicker-min.js +1 -0
- phas-0.98.0/phas/static/jquery-ui/jquery-hex-colorpicker.css +38 -0
- phas-0.98.0/phas/static/jquery-ui/jquery-ui-style.css +1312 -0
- phas-0.98.0/phas/static/jquery-ui/jquery-ui.css +1312 -0
- phas-0.98.0/phas/static/jquery-ui/jquery-ui.js +18706 -0
- phas-0.98.0/phas/static/js.cookie.js +163 -0
- phas-0.98.0/phas/static/mousetrap.min.js +11 -0
- phas-0.98.0/phas/static/openseadragon-bin-2.4.0/LICENSE.txt +28 -0
- phas-0.98.0/phas/static/openseadragon-bin-2.4.0/changelog.txt +501 -0
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- phas-0.98.0/samples/projects/cndr.json +22 -0
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- phas-0.98.0/samples/projects/pdnl.json +17 -0
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- phas-0.98.0/samples/tasks/annot_neuronal_val.json +9 -0
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- phas-0.98.0/samples/tasks/cndr-tau-train-prep.json +15 -0
- phas-0.98.0/samples/tasks/cndr-tau-train.json +15 -0
- phas-0.98.0/samples/tasks/cndr_bgtrain.json +12 -0
- phas-0.98.0/samples/tasks/cndr_noctl.json +7 -0
- phas-0.98.0/samples/tasks/cndr_sample_hipp_amy.json +9 -0
- phas-0.98.0/samples/tasks/dlb-syn303-train.json +14 -0
- phas-0.98.0/samples/tasks/dlb-syn303-valprep.json +9 -0
- phas-0.98.0/samples/tasks/dots_he_train.json +14 -0
- phas-0.98.0/samples/tasks/dots_sampling.json +10 -0
- phas-0.98.0/samples/tasks/ftld-tau-boxeval.json +14 -0
- phas-0.98.0/samples/tasks/ftld-tau-train.json +14 -0
- phas-0.98.0/samples/tasks/ftld-tau-valprep.json +9 -0
- phas-0.98.0/samples/tasks/ftld-tdp-boxeval.json +14 -0
- phas-0.98.0/samples/tasks/ftld-tdp-train.json +14 -0
- phas-0.98.0/samples/tasks/ftld-tdp-valprep.json +9 -0
- phas-0.98.0/samples/tasks/hsg/annot_allen.json +6 -0
- phas-0.98.0/samples/tasks/hsg/annot_juelich.json +6 -0
- phas-0.98.0/samples/tasks/hsg/annot_mgh.json +6 -0
- phas-0.98.0/samples/tasks/irwin-R13-train.json +15 -0
- phas-0.98.0/samples/tasks/irwin-R13-valid.json +16 -0
- phas-0.98.0/samples/tasks/irwin-astrocyte-train.json +14 -0
- phas-0.98.0/samples/tasks/irwin-microglia-train.json +14 -0
- phas-0.98.0/samples/tasks/irwin_dots.json +7 -0
- phas-0.98.0/samples/tasks/local_annot.json +9 -0
- phas-0.98.0/samples/tasks/local_dltrain.json +15 -0
- phas-0.98.0/samples/tasks/mtl_browse.json +6 -0
- phas-0.98.0/samples/tasks/mtl_diag.json +12 -0
- phas-0.98.0/samples/tasks/mtl_diag_sampling.json +10 -0
- phas-0.98.0/samples/tasks/mtl_neuronal_val.json +14 -0
- phas-0.98.0/samples/tasks/mtl_nissl_stereology.json +15 -0
- phas-0.98.0/samples/tasks/mtl_nissl_stereology_sampling.json +9 -0
- phas-0.98.0/samples/tasks/mtl_sadhana_hotspots.json +11 -0
- phas-0.98.0/samples/tasks/mtl_threads_validation.json +15 -0
- phas-0.98.0/samples/tasks/nisslannot.json +14 -0
- phas-0.98.0/samples/tasks/tanglethon-prep.json +14 -0
- phas-0.98.0/samples/tasks/tanglethon.json +14 -0
- phas-0.98.0/samples/tasks/tangleval.json +14 -0
- phas-0.98.0/samples/tasks/tardython-prep.json +14 -0
- phas-0.98.0/samples/tasks/tardython.json +14 -0
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