scout-browser 4.89__tar.gz → 4.89.1__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.
Files changed (911) hide show
  1. {scout-browser-4.89 → scout-browser-4.89.1}/CHANGELOG.md +6 -0
  2. {scout-browser-4.89/scout_browser.egg-info → scout-browser-4.89.1}/PKG-INFO +1 -1
  3. scout-browser-4.89.1/scout/__version__.py +1 -0
  4. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/cases/templates/cases/case_report.html +5 -3
  5. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/templates/report_base.html +59 -1
  6. {scout-browser-4.89 → scout-browser-4.89.1/scout_browser.egg-info}/PKG-INFO +1 -1
  7. scout-browser-4.89/scout/__version__.py +0 -1
  8. {scout-browser-4.89 → scout-browser-4.89.1}/LICENSE +0 -0
  9. {scout-browser-4.89 → scout-browser-4.89.1}/MANIFEST.in +0 -0
  10. {scout-browser-4.89 → scout-browser-4.89.1}/README.md +0 -0
  11. {scout-browser-4.89 → scout-browser-4.89.1}/requirements-dev.txt +0 -0
  12. {scout-browser-4.89 → scout-browser-4.89.1}/requirements.txt +0 -0
  13. {scout-browser-4.89 → scout-browser-4.89.1}/scout/__init__.py +0 -0
  14. {scout-browser-4.89 → scout-browser-4.89.1}/scout/adapter/__init__.py +0 -0
  15. {scout-browser-4.89 → scout-browser-4.89.1}/scout/adapter/client.py +0 -0
  16. {scout-browser-4.89 → scout-browser-4.89.1}/scout/adapter/mongo/__init__.py +0 -0
  17. {scout-browser-4.89 → scout-browser-4.89.1}/scout/adapter/mongo/acmg.py +0 -0
  18. {scout-browser-4.89 → scout-browser-4.89.1}/scout/adapter/mongo/base.py +0 -0
  19. {scout-browser-4.89 → scout-browser-4.89.1}/scout/adapter/mongo/case.py +0 -0
  20. {scout-browser-4.89 → scout-browser-4.89.1}/scout/adapter/mongo/case_events.py +0 -0
  21. {scout-browser-4.89 → scout-browser-4.89.1}/scout/adapter/mongo/case_group.py +0 -0
  22. {scout-browser-4.89 → scout-browser-4.89.1}/scout/adapter/mongo/clinvar.py +0 -0
  23. {scout-browser-4.89 → scout-browser-4.89.1}/scout/adapter/mongo/cytoband.py +0 -0
  24. {scout-browser-4.89 → scout-browser-4.89.1}/scout/adapter/mongo/disease_terms.py +0 -0
  25. {scout-browser-4.89 → scout-browser-4.89.1}/scout/adapter/mongo/event.py +0 -0
  26. {scout-browser-4.89 → scout-browser-4.89.1}/scout/adapter/mongo/filter.py +0 -0
  27. {scout-browser-4.89 → scout-browser-4.89.1}/scout/adapter/mongo/hgnc.py +0 -0
  28. {scout-browser-4.89 → scout-browser-4.89.1}/scout/adapter/mongo/hpo.py +0 -0
  29. {scout-browser-4.89 → scout-browser-4.89.1}/scout/adapter/mongo/index.py +0 -0
  30. {scout-browser-4.89 → scout-browser-4.89.1}/scout/adapter/mongo/institute.py +0 -0
  31. {scout-browser-4.89 → scout-browser-4.89.1}/scout/adapter/mongo/managed_variant.py +0 -0
  32. {scout-browser-4.89 → scout-browser-4.89.1}/scout/adapter/mongo/matchmaker.py +0 -0
  33. {scout-browser-4.89 → scout-browser-4.89.1}/scout/adapter/mongo/omics_variant.py +0 -0
  34. {scout-browser-4.89 → scout-browser-4.89.1}/scout/adapter/mongo/panel.py +0 -0
  35. {scout-browser-4.89 → scout-browser-4.89.1}/scout/adapter/mongo/phenomodel.py +0 -0
  36. {scout-browser-4.89 → scout-browser-4.89.1}/scout/adapter/mongo/query.py +0 -0
  37. {scout-browser-4.89 → scout-browser-4.89.1}/scout/adapter/mongo/rank_model.py +0 -0
  38. {scout-browser-4.89 → scout-browser-4.89.1}/scout/adapter/mongo/transcript.py +0 -0
  39. {scout-browser-4.89 → scout-browser-4.89.1}/scout/adapter/mongo/user.py +0 -0
  40. {scout-browser-4.89 → scout-browser-4.89.1}/scout/adapter/mongo/variant.py +0 -0
  41. {scout-browser-4.89 → scout-browser-4.89.1}/scout/adapter/mongo/variant_events.py +0 -0
  42. {scout-browser-4.89 → scout-browser-4.89.1}/scout/adapter/mongo/variant_loader.py +0 -0
  43. {scout-browser-4.89 → scout-browser-4.89.1}/scout/build/__init__.py +0 -0
  44. {scout-browser-4.89 → scout-browser-4.89.1}/scout/build/acmg.py +0 -0
  45. {scout-browser-4.89 → scout-browser-4.89.1}/scout/build/case.py +0 -0
  46. {scout-browser-4.89 → scout-browser-4.89.1}/scout/build/disease.py +0 -0
  47. {scout-browser-4.89 → scout-browser-4.89.1}/scout/build/genes/__init__.py +0 -0
  48. {scout-browser-4.89 → scout-browser-4.89.1}/scout/build/genes/exon.py +0 -0
  49. {scout-browser-4.89 → scout-browser-4.89.1}/scout/build/genes/hgnc_gene.py +0 -0
  50. {scout-browser-4.89 → scout-browser-4.89.1}/scout/build/genes/transcript.py +0 -0
  51. {scout-browser-4.89 → scout-browser-4.89.1}/scout/build/hpo.py +0 -0
  52. {scout-browser-4.89 → scout-browser-4.89.1}/scout/build/individual.py +0 -0
  53. {scout-browser-4.89 → scout-browser-4.89.1}/scout/build/institute.py +0 -0
  54. {scout-browser-4.89 → scout-browser-4.89.1}/scout/build/managed_variant.py +0 -0
  55. {scout-browser-4.89 → scout-browser-4.89.1}/scout/build/panel.py +0 -0
  56. {scout-browser-4.89 → scout-browser-4.89.1}/scout/build/user.py +0 -0
  57. {scout-browser-4.89 → scout-browser-4.89.1}/scout/build/variant/__init__.py +0 -0
  58. {scout-browser-4.89 → scout-browser-4.89.1}/scout/build/variant/clnsig.py +0 -0
  59. {scout-browser-4.89 → scout-browser-4.89.1}/scout/build/variant/compound.py +0 -0
  60. {scout-browser-4.89 → scout-browser-4.89.1}/scout/build/variant/gene.py +0 -0
  61. {scout-browser-4.89 → scout-browser-4.89.1}/scout/build/variant/genotype.py +0 -0
  62. {scout-browser-4.89 → scout-browser-4.89.1}/scout/build/variant/transcript.py +0 -0
  63. {scout-browser-4.89 → scout-browser-4.89.1}/scout/build/variant/variant.py +0 -0
  64. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/__init__.py +0 -0
  65. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/base.py +0 -0
  66. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/convert.py +0 -0
  67. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/delete/__init__.py +0 -0
  68. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/delete/delete_command.py +0 -0
  69. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/download/__init__.py +0 -0
  70. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/download/download_command.py +0 -0
  71. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/download/ensembl.py +0 -0
  72. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/download/everything.py +0 -0
  73. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/download/exac.py +0 -0
  74. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/download/hgnc.py +0 -0
  75. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/download/hpo.py +0 -0
  76. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/download/omim.py +0 -0
  77. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/download/orpha.py +0 -0
  78. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/export/__init__.py +0 -0
  79. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/export/case.py +0 -0
  80. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/export/database.py +0 -0
  81. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/export/exon.py +0 -0
  82. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/export/export_command.py +0 -0
  83. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/export/export_handler.py +0 -0
  84. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/export/gene.py +0 -0
  85. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/export/hpo.py +0 -0
  86. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/export/mitochondrial_report.py +0 -0
  87. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/export/panel.py +0 -0
  88. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/export/transcript.py +0 -0
  89. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/export/utils.py +0 -0
  90. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/export/variant.py +0 -0
  91. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/index_command.py +0 -0
  92. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/load/__init__.py +0 -0
  93. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/load/base.py +0 -0
  94. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/load/case.py +0 -0
  95. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/load/cytoband.py +0 -0
  96. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/load/exons.py +0 -0
  97. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/load/institute.py +0 -0
  98. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/load/panel.py +0 -0
  99. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/load/region.py +0 -0
  100. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/load/report.py +0 -0
  101. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/load/research.py +0 -0
  102. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/load/user.py +0 -0
  103. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/load/variants.py +0 -0
  104. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/serve.py +0 -0
  105. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/setup/__init__.py +0 -0
  106. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/setup/setup_scout.py +0 -0
  107. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/update/__init__.py +0 -0
  108. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/update/base.py +0 -0
  109. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/update/case.py +0 -0
  110. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/update/compounds.py +0 -0
  111. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/update/disease.py +0 -0
  112. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/update/genes.py +0 -0
  113. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/update/hpo.py +0 -0
  114. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/update/individual.py +0 -0
  115. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/update/institute.py +0 -0
  116. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/update/omim.py +0 -0
  117. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/update/panel.py +0 -0
  118. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/update/panelapp.py +0 -0
  119. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/update/phenotype_groups.py +0 -0
  120. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/update/user.py +0 -0
  121. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/utils.py +0 -0
  122. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/view/__init__.py +0 -0
  123. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/view/aliases.py +0 -0
  124. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/view/base.py +0 -0
  125. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/view/case.py +0 -0
  126. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/view/collections.py +0 -0
  127. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/view/diseases.py +0 -0
  128. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/view/hgnc.py +0 -0
  129. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/view/hpo.py +0 -0
  130. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/view/index.py +0 -0
  131. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/view/individuals.py +0 -0
  132. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/view/institutes.py +0 -0
  133. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/view/intervals.py +0 -0
  134. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/view/panels.py +0 -0
  135. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/view/transcripts.py +0 -0
  136. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/view/users.py +0 -0
  137. {scout-browser-4.89 → scout-browser-4.89.1}/scout/commands/wipe_database.py +0 -0
  138. {scout-browser-4.89 → scout-browser-4.89.1}/scout/constants/__init__.py +0 -0
  139. {scout-browser-4.89 → scout-browser-4.89.1}/scout/constants/acmg.py +0 -0
  140. {scout-browser-4.89 → scout-browser-4.89.1}/scout/constants/case_tags.py +0 -0
  141. {scout-browser-4.89 → scout-browser-4.89.1}/scout/constants/clinvar.py +0 -0
  142. {scout-browser-4.89 → scout-browser-4.89.1}/scout/constants/clnsig.py +0 -0
  143. {scout-browser-4.89 → scout-browser-4.89.1}/scout/constants/disease_parsing.py +0 -0
  144. {scout-browser-4.89 → scout-browser-4.89.1}/scout/constants/file_types.py +0 -0
  145. {scout-browser-4.89 → scout-browser-4.89.1}/scout/constants/filters.py +0 -0
  146. {scout-browser-4.89 → scout-browser-4.89.1}/scout/constants/gene_tags.py +0 -0
  147. {scout-browser-4.89 → scout-browser-4.89.1}/scout/constants/igv_tracks.py +0 -0
  148. {scout-browser-4.89 → scout-browser-4.89.1}/scout/constants/indexes.py +0 -0
  149. {scout-browser-4.89 → scout-browser-4.89.1}/scout/constants/phenotype.py +0 -0
  150. {scout-browser-4.89 → scout-browser-4.89.1}/scout/constants/query_terms.py +0 -0
  151. {scout-browser-4.89 → scout-browser-4.89.1}/scout/constants/so_terms.py +0 -0
  152. {scout-browser-4.89 → scout-browser-4.89.1}/scout/constants/variant_tags.py +0 -0
  153. {scout-browser-4.89 → scout-browser-4.89.1}/scout/constants/variants_export.py +0 -0
  154. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/643594.clinical.SV.vcf.gz +0 -0
  155. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/643594.clinical.SV.vcf.gz.tbi +0 -0
  156. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/643594.clinical.mei.vcf.gz +0 -0
  157. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/643594.clinical.mei.vcf.gz.tbi +0 -0
  158. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/643594.clinical.str.annotated.limits.vcf.gz +0 -0
  159. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/643594.clinical.str.annotated.limits.vcf.gz.tbi +0 -0
  160. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/643594.clinical.str.annotated.vcf.gz +0 -0
  161. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/643594.clinical.str.annotated.vcf.gz.tbi +0 -0
  162. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/643594.clinical.str.stranger.vcf.gz +0 -0
  163. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/643594.clinical.str.stranger.vcf.gz.tbi +0 -0
  164. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/643594.clinical.str.vcf.gz +0 -0
  165. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/643594.clinical.str.vcf.gz.tbi +0 -0
  166. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/643594.clinical.vcf.gz +0 -0
  167. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/643594.clinical.vcf.gz.tbi +0 -0
  168. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/643594.config.yaml +0 -0
  169. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/643594.ped +0 -0
  170. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/643594.ped_check.csv +0 -0
  171. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/643594.peddy.ped +0 -0
  172. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/643594.research.SV.vcf.gz +0 -0
  173. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/643594.research.SV.vcf.gz.tbi +0 -0
  174. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/643594.research.mei.vcf.gz +0 -0
  175. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/643594.research.mei.vcf.gz.tbi +0 -0
  176. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/643594.research.vcf.gz +0 -0
  177. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/643594.research.vcf.gz.tbi +0 -0
  178. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/643594.sex_check.csv +0 -0
  179. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/643594.solo.smn.tsv +0 -0
  180. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/643595.clinical.SV.vcf.gz +0 -0
  181. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/643595.clinical.SV.vcf.gz.tbi +0 -0
  182. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/643595.clinical.str.stranger.vcf.gz +0 -0
  183. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/643595.clinical.str.stranger.vcf.gz.tbi +0 -0
  184. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/643595.clinical.vcf.gz +0 -0
  185. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/643595.clinical.vcf.gz.tbi +0 -0
  186. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/643595.config.yaml +0 -0
  187. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/999-99.test.cgh +0 -0
  188. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/ACC5963A1_lanes_1234_star_sorted_sj_filtered.bigWig +0 -0
  189. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/ACC5963A1_lanes_1234_star_sorted_sj_filtered_sorted.bed.gz +0 -0
  190. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/ACC5963A1_lanes_1234_star_sorted_sj_filtered_sorted.bed.gz.tbi +0 -0
  191. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/ADM1059A1.d4 +0 -0
  192. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/ADM1059A1.test.cgh +0 -0
  193. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/ADM1059A2.d4 +0 -0
  194. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/ADM1059A2.test.cgh +0 -0
  195. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/ADM1059A3.d4 +0 -0
  196. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/ADM1059A3.test.cgh +0 -0
  197. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/REViewer_test_data/catalog_test.json +0 -0
  198. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/REViewer_test_data/justhusky_exphun_hugelymodelbat.vcf +0 -0
  199. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/REViewer_test_data/justhusky_exphun_hugelymodelbat_realigned.bam +0 -0
  200. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/REViewer_test_data/justhusky_exphun_hugelymodelbat_realigned.bam.bai +0 -0
  201. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/__init__.py +0 -0
  202. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/cancer.load_config.yaml +0 -0
  203. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/cancer_cnv_report.pdf +0 -0
  204. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/cancer_coverage_qc_report.html +0 -0
  205. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/cancer_test.ped +0 -0
  206. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/cancer_test.vcf.gz +0 -0
  207. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/cancer_test.vcf.gz.tbi +0 -0
  208. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/chanjo4_demo.sql +0 -0
  209. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/customannotations_one.vcf.gz +0 -0
  210. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/customannotations_one.vcf.gz.tbi +0 -0
  211. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/delivery_report.html +0 -0
  212. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/draw-fusions-example.pdf +0 -0
  213. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/drop/fraser_top_hits_clinical.tsv +0 -0
  214. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/drop/outrider_top_hits_clinical.tsv +0 -0
  215. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/empty.clinical.SV.vcf.gz +0 -0
  216. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/empty.clinical.SV.vcf.gz.tbi +0 -0
  217. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/exe_ver.yaml +0 -0
  218. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/fusion_data.vcf +0 -0
  219. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/autozygous_regions1.png +0 -0
  220. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/autozygous_regions10.png +0 -0
  221. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/autozygous_regions11.png +0 -0
  222. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/autozygous_regions12.png +0 -0
  223. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/autozygous_regions13.png +0 -0
  224. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/autozygous_regions14.png +0 -0
  225. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/autozygous_regions15.png +0 -0
  226. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/autozygous_regions16.png +0 -0
  227. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/autozygous_regions17.png +0 -0
  228. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/autozygous_regions18.png +0 -0
  229. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/autozygous_regions19.png +0 -0
  230. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/autozygous_regions2.png +0 -0
  231. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/autozygous_regions20.png +0 -0
  232. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/autozygous_regions21.png +0 -0
  233. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/autozygous_regions22.png +0 -0
  234. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/autozygous_regions3.png +0 -0
  235. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/autozygous_regions4.png +0 -0
  236. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/autozygous_regions5.png +0 -0
  237. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/autozygous_regions6.png +0 -0
  238. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/autozygous_regions7.png +0 -0
  239. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/autozygous_regions8.png +0 -0
  240. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/autozygous_regions9.png +0 -0
  241. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/autozygous_regionsM.png +0 -0
  242. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/autozygous_regionsX.png +0 -0
  243. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/autozygous_regionsY.png +0 -0
  244. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/coverage1.png +0 -0
  245. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/coverage10.png +0 -0
  246. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/coverage11.png +0 -0
  247. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/coverage12.png +0 -0
  248. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/coverage13.png +0 -0
  249. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/coverage14.png +0 -0
  250. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/coverage15.png +0 -0
  251. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/coverage16.png +0 -0
  252. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/coverage17.png +0 -0
  253. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/coverage18.png +0 -0
  254. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/coverage19.png +0 -0
  255. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/coverage2.png +0 -0
  256. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/coverage20.png +0 -0
  257. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/coverage21.png +0 -0
  258. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/coverage22.png +0 -0
  259. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/coverage3.png +0 -0
  260. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/coverage4.png +0 -0
  261. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/coverage5.png +0 -0
  262. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/coverage6.png +0 -0
  263. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/coverage7.png +0 -0
  264. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/coverage8.png +0 -0
  265. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/coverage9.png +0 -0
  266. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/coverageM.png +0 -0
  267. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/coverageX.png +0 -0
  268. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/coverageY.png +0 -0
  269. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_regions1.png +0 -0
  270. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_regions10.png +0 -0
  271. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_regions11.png +0 -0
  272. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_regions12.png +0 -0
  273. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_regions13.png +0 -0
  274. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_regions14.png +0 -0
  275. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_regions15.png +0 -0
  276. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_regions16.png +0 -0
  277. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_regions17.png +0 -0
  278. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_regions18.png +0 -0
  279. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_regions19.png +0 -0
  280. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_regions2.png +0 -0
  281. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_regions20.png +0 -0
  282. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_regions21.png +0 -0
  283. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_regions22.png +0 -0
  284. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_regions3.png +0 -0
  285. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_regions4.png +0 -0
  286. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_regions5.png +0 -0
  287. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_regions6.png +0 -0
  288. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_regions7.png +0 -0
  289. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_regions8.png +0 -0
  290. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_regions9.png +0 -0
  291. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_regionsM.png +0 -0
  292. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_regionsX.png +0 -0
  293. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_regionsY.png +0 -0
  294. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_sites_1.png +0 -0
  295. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_sites_10.png +0 -0
  296. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_sites_11.png +0 -0
  297. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_sites_12.png +0 -0
  298. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_sites_13.png +0 -0
  299. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_sites_14.png +0 -0
  300. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_sites_15.png +0 -0
  301. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_sites_16.png +0 -0
  302. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_sites_17.png +0 -0
  303. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_sites_18.png +0 -0
  304. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_sites_19.png +0 -0
  305. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_sites_2.png +0 -0
  306. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_sites_20.png +0 -0
  307. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_sites_21.png +0 -0
  308. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_sites_22.png +0 -0
  309. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_sites_3.png +0 -0
  310. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_sites_4.png +0 -0
  311. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_sites_5.png +0 -0
  312. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_sites_6.png +0 -0
  313. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_sites_7.png +0 -0
  314. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_sites_8.png +0 -0
  315. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_sites_9.png +0 -0
  316. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_sites_M.png +0 -0
  317. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_sites_X.png +0 -0
  318. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/chromograph_demo/upd_sites_Y.png +0 -0
  319. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/custom_images/640x480_one.png +0 -0
  320. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/custom_images/640x480_three.svg +0 -0
  321. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/custom_images/640x480_two.jpg +0 -0
  322. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/custom_images/replicons/640x480_AR.svg +0 -0
  323. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/images/custom_images/replicons/640x480_ATN1.svg +0 -0
  324. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/madeline.xml +0 -0
  325. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/manta_vep_94_annotated_sv_cancer_file.vcf.gz +0 -0
  326. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/mitodel_test_files/earlycasualcaiman_lanes_1_sorted_md_mitodel.txt +0 -0
  327. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/mitodel_test_files/hugelymodelbat_lanes_1_sorted_md_mitodel.txt +0 -0
  328. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/mitodel_test_files/slowlycivilbuck_lanes_1_sorted_md_mitodel.txt +0 -0
  329. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/panel_1.csv +0 -0
  330. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/panel_1.txt +0 -0
  331. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/panelapp_test_panel.json +0 -0
  332. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/reduced_mt.bam +0 -0
  333. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/reduced_mt.bam.bai +0 -0
  334. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/reference_info.yaml +0 -0
  335. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/resources/__init__.py +0 -0
  336. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/resources/chanjo4_structure.sql +0 -0
  337. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/resources/en_product9_ages_reduced.xml +0 -0
  338. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/resources/ensembl_exons_37_reduced.txt +0 -0
  339. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/resources/ensembl_exons_38_reduced.txt +0 -0
  340. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/resources/ensembl_genes_37_reduced.txt +0 -0
  341. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/resources/ensembl_genes_38_reduced.txt +0 -0
  342. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/resources/ensembl_transcripts_37_reduced.txt +0 -0
  343. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/resources/ensembl_transcripts_38_reduced.txt +0 -0
  344. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/resources/forweb_cleaned_exac_r03_march16_z_data_pLI_reduced.txt +0 -0
  345. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/resources/genemap2_reduced.txt +0 -0
  346. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/resources/genes_to_phenotype_reduced.txt +0 -0
  347. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/resources/gnomad.v4.0.constraint_metrics_reduced.tsv +0 -0
  348. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/resources/hgnc_reduced_set.txt +0 -0
  349. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/resources/hpo_terms.csv +0 -0
  350. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/resources/mim2gene_reduced.txt +0 -0
  351. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/resources/orphadata_en_product4_reduced.xml +0 -0
  352. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/resources/orphadata_en_product6_reduced.xml +0 -0
  353. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/resources/phenotype_to_genes_reduced.txt +0 -0
  354. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/resources/reduced.hpo.obo +0 -0
  355. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/resources/reduced.phenotype.hpoa +0 -0
  356. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/rnafusion.load_config.yaml +0 -0
  357. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/rnafusion_inspector_example.html +0 -0
  358. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/rnafusion_report_example.html +0 -0
  359. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/scout_example_tumor_only.SV.CNV.sorted.vcf.gz +0 -0
  360. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/scout_example_tumor_only.SV.CNV.sorted.vcf.gz.tbi +0 -0
  361. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/scout_example_tumor_only.snv.indel.sorted.vcf.gz +0 -0
  362. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/scout_example_tumor_only.snv.indel.sorted.vcf.gz.tbi +0 -0
  363. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/vep104_annotated.vcf +0 -0
  364. {scout-browser-4.89 → scout-browser-4.89.1}/scout/demo/vep97_annotated_clnsig_conservation_revel.vcf +0 -0
  365. {scout-browser-4.89 → scout-browser-4.89.1}/scout/exceptions/__init__.py +0 -0
  366. {scout-browser-4.89 → scout-browser-4.89.1}/scout/exceptions/config.py +0 -0
  367. {scout-browser-4.89 → scout-browser-4.89.1}/scout/exceptions/database.py +0 -0
  368. {scout-browser-4.89 → scout-browser-4.89.1}/scout/exceptions/pedigree.py +0 -0
  369. {scout-browser-4.89 → scout-browser-4.89.1}/scout/exceptions/vcf.py +0 -0
  370. {scout-browser-4.89 → scout-browser-4.89.1}/scout/export/__init__.py +0 -0
  371. {scout-browser-4.89 → scout-browser-4.89.1}/scout/export/exon.py +0 -0
  372. {scout-browser-4.89 → scout-browser-4.89.1}/scout/export/gene.py +0 -0
  373. {scout-browser-4.89 → scout-browser-4.89.1}/scout/export/panel.py +0 -0
  374. {scout-browser-4.89 → scout-browser-4.89.1}/scout/export/transcript.py +0 -0
  375. {scout-browser-4.89 → scout-browser-4.89.1}/scout/export/variant.py +0 -0
  376. {scout-browser-4.89 → scout-browser-4.89.1}/scout/load/__init__.py +0 -0
  377. {scout-browser-4.89 → scout-browser-4.89.1}/scout/load/all.py +0 -0
  378. {scout-browser-4.89 → scout-browser-4.89.1}/scout/load/cytoband.py +0 -0
  379. {scout-browser-4.89 → scout-browser-4.89.1}/scout/load/disease.py +0 -0
  380. {scout-browser-4.89 → scout-browser-4.89.1}/scout/load/exon.py +0 -0
  381. {scout-browser-4.89 → scout-browser-4.89.1}/scout/load/hgnc_gene.py +0 -0
  382. {scout-browser-4.89 → scout-browser-4.89.1}/scout/load/hpo.py +0 -0
  383. {scout-browser-4.89 → scout-browser-4.89.1}/scout/load/institute.py +0 -0
  384. {scout-browser-4.89 → scout-browser-4.89.1}/scout/load/panel.py +0 -0
  385. {scout-browser-4.89 → scout-browser-4.89.1}/scout/load/report.py +0 -0
  386. {scout-browser-4.89 → scout-browser-4.89.1}/scout/load/setup.py +0 -0
  387. {scout-browser-4.89 → scout-browser-4.89.1}/scout/load/transcript.py +0 -0
  388. {scout-browser-4.89 → scout-browser-4.89.1}/scout/log/__init__.py +0 -0
  389. {scout-browser-4.89 → scout-browser-4.89.1}/scout/log/handlers.py +0 -0
  390. {scout-browser-4.89 → scout-browser-4.89.1}/scout/log/log.py +0 -0
  391. {scout-browser-4.89 → scout-browser-4.89.1}/scout/models/__init__.py +0 -0
  392. {scout-browser-4.89 → scout-browser-4.89.1}/scout/models/acmg_evaluation.py +0 -0
  393. {scout-browser-4.89 → scout-browser-4.89.1}/scout/models/case/__init__.py +0 -0
  394. {scout-browser-4.89 → scout-browser-4.89.1}/scout/models/case/case.py +0 -0
  395. {scout-browser-4.89 → scout-browser-4.89.1}/scout/models/case/case_loading_models.py +0 -0
  396. {scout-browser-4.89 → scout-browser-4.89.1}/scout/models/clinvar.py +0 -0
  397. {scout-browser-4.89 → scout-browser-4.89.1}/scout/models/disease_term.py +0 -0
  398. {scout-browser-4.89 → scout-browser-4.89.1}/scout/models/event.py +0 -0
  399. {scout-browser-4.89 → scout-browser-4.89.1}/scout/models/hgnc_map.py +0 -0
  400. {scout-browser-4.89 → scout-browser-4.89.1}/scout/models/institute.py +0 -0
  401. {scout-browser-4.89 → scout-browser-4.89.1}/scout/models/managed_variant.py +0 -0
  402. {scout-browser-4.89 → scout-browser-4.89.1}/scout/models/omics_variant.py +0 -0
  403. {scout-browser-4.89 → scout-browser-4.89.1}/scout/models/panel.py +0 -0
  404. {scout-browser-4.89 → scout-browser-4.89.1}/scout/models/phenomodel.py +0 -0
  405. {scout-browser-4.89 → scout-browser-4.89.1}/scout/models/phenotype_term.py +0 -0
  406. {scout-browser-4.89 → scout-browser-4.89.1}/scout/models/user.py +0 -0
  407. {scout-browser-4.89 → scout-browser-4.89.1}/scout/models/variant/__init__.py +0 -0
  408. {scout-browser-4.89 → scout-browser-4.89.1}/scout/models/variant/gene.py +0 -0
  409. {scout-browser-4.89 → scout-browser-4.89.1}/scout/models/variant/transcript.py +0 -0
  410. {scout-browser-4.89 → scout-browser-4.89.1}/scout/models/variant/variant.py +0 -0
  411. {scout-browser-4.89 → scout-browser-4.89.1}/scout/parse/__init__.py +0 -0
  412. {scout-browser-4.89 → scout-browser-4.89.1}/scout/parse/case.py +0 -0
  413. {scout-browser-4.89 → scout-browser-4.89.1}/scout/parse/cytoband.py +0 -0
  414. {scout-browser-4.89 → scout-browser-4.89.1}/scout/parse/disease_terms.py +0 -0
  415. {scout-browser-4.89 → scout-browser-4.89.1}/scout/parse/ensembl.py +0 -0
  416. {scout-browser-4.89 → scout-browser-4.89.1}/scout/parse/exac.py +0 -0
  417. {scout-browser-4.89 → scout-browser-4.89.1}/scout/parse/hgnc.py +0 -0
  418. {scout-browser-4.89 → scout-browser-4.89.1}/scout/parse/hpo_mappings.py +0 -0
  419. {scout-browser-4.89 → scout-browser-4.89.1}/scout/parse/hpo_terms.py +0 -0
  420. {scout-browser-4.89 → scout-browser-4.89.1}/scout/parse/matchmaker.py +0 -0
  421. {scout-browser-4.89 → scout-browser-4.89.1}/scout/parse/mitodel.py +0 -0
  422. {scout-browser-4.89 → scout-browser-4.89.1}/scout/parse/omics_variant/__init__.py +0 -0
  423. {scout-browser-4.89 → scout-browser-4.89.1}/scout/parse/omics_variant/drop.py +0 -0
  424. {scout-browser-4.89 → scout-browser-4.89.1}/scout/parse/omim.py +0 -0
  425. {scout-browser-4.89 → scout-browser-4.89.1}/scout/parse/orpha.py +0 -0
  426. {scout-browser-4.89 → scout-browser-4.89.1}/scout/parse/panel.py +0 -0
  427. {scout-browser-4.89 → scout-browser-4.89.1}/scout/parse/peddy.py +0 -0
  428. {scout-browser-4.89 → scout-browser-4.89.1}/scout/parse/smn.py +0 -0
  429. {scout-browser-4.89 → scout-browser-4.89.1}/scout/parse/variant/__init__.py +0 -0
  430. {scout-browser-4.89 → scout-browser-4.89.1}/scout/parse/variant/callers.py +0 -0
  431. {scout-browser-4.89 → scout-browser-4.89.1}/scout/parse/variant/clnsig.py +0 -0
  432. {scout-browser-4.89 → scout-browser-4.89.1}/scout/parse/variant/compound.py +0 -0
  433. {scout-browser-4.89 → scout-browser-4.89.1}/scout/parse/variant/conservation.py +0 -0
  434. {scout-browser-4.89 → scout-browser-4.89.1}/scout/parse/variant/coordinates.py +0 -0
  435. {scout-browser-4.89 → scout-browser-4.89.1}/scout/parse/variant/deleteriousness.py +0 -0
  436. {scout-browser-4.89 → scout-browser-4.89.1}/scout/parse/variant/frequency.py +0 -0
  437. {scout-browser-4.89 → scout-browser-4.89.1}/scout/parse/variant/gene.py +0 -0
  438. {scout-browser-4.89 → scout-browser-4.89.1}/scout/parse/variant/genotype.py +0 -0
  439. {scout-browser-4.89 → scout-browser-4.89.1}/scout/parse/variant/headers.py +0 -0
  440. {scout-browser-4.89 → scout-browser-4.89.1}/scout/parse/variant/ids.py +0 -0
  441. {scout-browser-4.89 → scout-browser-4.89.1}/scout/parse/variant/managed_variant.py +0 -0
  442. {scout-browser-4.89 → scout-browser-4.89.1}/scout/parse/variant/models.py +0 -0
  443. {scout-browser-4.89 → scout-browser-4.89.1}/scout/parse/variant/rank_score.py +0 -0
  444. {scout-browser-4.89 → scout-browser-4.89.1}/scout/parse/variant/transcript.py +0 -0
  445. {scout-browser-4.89 → scout-browser-4.89.1}/scout/parse/variant/variant.py +0 -0
  446. {scout-browser-4.89 → scout-browser-4.89.1}/scout/resources/__init__.py +0 -0
  447. {scout-browser-4.89 → scout-browser-4.89.1}/scout/resources/cytoBand_hg19.txt.gz +0 -0
  448. {scout-browser-4.89 → scout-browser-4.89.1}/scout/resources/cytoBand_hg38.txt.gz +0 -0
  449. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/__init__.py +0 -0
  450. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/app.py +0 -0
  451. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/auto.py +0 -0
  452. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/__init__.py +0 -0
  453. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/alignviewers/__init__.py +0 -0
  454. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/alignviewers/controllers.py +0 -0
  455. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/alignviewers/partial.py +0 -0
  456. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/alignviewers/templates/alignviewers/igv_sashimi_viewer.html +0 -0
  457. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/alignviewers/templates/alignviewers/igv_viewer.html +0 -0
  458. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/alignviewers/templates/alignviewers/utils.html +0 -0
  459. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/alignviewers/views.py +0 -0
  460. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/api/__init__.py +0 -0
  461. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/api/views.py +0 -0
  462. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/cases/__init__.py +0 -0
  463. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/cases/controllers.py +0 -0
  464. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/cases/static/case_images.js +0 -0
  465. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/cases/static/case_styles.css +0 -0
  466. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/cases/static/edit_pedigree.js +0 -0
  467. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/cases/static/madeline.js +0 -0
  468. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/cases/templates/cases/case.html +0 -0
  469. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/cases/templates/cases/case_bionano.html +0 -0
  470. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/cases/templates/cases/case_sma.html +0 -0
  471. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/cases/templates/cases/case_tabular_view.html +0 -0
  472. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/cases/templates/cases/chanjo2_form.html +0 -0
  473. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/cases/templates/cases/collapsible_actionbar.html +0 -0
  474. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/cases/templates/cases/diseases.html +0 -0
  475. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/cases/templates/cases/gene_panel.html +0 -0
  476. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/cases/templates/cases/index.html +0 -0
  477. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/cases/templates/cases/individuals_table.html +0 -0
  478. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/cases/templates/cases/institutes_sidebar.html +0 -0
  479. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/cases/templates/cases/matchmaker.html +0 -0
  480. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/cases/templates/cases/phenotype.html +0 -0
  481. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/cases/templates/cases/utils.html +0 -0
  482. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/cases/views.py +0 -0
  483. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/clinvar/__init__.py +0 -0
  484. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/clinvar/controllers.py +0 -0
  485. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/clinvar/form.py +0 -0
  486. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/clinvar/static/form_style.css +0 -0
  487. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/clinvar/templates/clinvar/clinvar_howto.html +0 -0
  488. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/clinvar/templates/clinvar/clinvar_submissions.html +0 -0
  489. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/clinvar/templates/clinvar/multistep_add_variant.html +0 -0
  490. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/clinvar/views.py +0 -0
  491. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/dashboard/__init__.py +0 -0
  492. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/dashboard/controllers.py +0 -0
  493. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/dashboard/forms.py +0 -0
  494. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/dashboard/static/charts.js +0 -0
  495. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/dashboard/templates/dashboard/dashboard_general.html +0 -0
  496. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/dashboard/views.py +0 -0
  497. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/diagnoses/__init__.py +0 -0
  498. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/diagnoses/controllers.py +0 -0
  499. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/diagnoses/static/diagnoses.js +0 -0
  500. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/diagnoses/templates/diagnoses/diagnoses.html +0 -0
  501. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/diagnoses/templates/diagnoses/disease_term.html +0 -0
  502. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/diagnoses/views.py +0 -0
  503. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/genes/__init__.py +0 -0
  504. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/genes/controllers.py +0 -0
  505. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/genes/templates/genes/gene.html +0 -0
  506. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/genes/templates/genes/genes.html +0 -0
  507. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/genes/templates/genes/layout.html +0 -0
  508. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/genes/views.py +0 -0
  509. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/institutes/__init__.py +0 -0
  510. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/institutes/controllers.py +0 -0
  511. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/institutes/forms.py +0 -0
  512. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/institutes/static/form_scripts.js +0 -0
  513. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/institutes/static/select2_darktheme.css +0 -0
  514. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/institutes/static/timeline_styles.css +0 -0
  515. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/institutes/static/variants_list_scripts.js +0 -0
  516. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/institutes/templates/overview/cases.html +0 -0
  517. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/institutes/templates/overview/causatives.html +0 -0
  518. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/institutes/templates/overview/filters.html +0 -0
  519. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/institutes/templates/overview/gene_variants.html +0 -0
  520. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/institutes/templates/overview/institute_settings.html +0 -0
  521. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/institutes/templates/overview/institute_sidebar.html +0 -0
  522. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/institutes/templates/overview/timeline.html +0 -0
  523. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/institutes/templates/overview/users.html +0 -0
  524. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/institutes/templates/overview/utils.html +0 -0
  525. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/institutes/templates/overview/verified.html +0 -0
  526. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/institutes/views.py +0 -0
  527. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/login/__init__.py +0 -0
  528. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/login/controllers.py +0 -0
  529. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/login/models.py +0 -0
  530. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/login/static/aspirant.svg +0 -0
  531. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/login/static/commander.svg +0 -0
  532. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/login/static/commissioner.svg +0 -0
  533. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/login/static/constable.svg +0 -0
  534. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/login/static/dick_tracy.svg +0 -0
  535. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/login/static/inspector.svg +0 -0
  536. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/login/static/sergeant.svg +0 -0
  537. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/login/static/superintendent.svg +0 -0
  538. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/login/templates/login/users.html +0 -0
  539. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/login/views.py +0 -0
  540. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/managed_variants/__init__.py +0 -0
  541. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/managed_variants/controllers.py +0 -0
  542. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/managed_variants/forms.py +0 -0
  543. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/managed_variants/templates/managed_variants/managed_variants.html +0 -0
  544. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/managed_variants/views.py +0 -0
  545. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/omics_variants/__init__.py +0 -0
  546. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/omics_variants/controllers.py +0 -0
  547. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/omics_variants/templates/omics_variants/outliers.html +0 -0
  548. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/omics_variants/views.py +0 -0
  549. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/panels/__init__.py +0 -0
  550. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/panels/controllers.py +0 -0
  551. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/panels/forms.py +0 -0
  552. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/panels/templates/panels/gene-edit.html +0 -0
  553. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/panels/templates/panels/panel.html +0 -0
  554. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/panels/templates/panels/panel_pdf_case_hits.html +0 -0
  555. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/panels/templates/panels/panel_pdf_simple.html +0 -0
  556. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/panels/templates/panels/panels.html +0 -0
  557. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/panels/views.py +0 -0
  558. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/phenomodels/__init__.py +0 -0
  559. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/phenomodels/controllers.py +0 -0
  560. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/phenomodels/forms.py +0 -0
  561. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/phenomodels/templates/phenomodel.html +0 -0
  562. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/phenomodels/templates/phenomodels.html +0 -0
  563. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/phenomodels/views.py +0 -0
  564. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/phenotypes/__init__.py +0 -0
  565. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/phenotypes/controllers.py +0 -0
  566. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/phenotypes/templates/phenotypes/hpo_terms.html +0 -0
  567. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/phenotypes/views.py +0 -0
  568. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/public/__init__.py +0 -0
  569. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/public/static/GMS-logo-dark.png +0 -0
  570. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/public/static/file-earmark-x.svg +0 -0
  571. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/public/static/ideograms/chromosome-1.png +0 -0
  572. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/public/static/ideograms/chromosome-10.png +0 -0
  573. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/public/static/ideograms/chromosome-11.png +0 -0
  574. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/public/static/ideograms/chromosome-12.png +0 -0
  575. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/public/static/ideograms/chromosome-13.png +0 -0
  576. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/public/static/ideograms/chromosome-14.png +0 -0
  577. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/public/static/ideograms/chromosome-15.png +0 -0
  578. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/public/static/ideograms/chromosome-16.png +0 -0
  579. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/public/static/ideograms/chromosome-17.png +0 -0
  580. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/public/static/ideograms/chromosome-18.png +0 -0
  581. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/public/static/ideograms/chromosome-19.png +0 -0
  582. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/public/static/ideograms/chromosome-2.png +0 -0
  583. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/public/static/ideograms/chromosome-20.png +0 -0
  584. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/public/static/ideograms/chromosome-21.png +0 -0
  585. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/public/static/ideograms/chromosome-22.png +0 -0
  586. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/public/static/ideograms/chromosome-3.png +0 -0
  587. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/public/static/ideograms/chromosome-4.png +0 -0
  588. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/public/static/ideograms/chromosome-5.png +0 -0
  589. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/public/static/ideograms/chromosome-6.png +0 -0
  590. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/public/static/ideograms/chromosome-7.png +0 -0
  591. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/public/static/ideograms/chromosome-8.png +0 -0
  592. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/public/static/ideograms/chromosome-9.png +0 -0
  593. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/public/static/ideograms/chromosome-M.png +0 -0
  594. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/public/static/ideograms/chromosome-X.png +0 -0
  595. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/public/static/ideograms/chromosome-Y.png +0 -0
  596. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/public/static/logo-gms.png +0 -0
  597. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/public/static/logo-karolinska-srgb.jpg +0 -0
  598. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/public/static/logo-karolinska.png +0 -0
  599. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/public/static/logo-lund-university-hospital.png +0 -0
  600. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/public/static/logo-scilifelab.png +0 -0
  601. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/public/static/scout-logo.png +0 -0
  602. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/public/static/swedac-1926-iso17025.png +0 -0
  603. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/public/templates/public/index.html +0 -0
  604. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/public/views.py +0 -0
  605. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/variant/__init__.py +0 -0
  606. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/variant/controllers.py +0 -0
  607. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/variant/templates/variant/acmg.html +0 -0
  608. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/variant/templates/variant/buttons.html +0 -0
  609. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/variant/templates/variant/cancer-variant.html +0 -0
  610. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/variant/templates/variant/components.html +0 -0
  611. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/variant/templates/variant/gene_disease_relations.html +0 -0
  612. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/variant/templates/variant/rank_score_results.html +0 -0
  613. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/variant/templates/variant/sanger.html +0 -0
  614. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/variant/templates/variant/str-variant-reviewer.html +0 -0
  615. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/variant/templates/variant/sv-variant.html +0 -0
  616. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/variant/templates/variant/tx_overview.html +0 -0
  617. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/variant/templates/variant/utils.html +0 -0
  618. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/variant/templates/variant/variant.html +0 -0
  619. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/variant/templates/variant/variant_details.html +0 -0
  620. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/variant/utils.py +0 -0
  621. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/variant/verification_controllers.py +0 -0
  622. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/variant/views.py +0 -0
  623. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/variants/__init__.py +0 -0
  624. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/variants/controllers.py +0 -0
  625. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/variants/forms.py +0 -0
  626. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/variants/static/form_scripts.js +0 -0
  627. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/variants/templates/variants/cancer-sv-variants.html +0 -0
  628. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/variants/templates/variants/cancer-variants.html +0 -0
  629. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/variants/templates/variants/components.html +0 -0
  630. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/variants/templates/variants/fusion-variants.html +0 -0
  631. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/variants/templates/variants/indicators.html +0 -0
  632. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/variants/templates/variants/mei-variants.html +0 -0
  633. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/variants/templates/variants/str-variants.html +0 -0
  634. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/variants/templates/variants/sv-variants.html +0 -0
  635. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/variants/templates/variants/utils.html +0 -0
  636. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/variants/templates/variants/variants.html +0 -0
  637. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/variants/utils.py +0 -0
  638. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/variants/views.py +0 -0
  639. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/config.py +0 -0
  640. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/extensions/__init__.py +0 -0
  641. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/extensions/beacon_extension.py +0 -0
  642. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/extensions/bionano_extension.py +0 -0
  643. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/extensions/chanjo2_extension.py +0 -0
  644. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/extensions/chanjo_extension.py +0 -0
  645. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/extensions/clinvar_extension.py +0 -0
  646. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/extensions/gens_extension.py +0 -0
  647. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/extensions/ldap_extension.py +0 -0
  648. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/extensions/loqus_extension.py +0 -0
  649. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/extensions/matchmaker_extension.py +0 -0
  650. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/extensions/mongo_extension.py +0 -0
  651. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/extensions/phenopacket_extension.py +0 -0
  652. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/extensions/rerunner_extension.py +0 -0
  653. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/links.py +0 -0
  654. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/static/bs_styles.css +0 -0
  655. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/static/custom_images.js +0 -0
  656. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/static/favicon.ico +0 -0
  657. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/static/humans.txt +0 -0
  658. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/static/robots.txt +0 -0
  659. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/templates/bootstrap_global.html +0 -0
  660. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/templates/layout.html +0 -0
  661. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/templates/utils.html +0 -0
  662. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/translations/sv/LC_MESSAGES/messages.mo +0 -0
  663. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/translations/sv/LC_MESSAGES/messages.po +0 -0
  664. {scout-browser-4.89 → scout-browser-4.89.1}/scout/server/utils.py +0 -0
  665. {scout-browser-4.89 → scout-browser-4.89.1}/scout/update/__init__.py +0 -0
  666. {scout-browser-4.89 → scout-browser-4.89.1}/scout/update/panel.py +0 -0
  667. {scout-browser-4.89 → scout-browser-4.89.1}/scout/utils/__init__.py +0 -0
  668. {scout-browser-4.89 → scout-browser-4.89.1}/scout/utils/acmg.py +0 -0
  669. {scout-browser-4.89 → scout-browser-4.89.1}/scout/utils/algorithms.py +0 -0
  670. {scout-browser-4.89 → scout-browser-4.89.1}/scout/utils/convert.py +0 -0
  671. {scout-browser-4.89 → scout-browser-4.89.1}/scout/utils/coordinates.py +0 -0
  672. {scout-browser-4.89 → scout-browser-4.89.1}/scout/utils/date.py +0 -0
  673. {scout-browser-4.89 → scout-browser-4.89.1}/scout/utils/dict_utils.py +0 -0
  674. {scout-browser-4.89 → scout-browser-4.89.1}/scout/utils/ensembl_biomart_clients.py +0 -0
  675. {scout-browser-4.89 → scout-browser-4.89.1}/scout/utils/ensembl_rest_clients.py +0 -0
  676. {scout-browser-4.89 → scout-browser-4.89.1}/scout/utils/gene.py +0 -0
  677. {scout-browser-4.89 → scout-browser-4.89.1}/scout/utils/handle.py +0 -0
  678. {scout-browser-4.89 → scout-browser-4.89.1}/scout/utils/hgvs.py +0 -0
  679. {scout-browser-4.89 → scout-browser-4.89.1}/scout/utils/link.py +0 -0
  680. {scout-browser-4.89 → scout-browser-4.89.1}/scout/utils/md5.py +0 -0
  681. {scout-browser-4.89 → scout-browser-4.89.1}/scout/utils/scout_requests.py +0 -0
  682. {scout-browser-4.89 → scout-browser-4.89.1}/scout/utils/sort.py +0 -0
  683. {scout-browser-4.89 → scout-browser-4.89.1}/scout/utils/track_resources.py +0 -0
  684. {scout-browser-4.89 → scout-browser-4.89.1}/scout_browser.egg-info/SOURCES.txt +0 -0
  685. {scout-browser-4.89 → scout-browser-4.89.1}/scout_browser.egg-info/dependency_links.txt +0 -0
  686. {scout-browser-4.89 → scout-browser-4.89.1}/scout_browser.egg-info/entry_points.txt +0 -0
  687. {scout-browser-4.89 → scout-browser-4.89.1}/scout_browser.egg-info/not-zip-safe +0 -0
  688. {scout-browser-4.89 → scout-browser-4.89.1}/scout_browser.egg-info/requires.txt +0 -0
  689. {scout-browser-4.89 → scout-browser-4.89.1}/scout_browser.egg-info/top_level.txt +0 -0
  690. {scout-browser-4.89 → scout-browser-4.89.1}/setup.cfg +0 -0
  691. {scout-browser-4.89 → scout-browser-4.89.1}/setup.py +0 -0
  692. {scout-browser-4.89 → scout-browser-4.89.1}/tests/adapter/conftest.py +0 -0
  693. {scout-browser-4.89 → scout-browser-4.89.1}/tests/adapter/mongo/test_base.py +0 -0
  694. {scout-browser-4.89 → scout-browser-4.89.1}/tests/adapter/mongo/test_case_events.py +0 -0
  695. {scout-browser-4.89 → scout-browser-4.89.1}/tests/adapter/mongo/test_case_group_handling.py +0 -0
  696. {scout-browser-4.89 → scout-browser-4.89.1}/tests/adapter/mongo/test_case_handling.py +0 -0
  697. {scout-browser-4.89 → scout-browser-4.89.1}/tests/adapter/mongo/test_clinvar.py +0 -0
  698. {scout-browser-4.89 → scout-browser-4.89.1}/tests/adapter/mongo/test_comment_handling.py +0 -0
  699. {scout-browser-4.89 → scout-browser-4.89.1}/tests/adapter/mongo/test_connect.py +0 -0
  700. {scout-browser-4.89 → scout-browser-4.89.1}/tests/adapter/mongo/test_cytoband.py +0 -0
  701. {scout-browser-4.89 → scout-browser-4.89.1}/tests/adapter/mongo/test_diagnosis_handler.py +0 -0
  702. {scout-browser-4.89 → scout-browser-4.89.1}/tests/adapter/mongo/test_evaluated_variants.py +0 -0
  703. {scout-browser-4.89 → scout-browser-4.89.1}/tests/adapter/mongo/test_event_handling.py +0 -0
  704. {scout-browser-4.89 → scout-browser-4.89.1}/tests/adapter/mongo/test_gene_handler.py +0 -0
  705. {scout-browser-4.89 → scout-browser-4.89.1}/tests/adapter/mongo/test_hpo_handler.py +0 -0
  706. {scout-browser-4.89 → scout-browser-4.89.1}/tests/adapter/mongo/test_index_handling.py +0 -0
  707. {scout-browser-4.89 → scout-browser-4.89.1}/tests/adapter/mongo/test_institute_handler.py +0 -0
  708. {scout-browser-4.89 → scout-browser-4.89.1}/tests/adapter/mongo/test_load_adapter_case.py +0 -0
  709. {scout-browser-4.89 → scout-browser-4.89.1}/tests/adapter/mongo/test_matchmaker.py +0 -0
  710. {scout-browser-4.89 → scout-browser-4.89.1}/tests/adapter/mongo/test_panel_handler.py +0 -0
  711. {scout-browser-4.89 → scout-browser-4.89.1}/tests/adapter/mongo/test_query.py +0 -0
  712. {scout-browser-4.89 → scout-browser-4.89.1}/tests/adapter/mongo/test_rank_model.py +0 -0
  713. {scout-browser-4.89 → scout-browser-4.89.1}/tests/adapter/mongo/test_sanger_validation.py +0 -0
  714. {scout-browser-4.89 → scout-browser-4.89.1}/tests/adapter/mongo/test_transcript_handler.py +0 -0
  715. {scout-browser-4.89 → scout-browser-4.89.1}/tests/adapter/mongo/test_update_synopsis +0 -0
  716. {scout-browser-4.89 → scout-browser-4.89.1}/tests/adapter/mongo/test_user_handling.py +0 -0
  717. {scout-browser-4.89 → scout-browser-4.89.1}/tests/adapter/mongo/test_variant_events.py +0 -0
  718. {scout-browser-4.89 → scout-browser-4.89.1}/tests/adapter/mongo/test_variant_handling.py +0 -0
  719. {scout-browser-4.89 → scout-browser-4.89.1}/tests/adapter/mongo/test_variant_loader.py +0 -0
  720. {scout-browser-4.89 → scout-browser-4.89.1}/tests/build/conftest.py +0 -0
  721. {scout-browser-4.89 → scout-browser-4.89.1}/tests/build/test_build_case.py +0 -0
  722. {scout-browser-4.89 → scout-browser-4.89.1}/tests/build/test_build_clnsig.py +0 -0
  723. {scout-browser-4.89 → scout-browser-4.89.1}/tests/build/test_build_disease.py +0 -0
  724. {scout-browser-4.89 → scout-browser-4.89.1}/tests/build/test_build_exon.py +0 -0
  725. {scout-browser-4.89 → scout-browser-4.89.1}/tests/build/test_build_gene.py +0 -0
  726. {scout-browser-4.89 → scout-browser-4.89.1}/tests/build/test_build_hgnc_gene.py +0 -0
  727. {scout-browser-4.89 → scout-browser-4.89.1}/tests/build/test_build_hgnc_transcript.py +0 -0
  728. {scout-browser-4.89 → scout-browser-4.89.1}/tests/build/test_build_hpo.py +0 -0
  729. {scout-browser-4.89 → scout-browser-4.89.1}/tests/build/test_build_individual.py +0 -0
  730. {scout-browser-4.89 → scout-browser-4.89.1}/tests/build/test_build_institute.py +0 -0
  731. {scout-browser-4.89 → scout-browser-4.89.1}/tests/build/test_build_panel.py +0 -0
  732. {scout-browser-4.89 → scout-browser-4.89.1}/tests/build/test_build_user.py +0 -0
  733. {scout-browser-4.89 → scout-browser-4.89.1}/tests/build/test_build_variant.py +0 -0
  734. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/conftest.py +0 -0
  735. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/delete/test_delete_cmd.py +0 -0
  736. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/download/test_download_ensembl_cmd.py +0 -0
  737. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/download/test_download_exac_cmd.py +0 -0
  738. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/download/test_download_hgnc_cmd.py +0 -0
  739. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/download/test_download_hpo_cmd.py +0 -0
  740. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/download/test_download_omim_cmd.py +0 -0
  741. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/download/test_download_orpha_cmd.py +0 -0
  742. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/export/test_export_cases_cmd.py +0 -0
  743. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/export/test_export_exons.py +0 -0
  744. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/export/test_export_gene.py +0 -0
  745. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/export/test_export_hpo_cmd.py +0 -0
  746. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/export/test_export_mt_report_cmd.py +0 -0
  747. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/export/test_export_panel_cmd.py +0 -0
  748. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/export/test_export_transcripts_cmd.py +0 -0
  749. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/export/test_export_variant_cmd.py +0 -0
  750. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/load/test_load_case_cmd.py +0 -0
  751. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/load/test_load_cnv_report_cmd.py +0 -0
  752. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/load/test_load_coverage_qc_report_cmd.py +0 -0
  753. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/load/test_load_cytoband_cmd.py +0 -0
  754. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/load/test_load_delivery_report_cmd.py +0 -0
  755. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/load/test_load_exons_cmd.py +0 -0
  756. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/load/test_load_institute_cmd.py +0 -0
  757. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/load/test_load_panel_cmd.py +0 -0
  758. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/load/test_load_region_cmd.py +0 -0
  759. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/load/test_load_report_cmd.py +0 -0
  760. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/load/test_load_research_cmd.py +0 -0
  761. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/load/test_load_user_cmd.py +0 -0
  762. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/load/test_load_variants_cmd.py +0 -0
  763. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/test_base_command.py +0 -0
  764. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/test_convert_cmd.py +0 -0
  765. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/test_delete_case_cmd.py +0 -0
  766. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/test_index_cmd.py +0 -0
  767. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/test_serve_cmd.py +0 -0
  768. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/test_setup_cmd.py +0 -0
  769. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/test_wipe_database.py +0 -0
  770. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/update/test_update_case_cmd.py +0 -0
  771. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/update/test_update_compounds_cli.py +0 -0
  772. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/update/test_update_disease_cmd.py +0 -0
  773. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/update/test_update_genes_cmd.py +0 -0
  774. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/update/test_update_groups_cmd.py +0 -0
  775. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/update/test_update_hpo_cmd.py +0 -0
  776. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/update/test_update_individual_cmd.py +0 -0
  777. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/update/test_update_institute_cmd.py +0 -0
  778. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/update/test_update_omim_cmd.py +0 -0
  779. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/update/test_update_panel_cmd.py +0 -0
  780. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/update/test_update_panelapp_green.py +0 -0
  781. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/update/test_update_user_cmd.py +0 -0
  782. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/view/test_panels_cmd.py +0 -0
  783. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/view/test_view_aliases_cmd.py +0 -0
  784. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/view/test_view_cases.py +0 -0
  785. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/view/test_view_cases_cmd.py +0 -0
  786. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/view/test_view_collections_cmd.py +0 -0
  787. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/view/test_view_diseases_cmd.py +0 -0
  788. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/view/test_view_hgnc.py +0 -0
  789. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/view/test_view_hpo_cmd.py +0 -0
  790. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/view/test_view_index_cmd.py +0 -0
  791. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/view/test_view_individuals_cmd.py +0 -0
  792. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/view/test_view_institutes_cmd.py +0 -0
  793. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/view/test_view_intervals_cmd.py +0 -0
  794. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/view/test_view_transcripts_cmd.py +0 -0
  795. {scout-browser-4.89 → scout-browser-4.89.1}/tests/commands/view/test_view_users_cmd.py +0 -0
  796. {scout-browser-4.89 → scout-browser-4.89.1}/tests/conftest.py +0 -0
  797. {scout-browser-4.89 → scout-browser-4.89.1}/tests/export/test_export_variants.py +0 -0
  798. {scout-browser-4.89 → scout-browser-4.89.1}/tests/fixtures/bams/reduced_mt.bam +0 -0
  799. {scout-browser-4.89 → scout-browser-4.89.1}/tests/fixtures/peds/clinvar.ped +0 -0
  800. {scout-browser-4.89 → scout-browser-4.89.1}/tests/fixtures/vcfs/clinvar.vcf +0 -0
  801. {scout-browser-4.89 → scout-browser-4.89.1}/tests/fixtures/vcfs/no_clinvar.vcf +0 -0
  802. {scout-browser-4.89 → scout-browser-4.89.1}/tests/load/test_load_diseases.py +0 -0
  803. {scout-browser-4.89 → scout-browser-4.89.1}/tests/load/test_load_exons.py +0 -0
  804. {scout-browser-4.89 → scout-browser-4.89.1}/tests/load/test_load_hgnc_genes.py +0 -0
  805. {scout-browser-4.89 → scout-browser-4.89.1}/tests/load/test_load_hpo.py +0 -0
  806. {scout-browser-4.89 → scout-browser-4.89.1}/tests/load/test_load_institute.py +0 -0
  807. {scout-browser-4.89 → scout-browser-4.89.1}/tests/load/test_load_panel.py +0 -0
  808. {scout-browser-4.89 → scout-browser-4.89.1}/tests/load/test_load_transcripts.py +0 -0
  809. {scout-browser-4.89 → scout-browser-4.89.1}/tests/load/test_load_variant.py +0 -0
  810. {scout-browser-4.89 → scout-browser-4.89.1}/tests/load/test_setup_scout.py +0 -0
  811. {scout-browser-4.89 → scout-browser-4.89.1}/tests/models/test_disease_term.py +0 -0
  812. {scout-browser-4.89 → scout-browser-4.89.1}/tests/parse/conftest.py +0 -0
  813. {scout-browser-4.89 → scout-browser-4.89.1}/tests/parse/test_frequency.py +0 -0
  814. {scout-browser-4.89 → scout-browser-4.89.1}/tests/parse/test_ids.py +0 -0
  815. {scout-browser-4.89 → scout-browser-4.89.1}/tests/parse/test_parse_callers.py +0 -0
  816. {scout-browser-4.89 → scout-browser-4.89.1}/tests/parse/test_parse_case.py +0 -0
  817. {scout-browser-4.89 → scout-browser-4.89.1}/tests/parse/test_parse_clnsig.py +0 -0
  818. {scout-browser-4.89 → scout-browser-4.89.1}/tests/parse/test_parse_compounds.py +0 -0
  819. {scout-browser-4.89 → scout-browser-4.89.1}/tests/parse/test_parse_conservation.py +0 -0
  820. {scout-browser-4.89 → scout-browser-4.89.1}/tests/parse/test_parse_coordinates.py +0 -0
  821. {scout-browser-4.89 → scout-browser-4.89.1}/tests/parse/test_parse_deleteriousness.py +0 -0
  822. {scout-browser-4.89 → scout-browser-4.89.1}/tests/parse/test_parse_disease_terms.py +0 -0
  823. {scout-browser-4.89 → scout-browser-4.89.1}/tests/parse/test_parse_ensembl_exons.py +0 -0
  824. {scout-browser-4.89 → scout-browser-4.89.1}/tests/parse/test_parse_ensembl_transcripts.py +0 -0
  825. {scout-browser-4.89 → scout-browser-4.89.1}/tests/parse/test_parse_exac_genes.py +0 -0
  826. {scout-browser-4.89 → scout-browser-4.89.1}/tests/parse/test_parse_genes.py +0 -0
  827. {scout-browser-4.89 → scout-browser-4.89.1}/tests/parse/test_parse_genotype.py +0 -0
  828. {scout-browser-4.89 → scout-browser-4.89.1}/tests/parse/test_parse_headers.py +0 -0
  829. {scout-browser-4.89 → scout-browser-4.89.1}/tests/parse/test_parse_hgnc.py +0 -0
  830. {scout-browser-4.89 → scout-browser-4.89.1}/tests/parse/test_parse_hpo_mappings.py +0 -0
  831. {scout-browser-4.89 → scout-browser-4.89.1}/tests/parse/test_parse_hpo_terms.py +0 -0
  832. {scout-browser-4.89 → scout-browser-4.89.1}/tests/parse/test_parse_managed_variant.py +0 -0
  833. {scout-browser-4.89 → scout-browser-4.89.1}/tests/parse/test_parse_matchmaker.py +0 -0
  834. {scout-browser-4.89 → scout-browser-4.89.1}/tests/parse/test_parse_omim.py +0 -0
  835. {scout-browser-4.89 → scout-browser-4.89.1}/tests/parse/test_parse_orpha.py +0 -0
  836. {scout-browser-4.89 → scout-browser-4.89.1}/tests/parse/test_parse_panel.py +0 -0
  837. {scout-browser-4.89 → scout-browser-4.89.1}/tests/parse/test_parse_rank_score.py +0 -0
  838. {scout-browser-4.89 → scout-browser-4.89.1}/tests/parse/test_parse_transcripts.py +0 -0
  839. {scout-browser-4.89 → scout-browser-4.89.1}/tests/parse/test_parse_variant.py +0 -0
  840. {scout-browser-4.89 → scout-browser-4.89.1}/tests/parse/vcfs/one_cnvnator.vcf +0 -0
  841. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/blueprints/alignviewers/test_alignviewers_controllers.py +0 -0
  842. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/blueprints/alignviewers/test_alignviewers_views.py +0 -0
  843. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/blueprints/api/test_api_views.py +0 -0
  844. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/blueprints/cases/conftest.py +0 -0
  845. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/blueprints/cases/test_cases_controllers.py +0 -0
  846. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/blueprints/cases/test_cases_templates.py +0 -0
  847. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/blueprints/cases/test_cases_utils.py +0 -0
  848. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/blueprints/cases/test_cases_views.py +0 -0
  849. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/blueprints/cases/test_matchmaker_controllers.py +0 -0
  850. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/blueprints/clinvar/test_clinvar_views.py +0 -0
  851. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/blueprints/dashboard/test_dashboard_controllers.py +0 -0
  852. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/blueprints/dashboard/test_dashboard_views.py +0 -0
  853. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/blueprints/diagnoses/test_diagnoses_views.py +0 -0
  854. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/blueprints/genes/test_genes_views.py +0 -0
  855. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/blueprints/institutes/test_institute_api.py +0 -0
  856. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/blueprints/institutes/test_institute_views.py +0 -0
  857. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/blueprints/login/conftest.py +0 -0
  858. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/blueprints/login/test_controllers.py +0 -0
  859. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/blueprints/login/test_models.py +0 -0
  860. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/blueprints/login/test_views.py +0 -0
  861. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/blueprints/managed_variants/test_managed_variants_controllers.py +0 -0
  862. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/blueprints/managed_variants/test_managed_variants_views.py +0 -0
  863. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/blueprints/omics_variants/test_omics_variants.py +0 -0
  864. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/blueprints/panels/test_panels_controllers.py +0 -0
  865. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/blueprints/panels/test_panels_views.py +0 -0
  866. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/blueprints/phenomodels/test_phenomodels_controllers.py +0 -0
  867. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/blueprints/phenomodels/test_phenomodels_views.py +0 -0
  868. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/blueprints/phenotypes/conftest.py +0 -0
  869. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/blueprints/phenotypes/test_phenotypes_controllers.py +0 -0
  870. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/blueprints/phenotypes/test_phenotypes_views.py +0 -0
  871. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/blueprints/public/test_public_views.py +0 -0
  872. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/blueprints/variant/test_variant_controllers.py +0 -0
  873. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/blueprints/variant/test_variant_utils.py +0 -0
  874. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/blueprints/variant/test_variant_verification_controllers.py +0 -0
  875. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/blueprints/variant/test_variant_views.py +0 -0
  876. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/blueprints/variants/test_variants_controllers.py +0 -0
  877. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/blueprints/variants/test_variants_utils.py +0 -0
  878. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/blueprints/variants/test_variants_views.py +0 -0
  879. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/conftest.py +0 -0
  880. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/extensions/conftest.py +0 -0
  881. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/extensions/test_beacon_extension.py +0 -0
  882. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/extensions/test_bionano_extension.py +0 -0
  883. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/extensions/test_chanjo2_extension.py +0 -0
  884. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/extensions/test_chanjo_extension.py +0 -0
  885. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/extensions/test_execute_command.py +0 -0
  886. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/extensions/test_gens_extension.py +0 -0
  887. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/extensions/test_loqusdb_api_extension.py +0 -0
  888. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/extensions/test_loqusdb_exe_extension.py +0 -0
  889. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/extensions/test_matchmaker_extension.py +0 -0
  890. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/extensions/test_phenopacket_extension.py +0 -0
  891. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/extensions/test_rerunner_extension.py +0 -0
  892. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/test_app.py +0 -0
  893. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/test_links.py +0 -0
  894. {scout-browser-4.89 → scout-browser-4.89.1}/tests/server/test_server_utils.py +0 -0
  895. {scout-browser-4.89 → scout-browser-4.89.1}/tests/update/test_update_compounds.py +0 -0
  896. {scout-browser-4.89 → scout-browser-4.89.1}/tests/update/test_update_institute.py +0 -0
  897. {scout-browser-4.89 → scout-browser-4.89.1}/tests/update/test_update_panel.py +0 -0
  898. {scout-browser-4.89 → scout-browser-4.89.1}/tests/utils/conftest.py +0 -0
  899. {scout-browser-4.89 → scout-browser-4.89.1}/tests/utils/test_acmg.py +0 -0
  900. {scout-browser-4.89 → scout-browser-4.89.1}/tests/utils/test_algorithms.py +0 -0
  901. {scout-browser-4.89 → scout-browser-4.89.1}/tests/utils/test_convert.py +0 -0
  902. {scout-browser-4.89 → scout-browser-4.89.1}/tests/utils/test_custom_tracks.py +0 -0
  903. {scout-browser-4.89 → scout-browser-4.89.1}/tests/utils/test_date.py +0 -0
  904. {scout-browser-4.89 → scout-browser-4.89.1}/tests/utils/test_dict_utils.py +0 -0
  905. {scout-browser-4.89 → scout-browser-4.89.1}/tests/utils/test_ensembl_biomart_cients.py +0 -0
  906. {scout-browser-4.89 → scout-browser-4.89.1}/tests/utils/test_ensembl_rest_clients.py +0 -0
  907. {scout-browser-4.89 → scout-browser-4.89.1}/tests/utils/test_hgvs.py +0 -0
  908. {scout-browser-4.89 → scout-browser-4.89.1}/tests/utils/test_link_genes.py +0 -0
  909. {scout-browser-4.89 → scout-browser-4.89.1}/tests/utils/test_par.py +0 -0
  910. {scout-browser-4.89 → scout-browser-4.89.1}/tests/utils/test_scout_requests.py +0 -0
  911. {scout-browser-4.89 → scout-browser-4.89.1}/tests/utils/test_sort.py +0 -0
{scout-browser-4.89 → scout-browser-4.89.1}/CHANGELOG.md RENAMED
@@ -4,6 +4,12 @@ This project adheres to [Semantic Versioning](http://semver.org/).
4
4
 
5
5
  About changelog [here](https://keepachangelog.com/en/1.0.0/)
6
6
 
7
+
8
+ ## [4.89.1]
9
+ ### Fixed
10
+ - General case report crash when encountering STR variants without `source` tags
11
+ - Coloring and SV inheritance patterns on general case report
12
+
7
13
  ## [4.89]
8
14
  ### Added
9
15
  - Button on SMN CN page to search variants within SMN1 and SMN2 genes
{scout-browser-4.89/scout_browser.egg-info → scout-browser-4.89.1}/PKG-INFO RENAMED
@@ -1,6 +1,6 @@
1
1
  Metadata-Version: 2.1
2
2
  Name: scout-browser
3
- Version: 4.89
3
+ Version: 4.89.1
4
4
  Summary: Clinical DNA variant visualizer and browser.
5
5
  Home-page: https://github.com/Clinical-Genomics/scout
6
6
  Author: Måns Magnusson
scout-browser-4.89.1/scout/__version__.py ADDED
@@ -0,0 +1 @@
1
+ __version__ = "4.89.1"
{scout-browser-4.89 → scout-browser-4.89.1}/scout/server/blueprints/cases/templates/cases/case_report.html RENAMED
@@ -1099,7 +1099,9 @@
1099
1099
  <td>
1100
1100
  <ul>
1101
1101
  {% for disease_term in gene.disease_terms %}
1102
- <li class="d-flex align-items-baseline"><span class="badge bg-secondary m-1">{{ disease_term._id}}</span>&nbsp;<span>{{ disease_term.description }}&nbsp;{{ disease_term.inheritance }}</span></li>
1102
+ <li class="d-flex align-items-baseline"><span class="badge bg-secondary m-1">{{ disease_term._id}}</span>&nbsp;<span>{{ disease_term.description }}&nbsp;{% if disease_term.source != 'ORPHA' and disease_term.inheritance %}
1103
+ {% for model in disease_term.inheritance %} {{ inheritance_badge(model,inherit_palette) }}{% endfor %}
1104
+ {% endif %}</span></li>
1103
1105
  {% endfor %}
1104
1106
  </ul>
1105
1107
  </td>
@@ -1140,7 +1142,7 @@
1140
1142
  {{ variant_phenotypes(variant) }}
1141
1143
  </div>
1142
1144
  <div class="card-body">
1143
- <table id="panel-table" class="table table-sm table-bordered" style="background-color: transparent; margin-left:-.3rem;>
1145
+ <table id="panel-table" class="table table-sm table-bordered" style="background-color: transparent; margin-left:-.3rem;">
1144
1146
  <thead>
1145
1147
  <tr class="table-secondary">
1146
1148
  <th>Variant type</th>
@@ -1262,7 +1264,7 @@
1262
1264
  {{ variant.str_inheritance_mode if variant.str_inheritance_mode else "-" }}
1263
1265
  </td>
1264
1266
  <td>
1265
- {% if variant.str_source.display %}
1267
+ {% if variant.str_source and variant.str_source.display %}
1266
1268
  <a style="text-decoration:none;" href="{{variant.str_source_link}}" target="_blank" rel="noopener noreferrer">{{ variant.str_source.display }} </a>
1267
1269
  {% else %}
1268
1270
  "-"
{scout-browser-4.89 → scout-browser-4.89.1}/scout/server/templates/report_base.html RENAMED
@@ -6,11 +6,69 @@
6
6
  {% block css %}
7
7
  <link href="https://cdn.jsdelivr.net/npm/bootstrap@5.1.3/dist/css/bootstrap.min.css" rel="stylesheet" integrity="sha384-1BmE4kWBq78iYhFldvKuhfTAU6auU8tT94WrHftjDbrCEXSU1oBoqyl2QvZ6jIW3" crossorigin="anonymous">
8
8
  <link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.15.4/css/all.min.css" integrity="sha512-1ycn6IcaQQ40/MKBW2W4Rhis/DbILU74C1vSrLJxCq57o941Ym01SwNsOMqvEBFlcgUa6xLiPY/NS5R+E6ztJQ==" crossorigin="anonymous" referrerpolicy="no-referrer" />
9
- <link rel="stylesheet" href="{{ url_for('static', filename='bs_styles.css') }}">
10
9
  <style>
11
10
  tr.light-grey td{
12
11
  background-color: LightGray;
13
12
  }
13
+
14
+ /* affected, archived and similar accents */
15
+ .bg-danger-light {
16
+ background-color: var(--bs-info);
17
+ }
18
+
19
+ /* define colors to be used as class items */
20
+ .bg-red {
21
+ background-color: var(--bs-red);
22
+ }
23
+
24
+ .bg-orange {
25
+ background-color: var(--bs-orange);
26
+ }
27
+
28
+ .bg-blue {
29
+ background-color: var(--bs-blue);
30
+ }
31
+
32
+ .bg-teal {
33
+ background-color: var(--bs-teal);
34
+ }
35
+
36
+ .bg-green {
37
+ background-color: var(--bs-green);
38
+ }
39
+
40
+ .bg-gray {
41
+ background-color: var(--bs-gray);
42
+ }
43
+
44
+ .bg-pink {
45
+ background-color: var(--bs-pink);
46
+ }
47
+
48
+ .bg-purple {
49
+ background-color: var(--bs-purple);
50
+ }
51
+
52
+ .bg-cyan {
53
+ background-color: var(--bs-cyan);
54
+ }
55
+
56
+ .bg-gray-400 {
57
+ background-color: var(--bs-gray-400);
58
+ }
59
+
60
+ .bg-gray-dark {
61
+ background-color: var(--bs-gray-dark);
62
+ }
63
+
64
+ .bg-yellow {
65
+ background-color: var(--bs-yellow);
66
+ }
67
+
68
+ .bg-light {
69
+ background-color: var(--bs-light);
70
+ }
71
+ /* End of css colors */
14
72
  </style>
15
73
  {% endblock %}
16
74
 
{scout-browser-4.89 → scout-browser-4.89.1/scout_browser.egg-info}/PKG-INFO RENAMED
@@ -1,6 +1,6 @@
1
1
  Metadata-Version: 2.1
2
2
  Name: scout-browser
3
- Version: 4.89
3
+ Version: 4.89.1
4
4
  Summary: Clinical DNA variant visualizer and browser.
5
5
  Home-page: https://github.com/Clinical-Genomics/scout
6
6
  Author: Måns Magnusson
scout-browser-4.89/scout/__version__.py DELETED
@@ -1 +0,0 @@
1
- __version__ = "4.89"
{scout-browser-4.89 → scout-browser-4.89.1}/LICENSE RENAMED
File without changes
{scout-browser-4.89 → scout-browser-4.89.1}/MANIFEST.in RENAMED
File without changes
{scout-browser-4.89 → scout-browser-4.89.1}/README.md RENAMED
File without changes