scout-browser 4.90.1__py3-none-any.whl → 4.91.1__py3-none-any.whl

scout/server/utils.py

@@ -297,51 +297,43 @@ def _check_path_name(ind: Dict, path_name: str) -> bool:
     return False
 
 
-def case_append_alignments(case_obj):
+def case_append_alignments(case_obj: dict):
     """Deconvolute information about files to case_obj.
 
-    This function prepares the bam/cram files in a certain way so that they are easily accessed in
-    the templates.
-
-    Loops over the the individuals and gather bam/cram files, indexes and sample display names in
-    lists
-
-    Args:
-        case_obj(scout.models.Case)
+    This function prepares bam/cram files and their indexes for easy access in templates.
     """
     unwrap_settings = [
         {"path": "bam_file", "append_to": "bam_files", "index": "bai_files"},
         {"path": "mt_bam", "append_to": "mt_bams", "index": "mt_bais"},
-        {"path": "rhocall_bed", "append_to": "rhocall_beds", "index": "no_index"},
-        {"path": "rhocall_wig", "append_to": "rhocall_wigs", "index": "no_index"},
-        {
-            "path": "upd_regions_bed",
-            "append_to": "upd_regions_beds",
-            "index": "no_index",
-        },
-        {"path": "upd_sites_bed", "append_to": "upd_sites_beds", "index": "no_index"},
-        {
-            "path": "tiddit_coverage_wig",
-            "append_to": "tiddit_coverage_wigs",
-            "index": "no_index",
-        },
+        {"path": "rhocall_bed", "append_to": "rhocall_beds", "index": None},
+        {"path": "rhocall_wig", "append_to": "rhocall_wigs", "index": None},
+        {"path": "upd_regions_bed", "append_to": "upd_regions_beds", "index": None},
+        {"path": "upd_sites_bed", "append_to": "upd_sites_beds", "index": None},
+        {"path": "tiddit_coverage_wig", "append_to": "tiddit_coverage_wigs", "index": None},
     ]
 
-    for individual in case_obj["individuals"]:
+    def process_file(case_obj, individual, setting):
+        """Process a single file and its optional index."""
+        file_path = individual.get(setting["path"])
         append_safe(
             case_obj,
-            "sample_names",
-            case_obj.get("display_name", "") + " - " + individual.get("display_name", ""),
+            setting["append_to"],
+            file_path if file_path and os.path.exists(file_path) else "missing",
         )
+        if setting["index"]:
+            index_path = (
+                find_index(file_path) if file_path and os.path.exists(file_path) else "missing"
+            )
+            append_safe(case_obj, setting["index"], index_path)
+
+    for individual in case_obj["individuals"]:
+        # Add sample name
+        sample_name = f"{case_obj.get('display_name', '')} - {individual.get('display_name', '')}"
+        append_safe(case_obj, "sample_names", sample_name)
+
+        # Process all file settings
         for setting in unwrap_settings:
-            file_path = individual.get(setting["path"])
-            if not (file_path and os.path.exists(file_path)):
-                continue
-            append_safe(case_obj, setting["append_to"], file_path)
-            if not setting["index"] == "no_index":
-                append_safe(
-                    case_obj, setting["index"], find_index(file_path)
-                )  # either bai_files or mt_bais
+            process_file(case_obj, individual, setting)
 
 
 def append_safe(obj, obj_index, elem):

{scout_browser-4.90.1.dist-info → scout_browser-4.91.1.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: scout-browser
-Version: 4.90.1
+Version: 4.91.1
 Summary: Clinical DNA variant visualizer and browser.
 Home-page: https://github.com/Clinical-Genomics/scout
 Author: Måns Magnusson

{scout_browser-4.90.1.dist-info → scout_browser-4.91.1.dist-info}/RECORD

@@ -1,11 +1,11 @@
 scout/__init__.py,sha256=Z4liXvmEcLkC67ElsWvYHfemPKdWgWI5O6MB6XlDM8M,232
-scout/__version__.py,sha256=HwaUgvr7vVd4G7ToKJp_i-XsLxlwHhzOtnwwakNIMs8,23
+scout/__version__.py,sha256=UEW2jG2n4LaWe4lbBdEuuVDJFg2ITmLfH-vIghRM4ms,23
 scout/adapter/__init__.py,sha256=-iX_hx2NI1EMAqX0pMd5_90Nnd9uvIMxv9EbefYBzsc,86
 scout/adapter/client.py,sha256=IuajRsEwTG41ZP14X09Q1Cj94zIgmIvUtlXfcAFn0EA,1513
 scout/adapter/mongo/__init__.py,sha256=NdHYCUXWUAuX5cUS3-6HCws2hW9uoGep8i0SC-oJd3k,31
 scout/adapter/mongo/acmg.py,sha256=v2Zuw-6APVmcnBnNXa18WJEu2vj5GUhZNiKMkruJsBI,4170
 scout/adapter/mongo/base.py,sha256=yiaEmybAjLiCdAKouT0TET9aM2U-PtQm3En52MHR7Zs,4340
-scout/adapter/mongo/case.py,sha256=HRm7KK7moV2V9lvnrFIqOWRt4FkX1a_Nhgdmlmn6zpU,64491
+scout/adapter/mongo/case.py,sha256=mNqtFwmFcdAHNTjiIrRNzbXbPvYeUA_yCjMt9d2K2xw,63931
 scout/adapter/mongo/case_events.py,sha256=slHR4XJF9vRuEbuInJKMMAImLF8m7tHWVfGP42fbXr0,26859
 scout/adapter/mongo/case_group.py,sha256=tG8DuO0rNYepV4k0yCGPqssODErc0HMsAypg3mfhcV0,1575
 scout/adapter/mongo/clinvar.py,sha256=tczC39O3DFDkYgjt2RDgkkG-x1Mvx_99Hw7dAbIQ5gk,19838
@@ -80,14 +80,14 @@ scout/commands/export/mitochondrial_report.py,sha256=vglirazMK0gVgl6FMzls4ZhMQI_
 scout/commands/export/panel.py,sha256=Tt4wPxptpNKHHwKrYyPIkR0eIz6ad6-MB98_PRFFYW4,1336
 scout/commands/export/transcript.py,sha256=J92-ZIyVaarPFyajiqr9_RlpCbdWtTpbPd5VpRWyYLs,1024
 scout/commands/export/utils.py,sha256=kvm7OaLCzPVaC0HnQLO_034akDc0nlPFWLtLe8P2a10,300
-scout/commands/export/variant.py,sha256=1XwbkKzEDHSot1F3iHL_47Rq11_TkKRgcVB2tCcnXSc,7164
+scout/commands/export/variant.py,sha256=p7H6KMR_Ysr2GF66RnXYjZ9yPB_B3K8ofyOYNFDoAW4,7502
 scout/commands/load/__init__.py,sha256=qwXkYqeL2oNJ1zoWh_83Np4JjwWWwQqp5L9vTOC6VS0,23
 scout/commands/load/base.py,sha256=4dU7CdTPpAhsLaw20eRTJ2MRyEsPGJK33F6em0TxDnI,1406
 scout/commands/load/case.py,sha256=BD-qoDp5GjVBfTgUM8MihCoNWVgOysOviHO6kqkfcWY,4150
 scout/commands/load/cytoband.py,sha256=mPIL7RrcENUtY8oXpKp_Ej69jdvk6M5ax3KlWEvXWeA,935
 scout/commands/load/exons.py,sha256=isxBFR0is5TFvv4j0PHB4KqmHFJHQ0TLQBudrjKmuUI,1887
 scout/commands/load/institute.py,sha256=EYbDeWmpeRl0_jBnsckAp6qua5VyZKpczoHfADfYIDQ,1060
-scout/commands/load/panel.py,sha256=dgrOh4T3qghXzpeXu6EKMfR2WOD_RXUfk536HArT06c,2894
+scout/commands/load/panel.py,sha256=kx6HpFYcYgPwTLsgarjM7eL43bkZwpPj__I_gqjGN60,2925
 scout/commands/load/region.py,sha256=psICLlMf5WBdSCgXsJZUsM8fICsTJB3Q6U6dB5S6w_8,869
 scout/commands/load/report.py,sha256=DrnyOJcLbOUUJHzI3jwlj955zYohvjuTeeoeUS_ZU8Q,3564
 scout/commands/load/research.py,sha256=6GBKJY3POQyGxfPwcfj06tcCX48CBTZqq8MSdjevBjM,4426
@@ -106,13 +106,13 @@ scout/commands/update/individual.py,sha256=z2NY4f97GuYPRX7UCwSqbUMi-l-W0bRqN2xF6
 scout/commands/update/institute.py,sha256=ms8mmTGfCXqxeh_vSB1cdNDGrdHoSSgh9ryhB5GrJQc,1727
 scout/commands/update/omim.py,sha256=s39qterBGhtBfW7Uc-IJabni93PIhT8shqVbkmQBb9k,2309
 scout/commands/update/panel.py,sha256=990shZ15k5pwHUkd767o8oQ5iqVIpgRA7N_9yv1_eqc,2912
-scout/commands/update/panelapp.py,sha256=T0BPkhxXAd7UPQoKSiJlZgasFsSUO6scCip5o4SStfo,1281
+scout/commands/update/panelapp.py,sha256=UZ-k0UpVTM-scSg_pZdih84ZbYdTBtllouM87iMDx_0,1460
 scout/commands/update/phenotype_groups.py,sha256=Ll0COlEckn1Z7VAJbFbG2EZ5FKFVEcff0sWiUsx-D-g,1980
 scout/commands/update/user.py,sha256=s5s7nh9UABBO9P6L11_j5tsi4iPxzieHw40yDhc4PWM,2497
 scout/commands/view/__init__.py,sha256=ZtRW7UBNf1rPnlCslBVcmjafOPg9WTPpn4xxlAA0wMo,23
 scout/commands/view/aliases.py,sha256=M0hTBHk_cyW-BG0cNz5T3q20waYP4ktTfTCzCtkTUs0,1995
 scout/commands/view/base.py,sha256=Lz2cB7yTPjHXLgDu3aumHm6d4ozAKEA5V5ff1NAT4wA,1000
-scout/commands/view/case.py,sha256=URYiGsOS7phPzXh_HNxZfZLQpiFbDgPIlD8OK9BZAnM,3223
+scout/commands/view/case.py,sha256=O66_4bk7GOipdqP0Eza0xw9DFkh6e7wIAc7_egC2o8A,3266
 scout/commands/view/collections.py,sha256=RsO941NK29TJs1mWtof2qGhxqWlj7oBTu8WFIjzxnxs,453
 scout/commands/view/diseases.py,sha256=XJWz6xrIsyCbdA9-6XDXyRiSnv1oQ-eRZur3BdQ8Tr8,704
 scout/commands/view/hgnc.py,sha256=VQcDnYuDbcfkh9mxUJgZwXMAymj449By4NjXNwRfb18,1304
@@ -124,23 +124,23 @@ scout/commands/view/intervals.py,sha256=8Pofxy0DwL2Euh3SdnTLLWsU6DjLNOwIGdxeCS83
 scout/commands/view/panels.py,sha256=a0fQcP9-SDPuRYV7aEgIGUCYaMN6V47h6finpcdoomU,1098
 scout/commands/view/transcripts.py,sha256=59WyNNp7zHPJIz9QgzrkoeKaSXTtuLli0VuL8IidEmY,1277
 scout/commands/view/users.py,sha256=MKlmhDYRM7Yf-Trmi1ijEuqsDIUn326bdFADyDs7XYg,832
-scout/constants/__init__.py,sha256=0pFfxITRK6MlBgSkincam0XeuH7O4AVt5mYxnfzfQ4g,5768
-scout/constants/acmg.py,sha256=YATAEJAzM_EkeG9meCFMavO8p9PS-RBCpqb4Seibuos,17557
-scout/constants/case_tags.py,sha256=wWtiSYVsRQiXml5m8-J1JsMUGKsv1smIszNleyc4Lgw,11119
+scout/constants/__init__.py,sha256=HZvAMX-37ugK0fRwa8xKGvnZkicyUJH-SH2pqw7rm-g,5760
+scout/constants/acmg.py,sha256=hYPzoLUqpuTjGXfIN80Nb1njriesH9oAELu1scp-ByU,18083
+scout/constants/case_tags.py,sha256=EvLYtbZADyFEngeY8rvPsJ_1NdLmHrlnrGTlnj7tGGs,9336
 scout/constants/clinvar.py,sha256=nr7KhwMIO_7taNQokRJlpgZfenMlKsdPIMpdOx3TwKY,5594
-scout/constants/clnsig.py,sha256=2u_avIzWO_IPJGcTOoSB7_xqgu5JBl_zZZfT8UVpY90,1359
+scout/constants/clnsig.py,sha256=5Z4fZU__ej9teXK4hD9vGhIGmaGL6PoJqK5GuzLWxpE,1414
 scout/constants/disease_parsing.py,sha256=M9_OgsN88oXwKH_XpxdDma0zuWPRoHFQjL19tzojBPo,686
 scout/constants/file_types.py,sha256=3BU2cw40cHMT5IzEGEF_SsIhgYUbnIlUCRmwmB01fzI,3046
 scout/constants/filters.py,sha256=1bcj-z7__yv5eQpjB60wqSHZ3U5U0CVyNbcYT-Wn-vc,957
-scout/constants/gene_tags.py,sha256=qn2CMlvP-8c5TmWulAS8921MfCEXFWwjLNTs44-8TDw,3986
+scout/constants/gene_tags.py,sha256=pRRsjn9zYGR3nLFKxe1gOYqWm4uQbpfxYzfRxcptxqA,3856
 scout/constants/igv_tracks.py,sha256=NbBBnM3s1S8cJM_S36qi7SU2ACW_lJVS6EP2W0kCTIQ,4697
 scout/constants/indexes.py,sha256=-rb5VP68Arl2t-bFDYWiQswAF3YxjrAJVuMtQWrT__8,5497
-scout/constants/panels.py,sha256=Ku-VwbVVOnBcxnbL4ThVBBcHY42XXg-ybTxNjJU7TZ4,437
+scout/constants/panels.py,sha256=X38XGPlNgOGhXHt5mSpryOS7gMeP-tUD1t1WIT2G5wM,785
 scout/constants/phenotype.py,sha256=MrbXirisR_7GPnxV3NOj3-BoM9CvtGgFZj7PfJu85RM,2331
 scout/constants/query_terms.py,sha256=2A4CuTgc7W_VMj4atkJdZFfvBATu7OQg51udFM0rMOo,1574
 scout/constants/so_terms.py,sha256=aJcQv3wgpZylVhqSJH854WS8xSARDxWGnW6I5mG1egE,4321
 scout/constants/variant_tags.py,sha256=LxE_jTF5hk9M-lU7nAl1mdhpctatYwO91BLfVgN3qCQ,17919
-scout/constants/variants_export.py,sha256=ee3dyM6CifvPUU4zsVwYzG9Dptn3qBBhP72olHHJ6i4,1942
+scout/constants/variants_export.py,sha256=uQvFsbRMdbgl39HUdGWzFAEe1KOHp5OgvhjbGMD3O_Q,1969
 scout/demo/643594.clinical.SV.vcf.gz,sha256=Y5CcTI7vJAS53ch8OHPR80X44rArHZoQeQZGl8AHmq0,11927
 scout/demo/643594.clinical.SV.vcf.gz.tbi,sha256=1CPB8ftoYF3gjRfqG0xMQlVMD1lY0xSdXp_KrJbfzac,1284
 scout/demo/643594.clinical.mei.vcf.gz,sha256=x6qBLt7wYcB2Em6LLo6pTgxP497JhpDVR8Z_pObIeME,33244
@@ -184,7 +184,7 @@ scout/demo/ADM1059A2.d4,sha256=M4ubAb6oVkr8dOkvkROkTr76nACfE4eSWHiUKN5FRLg,61119
 scout/demo/ADM1059A2.test.cgh,sha256=29YOnGgPB3wxWwxVwf_mCLrhZ4Cf5hqVxw_DUggBe7Y,29
 scout/demo/ADM1059A3.d4,sha256=Da7zycL1LjrzhX1171G1sJTedyOLUyYMc_e5EAhI4eQ,961059
 scout/demo/ADM1059A3.test.cgh,sha256=29YOnGgPB3wxWwxVwf_mCLrhZ4Cf5hqVxw_DUggBe7Y,29
-scout/demo/__init__.py,sha256=RtiGb6BjlkfdhsT2nbZ6li-1C4XhzOXDgFUGYPgOk5U,1949
+scout/demo/__init__.py,sha256=ggXVz3_6ZUAzIZtuaK8kz3C6BuxSfaQ56PAzinJcYoI,2061
 scout/demo/cancer.load_config.yaml,sha256=1wz9eTRI54lu4TERQ3WJbbkEhrdLHhm1X_IMktXZX2M,1401
 scout/demo/cancer_cnv_report.pdf,sha256=_2_nj7Hc9SdE_mwDBqoquOFTLzZq5URnslADRMFjOm4,1910043
 scout/demo/cancer_coverage_qc_report.html,sha256=BlE_d6i68fK6VPv1wCyEmJy3qGSU67-in5Y1BGustU8,6914
@@ -204,7 +204,8 @@ scout/demo/madeline.xml,sha256=5gVlcdFYYs6LUq1jdgcxUMirICf7dX3eEhVHmDmapQU,5190
 scout/demo/manta_vep_94_annotated_sv_cancer_file.vcf.gz,sha256=lgg5x6vUj-eqM8BmblCY1RpuslqC8J86J8xW1psOock,184935
 scout/demo/panel_1.csv,sha256=QE11T3k3TkMRxZ16Y5tqQ68dMTf5SA-rlIwaqFB8pS8,6075
 scout/demo/panel_1.txt,sha256=kIN2CGFaSGhJFfitLDF7Z7_NCL49WPxYjwmFyuMQyT4,6187
-scout/demo/panelapp_test_panel.json,sha256=Y6Dz1Dq9CGf-19Jj1_rssycDcUESfh-yUD0U7A5Ucr4,2554
+scout/demo/panelapp_panel.json,sha256=NZYiqWAQ1J1_m8bRYu-T6MMVcr-3vCZk7Q_57UldJUo,12144
+scout/demo/panelapp_panels_reduced.json,sha256=dwvRRwfIIFq6H4ze0wyOIllN-LSreK5jhLZmmdlkdIU,844
 scout/demo/reduced_mt.bam,sha256=DlC0lBAQrqbNrRSJ27MrOVmF5_bjRINmHwMn45a0-_c,492247
 scout/demo/reduced_mt.bam.bai,sha256=S8k17QiK9jkLHM3usZP-Rsc5xGe5kvHfbMbB3-KKIRM,808
 scout/demo/reference_info.yaml,sha256=-9kgT14q-IY3xzz9iPSoV22hR7u89xOq4FJMEOqb3-0,7526
@@ -371,7 +372,8 @@ scout/load/exon.py,sha256=ONaWJ9EfbhGV8KGXxwlq_jYCoU-JkBpv4r9zDaCjtls,2070
 scout/load/hgnc_gene.py,sha256=GcSQ01CioYIshAzXAv4msIGDPjTjGBBPBnLX2GvaZJ4,4507
 scout/load/hpo.py,sha256=ZWYjV9j6OfpI-ZZuhTQVEs_xgLa7ST2KuvYLW6ku0PY,2474
 scout/load/institute.py,sha256=etmZ0CZRHOVi3f9R-wn5BK1pZPhtZwq2QYbh2RXXxDc,625
-scout/load/panel.py,sha256=Zxv-ZlRyk7ZWKy1p0Cod-ATh7TzKqeMbiLu5I6-VEzs,10246
+scout/load/panel.py,sha256=MY5M7-lDzVXt5RJH87N28TB7awdM6s-SoawholTl2GM,4776
+scout/load/panelapp.py,sha256=_Ptf4hQYjJtntoBTVeeLG_OfVONt-BtLtAtRV8TM9B8,5735
 scout/load/report.py,sha256=TJvblks6Dp5-UDflWRTa8b3fe-A4bT4QnWT2yZLhfLA,820
 scout/load/setup.py,sha256=Xu-m59rJW5bF6Agf6XdiEo_Ik4ZAFfN0tF2FjLIMYAY,8218
 scout/load/transcript.py,sha256=mk0Da7GWwqLVRp2xRD9mlzqaomH9R-TL2aKCJx4fEA8,4632
@@ -393,7 +395,7 @@ scout/models/phenotype_term.py,sha256=jY7dbfPzgE14M1gWqifm5YKkwMlrtfFa_WBHMT1_og
 scout/models/user.py,sha256=oercrjpf9fLomqAcN0Fv1BL_XPjOrS_vchURo0RP7es,1134
 scout/models/case/__init__.py,sha256=Sqczn7Wm9KYZtPGAHCvwX_6j9vlaK-0myJtSDlS-448,121
 scout/models/case/case.py,sha256=Wu2D6IZKkFXLeF7emcBr7n1HQ7Mj9rO-cN-8T9rhkSU,5282
-scout/models/case/case_loading_models.py,sha256=n__1UVOKnaGnqytjAZhIuhfRyJcoiZTxDIeMtMPQkNw,21514
+scout/models/case/case_loading_models.py,sha256=GNeXZFrJ_1ISSxqO2VpKXazCLksLsPbTNL67csIIwQQ,21568
 scout/models/variant/__init__.py,sha256=H-IZ2hSTSVS28S8FZzA8j2Cyu1PHQFXyMWJFtCucPAk,40
 scout/models/variant/gene.py,sha256=98CG_JcAklGGFIrUulf1_olQalV65kXQO-gOf7VQZ0A,1095
 scout/models/variant/transcript.py,sha256=rfflEbTs7Bn4HDENqrxtGopQ_0HKnrVLLyBcrj4NpwM,1720
@@ -411,21 +413,22 @@ scout/parse/matchmaker.py,sha256=eeAfyB8ObLIKveUL50i3YTBeZphqYhMCiz-4t2-dATI,985
 scout/parse/mitodel.py,sha256=3uvEXI9v9wIw97NUL7gqLLxHay0mpQpDgKaIxUbIyrE,803
 scout/parse/omim.py,sha256=nrCaFZgjUKZo9Jfku2-jcNjdsIYHsvjdWcydz4nCpZA,12465
 scout/parse/orpha.py,sha256=5u9xqGpAn8vgoJ0uVqbYiqQBiNfBwXOiTzX16kAnmFU,4392
-scout/parse/panel.py,sha256=my6fm8wfZF_-EOQZHtXO6vedMoBuPIiZxbd7H4bsDEk,13191
+scout/parse/panel.py,sha256=J28e_MkKeB5r4hOutb3qimxUT7G5yg8x1Ca4bAs0I_c,9577
+scout/parse/panelapp.py,sha256=1UAKBm48tKlfDpNb_VH_kfqO8tgduXRSIQnWa61Fzrc,3944
 scout/parse/peddy.py,sha256=uM49GaZMtr8waCsZDvCHDS5JDQ43JUlhdWh9C7f7ZvU,5418
 scout/parse/smn.py,sha256=iOK1N8iYm9dFigsKtWq0Y0ZCa1CH29s9zeR_tH0bPuc,1153
 scout/parse/omics_variant/__init__.py,sha256=vq8Ew4_Xr2vPy_3Fg0eTpPWsQpWnUXYBhjRndBUvtTw,422
 scout/parse/omics_variant/drop.py,sha256=SD98E9ksPPv62SFUuR4TfZHVIIIy1RXZRdMhm5Hu4RQ,478
 scout/parse/variant/__init__.py,sha256=5yqCQlAYMqosRabdipFUXqopSMBN4X6jwpNiKiYKlsE,35
 scout/parse/variant/callers.py,sha256=roTeQUMMNxOCeRHuL-TwJpIg5OwetMn4v-5E2xWvulU,2372
-scout/parse/variant/clnsig.py,sha256=7egXPwXzaIMTj7dnKnsaHpgZa-STSoBqB1ZlpOS4RYA,4606
+scout/parse/variant/clnsig.py,sha256=p5YNF_H1x6h1lTJX0D06Z9G1NfwQJ1WjnLauK1Oli28,4951
 scout/parse/variant/compound.py,sha256=zeRHBwobusCW-ylgurHrnPsc-edeJHeXj6xjXkrbFt8,1493
 scout/parse/variant/conservation.py,sha256=8eHXy57g6ng0eMo38LsIcQ8w_H5mpBSfiMuaXF7aBi4,2949
 scout/parse/variant/coordinates.py,sha256=CU-EyD8NVgTbyIdmYDO3k-zVaMN1EDONjorDwyUSnXU,4742
 scout/parse/variant/deleteriousness.py,sha256=zeFzx218GL-5pKniyci7MVHj3a1cep4nmvoSg7u0ogA,541
 scout/parse/variant/frequency.py,sha256=kpUNrXvg6IeLvf3TFmEni5lUfp1jFIMCKMrevJwUCNg,7854
 scout/parse/variant/gene.py,sha256=30SR2ck12HQW87LlRfchdgPVzOxb74aIXC2WzPL2BPk,4688
-scout/parse/variant/genotype.py,sha256=QDSn9dRpbyNQgbu5rQtRAp3k1XQkiem_3B9H6ttMaKA,16495
+scout/parse/variant/genotype.py,sha256=IqoH3UOd34ZrPE1xkDDmXavDEYe10D5mH9zf20E_BTA,16553
 scout/parse/variant/headers.py,sha256=se3H4r22q30MIvtOyc5jWNXZLVnDx58X4h-eED7hkl4,2947
 scout/parse/variant/ids.py,sha256=N_2m7Hgdh7asHdWU4k2dMySsutxp16ODRE_OHy_Niwg,2628
 scout/parse/variant/managed_variant.py,sha256=qwmi2sPLwGZM5izSsMpvhQ9vfMHREiwiIzjDCuOdqQo,2288
@@ -440,21 +443,21 @@ scout/server/__init__.py,sha256=iwhKnzeBJLKxpRVjvzwiRE63_zNpIBfaKLITauVph-0,24
 scout/server/app.py,sha256=70YdN9eWL1ySEYkuAHKOk_WA4Fm5dcIwtIZEcEf-xA0,10836
 scout/server/auto.py,sha256=8B6GwfOaUChkTLuLgYQDFMWlxGuHkEegF1argH2G2Ik,401
 scout/server/config.py,sha256=BFx6ix8D3KM90FqmaHLxv_feudO2kN2CkX1UWBGTjXE,5923
-scout/server/links.py,sha256=WjExw0fWrMDtZidSFklNWkRuiQMNzfaYP_x3uA19gAg,27379
-scout/server/utils.py,sha256=lhFJI6UkNDD1OPnC53SYG2vjfMNmjp4BBf1tcO8R-ZM,12634
+scout/server/links.py,sha256=UdYqYyRHh7v1gGtP-F3UYBdT3-49ySqiv9VkCnHX5ZU,28115
+scout/server/utils.py,sha256=d1fGdSwo-XjNHVjHd-uT3mGmUJ8yYB6weT7VgHo9nxM,12592
 scout/server/blueprints/__init__.py,sha256=iwhKnzeBJLKxpRVjvzwiRE63_zNpIBfaKLITauVph-0,24
 scout/server/blueprints/alignviewers/__init__.py,sha256=XMVed2ekVUAvroqENDHSr2pwM8otqau8ZA-rbH1T2U8,59
-scout/server/blueprints/alignviewers/controllers.py,sha256=PumR2UMmJSAXoKZkyaPIVK83hcPSjXHXMrPfL-GKJ1s,14053
+scout/server/blueprints/alignviewers/controllers.py,sha256=EtNKOBw_4Ba4aNskBTQrDW5Mo4siccRXrpIYbgqURzI,14316
 scout/server/blueprints/alignviewers/partial.py,sha256=9hpI00yhvZZCcPVUHlVDp488r1j7vYU5YDXYA6OkWQM,2005
 scout/server/blueprints/alignviewers/views.py,sha256=Qa9VOPbqh2MC-L_x1Yp6n8hfr6mIm9EPIUdN_0itJRU,5092
 scout/server/blueprints/alignviewers/templates/alignviewers/igv_sashimi_viewer.html,sha256=37ArJCraTajqWlCvyQYVfSvWCg94pRDIMvf2Y7Oe_j4,5545
 scout/server/blueprints/alignviewers/templates/alignviewers/igv_viewer.html,sha256=u7_OUfcGt-S6BFhwleE4mNprshO870CnzhgLpe4tocg,8564
-scout/server/blueprints/alignviewers/templates/alignviewers/utils.html,sha256=hnyQifeqxIQ2vNAPs9OgjAuQfcVrPe46C23RUJJFHXA,336
+scout/server/blueprints/alignviewers/templates/alignviewers/utils.html,sha256=x2B0vs8ZFmzF5QlI4a4EaLyRXkNRNlfcc75Q52uLu6k,336
 scout/server/blueprints/api/__init__.py,sha256=HR6HjS7ot1K_8Lt5eQdNT154z_FCdHGSigy8r2LpNCI,26
 scout/server/blueprints/api/views.py,sha256=pbl78wfhrm1T8JmiJDYF3BbTbfFrlF-hQRbuv2GWI0s,3729
 scout/server/blueprints/cases/__init__.py,sha256=_c17kPFITFYcIVphF4V9bf0PZBer8bU3rtVWQnljKDU,52
 scout/server/blueprints/cases/controllers.py,sha256=gDnjRYzc-z4SZro0Q7q8AQT0muyEUIfOY16hMaT-ZlE,53638
-scout/server/blueprints/cases/views.py,sha256=ZfuDfkcOiw7PHUr68mowJyYxUb6_gQObR488mhP6l78,42841
+scout/server/blueprints/cases/views.py,sha256=NCBYZl56jrdmwip4-UXq0-1oH9Y0EddTVDXdCVpmCws,43141
 scout/server/blueprints/cases/static/case_images.js,sha256=pb_gG7DNQc-1lADqSII8YvjBwmHyeQWYVtuu2jyrTlU,14997
 scout/server/blueprints/cases/static/case_styles.css,sha256=2Pgc8pFf9DR5HM1sTdAjaRWhjL-bK5bsQnLpH54HZak,541
 scout/server/blueprints/cases/static/edit_pedigree.js,sha256=ntC5fie7SsOYJau8qkke1UHxjiYWY_gBzWcIkGpdJUA,2978
@@ -462,10 +465,10 @@ scout/server/blueprints/cases/static/madeline.js,sha256=KHxKMBVlYVJODNu5QkY9hhsG
 scout/server/blueprints/cases/templates/cases/case.html,sha256=9Fcn-OFA1yIHchD0PjDs7-Y8I7Qqr8o6cavN0eOi5rI,37183
 scout/server/blueprints/cases/templates/cases/case_bionano.html,sha256=PLoRv7hDJcHwxhi-0hC9fQSZc7V_aUYHBhhQqcn_2G8,5946
 scout/server/blueprints/cases/templates/cases/case_report.html,sha256=y7aSvMGQoM8jOt93sBrXBvTkhtE7hIVU2jaoSA6FpM8,63309
-scout/server/blueprints/cases/templates/cases/case_sma.html,sha256=RF1510IuT5xtiBEzDFaGp-3CpfjMdtJnjT85_U5qtUk,7108
+scout/server/blueprints/cases/templates/cases/case_sma.html,sha256=99rmRyDXFXjooB52TI5_ebJKv1ZAJbVXEw4deHfSVMA,7285
 scout/server/blueprints/cases/templates/cases/case_tabular_view.html,sha256=ko-LDUKmIoTazMZ2nFWvPEZsgObU07RwqIkDYFjokoY,4317
 scout/server/blueprints/cases/templates/cases/chanjo2_form.html,sha256=5Wmk7DM8LI3MynqzxeTzAr_EoEBwVVo31djcI5ZlTdo,2164
-scout/server/blueprints/cases/templates/cases/collapsible_actionbar.html,sha256=J5rtjQyNtmnyPcMHLM3SLxlxKp8vMk3BL_WEGRZaWJ8,29797
+scout/server/blueprints/cases/templates/cases/collapsible_actionbar.html,sha256=Pxntd8zeThzwQrxjRpB-sGHcbMjBdsXCHnEF196tddU,30859
 scout/server/blueprints/cases/templates/cases/diseases.html,sha256=ETTQI0Nrl_v86NoX9mFZcvWD-qM1IJoqPmHPWn__Grw,1677
 scout/server/blueprints/cases/templates/cases/gene_panel.html,sha256=lkC_Piqaq-paYr4GUCwQaR8EgGOUXDMoW5sPLDW7yzg,11628
 scout/server/blueprints/cases/templates/cases/index.html,sha256=oUmjFyUvwP4yo21CxcWy-6eepMFI65hpznMEpSEqKfM,1207
@@ -480,14 +483,14 @@ scout/server/blueprints/clinvar/form.py,sha256=2h42YJzaOtsdEglxqt7F1i2ncjSU_IHNt
 scout/server/blueprints/clinvar/views.py,sha256=hPyTJA7Qy6QOL-ENSG1N0atnQXuYCb-iiO8fuNDjJns,6036
 scout/server/blueprints/clinvar/static/form_style.css,sha256=Tro2w0Su9st2ZRpt8PjF7qXYet-0n6Eyol4oh94JafU,4073
 scout/server/blueprints/clinvar/templates/clinvar/clinvar_howto.html,sha256=phFsRl6Hv94sy4GueBN0MXYbQsW6qmR1NoH-3Iwt2zs,4852
-scout/server/blueprints/clinvar/templates/clinvar/clinvar_submissions.html,sha256=fNIglI_Bs04wp0YnD5E8hXQTWvukyaH2PQnOIzbXV6w,18229
-scout/server/blueprints/clinvar/templates/clinvar/multistep_add_variant.html,sha256=dBrIRJLcbW0bI2n2QoeZLgr91S8kJmzHYFVnDgUkP24,31987
+scout/server/blueprints/clinvar/templates/clinvar/clinvar_submissions.html,sha256=NqR66lFN-Svm0IC0FZTts1oPK8S80t69SRSgT-727LA,18185
+scout/server/blueprints/clinvar/templates/clinvar/multistep_add_variant.html,sha256=zfU_dPLtjiX8NE7IGTfABt9q46Li8rWFXyyMSvc_U-E,32017
 scout/server/blueprints/dashboard/__init__.py,sha256=9YTjGeFexyEbl4P-gs7j8VEjyhnVwHZFfz57eTtod1M,69
-scout/server/blueprints/dashboard/controllers.py,sha256=c0oOVzyHmQEypQPGRr8Kh_QdKidMjwqPd9UF1_kFLIk,10698
-scout/server/blueprints/dashboard/forms.py,sha256=CgwCHGZcxi08-04hwlw-rXZau_C9X2Qoq1ayTd533qY,826
+scout/server/blueprints/dashboard/controllers.py,sha256=x6EWKROskF4iyZ5_hAgL7CWp1X3CXHp-7v0JVsDHKZU,9612
+scout/server/blueprints/dashboard/forms.py,sha256=vbdkujKZxVjiZw2inNhysN3yYMPCdMPbqvKV88DamwI,501
 scout/server/blueprints/dashboard/views.py,sha256=VjJI44FBfjQMR21AKminmQWmM3QT9VA4QFKGQDQykKY,512
 scout/server/blueprints/dashboard/static/charts.js,sha256=P7VmITDatAROmBvCxYRd_Bq5dQDb7Ew61DszfwOtjvY,4250
-scout/server/blueprints/dashboard/templates/dashboard/dashboard_general.html,sha256=WhOzXojmDJJfgOjERM_PlM8J7OafdUbJuXK-9oqbPto,6504
+scout/server/blueprints/dashboard/templates/dashboard/dashboard_general.html,sha256=8l1ulf4URSerw8TvKE1-W1AXPTTjXiM5F2tFH3O238Q,6218
 scout/server/blueprints/diagnoses/__init__.py,sha256=sORNuH8TXn63RI7KVRSVrMrPwTzZs9gNMfPxtzUZW-U,27
 scout/server/blueprints/diagnoses/controllers.py,sha256=h-enZ2T8lwPDFl9pVKRZ7Mr41xMyMLtmT4j4CBG6joQ,1654
 scout/server/blueprints/diagnoses/views.py,sha256=zGfYxrrzE1qNn4wyoBdgKpfozJb6XpVEcC0sBwmPDXA,1252
@@ -502,13 +505,13 @@ scout/server/blueprints/genes/templates/genes/genes.html,sha256=x6jXKijvuEX9GvIe
 scout/server/blueprints/genes/templates/genes/layout.html,sha256=cZMLe2cInq24z0sZpPxDm_kEiAe5VQbOR-8XWn6wlvI,1601
 scout/server/blueprints/institutes/__init__.py,sha256=kGSyYrBC1QaEQBDdoMkMLfaowV7roaV5DowICi_0RSQ,65
 scout/server/blueprints/institutes/controllers.py,sha256=Fv57oJ96VsOaYGtQb-0m96bb7ospNGRBPiVX9QsMJZw,31720
-scout/server/blueprints/institutes/forms.py,sha256=BkiCyhrj9uSoQA85ehx7neAehg4odvT1ie0KxJ6vf0Y,6732
+scout/server/blueprints/institutes/forms.py,sha256=gjVNdKt7hIrNk_JOwCDRuOXiOrE9kS41VZQuTkkmkk8,6615
 scout/server/blueprints/institutes/views.py,sha256=Jero8StGG3q-UAepUqv3RtxknNXU5BgDLMvrTtz20g0,8853
 scout/server/blueprints/institutes/static/form_scripts.js,sha256=8Sn7omeXeeUbiXJPfT0Qb4CaBJ_KtZZWw7N2he7EDx0,747
 scout/server/blueprints/institutes/static/select2_darktheme.css,sha256=Nq_va597W_e5y-52B4ClwSJzACq0WFbPU8SIp3DtKIo,1818
 scout/server/blueprints/institutes/static/timeline_styles.css,sha256=Vq48ffIidpQmDQhAzfW47O9mGQZEWdlbMtOE8AK-ZEU,2122
 scout/server/blueprints/institutes/static/variants_list_scripts.js,sha256=gO_ZuJC2jj7Y9x6CEVEVhN1oIE4bIWrTY0_zVcsbRbY,236
-scout/server/blueprints/institutes/templates/overview/cases.html,sha256=ej7HZMT3pwzjymO7B3QoK6QUqsPd6qhRv_fFzdTBMgw,19635
+scout/server/blueprints/institutes/templates/overview/cases.html,sha256=7-9nUomP6iaqXGtf6GemVECYMG2nD-h64RKTAmLkof0,12758
 scout/server/blueprints/institutes/templates/overview/causatives.html,sha256=VeQZCHxdSd6PlQTAkgWF0USzd9k3KJ8vLunXxWjg1lQ,1610
 scout/server/blueprints/institutes/templates/overview/filters.html,sha256=Dzu5YicmdjW_zGqbCUrb8TMbSUuRaG47itTMwwX7Bm8,3102
 scout/server/blueprints/institutes/templates/overview/gene_variants.html,sha256=EyhBZEdMZQBaJWR_FDeabuWXRSd4Xcqh0teaxVyNvAE,8442
@@ -516,7 +519,7 @@ scout/server/blueprints/institutes/templates/overview/institute_settings.html,sh
 scout/server/blueprints/institutes/templates/overview/institute_sidebar.html,sha256=vQQunXH2Cr8-z2Kc7uTCzsSqIX14Xld44NWqdhpw-Hs,4304
 scout/server/blueprints/institutes/templates/overview/timeline.html,sha256=upTv7v4sUwxGfJDSyk8F5zPb61dedG66zgfvh_SMR4M,2289
 scout/server/blueprints/institutes/templates/overview/users.html,sha256=6dkbDBNLw2b97M2Pd8JImpPoT3FLTcl84oBN3inLJRg,1134
-scout/server/blueprints/institutes/templates/overview/utils.html,sha256=cL73OTRS4J8_8A5tV37Ieb62XkI0tadjLQK0BKbR5E0,25170
+scout/server/blueprints/institutes/templates/overview/utils.html,sha256=9SyEvWcckgQJRxrxmSSqzLwyTO121O6WjNSj-CUrWoQ,32555
 scout/server/blueprints/institutes/templates/overview/verified.html,sha256=_zdTAiJ80brlWDqBho_DveY8cJMzmednck26uni6Vmo,3354
 scout/server/blueprints/login/__init__.py,sha256=uDzQjNNrMloZ4-i-1cEW7d59FZ--Xy89b-Xn5SvyC1U,52
 scout/server/blueprints/login/controllers.py,sha256=bg0me00OvwYJiTm4dZnbl8eyRRRDquBMs5U7_YV4xWI,1883
@@ -539,15 +542,15 @@ scout/server/blueprints/managed_variants/templates/managed_variants/managed_vari
 scout/server/blueprints/omics_variants/__init__.py,sha256=8UVXrChArhIvMxtgUcG-udvmlTn56q41iy-naOZw5us,37
 scout/server/blueprints/omics_variants/controllers.py,sha256=AnM70stvLniJIU3pFUX-InNjuT-7K0RpuAEYa7vM-jw,3912
 scout/server/blueprints/omics_variants/views.py,sha256=P-mo2S1RBGYxsNCFqSTNQNLvqiH9r6_AoZgsOWpopPE,3817
-scout/server/blueprints/omics_variants/templates/omics_variants/outliers.html,sha256=ZH6DVL1MKylB31J7XQip96A2KTeuBKd8nW5UjzN3tEU,13291
+scout/server/blueprints/omics_variants/templates/omics_variants/outliers.html,sha256=hd8vxHY1hBqiyvgefLK3S_i_VnOgGwCJLmJUxiJhB4M,13733
 scout/server/blueprints/panels/__init__.py,sha256=usxBF0O7zNX1d9jt-8DRoFZwcfHHS96Gv87LDr1AgG4,53
 scout/server/blueprints/panels/controllers.py,sha256=DHIIXp_kms4DkTX2mkSdWhW-b4mk0gsRX2XU-4JP3CM,12597
 scout/server/blueprints/panels/forms.py,sha256=DYlhYpnpv7ehf9JlY3HRFwy-TZ5QDHB0RIRaNTAW1jQ,696
 scout/server/blueprints/panels/views.py,sha256=NN7jRPLK0mbdR0ERh7DgDHdqM4jAHeghG5O4P3II_ew,15772
 scout/server/blueprints/panels/templates/panels/gene-edit.html,sha256=KqdUdu93707upLxh31Bwxgd1w4kH-WHtVilSNmAqiRo,3627
-scout/server/blueprints/panels/templates/panels/panel.html,sha256=5ljhcRaJb1EYjesM_VFj0ZGAasKBkPvv_dkaTa3TlVc,16112
+scout/server/blueprints/panels/templates/panels/panel.html,sha256=qMdyxia0Oei83ECR6TTxOn62hh447XuGFF_TD63NP6E,16527
 scout/server/blueprints/panels/templates/panels/panel_pdf_case_hits.html,sha256=uzfZJiMNQiTa_6u4uMuIbK3VXIs-8Rw-MjKujFttZG8,3438
-scout/server/blueprints/panels/templates/panels/panel_pdf_simple.html,sha256=OBBDrtj--Vovu5fFtKydCsenucib3HeSdRDOjfA5bIU,2561
+scout/server/blueprints/panels/templates/panels/panel_pdf_simple.html,sha256=cpOnQzeKYnQwXosTKk9hkiBigJJLS3Q_y2oHDR3C8io,2744
 scout/server/blueprints/panels/templates/panels/panels.html,sha256=zjVzfgsapjlZBZ8Kz2zRz0oShg1msXTkkoENy9jF4Tc,14038
 scout/server/blueprints/phenomodels/__init__.py,sha256=Kb1fqfCn-QsH5mz6hiuQ2DiC7icTClD4HLey6QN4GD4,34
 scout/server/blueprints/phenomodels/controllers.py,sha256=g5-BxlaHN7JBuQHEcOtQMUDEO9U9iy9HICaIaIEn3vk,11019
@@ -597,40 +600,40 @@ scout/server/blueprints/public/static/ideograms/chromosome-X.png,sha256=Dj7npcW_
 scout/server/blueprints/public/static/ideograms/chromosome-Y.png,sha256=KlOsBLZYFVHRvXvTioT-XE57zSWoYeIwIEXo_rzLBR0,1524
 scout/server/blueprints/public/templates/public/index.html,sha256=-c6-r2G6-cdE9PLV126V8zTwYmApI88UIQKWuVP6HP4,4268
 scout/server/blueprints/variant/__init__.py,sha256=SlD8-Aoj9Jq9aVTJjtFfsu-0sUVfkzpiEXcH8z9q6dI,54
-scout/server/blueprints/variant/controllers.py,sha256=2XEBrvq4kXNA2Mj1G6GMfWHphEfgafDewoqFW32Q0PQ,25160
+scout/server/blueprints/variant/controllers.py,sha256=9pojsGPszRn61XHQg4OwCXxqniyJgTGdZvMz4_4rNxQ,25406
 scout/server/blueprints/variant/utils.py,sha256=fsX_PHBOHloypjtKx9LPKxjyH-HW3ERxnQl-8NOP8Sw,23127
 scout/server/blueprints/variant/verification_controllers.py,sha256=eKzP222e7xuFOaQaI9MLOrD9RWtI8uGB1cJYbcXLzF0,10972
 scout/server/blueprints/variant/views.py,sha256=XAAIE35SXsGLLphUK4mQ6Kl8wpxwDEEo5kXLh6KD83w,14957
 scout/server/blueprints/variant/templates/variant/acmg.html,sha256=Fk4vL1Pu4G3wZsfiUO2jBlFLFoRgFAeqChlIyas5Bb4,8758
-scout/server/blueprints/variant/templates/variant/buttons.html,sha256=SnSQhCYiW3lYuZrT22J27OtDaxiVCfWpueOr4jQBOg0,7257
+scout/server/blueprints/variant/templates/variant/buttons.html,sha256=4vlnvJKhr28qqzevlecAIvumvOgLZhGyPYQm68AnKzU,7608
 scout/server/blueprints/variant/templates/variant/cancer-variant.html,sha256=1D9uLIgb06qfhcbl0wB5mRrgARVgfCJfRZhf4wEA2tc,13971
-scout/server/blueprints/variant/templates/variant/components.html,sha256=9XBrMqI3yAJ8iC3ytohTatWnuIXMPdGr3HWIFgMA4_U,20691
+scout/server/blueprints/variant/templates/variant/components.html,sha256=dINgA52b2kZ3g0DKzimVu21jmhZL2BVzEDNfMibQA_M,21507
 scout/server/blueprints/variant/templates/variant/gene_disease_relations.html,sha256=1U77akxqbb4AS2GSyvFwGD6D7rP68L3KXKLUmP73664,7256
 scout/server/blueprints/variant/templates/variant/rank_score_results.html,sha256=32RfBrpZ_J-1WYE01Bdd5IC9i1MAzXT7GF27OlElk94,2040
 scout/server/blueprints/variant/templates/variant/sanger.html,sha256=0kVnscTw3KUwjR4QOEuNJMOK9eADGEn9qGNtGx2ST7Y,4507
-scout/server/blueprints/variant/templates/variant/str-variant-reviewer.html,sha256=QETzTkzXhFBd7-20OrLMCd1QSgzOxeE7Lv_Iged5BB0,2220
+scout/server/blueprints/variant/templates/variant/str-variant-reviewer.html,sha256=p0nWqo71GJ8ACLEzXuZbJAzDXoCHZLvH6f7yLi3JslI,2208
 scout/server/blueprints/variant/templates/variant/sv-variant.html,sha256=8199JLlkuNOLI88hSwgtPxKjk9SDyhNS-WJR1S7mnFs,16978
 scout/server/blueprints/variant/templates/variant/tx_overview.html,sha256=turyCoOCCd_N80FakxXfIl7q_WViysz1fwx3j312_Lg,6737
-scout/server/blueprints/variant/templates/variant/utils.html,sha256=Nfb7Lv-YoXWHxZsJLD8ehhWGYSoW4xMrffDBF_NbIeU,23340
-scout/server/blueprints/variant/templates/variant/variant.html,sha256=I7zb4Yqwq0UsUV9UoefPlsfVQpSnqlBkxWoIdFPtn04,17845
+scout/server/blueprints/variant/templates/variant/utils.html,sha256=lF-w3400plEn0gVpHG-9k7N9L_p1U-PFGitcT_YlZw8,25414
+scout/server/blueprints/variant/templates/variant/variant.html,sha256=saZzZ-ppdjE_4hSfW3MqMGyu5l_L8upyXS1uzwhbMiM,17844
 scout/server/blueprints/variant/templates/variant/variant_details.html,sha256=J-pF8LRXFnCxIbNfL7klTLj172rlpWF8PznO4ie9Igc,19921
 scout/server/blueprints/variants/__init__.py,sha256=W1KCz9kEbVlNO0o3NvLitYLQoP_3JSJ5KSjhpcjlUBQ,55
-scout/server/blueprints/variants/controllers.py,sha256=DQeqtQtVX4p__AanxChWxWxdQ65_p5etSFQZEj_leDQ,72616
+scout/server/blueprints/variants/controllers.py,sha256=OOBoemjmuOAADLv3wgKZU2OHiuH2CaK8bO3-mMhRV3M,72924
 scout/server/blueprints/variants/forms.py,sha256=w4Woeek6gpZfPM_9e1E_n-gpVvNxXPU_ria7cvP1HSo,10750
 scout/server/blueprints/variants/utils.py,sha256=ifFBoyigx0A5KPE4iz9NSpyuUeF1bElrb4ohQLD2GlU,919
 scout/server/blueprints/variants/views.py,sha256=skUGpZyRDzW4BEDIqWKajHBLF3qBUSP-UYSZYxbv3l8,28895
 scout/server/blueprints/variants/static/form_scripts.js,sha256=o3GCboaesA9Sm1HgejS_yQwt0I-NTkvcl56jiBdLqZs,8319
-scout/server/blueprints/variants/templates/variants/cancer-sv-variants.html,sha256=liG5InlQDYZ--aFbnO8GDguUSwlP_TbV1MpNRd2p7J0,7362
-scout/server/blueprints/variants/templates/variants/cancer-variants.html,sha256=bX9FLoufo72PBDoWp95DVLltxUrbLeuFmZQObP1oAlw,10132
+scout/server/blueprints/variants/templates/variants/cancer-sv-variants.html,sha256=rLASILYRFwTIA3S0WtfN3QS7JbL_VvXKYJOoa-1yQJQ,7389
+scout/server/blueprints/variants/templates/variants/cancer-variants.html,sha256=6t1ZKUm2f6l5NJKDQvo9RBc4DBZgkWBXiePoIFkm6OY,9789
 scout/server/blueprints/variants/templates/variants/components.html,sha256=xXa0ndN42htflWDYsbKhMwIYdk8hBJ0znyinVfLCU2o,17815
 scout/server/blueprints/variants/templates/variants/fusion-variants.html,sha256=XGaLgWobzeFHwyQLXr_Yq9THssf8tGU91VbFKdGOFBg,4801
 scout/server/blueprints/variants/templates/variants/indicators.html,sha256=BX6Wg8OpsALCGGozR1eXT57D0Ixrf-OFXVg6G20Wjr0,4400
 scout/server/blueprints/variants/templates/variants/mei-variants.html,sha256=2Tb0vfzM--kJa5mVbT7L32h4E8nKYRSb245g6O5JIUU,5860
-scout/server/blueprints/variants/templates/variants/str-variants.html,sha256=59Ng0HHrQ0FDFY8dqYPh1Bk-TIL1AncUoMaKIKqmic4,10503
-scout/server/blueprints/variants/templates/variants/sv-variants.html,sha256=J8hTxRurI2MSbG0ZoqPqTx7zaJQ2ef8qT87wh4CBt5w,6212
-scout/server/blueprints/variants/templates/variants/utils.html,sha256=hK1BBqxvSljBLAGA8mZlEn1RUSXaJQcB-SB_jQviV3E,49371
+scout/server/blueprints/variants/templates/variants/str-variants.html,sha256=bjjeyoEO1aScqIDLtCh3xexZfvf1906yusPGJTyeNLU,10644
+scout/server/blueprints/variants/templates/variants/sv-variants.html,sha256=V_3hTZXmI_VEcQ6DpxVrTYnM3cBDGWtPri8cDVIsR9A,6153
+scout/server/blueprints/variants/templates/variants/utils.html,sha256=3jixwVolEzf7-mmV8e7AgDLoMrQlJfucKa877FF5SUg,50042
 scout/server/blueprints/variants/templates/variants/variants.html,sha256=KnCcsA1VaRdsbRCCw9Rg0TJTUvq03X9S24QgCqVToUk,9328
-scout/server/extensions/__init__.py,sha256=b8BuGfdRWoZXcs_q4Wn9vf30jj5r2GU-YJBpPgAv_nM,1291
+scout/server/extensions/__init__.py,sha256=s6qkGSFNRi_tP7yoeoXB5UarvLHidaK1Yw2Pae7Py90,1366
 scout/server/extensions/beacon_extension.py,sha256=YDXQQl5kFcsA4OFHDMVurIKLw_3Gl6yWfcy3lYHl9RE,9904
 scout/server/extensions/bionano_extension.py,sha256=0rWPLMSCRP8uK4_yozo6HTPR6V-oITF492vrGA3wSj0,7129
 scout/server/extensions/chanjo2_extension.py,sha256=ZKCIv8muR9bzCV0_rM277ePvxdWC3wuPIwY4VppH7lY,1530
@@ -641,6 +644,7 @@ scout/server/extensions/ldap_extension.py,sha256=nVgJ6YhSyvpg8J4bSYzJwoEvKhP0faW
 scout/server/extensions/loqus_extension.py,sha256=uiqUXQ7Q7DCj6C20TKgL8yLu9DXov95vrJfhq0tvbTM,12602
 scout/server/extensions/matchmaker_extension.py,sha256=mNytCYnZX1hgdq1otkvnyOkh4dj9SVgQthJAfKb8TMI,5024
 scout/server/extensions/mongo_extension.py,sha256=bKB0K5ibp-BWynOTgzBJd5qIYO0S9zRtEyDUw7EoxSQ,1029
+scout/server/extensions/panelapp_extension.py,sha256=UoPFGKqXJtAfbw3WRTxvHZweNI4jVgYgrhWkgVJouRo,2732
 scout/server/extensions/phenopacket_extension.py,sha256=kcEUIOSfkQAlAmUm07hQS1BeUjeN4lBc-InvaNtbFxo,7295
 scout/server/extensions/rerunner_extension.py,sha256=SEwQi5BZR5X70BoD0U7TfyGgGv2WbJbas0v1efuv_r8,1104
 scout/server/static/bs_styles.css,sha256=Y7aq8Es3NHj1OaLPX0eiY5485C8gENptpuYmf7W3o1w,6421
@@ -673,9 +677,9 @@ scout/utils/md5.py,sha256=KkgdxOf7xbF9AF40ZjQKCgWaxFWJ9tp9RKjd8SU6IoA,649
 scout/utils/scout_requests.py,sha256=lgPumNI_EikBZR1m9ztZI_mZAfV29y1KGoiBv9kejzQ,12797
 scout/utils/sort.py,sha256=1AcbeZ6vdt_UXM3BLDBa3aQmN4qxrqtskxwD19oBhvw,756
 scout/utils/track_resources.py,sha256=eUjSEe-Ff8BIb4BHPC_COkJocQO2PaWueiPz1GAuiwY,2614
-scout_browser-4.90.1.dist-info/LICENSE,sha256=TM1Y9Cqbwk55JVfxD-_bpGLtZQAeN9RovQlqHK6eOTY,1485
-scout_browser-4.90.1.dist-info/METADATA,sha256=bS8U7NarG84WGjo9Ax7JZxVj6FIdHwSFW4met6EFPl4,14262
-scout_browser-4.90.1.dist-info/WHEEL,sha256=eOLhNAGa2EW3wWl_TU484h7q1UNgy0JXjjoqKoxAAQc,92
-scout_browser-4.90.1.dist-info/entry_points.txt,sha256=q_mxFwbMFTwXRDDIRVcqKram2ubMVmvs3CSNvZri1nY,45
-scout_browser-4.90.1.dist-info/top_level.txt,sha256=qM75h71bztMaLYsxn1up4c_n2rjc_ZnyaW6Q0K5uOXc,6
-scout_browser-4.90.1.dist-info/RECORD,,
+scout_browser-4.91.1.dist-info/LICENSE,sha256=TM1Y9Cqbwk55JVfxD-_bpGLtZQAeN9RovQlqHK6eOTY,1485
+scout_browser-4.91.1.dist-info/METADATA,sha256=b8Nefs04nnQtwP5Auh5mCb4ZMX909osa6b7rnp9iEkU,14262
+scout_browser-4.91.1.dist-info/WHEEL,sha256=bFJAMchF8aTQGUgMZzHJyDDMPTO3ToJ7x23SLJa1SVo,92
+scout_browser-4.91.1.dist-info/entry_points.txt,sha256=q_mxFwbMFTwXRDDIRVcqKram2ubMVmvs3CSNvZri1nY,45
+scout_browser-4.91.1.dist-info/top_level.txt,sha256=qM75h71bztMaLYsxn1up4c_n2rjc_ZnyaW6Q0K5uOXc,6
+scout_browser-4.91.1.dist-info/RECORD,,

{scout_browser-4.90.1.dist-info → scout_browser-4.91.1.dist-info}/WHEEL

@@ -1,5 +1,5 @@
 Wheel-Version: 1.0
-Generator: bdist_wheel (0.44.0)
+Generator: bdist_wheel (0.45.0)
 Root-Is-Purelib: true
 Tag: py3-none-any
 

scout/demo/panelapp_test_panel.json

@@ -1,79 +0,0 @@
-{
-    "result": {
-        "Genes": [
-            {
-                "GeneSymbol": "CDK4",
-                "EnsembleGeneIds": [
-                    "ENSG00000135446"
-                ],
-                "ModeOfInheritance": "monoallelic",
-                "Penetrance": null,
-                "Publications": null,
-                "Phenotypes": null,
-                "ModeOfPathogenicity": null,
-                "LevelOfConfidence": "HighEvidence",
-                "Evidences": [
-                    "Expert Review Green",
-                    "NHS GMS",
-                    "Expert List"
-                ]
-            },
-            {
-                "GeneSymbol": "C19orf49",
-                "EnsembleGeneIds": [
-                    "ENSG00000105429"
-                ],
-                "ModeOfInheritance": "biallelic",
-                "Penetrance": null,
-                "Publications": [
-                    "23063620"
-                ],
-                "Phenotypes": [
-                    "Polydactyly",
-                    "Carpenter syndrome 2 614976"
-                ],
-                "ModeOfPathogenicity": null,
-                "LevelOfConfidence": "HighEvidence",
-                "Evidences": [
-                    "Expert Review Green",
-                    "Victorian Clinical Genetics Services"
-                ]
-            },
-            {
-                "GeneSymbol": "POT1",
-                "EnsembleGeneIds": [
-                    "ENSG00000128513"
-                ],
-                "ModeOfInheritance": "monoallelic",
-                "Penetrance": null,
-                "Publications": [
-                    "24686849",
-                    "24686846",
-                    "29523635",
-                    "30451293",
-                    "30586141",
-                    "32325837",
-                    "32907878"
-                ],
-                "Phenotypes": [
-                    "Melanoma, cutaneous malignant, susceptibility to, 10, OMIM:615848"
-                ],
-                "ModeOfPathogenicity": null,
-                "LevelOfConfidence": "HighEvidence",
-                "Evidences": [
-                    "Expert Review Green",
-                    "NHS GMS",
-                    "Expert List"
-                ]
-            }
-        ],
-        "STRs": [],
-        "Regions": [],
-        "SpecificDiseaseName": "Panel for testing PanelApp panels loading",
-        "version": "1.12",
-        "Created": "2022-06-22T10:25:36.859855Z",
-        "DiseaseGroup": "",
-        "DiseaseSubGroup": "",
-        "Status": "public"
-    }
-}