scout-browser 4.92__py3-none-any.whl → 4.93.1__py3-none-any.whl

scout/utils/ccv.py

@@ -0,0 +1,201 @@
+# coding=UTF-8
+from typing import Optional
+
+from scout.constants.ccv import CCV_COMPLETE_MAP, CCV_POTENTIAL_CONFLICTS
+
+
+def get_ccv_points(ccv_terms: set) -> int:
+    """
+    Use the algorithm described in Clingen-CGC-VIGG classification paper (Horak 2022)
+    Given a set of CCV evidence criteria terms
+    for each term,
+      check prefixes if no suffix match or stand-alone criteria match
+
+    O positive, SB negative.
+    VS 8 points, S 4, M 2, P 1.
+
+    If no terms return None
+
+    Args:
+        ccv_terms(set(str)): A collection of prediction terms
+    Returns:
+        points(int):"""
+
+    ovs_terms = []
+    os_terms = []
+    om_terms = []
+    op_terms = []
+    sbvs_terms = []
+    sbs_terms = []
+    sbm_terms = []
+    sbp_terms = []
+
+    prefix_map = {
+        "OVS": ovs_terms,
+        "OS": os_terms,
+        "OM": om_terms,
+        "OP": op_terms,
+        "SBVS": sbvs_terms,
+        "SBS": sbs_terms,
+        "SBM": sbm_terms,
+        "SBP": sbp_terms,
+    }
+
+    suffix_map = {
+        "_Strong": {"O": os_terms, "SB": sbs_terms},
+        "_Moderate": {"O": om_terms, "SB": sbm_terms},
+        "_Supporting": {"O": op_terms, "SB": sbp_terms},
+    }
+
+    for term in ccv_terms:
+        for suffix, prefix_dict in suffix_map.items():
+            if term.endswith(suffix):
+                for prefix, term_list in prefix_dict.items():
+                    if term.startswith(prefix):
+                        term_list.append(term)
+                        break
+                else:
+                    continue
+                break
+        else:
+            for prefix, term_list in prefix_map.items():
+                if term.startswith(prefix):
+                    term_list.append(term)
+                    break
+    points = (
+        8 * len(ovs_terms)
+        + 4 * len(os_terms)
+        + 2 * len(om_terms)
+        + len(op_terms)
+        - 8 * len(sbvs_terms)
+        - 4 * len(sbs_terms)
+        - 2 * len(sbm_terms)
+        - len(sbp_terms)
+    )
+    return points
+
+
+def get_ccv(ccv_terms: set) -> Optional[str]:
+    """Use the algorithm described in Clingen-CGC-VIGG classification paper (Horak 2022)
+
+    If no terms return None
+
+    O >= 10
+    OP 6 <= p <= 9
+    VUS 0 <= p <= 5
+    LB -1 <= p <= -6
+    B <= -7
+
+    Args:
+        ccv_terms(set(str)): A collection of prediction terms
+
+    Returns:
+        prediction(str): in ['uncertain_significance','benign','likely_benign',
+                             'likely_oncogenic','oncogenic']
+
+    """
+    if not ccv_terms:
+        return None
+
+    points = get_ccv_points(ccv_terms)
+
+    if points <= -7:
+        prediction = "benign"
+    elif points <= -1:
+        prediction = "likely_benign"
+    elif points <= 5:
+        prediction = "uncertain_significance"
+    elif points <= 9:
+        prediction = "likely_oncogenic"
+    elif points >= 10:
+        prediction = "oncogenic"
+
+    return prediction
+
+
+def get_ccv_temperature(ccv_terms: set) -> Optional[dict]:
+    """
+    Use the algorithm described in Clingen-CGC-VIGG classification paper (Horak 2022)
+
+    O >= 10
+    OP 6 <= p <= 9
+    VUS 0 <= p <= 5
+    LB -1 <= p <= -6
+    B <= -7
+
+    If no terms return None
+
+    Args:
+        ccv_terms(set(str)): A collection of prediction terms
+
+    Returns:
+        dict:
+            temperature:
+        (points, temperature, point_classification)
+
+    """
+    TEMPERATURE_STRINGS = {
+        -1: {"label": "B/LB", "color": "success", "icon": "fa-times"},
+        0: {"label": "Ice cold", "color": "info", "icon": "fa-icicles"},
+        1: {"label": "Cold", "color": "info", "icon": "fa-snowman"},
+        2: {"label": "Cold", "color": "info", "icon": "fa-snowflake"},
+        3: {"label": "Tepid", "color": "yellow", "icon": "fa-temperature-half"},
+        4: {"label": "Warm", "color": "orange", "icon": "fa-mug-hot"},
+        5: {"label": "Hot", "color": "red", "icon": "fa-pepper-hot"},
+        6: {"label": "LO/O", "color": "danger", "icon": "fa-stethoscope"},
+    }
+
+    if not ccv_terms:
+        points = 0
+        point_classification = "uncertain_significance"
+        return {
+            "points": points,
+            "temperature": TEMPERATURE_STRINGS[points].get("label"),
+            "temperature_class": TEMPERATURE_STRINGS[points].get("color"),
+            "temperature_icon": TEMPERATURE_STRINGS[points].get("icon"),
+            "point_classification": CCV_COMPLETE_MAP[point_classification].get("short"),
+        }
+
+    points = get_ccv_points(ccv_terms)
+
+    if points <= -7:
+        point_classification = "benign"
+        temperature_icon = TEMPERATURE_STRINGS[-1].get("icon")
+    elif points <= -1:
+        point_classification = "likely_benign"
+        temperature_icon = TEMPERATURE_STRINGS[-1].get("icon")
+    elif points <= 5:
+        point_classification = "uncertain_significance"
+    elif points <= 9:
+        point_classification = "likely_oncogenic"
+        temperature_icon = TEMPERATURE_STRINGS[6].get("icon")
+    elif points >= 10:
+        point_classification = "oncogenic"
+        temperature_icon = TEMPERATURE_STRINGS[6].get("icon")
+
+    temperature_class = CCV_COMPLETE_MAP[point_classification].get("color")
+    temperature = CCV_COMPLETE_MAP[point_classification].get("label")
+
+    if point_classification == "uncertain_significance":
+        temperature_class = TEMPERATURE_STRINGS[points].get("color")
+        temperature = TEMPERATURE_STRINGS[points].get("label")
+        temperature_icon = TEMPERATURE_STRINGS[points].get("icon")
+
+    return {
+        "points": points,
+        "temperature": temperature,
+        "temperature_class": temperature_class,
+        "temperature_icon": temperature_icon,
+        "point_classification": CCV_COMPLETE_MAP[point_classification].get("short"),
+    }
+
+
+def get_ccv_conflicts(ccv_terms: set) -> list:
+    """Check potential conflict paris, return list of reference strings."""
+
+    conflicts = []
+    for t1, t2, reference in CCV_POTENTIAL_CONFLICTS:
+        if t1 in ccv_terms and t2 in ccv_terms:
+            conflicts.append(reference)
+
+    return conflicts

{scout_browser-4.92.dist-info → scout_browser-4.93.1.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: scout-browser
-Version: 4.92
+Version: 4.93.1
 Summary: Clinical DNA variant visualizer and browser.
 Home-page: https://github.com/Clinical-Genomics/scout
 Author: Måns Magnusson
@@ -25,7 +25,7 @@ Requires-Dist: WTForms
 Requires-Dist: Flask-WTF
 Requires-Dist: Flask-Mail
 Requires-Dist: coloredlogs
-Requires-Dist: query-phenomizer
+Requires-Dist: query_phenomizer
 Requires-Dist: Flask-Babel>=3
 Requires-Dist: livereload>=2.7
 Requires-Dist: tornado>=6.4.1
@@ -40,17 +40,18 @@ Requires-Dist: cryptography
 Requires-Dist: defusedxml
 Requires-Dist: svglib
 Requires-Dist: cairosvg
-Requires-Dist: importlib-resources
+Requires-Dist: importlib_resources
 Requires-Dist: authlib
-Requires-Dist: flask-login
+Requires-Dist: flask_login
 Requires-Dist: flask-ldapconn
 Requires-Dist: cyvcf2
 Requires-Dist: configobj
-Requires-Dist: ped-parser
+Requires-Dist: ped_parser
 Requires-Dist: pydantic>=2
 Requires-Dist: PyYaml>=5.1
 Requires-Dist: intervaltree==3.0.2
 Requires-Dist: anytree
+Requires-Dist: python-dateutil
 Requires-Dist: tabulate
 Provides-Extra: coverage
 Requires-Dist: chanjo-report; extra == "coverage"

{scout_browser-4.92.dist-info → scout_browser-4.93.1.dist-info}/RECORD

@@ -1,13 +1,14 @@
 scout/__init__.py,sha256=Z4liXvmEcLkC67ElsWvYHfemPKdWgWI5O6MB6XlDM8M,232
-scout/__version__.py,sha256=ANcNj-w6TB4wETdZ9CZJYc1ZGU2Q1cA11Hzzi92m9BE,21
+scout/__version__.py,sha256=QvBUfmeaghMXRYxQv7CLutqQ8EWHp4OXnrEJdYtEKgU,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=mNqtFwmFcdAHNTjiIrRNzbXbPvYeUA_yCjMt9d2K2xw,63931
+scout/adapter/mongo/base.py,sha256=iIa2AjGNztKHcZzolY0T6r7Oh0guj6R1putztp4OTNY,4427
+scout/adapter/mongo/case.py,sha256=aHHCOeB1wjEX98HKBpDFWC0zZ149Orn93XkW0m7Wj7A,65148
 scout/adapter/mongo/case_events.py,sha256=slHR4XJF9vRuEbuInJKMMAImLF8m7tHWVfGP42fbXr0,26859
 scout/adapter/mongo/case_group.py,sha256=tG8DuO0rNYepV4k0yCGPqssODErc0HMsAypg3mfhcV0,1575
+scout/adapter/mongo/ccv.py,sha256=VIz-Yqzm-1UVPDKvZkBllO4BOKXzvKCXcQUjTtZCHTI,4165
 scout/adapter/mongo/clinvar.py,sha256=tczC39O3DFDkYgjt2RDgkkG-x1Mvx_99Hw7dAbIQ5gk,19838
 scout/adapter/mongo/cytoband.py,sha256=2NoIAoQ7RPqcipiSymD2O9qH8lXscP3T5ejquOrD7uQ,2622
 scout/adapter/mongo/disease_terms.py,sha256=4qcQRLuP5xn_RkB2RlNtwCrONmDuWwdlngZrj87BUEo,5637
@@ -26,12 +27,13 @@ scout/adapter/mongo/query.py,sha256=Zk5BV9GZYVlGoSRRjP88TpvB4teVpvHgHnSDV0W-kS0,
 scout/adapter/mongo/rank_model.py,sha256=wvDNI4OLf-f7ZYZ_Q_6qi0myxOJCNNJR_-2-_0u2K2M,5712
 scout/adapter/mongo/transcript.py,sha256=3U1qtyxZ1DnrzdBJm_emJXISMYFKJuX_zAKynUt8NMY,7417
 scout/adapter/mongo/user.py,sha256=QoQnRWqi_dV3ZwGzBonEU6Ap9TgMDf2x_C5UIqG0pa0,2569
-scout/adapter/mongo/variant.py,sha256=bT64hbfhveu-p6HfyXbJGyNzJ2JGAfQ7WRuQz_PcaIw,34843
-scout/adapter/mongo/variant_events.py,sha256=LjUtxJLo3wGBjMI55wPs7sNPeDLq9POw6fgz0dzeuFM,31842
+scout/adapter/mongo/variant.py,sha256=4kGyJn6kitOQ68-zp5bkT6koUP7WbZ3SLl2NXll6dOE,34928
+scout/adapter/mongo/variant_events.py,sha256=yNnMM58P1LbYFw73rWzti6l2zWa_G93ozUTbVkcz4_I,33475
 scout/adapter/mongo/variant_loader.py,sha256=C05StRMFVChopcolPYXFIbh_S-FhYHu4NvBCpiBLOeE,28327
 scout/build/__init__.py,sha256=GUWEaXTpwsJil_KtrXBQJpZIwCQFSgo8NlK49R9IkA8,521
 scout/build/acmg.py,sha256=M21MrrP_dtEyOuu6t-jBDdaqYcHPMLcwJlt9fHG2ycE,1523
 scout/build/case.py,sha256=7Hry6ja0KvVhNQ1ecXy3HuaR7dY2x9O8f8FpYt4P6jo,11404
+scout/build/ccv.py,sha256=cfAWSQ5cSBWURkL9_fPm1Y5aRcTIDOE9ieSWaYLufB4,1660
 scout/build/disease.py,sha256=Zew9AF_z1NbbKcO3uJZ2wgni501SkfnYRgnaCZ4m8FY,2020
 scout/build/hpo.py,sha256=LJBCTq-x09D0CSKcUHB8a6ynuUrVh_7Ia0ooA1BxMys,1207
 scout/build/individual.py,sha256=a2L1NJF11oGaOU9LilWN5gftSyIRfk7H231mF2Y67WU,5232
@@ -54,7 +56,7 @@ scout/commands/__init__.py,sha256=VrenBj1daCAnIsBZtvdbv1SuxmODT_TTY8YcxWItrXE,22
 scout/commands/base.py,sha256=WmUko96zsPbC3cUIezy0CAOOGKBFU-BoW-BPAhLORCE,4610
 scout/commands/convert.py,sha256=T5dkFjRKSTf7dBS9uKIW4wEmdL13vKzKTLRy4nvf6Vg,1090
 scout/commands/index_command.py,sha256=QTBU7LT2YldDBXuWCVdTH5FlQgRB6BCdiYoFrPo08NU,1149
-scout/commands/serve.py,sha256=fImJrgMBYQTD18xODjGqN6NgXjTe8seI_awd9vF04rU,1564
+scout/commands/serve.py,sha256=OZRHJrvlIXz1NQ1NHB175TxTxgpblybIPIob0PIvDXk,1554
 scout/commands/utils.py,sha256=T29f-1wTq3uoxqtv6QOqBdMBl7tLeEn8DYXnnv3gowI,306
 scout/commands/wipe_database.py,sha256=TvCoXZCT-mvTqsZaFstV5u5FM8KAQstB3JxyGHYMLtg,1005
 scout/commands/delete/__init__.py,sha256=6Z97FsWMqyKqF64Anl1zwljVNTfjJUCI7yylxIEnsUY,35
@@ -124,9 +126,10 @@ 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=HZvAMX-37ugK0fRwa8xKGvnZkicyUJH-SH2pqw7rm-g,5760
+scout/constants/__init__.py,sha256=ke7uVYgqn6dqByEQdfLQ1H061yOvaNyt8E-WP84Dgr8,5854
 scout/constants/acmg.py,sha256=hYPzoLUqpuTjGXfIN80Nb1njriesH9oAELu1scp-ByU,18083
-scout/constants/case_tags.py,sha256=EvLYtbZADyFEngeY8rvPsJ_1NdLmHrlnrGTlnj7tGGs,9336
+scout/constants/case_tags.py,sha256=O-BwEzU36MSpN7qqd-aSvoi4-VDRY8rM5hQ7Jg7DMgs,9447
+scout/constants/ccv.py,sha256=YP82qWCrjv3JB8d2LkUdBlBZolk0uF3nhNmkNgmebiI,9734
 scout/constants/clinvar.py,sha256=nr7KhwMIO_7taNQokRJlpgZfenMlKsdPIMpdOx3TwKY,5594
 scout/constants/clnsig.py,sha256=TSeZjUno2jEvQTenrltZ900ZFYIRNoul_Wm2qRjvpPA,1493
 scout/constants/disease_parsing.py,sha256=M9_OgsN88oXwKH_XpxdDma0zuWPRoHFQjL19tzojBPo,686
@@ -155,7 +158,7 @@ scout/demo/643594.clinical.str.vcf.gz,sha256=ElvicUseKkN-DiZOQrFXstxy2jo9lhVMn58
 scout/demo/643594.clinical.str.vcf.gz.tbi,sha256=pyWRI8-DlfGw08S66nYqLOthbaRaNMpAhUACm48iM5A,1695
 scout/demo/643594.clinical.vcf.gz,sha256=KpGBJPNfqOEE0uOkdldAeFRxdmPMPIlksiypXRhtOoE,409450
 scout/demo/643594.clinical.vcf.gz.tbi,sha256=Pr1XyC4gonboAlTasdT-a7w7T8bNQXjV_G5hVdC9dy8,7732
-scout/demo/643594.config.yaml,sha256=XHZPO9iIRFC2wOde1G82QdYXyynsBmb-nAn3mOZReG4,5519
+scout/demo/643594.config.yaml,sha256=9L0UkAc3Wh8QseQWl_GsGKPI-tXofLijLknxQV0c5xk,5518
 scout/demo/643594.ped,sha256=P-k5eZY78ZRtajMDQ_rr7Xv5oFhBO-vDc7whg36Jnw4,154
 scout/demo/643594.ped_check.csv,sha256=36HoP13haqQerTEHuJF4R2r6Vh2AQilS1NTr7X6aoZs,444
 scout/demo/643594.peddy.ped,sha256=msfhM3u_5hK_zjHhMas5Ns_KREllRyHN3kdTIVl5J-c,421
@@ -324,9 +327,9 @@ scout/demo/images/chromograph_demo/upd_sites_9.png,sha256=tp9Iq4eSgsVrNCbqelwRpE
 scout/demo/images/chromograph_demo/upd_sites_M.png,sha256=I7EOWQ_uvm2LA2ACf68KBTihwIjWp4-EB1CUAOqkmQ0,97
 scout/demo/images/chromograph_demo/upd_sites_X.png,sha256=8cC5CGlkHeUmxL6f-wbRDjf78SV-bcKD5x4crSgDXP8,2110
 scout/demo/images/chromograph_demo/upd_sites_Y.png,sha256=I7EOWQ_uvm2LA2ACf68KBTihwIjWp4-EB1CUAOqkmQ0,97
+scout/demo/images/custom_images/1300x1000.jpg,sha256=j76cvbyBBmNEGwxjqeBO2SEv1XViy1OZCnLTXj8EhVM,36326
 scout/demo/images/custom_images/640x480_one.png,sha256=Dkjhu5BUW8EN8LzJIKx9lhALRus5BdIgvSTthGuZ2Ck,2310
 scout/demo/images/custom_images/640x480_three.svg,sha256=r67CMchC-E5kpGoqSNnIzTqrzmzM8-eS5OzHtskGSoo,445
-scout/demo/images/custom_images/640x480_two.jpg,sha256=iKFAB2qfBA0D4L0JnYbyqUmPXRC8_YvofnuCCA0swcs,9076
 scout/demo/images/custom_images/replicons/640x480_AR.svg,sha256=r67CMchC-E5kpGoqSNnIzTqrzmzM8-eS5OzHtskGSoo,445
 scout/demo/images/custom_images/replicons/640x480_ATN1.svg,sha256=r67CMchC-E5kpGoqSNnIzTqrzmzM8-eS5OzHtskGSoo,445
 scout/demo/mitodel_test_files/earlycasualcaiman_lanes_1_sorted_md_mitodel.txt,sha256=FQkn0H-tid7-IxOLgNb5ChhT2O6sGurnuE9_LPlgGEs,63
@@ -382,6 +385,7 @@ scout/log/handlers.py,sha256=HBwcJkiBZxkiJYwacBMIuxuKaodo6nfjQeQokiVEa8s,1378
 scout/log/log.py,sha256=EPtd6Z1HMSvmuDHdElLUcLhPsz36LNQSX09Lg3m1jCY,1549
 scout/models/__init__.py,sha256=xfMJsbQbGB1ZMa5zhS0S_R0udxZ4PX8h24NtnJ2gIt0,117
 scout/models/acmg_evaluation.py,sha256=Rn8GvbcUjMS1ZjDaPxuxn2cwWuESxeHOadZn4SREyeo,676
+scout/models/ccv_evaluation.py,sha256=nJlT2THRUbDQgwDuoorOiOkIof-zDa95PyPdubovQBk,691
 scout/models/clinvar.py,sha256=fTmQYV3yRxQn1JBOwKnovYmkl19H14HKRE2zY9JA93U,3102
 scout/models/disease_term.py,sha256=KFrIkoyImhVDf4YAMYyluQZvDE9GNEa533M_4IMeIlQ,803
 scout/models/event.py,sha256=2v9K7hbSa6bgadolGnGL7OymSibNGRyTZXlnL_SrFTM,1863
@@ -399,7 +403,7 @@ scout/models/case/case_loading_models.py,sha256=GNeXZFrJ_1ISSxqO2VpKXazCLksLsPbT
 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
-scout/models/variant/variant.py,sha256=zdSOqI8GYJWlQdbucC68M_5iWS79ar29twGvBunCuOQ,4424
+scout/models/variant/variant.py,sha256=SppFVdCYrlZiMBce38YrAykYZZ-0el3DzrArJHtC1yU,4473
 scout/parse/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
 scout/parse/case.py,sha256=-sGKWYWcskMagrDpEoeCIAJacwCR2feC8SwWvT0FJVw,11577
 scout/parse/cytoband.py,sha256=7flY3b_wegupHHBLRcs4KyM1ns-uzuTfVHm4CycnupE,1055
@@ -464,14 +468,14 @@ scout/server/blueprints/cases/static/edit_pedigree.js,sha256=ntC5fie7SsOYJau8qkk
 scout/server/blueprints/cases/static/madeline.js,sha256=KHxKMBVlYVJODNu5QkY9hhsGkDJNoaCoCZZ0DRu0YN0,1175
 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_report.html,sha256=ZhxBrEXq1jmjqeJPGgCRtN-dVo10d5SWK7GAIjbO80A,65341
 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=Pxntd8zeThzwQrxjRpB-sGHcbMjBdsXCHnEF196tddU,30859
+scout/server/blueprints/cases/templates/cases/collapsible_actionbar.html,sha256=H45WZK2qVY47wgttdASjRooRKFs2wQXAnH18u80hRfg,30895
 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
+scout/server/blueprints/cases/templates/cases/index.html,sha256=y91d7yI64Fbz7wS8CSsi3vcCo6rFmS0mnstUipnVHUQ,1136
 scout/server/blueprints/cases/templates/cases/individuals_table.html,sha256=wjcrPMYXZGRWxM0GzHwbLmsOPWtmke9p2T22ngCBMyU,11460
 scout/server/blueprints/cases/templates/cases/institutes_sidebar.html,sha256=u0oPGHJ0ipZ1LkjHkbwlWfkUWc1h6XH1nh3tkbX17z0,4546
 scout/server/blueprints/cases/templates/cases/matchmaker.html,sha256=kPYnmcZJ1gmx_guW52H7baT9Sw4WE0VJmLGF6N7Z3iA,13639
@@ -506,21 +510,21 @@ scout/server/blueprints/genes/templates/genes/layout.html,sha256=cZMLe2cInq24z0s
 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=gjVNdKt7hIrNk_JOwCDRuOXiOrE9kS41VZQuTkkmkk8,6615
-scout/server/blueprints/institutes/views.py,sha256=Jero8StGG3q-UAepUqv3RtxknNXU5BgDLMvrTtz20g0,8853
+scout/server/blueprints/institutes/views.py,sha256=PSpf82kW0EKZc24CPhBhuE-wXXGyIz-R6IJu7IM0IrM,9052
 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=7-9nUomP6iaqXGtf6GemVECYMG2nD-h64RKTAmLkof0,12758
-scout/server/blueprints/institutes/templates/overview/causatives.html,sha256=VeQZCHxdSd6PlQTAkgWF0USzd9k3KJ8vLunXxWjg1lQ,1610
+scout/server/blueprints/institutes/templates/overview/causatives.html,sha256=192pgqUSXQF4qhC933qsYtTwvmlqDctxwHcArERkHc8,1619
 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
 scout/server/blueprints/institutes/templates/overview/institute_settings.html,sha256=EqOek5bso0wKqeEnUPW1z2mIpwRl8kuFyDKHJZ0FJx4,5014
 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=9SyEvWcckgQJRxrxmSSqzLwyTO121O6WjNSj-CUrWoQ,32555
-scout/server/blueprints/institutes/templates/overview/verified.html,sha256=_zdTAiJ80brlWDqBho_DveY8cJMzmednck26uni6Vmo,3354
+scout/server/blueprints/institutes/templates/overview/utils.html,sha256=Z66aFcrEXzgo0FyPc1tfFA_VYJdfG58QWLgJuXG2l1Y,33123
+scout/server/blueprints/institutes/templates/overview/verified.html,sha256=qxZ8mIPX00ZXIy_5eLO2QmLrjJZrhw97kdXBZxpRj38,3363
 scout/server/blueprints/login/__init__.py,sha256=uDzQjNNrMloZ4-i-1cEW7d59FZ--Xy89b-Xn5SvyC1U,52
 scout/server/blueprints/login/controllers.py,sha256=bg0me00OvwYJiTm4dZnbl8eyRRRDquBMs5U7_YV4xWI,1883
 scout/server/blueprints/login/models.py,sha256=w0ELh33rX1zwEnzZE-nhaoB6Z1JfgWxzWJ43JFJJo4s,688
@@ -544,11 +548,11 @@ scout/server/blueprints/omics_variants/controllers.py,sha256=AnM70stvLniJIU3pFUX
 scout/server/blueprints/omics_variants/views.py,sha256=P-mo2S1RBGYxsNCFqSTNQNLvqiH9r6_AoZgsOWpopPE,3817
 scout/server/blueprints/omics_variants/templates/omics_variants/outliers.html,sha256=gv9llZzH-AKJ4i2XJKZFJi9IBgvF84WI7QCVuvFOhTA,13703
 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/controllers.py,sha256=_LXiayDyGcyRQ3Hw13fD8zVYFQ1jIIXUMQ49WsimrZ8,12618
 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=qMdyxia0Oei83ECR6TTxOn62hh447XuGFF_TD63NP6E,16527
+scout/server/blueprints/panels/templates/panels/panel.html,sha256=MBIxXLQ71Hs5TxJEWLzhnX4Q8YMGqA5EECz-Agn3tyA,16656
 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=cpOnQzeKYnQwXosTKk9hkiBigJJLS3Q_y2oHDR3C8io,2744
 scout/server/blueprints/panels/templates/panels/panels.html,sha256=2IEZFbXzp4MKbx-9UZTW8rZt8pl3iZXPlkvppS3sj0Q,14106
@@ -600,14 +604,15 @@ 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=yCna3EoYG-KwfPy4k9Z-p0cMeMO-EAB4YwUt3MyBYN0,25509
-scout/server/blueprints/variant/utils.py,sha256=XMnsgIzOSG2z1mXlBoWZpNvFr-Ocx860AKlKXnOJ0oI,24463
+scout/server/blueprints/variant/controllers.py,sha256=dnx5YFVF62V2kAspfGpw0Mr0qUH1VoU1EBTP1hvIlZM,29691
+scout/server/blueprints/variant/utils.py,sha256=BMezzz9Y9ZoGMaLKRbQopJUkWWUo1M9Xi-pw82Vdm4k,25079
 scout/server/blueprints/variant/verification_controllers.py,sha256=eKzP222e7xuFOaQaI9MLOrD9RWtI8uGB1cJYbcXLzF0,10972
-scout/server/blueprints/variant/views.py,sha256=XAAIE35SXsGLLphUK4mQ6Kl8wpxwDEEo5kXLh6KD83w,14957
+scout/server/blueprints/variant/views.py,sha256=Y-rjeY37tDFCKFPGDPVbqw4bq0_-zANosZC6nf9Ze7Q,18958
 scout/server/blueprints/variant/templates/variant/acmg.html,sha256=Fk4vL1Pu4G3wZsfiUO2jBlFLFoRgFAeqChlIyas5Bb4,8758
 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=wBBrIMtEvkSX2lzFnkBB8gj--vETJ55cHtAC21aZG2s,21566
+scout/server/blueprints/variant/templates/variant/cancer-variant.html,sha256=ZUnZYURdlLfiJ1Ryok5oRVa96bvBErhIgym2VlWlryQ,14001
+scout/server/blueprints/variant/templates/variant/ccv.html,sha256=X33qKY1EvzoLldko1hK5tgE__xxNU54vq6fRzFew6Vc,8671
+scout/server/blueprints/variant/templates/variant/components.html,sha256=tiSaaa2Qdl14cdJv1kjpq0djL9PlvErtz_tnFxg9-Bw,24909
 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
@@ -615,19 +620,19 @@ scout/server/blueprints/variant/templates/variant/str-variant-reviewer.html,sha2
 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=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=a-_DgccaehxiAQaBeTv9PXubwjHOGVqH1fj7WQMWWqM,20332
+scout/server/blueprints/variant/templates/variant/variant.html,sha256=JA0jI1ITvKamJY88U6-uBXYrHRZa3H2oyBUROtX9TKw,17874
+scout/server/blueprints/variant/templates/variant/variant_details.html,sha256=KAdrLo8UTxO1Nr5ggfdn663E7xMq1rK0A2PrKXCJGjM,21049
 scout/server/blueprints/variants/__init__.py,sha256=W1KCz9kEbVlNO0o3NvLitYLQoP_3JSJ5KSjhpcjlUBQ,55
-scout/server/blueprints/variants/controllers.py,sha256=xUxBgVe7sns5FzsjS1Z0VOgnRMTNSpIcotFzSjW9wwU,72824
+scout/server/blueprints/variants/controllers.py,sha256=ILJt2Jl9ShkePgZI1Grff-_gcxlZFzQ8zoQ86iZPxOI,74205
 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=rLASILYRFwTIA3S0WtfN3QS7JbL_VvXKYJOoa-1yQJQ,7389
-scout/server/blueprints/variants/templates/variants/cancer-variants.html,sha256=CTZyD1nne-w8EwcO6_ugnS6eMndLAzomlCNKJ1MM6VU,9796
-scout/server/blueprints/variants/templates/variants/components.html,sha256=xXa0ndN42htflWDYsbKhMwIYdk8hBJ0znyinVfLCU2o,17815
+scout/server/blueprints/variants/templates/variants/cancer-variants.html,sha256=N2AM-uqgRTwHo5Ep0GNNzm_kqG0hTnYTdWU2Ox2Ocs4,9870
+scout/server/blueprints/variants/templates/variants/components.html,sha256=b2LKVE5vkKy8bgHbScCnGyL9xQzMuQYeBpOl5h8IR_E,16820
 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/indicators.html,sha256=5aSXytiWvaU87cqcR9GcB7U5jP8t-PVnor8FpKLl_k0,4847
 scout/server/blueprints/variants/templates/variants/mei-variants.html,sha256=2Tb0vfzM--kJa5mVbT7L32h4E8nKYRSb245g6O5JIUU,5860
 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
@@ -648,7 +653,7 @@ scout/server/extensions/panelapp_extension.py,sha256=UnHhyG7iSMy3ERQg5Sl3DOkmKjs
 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
-scout/server/static/custom_images.js,sha256=IUVSlt6GJCXmE1RuSizSMOE89OcFAJnq-ZzA5f2o84s,753
+scout/server/static/custom_images.js,sha256=7GLudzi3518kWkHuSJGbiqkiU1WV3HofXI46RiBRFBk,1427
 scout/server/static/favicon.ico,sha256=8aC2QonalUW-D62draMeiII4sZYQSp9BLGQnj-wRlt0,1469
 scout/server/static/humans.txt,sha256=UdqAR07_5LAWWfgH2Ty4RR8BhoHS1WXpx9euKtXqqhs,259
 scout/server/static/robots.txt,sha256=fFX0beQN4x3mzR3evnZjrOUYOTNkezYAwqMowTUpmxM,106
@@ -663,6 +668,7 @@ scout/update/panel.py,sha256=4z-vQ7GVIJXtlIub9pubFcQ-I9mLX5fRXKNPBdpuhJw,1649
 scout/utils/__init__.py,sha256=DHCMH05dxkyD7m9QSs0WXsQQPgVRFQ9XvyNeNpHjjvg,74
 scout/utils/acmg.py,sha256=UCyvfg3Wx4-janh4L7LPRtFI6oigwlPAzns-aydPy8U,11540
 scout/utils/algorithms.py,sha256=w--NauXbQohZis7obr39a8bS57C4NRelYXn79V7m1dU,800
+scout/utils/ccv.py,sha256=85lY7uSjHg3VAfWOfrx9jnaDUQXSa5hDQcRIqZ_Ikas,6025
 scout/utils/convert.py,sha256=asrsis3zkt9jXzseRmCqSa4_t1UT73HPPQRW-DKDdqE,1794
 scout/utils/coordinates.py,sha256=n8WUFn9zohXfjxgFGryyg6mzdl0zBG8uVCdyjhizSpM,609
 scout/utils/date.py,sha256=GUALqEIgWtbopqC9wJnVKmVm5FRq111iz4RfojUIfG0,1334
@@ -677,9 +683,9 @@ 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-4.92.dist-info/LICENSE,sha256=TM1Y9Cqbwk55JVfxD-_bpGLtZQAeN9RovQlqHK6eOTY,1485
-scout_browser-4.92.dist-info/METADATA,sha256=Z78U2w0_9MMsAmsc1pLdjEAkA2k2J06aUwZ2R6VIbJM,14260
-scout_browser-4.92.dist-info/WHEEL,sha256=tZoeGjtWxWRfdplE7E3d45VPlLNQnvbKiYnx7gwAy8A,92
-scout_browser-4.92.dist-info/entry_points.txt,sha256=q_mxFwbMFTwXRDDIRVcqKram2ubMVmvs3CSNvZri1nY,45
-scout_browser-4.92.dist-info/top_level.txt,sha256=qM75h71bztMaLYsxn1up4c_n2rjc_ZnyaW6Q0K5uOXc,6
-scout_browser-4.92.dist-info/RECORD,,
+scout_browser-4.93.1.dist-info/LICENSE,sha256=TM1Y9Cqbwk55JVfxD-_bpGLtZQAeN9RovQlqHK6eOTY,1485
+scout_browser-4.93.1.dist-info/METADATA,sha256=OKsRo0nvHP2tVP3vzUfhPN5T34XvOwXA3u4n_dVPjLM,14293
+scout_browser-4.93.1.dist-info/WHEEL,sha256=PZUExdf71Ui_so67QXpySuHtCi3-J3wvF4ORK6k_S8U,91
+scout_browser-4.93.1.dist-info/entry_points.txt,sha256=q_mxFwbMFTwXRDDIRVcqKram2ubMVmvs3CSNvZri1nY,45
+scout_browser-4.93.1.dist-info/top_level.txt,sha256=qM75h71bztMaLYsxn1up4c_n2rjc_ZnyaW6Q0K5uOXc,6
+scout_browser-4.93.1.dist-info/RECORD,,

{scout_browser-4.92.dist-info → scout_browser-4.93.1.dist-info}/WHEEL

@@ -1,5 +1,5 @@
 Wheel-Version: 1.0
-Generator: bdist_wheel (0.45.1)
+Generator: setuptools (75.6.0)
 Root-Is-Purelib: true
 Tag: py3-none-any