scout-browser 4.79.1__py3-none-any.whl → 4.81__py3-none-any.whl
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.
- scout/__version__.py +1 -1
- scout/adapter/mongo/variant.py +2 -2
- scout/constants/__init__.py +3 -0
- scout/constants/clinvar.py +3 -0
- scout/constants/indexes.py +14 -12
- scout/constants/variants_export.py +11 -0
- scout/models/case/case_loading_models.py +45 -23
- scout/models/clinvar.py +1 -0
- scout/parse/variant/variant.py +27 -23
- scout/server/blueprints/api/views.py +12 -0
- scout/server/blueprints/cases/controllers.py +72 -6
- scout/server/blueprints/cases/templates/cases/case.html +1 -22
- scout/server/blueprints/cases/templates/cases/case_bionano.html +2 -0
- scout/server/blueprints/cases/templates/cases/case_report.html +135 -129
- scout/server/blueprints/cases/templates/cases/case_sma.html +2 -0
- scout/server/blueprints/cases/templates/cases/collapsible_actionbar.html +12 -2
- scout/server/blueprints/cases/templates/cases/gene_panel.html +45 -22
- scout/server/blueprints/cases/templates/cases/utils.html +52 -14
- scout/server/blueprints/cases/views.py +22 -0
- scout/server/blueprints/clinvar/controllers.py +2 -0
- scout/server/blueprints/clinvar/form.py +5 -0
- scout/server/blueprints/clinvar/templates/clinvar/multistep_add_variant.html +30 -5
- scout/server/blueprints/diagnoses/templates/diagnoses/diagnoses.html +1 -1
- scout/server/blueprints/institutes/static/select2_darktheme.css +62 -0
- scout/server/blueprints/institutes/templates/overview/institute_settings.html +1 -1
- scout/server/blueprints/panels/templates/panels/panel.html +15 -1
- scout/server/blueprints/panels/templates/panels/panel_pdf_case_hits.html +2 -2
- scout/server/blueprints/panels/templates/panels/panel_pdf_simple.html +3 -3
- scout/server/blueprints/panels/views.py +5 -1
- scout/server/blueprints/variant/controllers.py +5 -2
- scout/server/blueprints/variant/templates/variant/variant_details.html +32 -20
- scout/server/blueprints/variants/controllers.py +179 -93
- scout/server/blueprints/variants/templates/variants/components.html +5 -4
- scout/server/blueprints/variants/templates/variants/fusion-variants.html +1 -1
- scout/server/blueprints/variants/views.py +30 -15
- scout/server/config.py +3 -0
- scout/server/templates/report_base.html +3 -3
- scout/server/templates/utils.html +68 -38
- scout/server/utils.py +25 -3
- {scout_browser-4.79.1.dist-info → scout_browser-4.81.dist-info}/METADATA +1 -1
- {scout_browser-4.79.1.dist-info → scout_browser-4.81.dist-info}/RECORD +45 -45
- scout/server/blueprints/cases/templates/cases/clinvar.html +0 -48
- {scout_browser-4.79.1.dist-info → scout_browser-4.81.dist-info}/LICENSE +0 -0
- {scout_browser-4.79.1.dist-info → scout_browser-4.81.dist-info}/WHEEL +0 -0
- {scout_browser-4.79.1.dist-info → scout_browser-4.81.dist-info}/entry_points.txt +0 -0
- {scout_browser-4.79.1.dist-info → scout_browser-4.81.dist-info}/top_level.txt +0 -0
@@ -63,12 +63,72 @@
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{% endmacro %}
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{% macro comments_panel(institute, case, current_user, comments, variant_id=None) %}
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<div class="card">
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<div class="card">
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{% set comments = comments|list %}
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<h6 class="comments-title ms-3 mt-2"><i class="far fa-comments"></i> Comments ({{ comments|length }})</h6>
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{% if comments|length >0 %}
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<div class=" card-body">
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{% set visible_comments= comments[:3]|list %}
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{% set expandable_comments= comments [3:]|list %}
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<div class="accordion-item">
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<div id="visible-comments-content" class="accordion-collapse collapse show" aria-labelledby="expandable-comments-heading">
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<div class="accordion-body p-0" >
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{% for comment in visible_comments %}
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{% set item_index = loop.index %}
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{{ single_comment(institute, case, current_user, comment, item_index) }}
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{% endfor %}
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{% if expandable_comments|length >0 %}
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<div class="accordion-item border-0">
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<div id="expandable-comments-content" class="accordion-collapse collapse" aria-labelledby="expandable-comments-heading">
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<div class="" >
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{% for comment in expandable_comments %}
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{% set item_index = loop.index %}
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{{ single_comment(institute, case, current_user, comment, item_index+3) }}
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{% endfor %}
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</div>
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</div>
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<button id="expandable-comments-control" class="accordion-button collapsed" style="background-color:var(--bs-body-bg);color:var(--bs-body-color)" type="button" data-bs-toggle="collapse" data-bs-target="#expandable-comments-content" aria-expanded="false" aria-controls="expandable-comments-content"
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onclick="{let thisElement=event.currentTarget; let children= thisElement.querySelectorAll('span'); Array.from(children).forEach(child=> child.classList.toggle('d-none'));}">
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<span>See more comments...</span>
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<span class="d-none">Minimise comments</span>
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</button>
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</div>
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{% endif %}
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</div>
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</div>
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</div>
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</div> <!-- end of <div class="list-group" -->
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{% endif %}
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<div class="card-footer" style="border-radius:inherit;">
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<form action="{{ url_for('cases.events', institute_id=institute._id, case_name=case.display_name, variant_id=variant_id, _anchor='comments') }}" method="POST">
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<input type="hidden" name="link" value="{{ url_for('variant.variant', institute_id=institute._id, case_name=case.display_name, variant_id=variant_id) if variant_id else url_for('cases.case', institute_id=institute._id, case_name=case.display_name) }}">
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<div class="row">
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<div class="col">
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<textarea class="form-control" name="content" placeholder="Leave a comment"></textarea>
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</div>
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</div>
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<div class="row mt-3">
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{% if variant_id %}
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<div class="col-sm-6">
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<div class="form-check">
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<input class="form-check-input" type="checkbox" name="level" id="check-level" value="global">
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<label class="form-check-label" for="check-level">
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Comment globally
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</label>
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</div>
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</div>
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{% endif %}
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<div class="col-sm-{{ 6 if variant_id else 12 }}">
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<button class="btn btn-secondary form-control" type="submit">Comment</button>
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</div>
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</div>
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</form>
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</div>
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</div>
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{% endmacro %}
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{% macro single_comment(institute, case, current_user, comment, index) %}
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<div class="row mx-0 p-3 mb-0 {% if index % 2 %}even{% else %}odd{% endif %}">
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<div class="col-7 text-break">{{ comment.content }}</div>
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<div class="col-5 text-end">
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<form method="POST" action="{{ url_for('cases.events', institute_id=institute._id, case_name=case.display_name, event_id=comment._id,_anchor='comments') }}">
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{% endif %}
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{% if comment.user_id == current_user.email %}
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<button class="btn btn-link btn-sm" type="submit" name="remove"><i class="fa fa-remove"></i></button>
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<button class="btn btn-link btn-sm" type="button" data-bs-toggle="modal" data-bs-target="#editComment_{{
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<button class="btn btn-link btn-sm" type="button" data-bs-toggle="modal" data-bs-target="#editComment_{{index}}"><i class="fa fa-edit"></i></button>
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{% endif %}
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</small>
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</form>
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</div>
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</div>
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{{ edit_comment(institute, case, current_user, comment,
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{% endfor %}
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</div> <!-- end of <div class="list-group" -->
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<div class="card-footer">
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<form action="{{ url_for('cases.events', institute_id=institute._id, case_name=case.display_name, variant_id=variant_id, _anchor='comments') }}" method="POST">
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<input type="hidden" name="link" value="{{ url_for('variant.variant', institute_id=institute._id, case_name=case.display_name, variant_id=variant_id) if variant_id else url_for('cases.case', institute_id=institute._id, case_name=case.display_name) }}">
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<div class="row">
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<div class="col">
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<textarea class="form-control" name="content" placeholder="Leave a comment"></textarea>
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</div>
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</div>
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<div class="row mt-3">
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{% if variant_id %}
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<div class="col-sm-6">
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<div class="form-check">
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<input class="form-check-input" type="checkbox" name="level" id="check-level" value="global">
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<label class="form-check-label" for="check-level">
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Comment globally
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</label>
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</div>
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</div>
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{% endif %}
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<div class="col-sm-{{ 6 if variant_id else 12 }}">
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<button class="btn btn-secondary form-control" type="submit">Comment</button>
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</div>
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</div>
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</form>
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</div>
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</div>
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{{ edit_comment(institute, case, current_user, comment, index) }}
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{% endmacro %}
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{% macro edit_comment(institute, case, current_user, comment, index) %}
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scout/server/utils.py
CHANGED
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"""Common utilities for the server code"""
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import datetime
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import logging
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import os
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import pdfkit
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from bson.objectid import ObjectId
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from flask import abort, flash, render_template, request
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from flask import abort, current_app, flash, render_template, request
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from flask_login import current_user
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LOG = logging.getLogger(__name__)
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return institutes
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def
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def case_has_chanjo_coverage(case_obj: dict):
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"""Set case_obj["chanjo_coverage"] to True if there is an instance of chanjo available and case has coverage stats in chanjo."""
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chanjo_instance: bool = bool(current_app.config.get("SQLALCHEMY_DATABASE_URI"))
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if case_obj.get("track", "rare") != "cancer" and chanjo_instance:
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case_obj["chanjo_coverage"] = True
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def case_has_chanjo2_coverage(case_obj: dict):
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"""Set case_obj["chanjo_coverage"] to True if if there is an instance of chanjo available and case has coverage stats in chanjo2."""
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chanjo2_instance: bool = bool(current_app.config.get("CHANJO2_URL"))
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if chanjo2_instance is False:
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return
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for ind in case_obj.get("individuals", []):
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ind_d4: str = ind.get("d4_file")
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if ind_d4 and os.path.exists(ind_d4):
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case_obj["chanjo2_coverage"] = True
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return
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def case_has_alignments(case_obj: dict):
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"""Add info on bam/cram files availability to a case dictionary
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return
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def case_has_mt_alignments(case_obj:
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def case_has_mt_alignments(case_obj: dict):
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"""Add info on MT bam files availability to a case dictionary
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scout/__init__.py,sha256=Z4liXvmEcLkC67ElsWvYHfemPKdWgWI5O6MB6XlDM8M,232
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scout/__version__.py,sha256=
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scout/__version__.py,sha256=VeFs5riF3Z37kcJaV1kAfC-gVFhM1kN-tnvgq4X9qaY,21
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scout/adapter/__init__.py,sha256=-iX_hx2NI1EMAqX0pMd5_90Nnd9uvIMxv9EbefYBzsc,86
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scout/adapter/client.py,sha256=0VR5LRPEqZg_bAxQte1RGMxV8BSiQordbPs57PaZTlI,1512
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scout/adapter/mongo/__init__.py,sha256=NdHYCUXWUAuX5cUS3-6HCws2hW9uoGep8i0SC-oJd3k,31
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scout/adapter/mongo/rank_model.py,sha256=wvDNI4OLf-f7ZYZ_Q_6qi0myxOJCNNJR_-2-_0u2K2M,5712
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scout/adapter/mongo/transcript.py,sha256=3U1qtyxZ1DnrzdBJm_emJXISMYFKJuX_zAKynUt8NMY,7417
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scout/adapter/mongo/user.py,sha256=QoQnRWqi_dV3ZwGzBonEU6Ap9TgMDf2x_C5UIqG0pa0,2569
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scout/adapter/mongo/variant.py,sha256=
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scout/adapter/mongo/variant.py,sha256=f3yU3Wu5ZTarDsUs314kjcM-UAFdkPfSjPjyKsrMYg8,34143
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scout/adapter/mongo/variant_events.py,sha256=LjUtxJLo3wGBjMI55wPs7sNPeDLq9POw6fgz0dzeuFM,31842
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scout/adapter/mongo/variant_loader.py,sha256=hMkRq5Bnk9DLEExV_IXOSY7FUzlArkZ0PBiytRqJG4E,27587
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scout/build/__init__.py,sha256=GUWEaXTpwsJil_KtrXBQJpZIwCQFSgo8NlK49R9IkA8,521
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scout/commands/view/panels.py,sha256=a0fQcP9-SDPuRYV7aEgIGUCYaMN6V47h6finpcdoomU,1098
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scout/commands/view/transcripts.py,sha256=59WyNNp7zHPJIz9QgzrkoeKaSXTtuLli0VuL8IidEmY,1277
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scout/commands/view/users.py,sha256=MKlmhDYRM7Yf-Trmi1ijEuqsDIUn326bdFADyDs7XYg,832
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scout/constants/__init__.py,sha256=
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scout/constants/__init__.py,sha256=u-faDDRxNzCeAKryKLdFSuIDSjrg6_BUj-5BYzXzXWs,6827
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scout/constants/acmg.py,sha256=fjq_UFLkJPh7ZfuW-l4KH_lWKAGhNiKhlaPu1G_WXo4,13091
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scout/constants/case_tags.py,sha256=Pr9Go_I8udRnrdcRcZdu4swS0Jpdwf8hUdDVGR6d9yY,10937
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scout/constants/clinvar.py,sha256=
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scout/constants/clinvar.py,sha256=2YdsHDy3mprWjcJEMyejLzkRLtm891xO9ckFQQk10cw,5587
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scout/constants/clnsig.py,sha256=2u_avIzWO_IPJGcTOoSB7_xqgu5JBl_zZZfT8UVpY90,1359
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scout/constants/disease_parsing.py,sha256=m10iPVzdTsdx7v9ZWvdLjlBrQKR_uyMeJwPbokO9SHY,688
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scout/constants/file_types.py,sha256=OQ3g1uo4jvhiLlPV1MBoqctWGc4YrS2wnGS6PoflIAA,1016
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scout/constants/filters.py,sha256=8nRRb7_17G4P8zMgJ7qrK4NAAuGbPLl-pU5GPP3L4eE,889
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scout/constants/gene_tags.py,sha256=tdzDh6ukJRtHiC8X5YkldijZCS0KrEeXj95sLNlqxuc,3852
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scout/constants/igv_tracks.py,sha256=3-3VzFpCTfuhbEBAitbpY2lQRYXYf-poya3DXs0g9yE,4500
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scout/constants/indexes.py,sha256=
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scout/constants/indexes.py,sha256=6hX64eouUQx6kdPd1rTGEQAM9htDaEPwjy35USVbkJ4,4842
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scout/constants/phenotype.py,sha256=MrbXirisR_7GPnxV3NOj3-BoM9CvtGgFZj7PfJu85RM,2331
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scout/constants/query_terms.py,sha256=NSymLgwhcxuOddl-Mvh22MahJD6rT2zjopr-x4RVOd0,1479
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scout/constants/so_terms.py,sha256=aJcQv3wgpZylVhqSJH854WS8xSARDxWGnW6I5mG1egE,4321
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scout/constants/variant_tags.py,sha256=HZo_9adwSaoQTTmro6PdXNdiPYF4dNAhK19674wGC8k,16131
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scout/constants/variants_export.py,sha256=
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scout/constants/variants_export.py,sha256=ee3dyM6CifvPUU4zsVwYzG9Dptn3qBBhP72olHHJ6i4,1942
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scout/demo/643594.clinical.SV.vcf.gz,sha256=Y5CcTI7vJAS53ch8OHPR80X44rArHZoQeQZGl8AHmq0,11927
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scout/demo/643594.clinical.SV.vcf.gz.tbi,sha256=1CPB8ftoYF3gjRfqG0xMQlVMD1lY0xSdXp_KrJbfzac,1284
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scout/demo/643594.clinical.mei.vcf.gz,sha256=SOkbn0eg9kGbh3hear1XRaAwPQOyekMmNASx2pRtgGU,452538
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scout/server/blueprints/public/static/ideograms/chromosome-Y.png,sha256=KlOsBLZYFVHRvXvTioT-XE57zSWoYeIwIEXo_rzLBR0,1524
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587
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scout/server/blueprints/public/templates/public/index.html,sha256=kl_-1s4HXRGw_PWacRFHG3cHALBBMN54GJVBnAAZ7LE,3626
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588
588
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scout/server/blueprints/variant/__init__.py,sha256=SlD8-Aoj9Jq9aVTJjtFfsu-0sUVfkzpiEXcH8z9q6dI,54
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589
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-
scout/server/blueprints/variant/controllers.py,sha256
|
589
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+
scout/server/blueprints/variant/controllers.py,sha256=pX2CD58w6YHeeJ5YowALUwuLx3AlhfXiBMHIkn6diNE,25457
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590
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scout/server/blueprints/variant/utils.py,sha256=qYArApI8U8q7pdVydFNdsu7MpiCxeWmkEIBWY9PTFGw,24051
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591
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scout/server/blueprints/variant/verification_controllers.py,sha256=eKzP222e7xuFOaQaI9MLOrD9RWtI8uGB1cJYbcXLzF0,10972
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592
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scout/server/blueprints/variant/views.py,sha256=YQ6BXshrJDbPkPXPIwt_JtEqrbgfpzZPXqR4dsSRBt4,14610
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@@ -602,17 +602,17 @@ scout/server/blueprints/variant/templates/variant/sv-variant.html,sha256=Rn6lAte
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602
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scout/server/blueprints/variant/templates/variant/tx_overview.html,sha256=turyCoOCCd_N80FakxXfIl7q_WViysz1fwx3j312_Lg,6737
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603
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scout/server/blueprints/variant/templates/variant/utils.html,sha256=Ieb7bhonAzg3PvmWMZt8rqJrxZXbUrzRVVklt8GqXw4,21416
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604
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scout/server/blueprints/variant/templates/variant/variant.html,sha256=hr_K5Z1daHtUPRGhCLSGO1Ltp4ZPNR8DJ5Wd4TA_y6s,18688
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605
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-
scout/server/blueprints/variant/templates/variant/variant_details.html,sha256=
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605
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+
scout/server/blueprints/variant/templates/variant/variant_details.html,sha256=v2XxN1IAVoZikix7s1LVSisLBEa-973HBHHKgoXsdWI,17576
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606
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scout/server/blueprints/variants/__init__.py,sha256=W1KCz9kEbVlNO0o3NvLitYLQoP_3JSJ5KSjhpcjlUBQ,55
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607
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-
scout/server/blueprints/variants/controllers.py,sha256=
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607
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+
scout/server/blueprints/variants/controllers.py,sha256=9uBLSoBlFHPX9RjaUQy9pPouzd5m94tqm3IOO2ilGOA,72349
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608
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scout/server/blueprints/variants/forms.py,sha256=6EnYykhPXWqKRO1qISgs7HIJjfxJjrgxtKn1e2e8Voc,8359
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609
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scout/server/blueprints/variants/utils.py,sha256=WfNO1ZmZLajO3dx_fQpUr-TsO7ciHa-1Bsf2vXT6ce4,751
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610
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-
scout/server/blueprints/variants/views.py,sha256=
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610
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+
scout/server/blueprints/variants/views.py,sha256=h2z5x7_eA0niXlhOAkYI4eduz3je5XGw_EUnbMenuNA,28136
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611
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scout/server/blueprints/variants/static/form_scripts.js,sha256=o3GCboaesA9Sm1HgejS_yQwt0I-NTkvcl56jiBdLqZs,8319
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612
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scout/server/blueprints/variants/templates/variants/cancer-sv-variants.html,sha256=Y7XQZjjrU_cJGU8EEGEF3QzTVvDfEVudFdygYExVxwI,7429
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613
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scout/server/blueprints/variants/templates/variants/cancer-variants.html,sha256=bX9FLoufo72PBDoWp95DVLltxUrbLeuFmZQObP1oAlw,10132
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614
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-
scout/server/blueprints/variants/templates/variants/components.html,sha256=
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615
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-
scout/server/blueprints/variants/templates/variants/fusion-variants.html,sha256=
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614
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+
scout/server/blueprints/variants/templates/variants/components.html,sha256=gr-C36Ah85z8FGEPNewyGvRq8rC6FmdtmMJ8gtLGHFA,13880
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615
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+
scout/server/blueprints/variants/templates/variants/fusion-variants.html,sha256=UOOlYSx7A1HR1d_13WMPvYgq6cabXYoF4wDQQb9BMBU,7171
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616
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scout/server/blueprints/variants/templates/variants/indicators.html,sha256=BX6Wg8OpsALCGGozR1eXT57D0Ixrf-OFXVg6G20Wjr0,4400
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617
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scout/server/blueprints/variants/templates/variants/mei-variants.html,sha256=0-wYjaiUByDduWMgmRS4AMg3IppPNtjZL1vvAdFuIPI,5994
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618
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scout/server/blueprints/variants/templates/variants/str-variants.html,sha256=wW50J0XzfCGv6mGulA_aq2XAab8vBURESiBe_OLVP1M,9912
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@@ -637,8 +637,8 @@ scout/server/static/humans.txt,sha256=UdqAR07_5LAWWfgH2Ty4RR8BhoHS1WXpx9euKtXqqh
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637
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scout/server/static/robots.txt,sha256=fFX0beQN4x3mzR3evnZjrOUYOTNkezYAwqMowTUpmxM,106
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638
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scout/server/templates/bootstrap_global.html,sha256=6e09Qyn3pc5zbE82Gacyye9qL5cMbrfOebMSjU9rqqA,2894
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scout/server/templates/layout.html,sha256=-uhRxFA89L0gocv8sPLcODUHmWLNuV6xsjB34Zjq-8o,4635
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640
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-
scout/server/templates/report_base.html,sha256=
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641
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-
scout/server/templates/utils.html,sha256=
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640
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+
scout/server/templates/report_base.html,sha256=PZOqFZRLtbe4PZ7lkVc9LP1O-yh7v3_EzOohRE9Ix4U,1252
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641
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+
scout/server/templates/utils.html,sha256=9o3zXyAaIcZFmmg1ltYyNk7ow7CYlnf4NbHfeLnp5fg,12941
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642
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scout/server/translations/sv/LC_MESSAGES/messages.mo,sha256=eI53pCtlYj1MXduDicMZRxBhgOV_TlmMUpH7IhncgDY,4452
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scout/server/translations/sv/LC_MESSAGES/messages.po,sha256=Wp7Mx4LoiFNtzsV1tpAoWjMxYnq8SpfpU9a4XWJ7L6g,4531
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644
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scout/update/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
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@@ -659,9 +659,9 @@ scout/utils/hgvs.py,sha256=P5i3fIK8WZZlUnjZ8XpMDUG5KDXRCDSOs55DfK5acsc,898
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scout/utils/link.py,sha256=RuCUwnOtGDf9ACaC64_1FqWyWDaBv7dqNEGjmCq59kk,9001
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scout/utils/md5.py,sha256=KkgdxOf7xbF9AF40ZjQKCgWaxFWJ9tp9RKjd8SU6IoA,649
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661
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scout/utils/scout_requests.py,sha256=owL_XvsrQJG4e0EUuUiY6y_hqKKep2Qljg1nMukzp8Y,12855
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662
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-
scout_browser-4.
|
663
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scout_browser-4.
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664
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scout_browser-4.
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scout_browser-4.
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scout_browser-4.
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667
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scout_browser-4.
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662
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+
scout_browser-4.81.dist-info/LICENSE,sha256=TM1Y9Cqbwk55JVfxD-_bpGLtZQAeN9RovQlqHK6eOTY,1485
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663
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+
scout_browser-4.81.dist-info/METADATA,sha256=FHj21oEF5pMZ602x8sN_dsOZaY1-4j9d1w7Zex1oklY,14196
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664
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+
scout_browser-4.81.dist-info/WHEEL,sha256=oiQVh_5PnQM0E3gPdiz09WCNmwiHDMaGer_elqB3coM,92
|
665
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+
scout_browser-4.81.dist-info/entry_points.txt,sha256=E6vGg1OwvvKYIsXdHxmlIj7RmcTF0K77Q_PU8laImGg,46
|
666
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+
scout_browser-4.81.dist-info/top_level.txt,sha256=qM75h71bztMaLYsxn1up4c_n2rjc_ZnyaW6Q0K5uOXc,6
|
667
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+
scout_browser-4.81.dist-info/RECORD,,
|
@@ -1,48 +0,0 @@
|
|
1
|
-
{% from "cases/utils.html" import pretty_variant %}
|
2
|
-
{% from "clinvar/clinvar_howto.html" import clinvar_howto_modal %}
|
3
|
-
|
4
|
-
{% macro clinvar_vars(institute, case, suspects) %}
|
5
|
-
{{ clinvar_howto_modal() }}
|
6
|
-
|
7
|
-
<div class="card panel-default">
|
8
|
-
<div>
|
9
|
-
<div class="d-flex justify-content-between">
|
10
|
-
<h6><span class="fa fa-map-pin ms-3 mt-2"></span> Variants submitted to ClinVar ({{ case.clinvar_variants.items()|length }}) <a data-bs-target="#howto" href="#" data-bs-toggle="modal">?</a>
|
11
|
-
</h6>
|
12
|
-
</div>
|
13
|
-
</div>
|
14
|
-
<div class="card">
|
15
|
-
{% if suspects %}
|
16
|
-
<div style="max-height:300px; overflow-y: scroll;">
|
17
|
-
<ul class="list-group">
|
18
|
-
{% for variant in suspects %}
|
19
|
-
{% if variant._id and variant.category != 'str' %}
|
20
|
-
<li class="list-group-item">
|
21
|
-
<div>
|
22
|
-
<form id="clinvar_submit" action="{{ url_for('clinvar.clinvar_add_variant', institute_id=institute._id, case_name=case.display_name) }}" method="POST">
|
23
|
-
{{pretty_variant(variant)}}
|
24
|
-
{% if case.clinvar_variants and variant._id in case.clinvar_variants.keys() %}
|
25
|
-
(included in submission)
|
26
|
-
{% else %}
|
27
|
-
<button type="submit" name="var_id" value="{{variant._id}}" class="btn btn-secondary btn-sm" style="float: right;">Add to submission</button>
|
28
|
-
{% endif %}
|
29
|
-
</form>
|
30
|
-
</div>
|
31
|
-
</li>
|
32
|
-
{% endif %}
|
33
|
-
{% endfor %}
|
34
|
-
</ul>
|
35
|
-
</div> <!-- End of scrollable style div -->
|
36
|
-
{% endif %}
|
37
|
-
{% if case.clinvar_variants %}
|
38
|
-
<div class="d-flex justify-content-center">
|
39
|
-
<div>
|
40
|
-
<a href="{{url_for('clinvar.clinvar_submissions', institute_id=institute._id)}}" class="mb-3 mt-3 btn btn-secondary btn-sm text-white" target="_blank" rel="noopener noreferrer">ClinVar submissions</a>
|
41
|
-
</div>
|
42
|
-
</div>
|
43
|
-
{% endif %}
|
44
|
-
</div>
|
45
|
-
</div>
|
46
|
-
{% endmacro %}
|
47
|
-
|
48
|
-
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|