scout-browser 4.103.1__tar.gz → 4.103.3__tar.gz

{scout_browser-4.103.1 → scout_browser-4.103.3}/CHANGELOG.md

@@ -4,6 +4,22 @@ This project adheres to [Semantic Versioning](http://semver.org/).
 
 About changelog [here](https://keepachangelog.com/en/1.0.0/)
 
+## [4.103.3]
+### Changed
+- Sort institute multiselect alphabetically by display name on 'Search SNVs & SVs' page (#5584)
+- Always display STRs sorted by ascending gene symbol (#5580)
+### Fixed
+- App filter `format_variant_canonical_transcripts` (used on `Search SNVs and SVs` page) crashing when a gene has no canonical transcript (#5582)
+- STRs not displaying a repeat locus (#5587)
+
+## [4.103.2]
+### Changed
+- Display number of available/displayed variants on variantS pages without having to expand search filters (#5571) with collapsing chevron (#5572)
+- Update to IGV.js v3.4.1 (#5573)
+- Allow autoscaling on IGV tracks, but group alignment scale (#5574)
+### Fixed
+- Fixed panel filename sanitization in download panel function (#5577)
+
 ## [4.103.1]
 ### Fixed
 - Rounding of SV VQ with undefined value (#5568)

{scout_browser-4.103.1 → scout_browser-4.103.3}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: scout-browser
-Version: 4.103.1
+Version: 4.103.3
 Summary: Clinical DNA variant visualizer and browser
 Project-URL: Repository, https://github.com/Clinical-Genomics/scout
 Project-URL: Changelog, https://github.com/Clinical-Genomics/scout/blob/main/CHANGELOG.md

{scout_browser-4.103.1 → scout_browser-4.103.3}/pyproject.toml

@@ -1,6 +1,6 @@
 [project]
 name = "scout-browser"
-version = "4.103.1"
+version = "4.103.3"
 description = "Clinical DNA variant visualizer and browser"
 authors = [{name="Chiara Rasi", email="chiara.rasi@scilifelab.se"}, {name="Daniel Nilsson", email="daniel.nilsson@ki.se"}, {name="Robin Andeer", email="robin.andeer@gmail.com"}, {name="Mans Magnuson", email="monsunas@gmail.com"}]
 license = {text = "MIT License"}

{scout_browser-4.103.1 → scout_browser-4.103.3}/scout/server/app.py

@@ -311,20 +311,31 @@ def register_filters(app):
 
     @app.template_filter()
     def format_variant_canonical_transcripts(variant: dict) -> List[str]:
-        """Formats canonical transcripts for all genes in a variant."""
-
         lines = set()
         genes = variant.get("genes") or []
 
         for gene in genes:
+            gene_symbol = gene.get("hgnc_symbol", "")
+            hgvs = gene.get("hgvs_identifier")
             transcripts = gene.get("transcripts") or []
+
+            canonical_tx = None
+            primary_tx = None
+            tx_id = None
+
+            protein = None
+
             for tx in transcripts:
+                tx_id = tx.get("transcript_id")
                 if not tx.get("is_canonical"):
+                    if tx.get("is_primary"):
+                        primary_tx = tx_id
                     continue
-                canonical_tx = tx.get("transcript_id")
+                canonical_tx = tx_id
                 protein = tx.get("protein_sequence_name")
-            line_components = [f"{canonical_tx} ({gene.get('hgnc_symbol', '')})"]
-            hgvs = gene.get("hgvs_identifier")
+                break
+
+            line_components = [f"{canonical_tx or primary_tx or tx_id} ({gene_symbol})"]
             if hgvs:
                 line_components.append(hgvs)
             if protein:

{scout_browser-4.103.1 → scout_browser-4.103.3}/scout/server/blueprints/alignviewers/controllers.py

@@ -278,13 +278,14 @@ def get_tracks(name_list: list, file_list: list) -> List[Dict]:
     for name, track in zip(name_list, file_list):
         if track == "missing":
             continue
-        track_config = {"name": name, "url": track, "min": 0.0, "max": 30.0}
+        track_config = {"name": name, "url": track, "min": 0.0}
         index = find_index(track)
         if index:
             track_config["indexURL"] = index
         file_format_ending = track.split(".")[-1]
         if file_format_ending in ["bam", "cram"]:
             track_config["format"] = file_format_ending
+            track_config["autoscaleGroup"] = "alignments"
         track_list.append(track_config)
     return track_list
 

{scout_browser-4.103.1 → scout_browser-4.103.3}/scout/server/blueprints/alignviewers/templates/alignviewers/igv_viewer.html

@@ -97,7 +97,7 @@
                         {# indexURL: '{{ url_for("alignviewers.remote_static", file=wtrack.url)  }}', #}
                         color: "rgb(60, 37, 17)",
                         min: '{{ wtrack.min }}',
-                        max: '{{ wtrack.max }}',
+                        autoscaleGroup: '{{ wtrack.autoscaleGroup }}',
                         sourceType: 'file'
                       },
                       {% endfor %}
@@ -155,7 +155,7 @@
                         groupBy: "tag:HP",
                         indexURL: '{{ url_for("alignviewers.remote_static", file=ptrack.indexURL)  }}',
                         min: '{{ ptrack.min }}',
-                        max: '{{ ptrack.max }}',
+                        autoscaleGroup: '{{ ptrack.autoscaleGroup }}',
                         sourceType: 'file'
                       },
                       {% endfor %}
@@ -170,7 +170,7 @@
                         showCoverage: false,
                         indexURL: '{{ url_for("alignviewers.remote_static", file=atrack.indexURL)  }}',
                         min: '{{ atrack.min }}',
-                        max: '{{ atrack.max }}',
+                        autoscaleGroup: '{{ atrack.autoscaleGroup }}',
                         sourceType: 'file'
                       },
                       {% endfor %}

scout_browser-4.103.3/scout/server/blueprints/alignviewers/templates/alignviewers/utils.html

@@ -0,0 +1,5 @@
+{% macro igv_script() %}
+  <link rel="shortcut icon" href="//igv.org/web/img/favicon.ico">
+  <!-- IGV JS-->
+  <script src="https://cdn.jsdelivr.net/npm/igv@3.4.1/dist/igv.min.js" integrity="sha512-XV1P5+zb49ZOAEHa98+DjASX4NxQdQxEb63eGylVtIr278vrOqmSGHpcswDRQQuCRZ9YtLnxM7xs8kyRqqN+pA==" crossorigin="anonymous"></script>
+{% endmacro %}

{scout_browser-4.103.1 → scout_browser-4.103.3}/scout/server/blueprints/institutes/views.py

@@ -145,7 +145,9 @@ def gene_variants(institute_id):
 
     institute_choices = [
         (inst["_id"], f"{inst['display_name']} ({inst['_id']})")
-        for inst in user_institutes(store, current_user)
+        for inst in sorted(
+            user_institutes(store, current_user), key=lambda i: i["display_name"].lower()
+        )
     ]
     form = GeneVariantFiltersForm()
     form.institute.choices = institute_choices

{scout_browser-4.103.1 → scout_browser-4.103.3}/scout/server/blueprints/omics_variants/templates/omics_variants/outliers.html

@@ -4,7 +4,7 @@
 
 {% from "variants/components.html" import external_scripts, external_stylesheets, gene_cell %}
 {% from "variant/buttons.html" import splice_junctions_button %}
-{% from "variants/utils.html" import filter_script_main, pagination_footer, pagination_hidden_div, stash_filter_buttons, update_stash_filter_button_status%}
+{% from "variants/utils.html" import filter_script_main, filters_form_header, pagination_footer, pagination_hidden_div, stash_filter_buttons, update_stash_filter_button_status%}
 {% from "variant/components.html" import variant_scripts %}
 
 {% block title %}
@@ -43,9 +43,7 @@
 
       {{ pagination_hidden_div(page) }}
       <div class="card panel-default" id="accordion">
-        <div class="card-header">
-          <strong><a data-bs-toggle="collapse" data-parent="#accordion" href="#collapseFilters">Filters</a></strong>
-        </div>
+        {{ filters_form_header(result_size, total_variants) }}
         <!--Expand filters form if filters were used in a previous POST request-->
         <div class="card-body panel-collapse collapse {{ 'show' if expand_search is sameas true }}" id="collapseFilters">
             {{ outlier_filters(form, institute, case) }}
@@ -271,10 +269,7 @@
       </div>
     </div>
     <div class="col-4 d-flex justify-content-center">
-      Filter returns {{result_size}} / {{ total_variants }} variants.
-    </div>
-    <div class="col-4 d-flex justify-content-end">
-      <div class="d-flex justify-content-end">Showing {%if more_variants %}page {{page}}{%else%}last page{% endif %} with {{nvars}} variants.</div>
+      Showing {%if more_variants %}page {{page}}{%else%}last page{% endif %}
     </div>
   </div>
 </div>

{scout_browser-4.103.1 → scout_browser-4.103.3}/scout/server/blueprints/panels/controllers.py

@@ -301,7 +301,7 @@ def downloaded_panel_name(panel_obj, format) -> str:
     Returns:
         a string describing the panel
     """
-    sanitized_panel_id = re.sub(r"[^a-zA-Z_\-]+", "", panel_obj["panel_name"])
+    sanitized_panel_id = re.sub(r"[^a-zA-Z0-9_\-]+", "_", panel_obj["panel_name"]).strip("_")
 
     return "_".join(
         [

{scout_browser-4.103.1 → scout_browser-4.103.3}/scout/server/blueprints/variants/controllers.py

@@ -1023,7 +1023,7 @@ def download_str_variants(case_obj, variant_objs):
         variant_line.append(str(variant.get("variant_rank", "")))  # index
         variant_line.append(variant.get("str_repid", variant.get("str_trid", "")))  # Repeat locus
         variant_line.append(
-            variant.get("str_display_ru", variant.get("str_ru", ""))
+            variant.get("str_display_ru", variant.get("str_ru", variant.get("str_motifs", "")))
         )  # Reference repeat unit
         variant_line.append(str(get_str_mc(variant) or "."))  # Estimated size
         variant_line.append(str(variant.get("str_ref", "")))  # Reference size

{scout_browser-4.103.1 → scout_browser-4.103.3}/scout/server/blueprints/variants/templates/variants/cancer-sv-variants.html

@@ -1,5 +1,5 @@
 {% extends "layout.html" %}
-{% from "variants/utils.html" import cancer_sv_filters,cell_rank, pagination_footer, pagination_hidden_div, filter_form_footer, filter_script_main, update_stash_filter_button_status, dismiss_variants_block, callers_cell %}
+{% from "variants/utils.html" import cancer_sv_filters, filters_form_header, cell_rank, pagination_footer, pagination_hidden_div, filter_form_footer, filter_script_main, update_stash_filter_button_status, dismiss_variants_block, callers_cell %}
 {% from "variants/components.html" import allele_cell, external_scripts, external_stylesheets, frequency_cell_general, observed_cell_general, variant_gene_symbols_cell, variant_funct_anno_cell %}
 
 {% block title %}
@@ -42,9 +42,7 @@
   <div class="container-float">
     {{ pagination_hidden_div(page) }}
     <div class="card panel-default" id="accordion">
-      <div class="card-header">
-        <strong><a data-bs-toggle="collapse" data-bs-parent="#accordion" href="#collapseFilters">Somatic Structural Variant Filters</a></strong>
-      </div>
+      {{ filters_form_header(result_size, total_variants) }}
       <!--Expand filters form if filters were used in a previous POST request-->
       <div id="collapseFilters" class="card-body panel-collapse collapse {{ 'show' if expand_search is sameas true }}">
         {{ cancer_sv_filters(form, institute, case) }}

{scout_browser-4.103.1 → scout_browser-4.103.3}/scout/server/blueprints/variants/templates/variants/cancer-variants.html

@@ -1,7 +1,7 @@
 {% extends "layout.html" %}
 
 {% from "variants/components.html" import allele_cell, external_scripts, external_stylesheets, gene_cell, frequency_cell_general, observed_cell_general, variant_funct_anno_cell %}
-{% from "variants/utils.html" import cancer_filters, cell_rank, pagination_footer, pagination_hidden_div, dismiss_variants_block, filter_form_footer, filter_script_main, update_stash_filter_button_status, callers_cell, variant_rank_score %}
+{% from "variants/utils.html" import cancer_filters, filters_form_header, cell_rank, pagination_footer, pagination_hidden_div, dismiss_variants_block, filter_form_footer, filter_script_main, update_stash_filter_button_status, callers_cell, variant_rank_score %}
 {% from "variants/indicators.html" import pin_indicator, causative_badge, clinical_assessments_badge, comments_badge, dismissals_badge, evaluations_badge, group_assessments_badge, matching_manual_rank, other_tiered_variants, research_assessments_badge %}
 
 {% block title %}
@@ -38,9 +38,7 @@
   <div class="container-float">
     {{ pagination_hidden_div(page) }}
     <div class="card panel-default" id="accordion">
-      <div class="card-header">
-        <strong><a data-bs-toggle="collapse" data-parent="#accordion" href="#collapseFilters">Filters</a></strong>
-      </div>
+      {{ filters_form_header(result_size, total_variants) }}
       <!--Expand filters form if filters were used in a previous POST request or the previous POST request form was not validated-->
       <div class="card-body panel-collapse collapse {{ 'show' if expand_search is sameas true }}" id="collapseFilters" >
         {{ cancer_filters(form, institute, case) }}

{scout_browser-4.103.1 → scout_browser-4.103.3}/scout/server/blueprints/variants/templates/variants/mei-variants.html

@@ -1,5 +1,5 @@
 {% extends "layout.html" %}
-{% from "variants/utils.html" import mei_filters, cell_rank, pagination_footer, pagination_hidden_div, dismiss_variants_block, filter_form_footer, filter_script_main, update_stash_filter_button_status %}
+{% from "variants/utils.html" import mei_filters, filters_form_header, cell_rank, pagination_footer, pagination_hidden_div, dismiss_variants_block, filter_form_footer, filter_script_main, update_stash_filter_button_status %}
 {% from "variants/components.html" import external_scripts, external_stylesheets, frequency_cell_general, overlapping_cell, variant_gene_symbols_cell, variant_funct_anno_cell %}
 
 {% block title %}
@@ -42,9 +42,7 @@ onsubmit="return validateForm()">
   <div class="container-float">
     {{ pagination_hidden_div(page) }}
       <div class="card panel-default" id="accordion">
-        <div class="card-header">
-          <strong><a data-bs-toggle="collapse" data-parent="#accordion" href="#collapseFilters">MeiFilters</a></strong>
-        </div>
+        {{ filters_form_header(result_size, total_variants) }}
         <!--Expand filters form if filters were used in a previous POST request-->
         <div id="collapseFilters" class="card-body panel-collapse collapse {{ 'show' if expand_search is sameas true }}">
           <div class="card-body">{{ mei_filters(form, institute, case) }}</div>

{scout_browser-4.103.1 → scout_browser-4.103.3}/scout/server/blueprints/variants/templates/variants/str-variants.html

@@ -3,7 +3,7 @@
 {% from "variant/buttons.html" import reviewer_button%}
 {% from "variant/gene_disease_relations.html" import inheritance_badge %}
 {% from "variants/components.html" import external_scripts, external_stylesheets, frequency_cell_general %}
-{% from "variants/utils.html" import callers_cell, cell_rank, dismiss_variants_block, filter_form_footer, update_stash_filter_button_status, pagination_footer, pagination_hidden_div, str_filters, filter_script_main %}
+{% from "variants/utils.html" import callers_cell, cell_rank, dismiss_variants_block, filter_form_footer, update_stash_filter_button_status, pagination_footer, pagination_hidden_div, str_filters, filters_form_header, filter_script_main %}
 
 
 {% block title %}
@@ -45,9 +45,7 @@
      enctype="multipart/form-data" onsubmit="return validateForm()">
      {{ pagination_hidden_div(page) }}
     <div class="card panel-default" id="accordion">
-      <div class="card-header">
-        <strong><a data-bs-toggle="collapse" data-parent="#accordion" href="#collapseFilters">Filters</a></strong>
-      </div>
+      {{ filters_form_header(result_size, total_variants) }}
       <!--Expand filters form if filters were used in a previous POST request-->
       <div class="card-body panel-collapse collapse {{ 'show' if expand_search is sameas true }}" id="collapseFilters">
           {{ str_filters(form, institute, case) }}
@@ -243,8 +241,12 @@
       {% endfor %}
     {%endif%}
   </div>"
-  title="">{% if variant.str_repid %} {{ variant.str_repid }} {% elif variant.str_trid %} {{ variant.str_trid  }} {% else %}
-  {% for gene in variant.genes %} {{ gene.symbol }} {% endfor %} {% endif %}
+  title="">{% if variant.str_repid %} {{ variant.str_repid }}
+  {% elif variant.genes %}
+    {% for gene in variant.genes %} {{ gene.symbol or gene.hgnc_symbol }} {% endfor %}
+  {% else %}
+    {{ variant.str_trid }}
+  {% endif %}
   </a>
   {% for gene in variant.genes %}
       {% if variant.str_disease %}

{scout_browser-4.103.1 → scout_browser-4.103.3}/scout/server/blueprints/variants/templates/variants/sv-variants.html

@@ -1,5 +1,5 @@
 {% extends "layout.html" %}
-{% from "variants/utils.html" import sv_filters, cell_rank, pagination_footer, pagination_hidden_div, dismiss_variants_block, filter_form_footer, filter_script_main, update_stash_filter_button_status, callers_cell, variant_rank_score %}
+{% from "variants/utils.html" import sv_filters, filters_form_header, cell_rank, pagination_footer, pagination_hidden_div, dismiss_variants_block, filter_form_footer, filter_script_main, update_stash_filter_button_status, callers_cell, variant_rank_score %}
 {% from "variants/components.html" import external_scripts, external_stylesheets, frequency_cell_general, observed_cell_general, overlapping_cell, variant_gene_symbols_cell, variant_funct_anno_cell %}
 
 {% block title %}
@@ -42,9 +42,7 @@ onsubmit="return validateForm()">
   <div class="container-float">
     {{ pagination_hidden_div(page) }}
     <div class="card panel-default" id="accordion">
-      <div class="card-header">
-        <strong><a data-bs-toggle="collapse" data-parent="#accordion" href="#collapseFilters">SvFilters</a></strong>
-      </div>
+      {{ filters_form_header(result_size, total_variants) }}
       <!--Expand filters form if filters were used in a previous POST request-->
       <div id="collapseFilters" class="card-body panel-collapse collapse {{ 'show' if expand_search is sameas true }}">
         {{ sv_filters(form, institute, case) }}

{scout_browser-4.103.1 → scout_browser-4.103.3}/scout/server/blueprints/variants/templates/variants/utils.html

@@ -135,12 +135,9 @@
         {% endif %}
       </div>
     </div>
-    <div class="col-4 d-flex justify-content-center">
-      Filter returns {{result_size}} / {{ total_variants }} variants.
-    </div>
     <div class="col-4 d-flex flex-column justify-content-end">
-      <div class="d-flex justify-content-end">Showing {%if more_variants %}page {{page}}{%else%}last page{% endif %} with {{nvars}} variants.</div>
-      <div class="d-flex justify-content-end">{{ toggle_dismiss_variants_block() }}</div>
+      <div class="d-flex justify-content-center">Showing {%if more_variants %}page {{page}}{%else%}last page{% endif %}</div>
+      <div class="d-flex justify-content-center">{{ toggle_dismiss_variants_block() }}</div>
     </div>
   </div>
 </div>
@@ -303,6 +300,33 @@
 </div>
 {% endmacro %}
 
+{% macro filters_form_header(result_size, total_variants) %}
+
+<style>
+  .chevron-icon {
+    transition: transform 0.3s ease;
+  }
+  button[aria-expanded="true"] .chevron-icon {
+    transform: rotate(90deg);
+  }
+</style>
+
+<div class="card-header d-flex justify-content-between align-items-center">
+  <button class="d-flex align-items-center btn btn-link p-0 text-decoration-none"
+          type="button"
+          data-bs-toggle="collapse"
+          data-bs-target="#collapseFilters"
+          aria-expanded="false"
+          aria-controls="collapseFilters">
+    <strong class="me-2">Filters</strong>
+    <i class="fa fa-chevron-right chevron-icon"></i>
+  </button>
+  <div class="text-muted">
+    Filter returns {{ result_size }} / {{ total_variants }} variants.
+  </div>
+</div>
+{% endmacro %}
+
 {% macro snv_filters(form, institute, case, filters)%}
 <input type="hidden" name="variant_type" value="{{ form.variant_type.data }}">
   {{ variants_common_filters(form, "snv") }}

{scout_browser-4.103.1 → scout_browser-4.103.3}/scout/server/blueprints/variants/templates/variants/variants.html

@@ -1,5 +1,5 @@
 {% extends "layout.html" %}
-{% from "variants/utils.html" import snv_filters, cell_rank, pagination_footer, pagination_hidden_div, dismiss_variants_block, filter_form_footer, filter_script_main, update_stash_filter_button_status, mark_heteroplasmic_mt, variant_rank_score %}
+{% from "variants/utils.html" import snv_filters, filters_form_header, cell_rank, pagination_footer, pagination_hidden_div, dismiss_variants_block, filter_form_footer, filter_script_main, update_stash_filter_button_status, mark_heteroplasmic_mt, variant_rank_score %}
 {% from "variants/components.html" import external_scripts, external_stylesheets, frequency_cell_general, gene_cell, observed_cell_general, overlapping_cell  %}
 
 {% block title %}
@@ -41,9 +41,7 @@
     <div class="container-float">
      {{ pagination_hidden_div(page) }}
      <div class="card panel-default" id="accordion">
-       <div class="card-header">
-         <strong><a data-bs-toggle="collapse" data-parent="#accordion" href="#collapseFilters">Filters</a></strong>
-       </div>
+       {{ filters_form_header(result_size, total_variants) }}
        <!--Expand filters form if filters were used in a previous POST request-->
        <div class="card-body panel-collapse collapse {{ 'show' if expand_search is sameas true }}" id="collapseFilters">
          {{ snv_filters(form, institute, case) }}

{scout_browser-4.103.1 → scout_browser-4.103.3}/scout/server/blueprints/variants/views.py

@@ -230,6 +230,7 @@ def str_variants(institute_id, case_name):
         case_obj["_id"], category=category, query=query, build=genome_build
     ).sort(
         [
+            ("genes.hgnc_symbol", pymongo.ASCENDING),
             ("str_repid", pymongo.ASCENDING),
             ("str_trid", pymongo.ASCENDING),
             ("chromosome", pymongo.ASCENDING),

{scout_browser-4.103.1 → scout_browser-4.103.3}/uv.lock

@@ -1,4 +1,5 @@
 version = 1
+revision = 1
 requires-python = ">=3.9"
 resolution-markers = [
     "python_full_version >= '3.11'",
@@ -271,11 +272,11 @@ wheels = [
 
 [[package]]
 name = "certifi"
-version = "2025.6.15"
+version = "2025.7.9"
 source = { registry = "https://pypi.org/simple" }
-sdist = { url = "https://files.pythonhosted.org/packages/73/f7/f14b46d4bcd21092d7d3ccef689615220d8a08fb25e564b65d20738e672e/certifi-2025.6.15.tar.gz", hash = "sha256:d747aa5a8b9bbbb1bb8c22bb13e22bd1f18e9796defa16bab421f7f7a317323b", size = 158753 }
+sdist = { url = "https://files.pythonhosted.org/packages/de/8a/c729b6b60c66a38f590c4e774decc4b2ec7b0576be8f1aa984a53ffa812a/certifi-2025.7.9.tar.gz", hash = "sha256:c1d2ec05395148ee10cf672ffc28cd37ea0ab0d99f9cc74c43e588cbd111b079", size = 160386 }
 wheels = [
-    { url = "https://files.pythonhosted.org/packages/84/ae/320161bd181fc06471eed047ecce67b693fd7515b16d495d8932db763426/certifi-2025.6.15-py3-none-any.whl", hash = "sha256:2e0c7ce7cb5d8f8634ca55d2ba7e6ec2689a2fd6537d8dec1296a477a4910057", size = 157650 },
+    { url = "https://files.pythonhosted.org/packages/66/f3/80a3f974c8b535d394ff960a11ac20368e06b736da395b551a49ce950cce/certifi-2025.7.9-py3-none-any.whl", hash = "sha256:d842783a14f8fdd646895ac26f719a061408834473cfc10203f6a575beb15d39", size = 159230 },
 ]
 
 [[package]]
@@ -482,7 +483,7 @@ resolution-markers = [
     "python_full_version < '3.9.2'",
 ]
 dependencies = [
-    { name = "colorama", marker = "python_full_version < '3.10' and platform_system == 'Windows'" },
+    { name = "colorama", marker = "python_full_version < '3.10' and sys_platform == 'win32'" },
 ]
 sdist = { url = "https://files.pythonhosted.org/packages/b9/2e/0090cbf739cee7d23781ad4b89a9894a41538e4fcf4c31dcdd705b78eb8b/click-8.1.8.tar.gz", hash = "sha256:ed53c9d8990d83c2a27deae68e4ee337473f6330c040a31d4225c9574d16096a", size = 226593 }
 wheels = [
@@ -498,7 +499,7 @@ resolution-markers = [
     "python_full_version == '3.10.*'",
 ]
 dependencies = [
-    { name = "colorama", marker = "python_full_version >= '3.10' and platform_system == 'Windows'" },
+    { name = "colorama", marker = "python_full_version >= '3.10' and sys_platform == 'win32'" },
 ]
 sdist = { url = "https://files.pythonhosted.org/packages/60/6c/8ca2efa64cf75a977a0d7fac081354553ebe483345c734fb6b6515d96bbc/click-8.2.1.tar.gz", hash = "sha256:27c491cc05d968d271d5a1db13e3b5a184636d9d930f148c50b038f0d0646202", size = 286342 }
 wheels = [
@@ -1373,7 +1374,7 @@ source = { registry = "https://pypi.org/simple" }
 dependencies = [
     { name = "click", version = "8.1.8", source = { registry = "https://pypi.org/simple" }, marker = "python_full_version < '3.10'" },
     { name = "click", version = "8.2.1", source = { registry = "https://pypi.org/simple" }, marker = "python_full_version >= '3.10'" },
-    { name = "colorama", marker = "platform_system == 'Windows'" },
+    { name = "colorama", marker = "sys_platform == 'win32'" },
     { name = "ghp-import" },
     { name = "importlib-metadata", marker = "python_full_version < '3.10'" },
     { name = "jinja2" },
@@ -2400,7 +2401,7 @@ wheels = [
 
 [[package]]
 name = "scout-browser"
-version = "4.103.1"
+version = "4.103.2"
 source = { editable = "." }
 dependencies = [
     { name = "anytree", version = "2.12.1", source = { registry = "https://pypi.org/simple" }, marker = "python_full_version < '3.9.2'" },
@@ -2516,6 +2517,7 @@ requires-dist = [
     { name = "wtforms" },
     { name = "xlsxwriter" },
 ]
+provides-extras = ["coverage"]
 
 [package.metadata.requires-dev]
 dev = [

scout_browser-4.103.1/scout/server/blueprints/alignviewers/templates/alignviewers/utils.html

@@ -1,5 +0,0 @@
-{% macro igv_script() %}
-  <link rel="shortcut icon" href="//igv.org/web/img/favicon.ico">
-  <!-- IGV JS-->
-  <script src="https://cdn.jsdelivr.net/npm/igv@3.3.0/dist/igv.min.js" integrity="sha512-U3drIflKJksG0+kiVuqYrQaI9SsloPhKfISeZr8bzVpO/oRFz7hE1vdJirvDyYIfv51CSucKJgcLAdupqitBcQ==" crossorigin="anonymous"></script>
-{% endmacro %}