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Mccalluc/marker gene to marker #2920

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merged 2 commits into from
Sep 22, 2022
Merged

Mccalluc/marker gene to marker #2920

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3e3ec35
Fix kwarg... but vis still not working?
mccalluc Sep 22, 2022
4598b47
upgrade portal-visualization; rebuild requirements
mccalluc Sep 22, 2022
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1 change: 1 addition & 0 deletions CHANGELOG-marker-gene-to-marker.md
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@@ -0,0 +1 @@
- Fix a bug that prevented highlighted genes from displaying.
2 changes: 1 addition & 1 deletion context/app/api/client.py
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Expand Up @@ -183,7 +183,7 @@ def get_assay(name):
return type_client.getAssayType(name)
Builder = get_view_config_builder(entity=entity, get_assay=get_assay)
builder = Builder(entity, self.groups_token, current_app.config["ASSETS_ENDPOINT"])
vitessce_conf = builder.get_conf_cells(marker_gene=marker)
vitessce_conf = builder.get_conf_cells(marker=marker)
except Exception as e:
if not wrap_error:
raise e
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2 changes: 1 addition & 1 deletion context/requirements.in
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Expand Up @@ -10,7 +10,7 @@ hubmap-api-py-client>=0.0.9
hubmap-commons>=2.0.12

# Plain "git+https://github.com/..." references can't be hashed, so we point to a release zip instead.
https://github.com/hubmapconsortium/portal-visualization/archive/refs/tags/0.0.5.zip
https://github.com/hubmapconsortium/portal-visualization/archive/refs/tags/0.0.6.zip

# Security warning for older versions;
# Can be removed when commons drops prov dependency.
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4 changes: 2 additions & 2 deletions context/requirements.txt
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Expand Up @@ -638,8 +638,8 @@ platformdirs==2.5.1 \
--hash=sha256:7535e70dfa32e84d4b34996ea99c5e432fa29a708d0f4e394bbcb2a8faa4f16d \
--hash=sha256:bcae7cab893c2d310a711b70b24efb93334febe65f8de776ee320b517471e227
# via black
portal-visualization @ https://github.com/hubmapconsortium/portal-visualization/archive/refs/tags/0.0.5.zip \
--hash=sha256:d79b6793b6146ec6847fc86e67e2483e2f25d68c47fa55b7b7736e10e1b70fbc
portal-visualization @ https://github.com/hubmapconsortium/portal-visualization/archive/refs/tags/0.0.6.zip \
--hash=sha256:cac84bd484b926bba8fd6bea91f88fba89cb6e38bb0179215f22e7574a03335d
# via -r context/requirements.in
property==2.2 \
--hash=sha256:d25e4da4e415408b9eb39b6521c088e4e2b8a9e2f9f96fb2d91680e97207ea19
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