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Add predictions and curations for MeSH-ChEBI equivalences #70

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merged 11 commits into from
Oct 20, 2021
Merged

Add predictions and curations for MeSH-ChEBI equivalences #70

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9f794ec
Add ChEBI-MeSH predictions
bgyori Oct 20, 2021
76f7bec
Curated 100 mappings (ben)
bgyori Oct 20, 2021
47fab53
Curated 100 mappings (ben)
bgyori Oct 20, 2021
adf1c77
Curated 100 mappings (ben)
bgyori Oct 20, 2021
3d50162
Curated 50 mappings (ben)
bgyori Oct 20, 2021
5302684
Curated 150 mappings (ben)
bgyori Oct 20, 2021
ec95ca4
Curated 36 mappings (ben)
bgyori Oct 20, 2021
fb947fd
Curated 100 mappings (ben)
bgyori Oct 20, 2021
56d0fe7
Add ssome extra dependency
bgyori Oct 20, 2021
f00753b
Remove redundant prediction
bgyori Oct 20, 2021
e469ae3
Add update from source
bgyori Oct 20, 2021
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3 changes: 2 additions & 1 deletion .github/workflows/update_web.yml
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Expand Up @@ -20,7 +20,8 @@ jobs:
python-version: 3.9
- name: Create local changes
run: |
pip install -e .[charts]
pip install -e .[charts,exports]
pip install -U git+https://github.com/mapping-commons/sssom-py.git
biomappings update
- name: Commit files
run: |
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2 changes: 2 additions & 0 deletions setup.cfg
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Expand Up @@ -81,6 +81,8 @@ web =
flask-wtf
ndex =
ndex2
exports =
sssom

# Doc8 Configuration #
# (doc8.ini) #
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1 change: 1 addition & 0 deletions src/biomappings/resources/incorrect.tsv
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Expand Up @@ -35,6 +35,7 @@ ccle PC3_PROSTATE PC-3 skos:exactMatch cellosaurus CVCL_S982 PC-3 [Human lung ca
ccle PL21_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE PL-21 skos:exactMatch cellosaurus CVCL_E295 TS 0129 manually_reviewed orcid:0000-0001-9439-5346
ccle TC71_BONE TC-71 skos:exactMatch cellosaurus CVCL_S882 TC71 manually_reviewed orcid:0000-0003-4423-4370
ccle WM239A WM239A skos:exactMatch cellosaurus CVCL_RN56 WM239B manually_reviewed orcid:0000-0003-4423-4370
chebi CHEBI:6456 lidocaine skos:exactMatch mesh C511998 Lidoderm manually_reviewed orcid:0000-0001-9439-5346
kegg.pathway map02010 ABC transporters skos:exactMatch go GO:0140359 ABC-type transmembrane transporter activity manually_reviewed orcid:0000-0003-4423-4370
kegg.pathway map02010 ABC transporters skos:exactMatch mesh D018528 ATP-Binding Cassette Transporters manually_reviewed orcid:0000-0003-4423-4370
kegg.pathway map03010 Ribosome skos:exactMatch go GO:0005840 ribosome manually_reviewed orcid:0000-0003-4423-4370
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