Issues
- 2
Expected value of food_product_type
#165 opened by ramonawalls - 3
linkml-run-examples missing base prefix
#186 opened by turbomam - 0
work on mapping tokens to 'taxon' in config/curated-slot-notes-by-text-mining.tsv
#188 opened by turbomam - 0
find-ontology-mentions probably only detects ontology abbreviations in UPPERCASE
#189 opened by turbomam - 2
- 0
- 1
Standardize taxon identifiers
#184 opened by turbomam - 3
slots not present in curated-data/build-test-only/AllSlotsTestClassCollection-wrapped-example-data.yaml
#178 opened by turbomam - 1
Expected to hold constant across classes
#173 opened by turbomam - 5
update data_harmonizer/menu.json
#120 opened by turbomam - 1
probably jumped the gun in assigning 'Value specification' to `string_serialization`
#128 opened by turbomam - 1
don't see how to utilize structured_patterns without `gen-linkml ... --materialize-patterns`
#146 opened by turbomam - 1
make sure I understand `structured_pattern`'s `interpolated` and `partial_match` options
#149 opened by turbomam - 0
migrate slots that currently have explicit `pattern`s to using `structured_pattern`s
#152 opened by turbomam - 0
update .github/workflows/deploy-docs.yaml to trigger `make data_harmonizer/menu.json`
#156 opened by turbomam - 2
Do we want slots like `farm_equip` to be validated against the term label/term id syntax, or the AGRO:00000416 parent class?
#172 opened by turbomam - 0
help elements desired for data harmonizer
#175 opened by turbomam - 1
✗ 'absolutely any text' is not of type 'array' in $.all_slots_test_set[0].host_symbiont
#180 opened by turbomam - 0
FutureWarning: Possible nested set at position 64 and not re.search(patrn, instance)
#183 opened by turbomam - 5
Conflicting values for soil_horizon
#181 opened by turbomam - 1
nose/throat conflicts
#182 opened by turbomam - 0
ERROR:root:Multiple slots with URI: https://w3id.org/mixs/0000335: ['soil_text_measure', 'texture']; consider giving each a unique slot_uri
#177 opened by turbomam - 0
- 0
many operations are too slow for a real time system, even with only ~ 20 combinations
#176 opened by turbomam - 0
- 0
- 0
Cardinality for ENVO terms should be 1 for now
#164 opened by ramonawalls - 0
Columns in the Data Harmonizer templates are not currently grouped or ordered in any way
#158 opened by turbomam - 1
things to look up in NCBI BIosample
#153 opened by turbomam - 1
all-combos schema JSON too large to push to GitHub
#144 opened by turbomam - 0
Do Expected value "room name;room number" and Value syntax "{text};{integer}" indicate both components must be present?
#151 opened by turbomam - 0
which to trust when the examples doesn't match the informal MIxS specifications (Value syntax, etc)
#150 opened by turbomam - 1
- 1
`gen-linkml ... --materialize-patterns` emits most verbose form of LinkML YAML
#147 opened by turbomam - 0
setup w3id
#124 opened by turbomam - 0
- 0
add linkml-run-examples
#129 opened by turbomam - 0
"exhaustive" is confusing when used for both schemasheets/reports format and schema elements used for all-slot testing
#127 opened by turbomam - 1
- 0
- 1
test RDF/OWL outputs
#116 opened by turbomam - 1
DH didn't regenerate last time
#133 opened by turbomam - 2
monitor build time, web docs search performance and generated LinkML Excel file vs number of minimal combos
#123 opened by turbomam - 0
- 0
add Ontotext GraphDB to EC2 server
#131 opened by turbomam - 0
what would the migration path be like for moving this into the official MIxS repo?
#125 opened by turbomam - 1
open jsonschema artifact?
#117 opened by turbomam - 0
update `update-schema` in data_harmonizer/package.json
#121 opened by turbomam - 0
expose web interface for Postgres Biosmaple data?
#119 opened by turbomam - 0