Harshad

EDAM.owl throwing an exception

2

I'm trying to convert [EDAM.owl](http://edamontology.org/page#Download) _(Always the latest stable version, in OWL format)_ into JSON format using [ROBOT](http://robot.obolibrary.org) which in turn is calling the obographs library. Obographs throws a `NullPointerException`...

Ontology.json => ontology_nodes.tsv ; ontology_edges.tsv

5

We're trying to update package dependencies from v 0.5.0 to v 1.1.0 (kg-covid-19; kg-microbe). For a knowledge graph generation from JSON as shown in the title, the old version used...

Add github actions to trigger KGCL agent to ODK

37

~[`onto-crawler`](https://github.com/hrshdhgd/onto-crawler) (name to be changed soon)~ [`ontobot-change-agent`](https://github.com/hrshdhgd/ontobot-change-agent) basically is a tool which runs KGCL commands to update ontology resources. cc: @cmungall

Relevant conversation: https://github.com/mapping-commons/sssom-py/pull/324#discussion_r1030443563 Reason for pinning: When updating linkml from v1.3.13 to v1.3.14, it gave an error which is being worked on as this issue is being created.

Warning: ``` sssom/util.py:895: DtypeWarning: Columns (5) have mixed types. Specify dtype option on import or set low_memory=False. ``` Solution: set `low_memory=False`

Delete all validation files since they may be old

3

Fixes #317

Short parameters for SSSOM

1

This is the `short: long` list of CLI params - -c: --config - -C: --prefix-map-mode - -d: --output-directory - -D: --predicates - -e: --url - -E: --embedded-mode - -f: --fields...

Fixes #249 Origin: - https://github.com/mapping-commons/sssom-py/pull/249 - https://github.com/mapping-commons/sssom-py/pull/217 - [ ] what is the difference between parse and convert? - [ ] https://mapping-commons.github.io/sssom-py/cli_usage.html?highlight=merge#sssom-py-sparql - give an example - https://mapping-commons.github.io/sssom-py/sphinx_documentation.html * [...

SSSOM file columns display

3

While exporting a SSSOM TSV, currently we are exporting only columns that have data. - Q. Should we export all slots regardless of it having data or not? - If...

Merged MappingSetDataFrames do not contain the same metadata as the sources

6

[basic.tsv](https://github.com/mapping-commons/sssom-py/blob/8cfa23ea9c587a037831bf966ed693a93a49f0e1/tests/data/basic.tsv#L1) has the following metadata: ``` #license: "https://creativecommons.org/publicdomain/zero/1.0/" #mapping_set_id: http://w3id.org/sssom/mapping/tests/data/basic.tsv #mapping_tool: "https://github.com/cmungall/rdf_matcher" #creator_id: "cjm" #mapping_date: "2020-05-30" #curie_map: # a: "http://example.org/a/" # rdfs: "http://www.w3.org/2000/01/rdf-schema#" # owl: "http://www.w3.org/2002/07/owl#" # x: "http://example.org/x/" #...