Importing CHEBI dependencies

[StroemPhi]

We need to add these NMR solvents: https://www.ebi.ac.uk/chebi/chebiOntology.do?chebiId=CHEBI:197449&treeView=true#vizualisation
and these chemicla shif refernece compounds https://www.ebi.ac.uk/chebi/searchId.do?chebiId=CHEBI:228364 from CHEBI

[NRayya]

So far, nmrCV is only a taxonomy including only is_a relationship. However, has_role that comes from CHEBI makes more sense when it comes to the imported solvents and references here.

[StroemPhi]

Regarding the NMR solvent, I propose the following, which I do in the CHEBI import branch

1. Import all molecular entities from CHEBI that are asserted to have an NMR solvent role --> done in 5e560ed
2. Move CHEBI:chemical entity under BFO:material entity. It could also be subsumed under BFO:object, but this avoids the object/object aggregate distinction problem (see also: https://pubmed.ncbi.nlm.nih.gov/21533043) --> done in 530fd10
3. Change the label of CHEBI:NMR solvent to NMR solvent role as it is defined as a role and not the material entity that bears this role --> done in 4c6f9bf. Consider adding a comment which explains this label change.
4. Move NMR solvent under CHEBI:molecular entity, because all NMR solvents are molecular entities, and add an equivalenceTo axiom that states that an NMR solvent is a molecular entity that bears the CHEBI:NMR solvent role. --> done in bd96327
5. Add the textual definition to NMR solvent: "A molecular entity that is used as a solvent in nuclear magnetic resonance (NMR) spectroscopy." --> done in 35d403c --> closes NMR solvent - Provide a definition  #3
6. Infer subclassOf NMR solvent axioms for those CHEBI molecular entities which bear a CHEBI:NMR solvent role using: sh run.sh robot reason --reasoner ELK -i nmrcv-edit.owl --exclude-duplicate-axioms true --exclude-tautologies structural --annotate-inferred-axioms True convert -f ofn -o nmrcv-edit.owl. This will be done automatically upon building the actual release files, but must be done manually, if we want to see this also in the edit file. --> done in dbde30f
7. Obsolete heavy water in favor of imported CHEBI equivalent --> done in 6dcf40b
8. Obsolete Hexafluorobenzene in favour of imported CHEBI equivalent. Currently needs us to assert that CHEBI:38589 (hexafluorobenzene) 'has role' some 'NMR solvent role' as this is currently not asserted in CHEBI --> done in 28df8f4 & 79e9d84
9. Request adding CHEBI:38589 (hexafluorobenzene) 'has role' some 'NMR solvent' upstream in CHEBI, so we can drop this axiom from our edit file in the future --> will be done by @NRayya
10. Obsolete Chloroform-d in favor of imported CHEBI equivalent --> done in c963fa7

[StroemPhi]

Regarding Chemical shift reference compound, I propose the following, which I do in the CHEBI import branch:

1. Import all molecular entities from CHEBI that are asserted to have an NMR chemical shift reference compound role --> done in 0006702 & f318d8c
2. Move NMRCV:calibration compound under CHEBI:molecular entity --> done in b95e94d
3. Add an equivalenceTo axiom that states that an NMRCV:chemical shift standard is a calibration compound that bears the NMR chemical shift reference compound role. --> done in a8fd02f
4. Add general class axiom 'molecular entity' and ('has role' some 'NMR chemical shift reference compound') SubClassOf 'chemical shift standard', which is needed to infer CHEBI entities that are chemical shift reference compounds (defining new parent role for calibration compound would be also possible, but probably harder to get into CHEBI ) --> done in 90c24b6
5. Infer subclassOf 'chemical shift standard' axioms for those CHEBI molecular entities which bear a CHEBI:'NMR chemical shift reference compound' role using: sh run.sh robot reason --reasoner ELK -i nmrcv-edit.owl --exclude-duplicate-axioms true --exclude-tautologies structural --annotate-inferred-axioms True convert -f ofn -o nmrcv-edit.owl. This will be done automatically upon building the actual release files, but must be done manually, if we want to see this also in the edit file. --> done in e829279

[NRayya]

I requested the addition of NMR solvent role to hexafluorobenzene ebi-chebi/ChEBI#4487