License issues about peakabro HOT 8 CLOSED

I don't think LipidMaps is Open Data. Wikidata is, PubChem is.

from peakabro.

"LMSD lipid structures are deposited into PubChem database (http://pubchem.ncbi.nlm.nih.gov/) periodically and a link to PubChem substance ID (SID) is also maintained within LMSD. Access to complete set of LMSD lipid structures in PubChem is available at www.ncbi.nlm.nih.gov/entrez/query.fcgi?CMD=search&DB=pcsubstance&term=LipidMAPS[sourcename])."

from peakabro.

@chasemc thanks! That is very useful info. So I might be able to get around that one by just including PubChem and leave the indicator to lipidmaps so that you can eventually filter for the lipidmaps compounds.

from peakabro.

@chasemc It seems the source is only in the SID entries. Not the CIDs. However the lipidmaps ids have been added as a name so it is possible to filter by those prefixes.

from peakabro.

@chasemc also note that PubChem is not formally Open Data: it mixes their own public domain data with copyrighted upstream material. Legally, this is quite hard to untangle.

Generally, just contact LipidMaps and ask if it is OK to index their structures in the table as you want to do, and if you are allowed to make that available under terms compatible with the license of the R package.

For LipidMaps, a subset of about 1400 lipids is available under CCZero from Wikidata: http://tinyurl.com/ycbm9gfq

from peakabro.

Thanks! I already contacted LipidMaps. Waiting for an answer.

from peakabro.

@egonw what do you mean by upstream material? All the calculated properties? Si if I only use basic info as name and inchi it should be ok?

from peakabro.

This issue was moved to rformassspectrometry/CompoundDb#4

from peakabro.