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[bioontology-support] Missing Classes in MESH via BioPortal 4.x REST API

Paul R Alexander palexander at stanford.edu
Mon Oct 27 15:00:32 PDT 2014


Erik,

Manuel is out of the office but will be returning soon. I'll have him take a look as soon as he is back and we'll respond with a fix then.

Paul


> On Oct 24, 2014, at 9:28 AM, Erik Fäßler <erik.faessler at uni-jena.de> wrote:
> 
> Dear BioPortal team,
> 
> today I downloaded the MESH classes via your REST API. However, it seems a few (59) classes are missing in the way that other classes reference them as parents, but they are not included in the data themselves. I had a similar issue with GO a few weeks ago, that could be solved by Manuel Salvadores Alaizola (thanks again!).
> 
> I haven’t changed my download script since then. My query parameters still are:
> 
> "include=prefLabel,synonym,definition,parents,obsolete,notation,semanticType,cui,xref&pagesize=500&no_context=true&no_links=true”
> 
> Below, I will paste the exact classes that are referenced as parents but not included in my data. I hope, someone can have a look at it and resolve the issue.
> 
> Best regards,
> 
> Erik
> 
> 
> The Missing classes:
> 
> http://purl.bioontology.org/ontology/MESH/D055606 <http://purl.bioontology.org/ontology/MESH/D055606>
> http://purl.bioontology.org/ontology/MESH/D019411 <http://purl.bioontology.org/ontology/MESH/D019411>
> http://purl.bioontology.org/ontology/MESH/D003239 <http://purl.bioontology.org/ontology/MESH/D003239>
> http://purl.bioontology.org/ontology/MESH/D013020 <http://purl.bioontology.org/ontology/MESH/D013020>
> http://purl.bioontology.org/ontology/MESH/D019183 <http://purl.bioontology.org/ontology/MESH/D019183>
> http://purl.bioontology.org/ontology/MESH/D014123 <http://purl.bioontology.org/ontology/MESH/D014123>
> http://purl.bioontology.org/ontology/MESH/D012040 <http://purl.bioontology.org/ontology/MESH/D012040>
> http://purl.bioontology.org/ontology/MESH/D006784 <http://purl.bioontology.org/ontology/MESH/D006784>
> http://purl.bioontology.org/ontology/MESH/D020508 <http://purl.bioontology.org/ontology/MESH/D020508>
> http://purl.bioontology.org/ontology/MESH/D008666 <http://purl.bioontology.org/ontology/MESH/D008666>
> http://purl.bioontology.org/ontology/MESH/D007887 <http://purl.bioontology.org/ontology/MESH/D007887>
> http://purl.bioontology.org/ontology/MESH/D022161 <http://purl.bioontology.org/ontology/MESH/D022161>
> http://purl.bioontology.org/ontology/MESH/D010447 <http://purl.bioontology.org/ontology/MESH/D010447>
> http://purl.bioontology.org/ontology/MESH/D015186 <http://purl.bioontology.org/ontology/MESH/D015186>
> http://purl.bioontology.org/ontology/MESH/D019589 <http://purl.bioontology.org/ontology/MESH/D019589>
> http://purl.bioontology.org/ontology/MESH/D000148 <http://purl.bioontology.org/ontology/MESH/D000148>
> http://purl.bioontology.org/ontology/MESH/D009967 <http://purl.bioontology.org/ontology/MESH/D009967>
> http://purl.bioontology.org/ontology/MESH/D054044 <http://purl.bioontology.org/ontology/MESH/D054044>
> http://purl.bioontology.org/ontology/MESH/D010517 <http://purl.bioontology.org/ontology/MESH/D010517>
> http://purl.bioontology.org/ontology/MESH/D034441 <http://purl.bioontology.org/ontology/MESH/D034441>
> http://purl.bioontology.org/ontology/MESH/D054467 <http://purl.bioontology.org/ontology/MESH/D054467>
> http://purl.bioontology.org/ontology/MESH/D010075 <http://purl.bioontology.org/ontology/MESH/D010075>
> http://purl.bioontology.org/ontology/MESH/D000255 <http://purl.bioontology.org/ontology/MESH/D000255>
> http://purl.bioontology.org/ontology/MESH/D007871 <http://purl.bioontology.org/ontology/MESH/D007871>
> http://purl.bioontology.org/ontology/MESH/D007268 <http://purl.bioontology.org/ontology/MESH/D007268>
> http://purl.bioontology.org/ontology/MESH/D057165 <http://purl.bioontology.org/ontology/MESH/D057165>
> http://purl.bioontology.org/ontology/MESH/D003710 <http://purl.bioontology.org/ontology/MESH/D003710>
> http://purl.bioontology.org/ontology/MESH/D002338 <http://purl.bioontology.org/ontology/MESH/D002338>
> http://purl.bioontology.org/ontology/MESH/D015388 <http://purl.bioontology.org/ontology/MESH/D015388>
> http://purl.bioontology.org/ontology/MESH/D013258 <http://purl.bioontology.org/ontology/MESH/D013258>
> http://purl.bioontology.org/ontology/MESH/D000053 <http://purl.bioontology.org/ontology/MESH/D000053>
> http://purl.bioontology.org/ontology/MESH/D056127 <http://purl.bioontology.org/ontology/MESH/D056127>
> http://purl.bioontology.org/ontology/MESH/D020423 <http://purl.bioontology.org/ontology/MESH/D020423>
> http://purl.bioontology.org/ontology/MESH/D042782 <http://purl.bioontology.org/ontology/MESH/D042782>
> http://purl.bioontology.org/ontology/MESH/D017948 <http://purl.bioontology.org/ontology/MESH/D017948>
> http://purl.bioontology.org/ontology/MESH/D042401 <http://purl.bioontology.org/ontology/MESH/D042401>
> http://purl.bioontology.org/ontology/MESH/D005195 <http://purl.bioontology.org/ontology/MESH/D005195>
> http://purl.bioontology.org/ontology/MESH/D002253 <http://purl.bioontology.org/ontology/MESH/D002253>
> http://purl.bioontology.org/ontology/MESH/D060751 <http://purl.bioontology.org/ontology/MESH/D060751>
> http://purl.bioontology.org/ontology/MESH/D038622 <http://purl.bioontology.org/ontology/MESH/D038622>
> http://purl.bioontology.org/ontology/MESH/D051793 <http://purl.bioontology.org/ontology/MESH/D051793>
> http://purl.bioontology.org/ontology/MESH/D012244 <http://purl.bioontology.org/ontology/MESH/D012244>
> http://purl.bioontology.org/ontology/MESH/D006539 <http://purl.bioontology.org/ontology/MESH/D006539>
> http://purl.bioontology.org/ontology/MESH/D009769 <http://purl.bioontology.org/ontology/MESH/D009769>
> http://purl.bioontology.org/ontology/MESH/D055554 <http://purl.bioontology.org/ontology/MESH/D055554>
> http://purl.bioontology.org/ontology/MESH/D019608 <http://purl.bioontology.org/ontology/MESH/D019608>
> http://purl.bioontology.org/ontology/MESH/D022101 <http://purl.bioontology.org/ontology/MESH/D022101>
> http://purl.bioontology.org/ontology/MESH/D019049 <http://purl.bioontology.org/ontology/MESH/D019049>
> http://purl.bioontology.org/ontology/MESH/D008571 <http://purl.bioontology.org/ontology/MESH/D008571>
> http://purl.bioontology.org/ontology/MESH/D002451 <http://purl.bioontology.org/ontology/MESH/D002451>
> http://purl.bioontology.org/ontology/MESH/D063269 <http://purl.bioontology.org/ontology/MESH/D063269>
> http://purl.bioontology.org/ontology/MESH/D007827 <http://purl.bioontology.org/ontology/MESH/D007827>
> http://purl.bioontology.org/ontology/MESH/D019106 <http://purl.bioontology.org/ontology/MESH/D019106>
> http://purl.bioontology.org/ontology/MESH/D062210 <http://purl.bioontology.org/ontology/MESH/D062210>
> http://purl.bioontology.org/ontology/MESH/D027923 <http://purl.bioontology.org/ontology/MESH/D027923>
> http://purl.bioontology.org/ontology/MESH/D004349 <http://purl.bioontology.org/ontology/MESH/D004349>
> http://purl.bioontology.org/ontology/MESH/D007116 <http://purl.bioontology.org/ontology/MESH/D007116>
> http://purl.bioontology.org/ontology/MESH/D014546 <http://purl.bioontology.org/ontology/MESH/D014546>
> http://purl.bioontology.org/ontology/MESH/D018791 <http://purl.bioontology.org/ontology/MESH/D018791>_______________________________________________
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