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ontoportal-lirmm / annotators

Web service to add functionalities to the http://bioportal.bioontology.org and similar ontology annotators
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Upgrade ConText component to FastContext in production #28

Open jonquet opened 5 years ago

jonquet commented 5 years ago

Creating an issue here to keep track of our developments already started on this topic. Currently the AnnotatorPlus and SIFR Annotator uses the code: https://github.com/Blulab-Utah/ConText

And we need to upgrade to : https://github.com/jianlins/FastContext

jonquet commented 4 years ago

@twktheainur needs the updated rule file to generate everything @mehdi-mirzapour can you update everyone here ?

Then I will deploy the new war file to Tomcat proxy on staging and production severs. @twktheainur Can you also generate a .war for deployment on the AgroPortal (using the normal English FastContext).

twktheainur commented 4 years ago

@jonquet I now obtained the updated rule-file and integrated it in the #newcontext branch and then merged with the stageannotator branch for stage testing before migrating into production. The update also include and experimental support for XML output feature that was missing compared to NCBO Bioportal.

I am attaching the annotator.war file that needs to be deployed on stageportal, the attachment is named annotator.zip, please rename it to annotator.war before deploying .

annotator.zip

You may deploy either through the tomcat web interface or by copying the war file in either /var/lib/tomcat7/webapps/ or /var/lib/tomcat8/webapps/ depending on whether tomcat8 or tomcat7 is installed, as far as I remember it's still tomcat7.

jonquet commented 4 years ago

Deployment on staging done. @mehdi-mirzapour Can you evaluate results?