Comments (10)
ellis
commented on May 23, 2024
Same problem here -- can't access the OntoMaton settings. There was a little more text in my error message, so I'll include that:
Request failed for http://lov.okfn.org/dataset/lov/api/v1/vocabs returned code 404. Truncated server response: <!DOCTYPE html> <html lang="en"> <head> <meta http-equiv="Content-Type" content="text/html; charset=UTF-8"> <meta charset="utf-8"> <m... (use muteHttpExceptions option to examine full response).
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agbeltran
commented on May 23, 2024
We need to upgrade to LOV API v2. I will fix this asap.
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agbeltran
commented on May 23, 2024
Related to #13
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proccaserra
commented on May 23, 2024
searching with ontomaton over Bioportal currently throw repeated error messages but if one persists, the search is successful.
However, the user experience is obviously painful:
for term 'patient' used as search token:
I received the following individual /sequential messages until eventual search success (phew!):
SyntaxError: Unexpected token in object literal
SyntaxError: Expected : found a
SyntaxError: Expected : found a
SyntaxError: Expected : found ,
SyntaxError: Unexpected token in object literal
SyntaxError: Unexpected token in object literal
SyntaxError: Missing comma in array literal
SyntaxError: Expected : found }
SyntaxError: Unexpected token in object literal
SyntaxError: Unexpected token in object literal
SyntaxError: Expected : found a
SyntaxError: Unexpected token in object literal
SyntaxError: Unexpected token in object literal
SyntaxError: Missing comma in array literal
SyntaxError: Expected : found }
was working fine until recently , though
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eamonnmag
commented on May 23, 2024
This is I believe something to do with the caching system. But I need to check.
Dr. Eamonn Maguire
On 11 Jun 2015, at 16:20, Philippe Rocca-Serra [email protected] wrote:
searching with ontomaton over Bioportal currently throw repeated error messages but if one persists, the search is successful.
However, the user experience is obviously painful:
for term 'patient' used as search token:
I received the following individual /sequential messages until eventual search success (phew!):
SyntaxError: Unexpected token in object literal
SyntaxError: Expected : found a
SyntaxError: Expected : found a
SyntaxError: Expected : found ,
SyntaxError: Unexpected token in object literal
SyntaxError: Unexpected token in object literal
SyntaxError: Missing comma in array literal
SyntaxError: Expected : found }
SyntaxError: Unexpected token in object literal
SyntaxError: Unexpected token in object literal
SyntaxError: Expected : found a
SyntaxError: Unexpected token in object literal
SyntaxError: Unexpected token in object literal
SyntaxError: Missing comma in array literal
SyntaxError: Expected : found }was working fine until recently , though
—
Reply to this email directly or view it on GitHub #14 (comment).
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eamonnmag
commented on May 23, 2024
So, the actual problem was caused by the query to bioportal to get the ontologies. The query result was over 6MB! I filtered out the request to have only what we need with some useful new parameters they added, and now the request size is down to ~600KB. It will take a few hours for your cache to expire. But in the morning, give it a try and see how it goes. Everything should be much faster.
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eamonnmag
commented on May 23, 2024
LOV Still has some search issues. Will look in to them later on this evening. BioPortal appears to work well again, and much quicker.
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proccaserra
commented on May 23, 2024
Thx Eamonn for looking and fixing the stuff. So It worked perfectly a few hours ago, it was fast , much, much faster!
... but now I am getting errors again from Bioportal calls (See below).
Errors on bioportal:
SyntaxError: Unexpected token in object literal
SyntaxError: Expected : found ,
SyntaxError: Expected : found ,
SyntaxError: Unexpected token in object literal
SyntaxError: Expected : found ,
SyntaxError: Missing comma in array literal
SyntaxError: Expected end of stream at char 4
and if I am too keen, I get the following:
Exception: Service invoked too many times in a short time: cacheService rateMax. Try Utilities.sleep(1000) between calls.
Also, Alejandra is looking into LOV as they changes their API to v2.
one side question: are whitespace separated string token accepted as search inputs or does it have to be single word searches?
Thank you Dr E :)
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eamonnmag
commented on May 23, 2024
LOV is already upgraded to version 2. It was working before. There is some strange behaviour now happening with the cache and i think reparsing the cache result using JSON.parse. It shall be solved.
On 12 Jun 2015, at 09:03, Philippe Rocca-Serra [email protected] wrote:
Thx Eamonn for looking and fixing the stuff. So It worked perfectly a few hours ago, it was fast , much, much faster!
... but now I am getting errors again from Bioportal calls (See below).Errors on bioportal:
SyntaxError: Unexpected token in object literal
SyntaxError: Expected : found ,
SyntaxError: Expected : found ,
SyntaxError: Unexpected token in object literal
SyntaxError: Expected : found ,
SyntaxError: Missing comma in array literal
SyntaxError: Expected end of stream at char 4and if I am too keen, I get the following:
Exception: Service invoked too many times in a short time: cacheService rateMax. Try Utilities.sleep(1000) between calls.Also, Alejandra is looking into LOV as they changes their API to v2.
one side question: are whitespace separated string token accepted as search inputs or does it have to be single word searches?
Thank you Dr E :)
—
Reply to this email directly or view it on GitHub #14 (comment).
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proccaserra
commented on May 23, 2024
more problems. today ontomaton returns 'aspirin' for all my searches. search on LOV worked once, then error messages such as:
This was on Chrome.
Add-on does not seem to work on Safari (Google/Apple niceties I suppose)
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Related Issues (20)
- Restrictions over searches on LOV seem not to be working HOT 1
- Add support for a new setting placing 'term' and 'accession' in consecutive rows
- Extend OntoMaton to talk to AgroPortal and SIFR BioPortal HOT 3
- Detect hidden columns HOT 2
- Fix display 'restriction added' message HOT 2
- Change 'Term URI' and add service in Terms sheet HOT 1
- Addition of searches over OLS
- Update documentation
- Add support for restrictions for the annotator functionality. HOT 4
- Support multiple ontologies in restrictions for each service HOT 1
- make ontomaton aware of ISA-Tab templates
- Access denied for example sheet
- 'UiApp has been deprecated' Error HOT 4
- Still working HOT 5
- How do I get OntoMaton to show up in Add-ons in a Googlesheet? HOT 1
- ScriptError: You do not have the necessary permission to access the requested document. HOT 2
- the Biological Collections Ontology in BioPortal seems not included in search results HOT 2
- Wrong =HYPERLINK() syntax HOT 1
- Feature: add service.tib.eu/ts4tib as OLS endpoint HOT 1
- Update to OLS4 if needed HOT 2
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