cBioPortal user reported error

[Jill Bigler]

https://www.cbioportal.org/results/oncoprint?comparison_selectedGroups=%5B%22APC%20TP53%22%2C%22APC%20KRAS%20TP53%22%2C%22tp53%20only%22%2C%22apc%20only%22%2C%22kras%20tp53%22%2C%22kras%20only%22%2C%22kras%20apc%22%2C%22Unaltered%20group%22%5D&plots_horz_selection=%7B%7D&plots_vert_selection=%7B%7D&plots_coloring_selection=%7B%7D&session_id=69bdf3e675150c634a9ec7ee;{"type":"ErrorBoundary","log":"SyntaxError: Expected \"-::\", \"::\", \"[\", [,; \\t\\r\\n], or [\\-_.@/a-zA-Z0-9*] but end of input found."}

[Benjamin Gross]

Hi Jill,

Thanks for the email. It’s hard to recreate the issue with the link you provide. Can you describe the query you were attempting to make?

Thanks,
-Benjamin

> On Mar 20, 2026, at 9:27 PM, Jill Bigler <jillbi...@gmail.com> wrote:
>
> https://www.cbioportal.org/results/oncoprint?comparison_selectedGroups=%5B%22APC%20TP53%22%2C%22APC%20KRAS%20TP53%22%2C%22tp53%20only%22%2C%22apc%20only%22%2C%22kras%20tp53%22%2C%22kras%20only%22%2C%22kras%20apc%22%2C%22Unaltered%20group%22%5D&plots_horz_selection=%7B%7D&plots_vert_selection=%7B%7D&plots_coloring_selection=%7B%7D&session_id=69bdf3e675150c634a9ec7ee;{"type":"ErrorBoundary","log":"SyntaxError: Expected \"-::\", \"::\", \"[\", [,; \\t\\r\\n], or [\\-_.@/a-zA-Z0-9*] but end of input found."}
>

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[Field, Chani (Health)]

UNOFFICIAL

https://www.cbioportal.org/results/mutations?tab_index=tab_visualize&Action=Submit&session_id=690cf74a7783fa02c7f3402e&plots_horz_selection=%7B%7D&plots_vert_selection=%7B%7D&plots_coloring_selection=%7B%7D;{"req":{"method":"POST","url":"//www.cbioportal.org/api/clinical-attributes/counts/fetch","data":{},"headers":{"accept":"application/json","content-type":"application/json","content-encoding":"gzip"}},"xhr":{"_url":"//www.cbioportal.org/api/clinical-attributes/counts/fetch"},"text":"{\"timestamp\":1774480370310,\"status\":500,\"error\":\"Internal Server Error\",\"path\":\"/api/clinical-attributes/counts/fetch\"}","statusText":"","statusCode":500,"status":500,"statusType":5,"info":false,"ok":false,"redirect":false,"clientError":false,"serverError":true,"error":{"status":500,"method":"POST","url":"//www.cbioportal.org/api/clinical-attributes/counts/fetch"},"created":false,"accepted":false,"noContent":false,"badRequest":false,"unauthorized":false,"notAcceptable":false,"forbidden":false,"notFound":false,"unprocessableEntity":false,"headers":{"cache-control":"no-cache, no-store, max-age=0, must-revalidate","content-encoding":"gzip","content-type":"application/json","date":"Wed, 25 Mar 2026 23:12:50 GMT","elapsed-time":"0","expires":"0","pragma":"no-cache","strict-transport-security":"max-age=31536000 ; includeSubDomains","vary":"origin,access-control-request-method,access-control-request-headers,accept-encoding","x-content-type-options":"nosniff","x-frame-options":"DENY","x-xss-protection":"0"},"header":{"cache-control":"no-cache, no-store, max-age=0, must-revalidate","content-encoding":"gzip","content-type":"application/json","date":"Wed, 25 Mar 2026 23:12:50 GMT","elapsed-time":"0","expires":"0","pragma":"no-cache","strict-transport-security":"max-age=31536000 ; includeSubDomains","vary":"origin,access-control-request-method,access-control-request-headers,accept-encoding","x-content-type-options":"nosniff","x-frame-options":"DENY","x-xss-protection":"0"},"type":"application/json","links":{},"body":{"timestamp":1774480370310,"status":500,"error":"Internal Server Error","path":"/api/clinical-attributes/counts/fetch"}}

 

{"req":{"method":"POST","url":"//www.cbioportal.org/api/clinical-data/fetch?clinicalDataType=SAMPLE","data":{},"headers":{"accept":"application/json","content-type":"application/json","content-encoding":"gzip"}},"xhr":{"_url":"//www.cbioportal.org/api/clinical-data/fetch?clinicalDataType=SAMPLE"},"text":"{\"timestamp\":1774480381187,\"status\":500,\"error\":\"Internal Server Error\",\"path\":\"/api/clinical-data/fetch\"}","statusText":"","statusCode":500,"status":500,"statusType":5,"info":false,"ok":false,"redirect":false,"clientError":false,"serverError":true,"error":{"status":500,"method":"POST","url":"//www.cbioportal.org/api/clinical-data/fetch?clinicalDataType=SAMPLE"},"created":false,"accepted":false,"noContent":false,"badRequest":false,"unauthorized":false,"notAcceptable":false,"forbidden":false,"notFound":false,"unprocessableEntity":false,"headers":{"cache-control":"no-cache, no-store, max-age=0, must-revalidate","content-encoding":"gzip","content-type":"application/json","date":"Wed, 25 Mar 2026 23:13:01 GMT","elapsed-time":"0","expires":"0","pragma":"no-cache","strict-transport-security":"max-age=31536000 ; includeSubDomains","vary":"origin,access-control-request-method,access-control-request-headers,accept-encoding","x-content-type-options":"nosniff","x-frame-options":"DENY","x-xss-protection":"0"},"header":{"cache-control":"no-cache, no-store, max-age=0, must-revalidate","content-encoding":"gzip","content-type":"application/json","date":"Wed, 25 Mar 2026 23:13:01 GMT","elapsed-time":"0","expires":"0","pragma":"no-cache","strict-transport-security":"max-age=31536000 ; includeSubDomains","vary":"origin,access-control-request-method,access-control-request-headers,accept-encoding","x-content-type-options":"nosniff","x-frame-options":"DENY","x-xss-protection":"0"},"type":"application/json","links":{},"body":{"timestamp":1774480381187,"status":500,"error":"Internal Server Error","path":"/api/clinical-data/fetch"}}

[Nikolaus Schultz]

Hi,

Can you please describe what you were trying to do in cBioPortal that led to the error?

Thanks.

Niki.

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[Nikolaus Schultz]

Thanks. It seems to work for me - see this query for PIK3CA: https://bit.ly/3O9jkgm

Can you confirm that you can open this link?

Niki.

On Mar 31, 2026, at 22:44, Field, Chani (Health) <Chani...@sa.gov.au> wrote:

UNOFFICIAL

Good afternoon,

I was trying to query a gene in curated set of non-redundant studies. Options in picture below were selected, gene name was entered in the next screen and “submit query” was clicked.

 

 

From: Nikolaus Schultz <nsch...@gmail.com>
Sent: Wednesday, 1 April 2026 12:40 PM
To: Field, Chani (Health) <Chani...@sa.gov.au>
Cc: cbiop...@googlegroups.com
Subject: Re: [cbioportal] cBioPortal user reported error

 

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