Study directory:
test_data/study_es_0/
For details, please see the documentation on file formats supported by cBioPortal
cBioPortal version unknown -- offline instance
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Reading portal information from test_data/api_json_system_tests/cancer-types.json | – | |
Debug | – | – | Reading portal information from test_data/api_json_system_tests/genes.json | – | |
Debug | – | – | Reading portal information from test_data/api_json_system_tests/genesets.json | – | |
Debug | – | – | Reading portal information from test_data/api_json_system_tests/genesets_version.json | – | |
Debug | – | – | Reading portal information from test_data/api_json_system_tests/gene-panels.json | – | |
Debug | – | – | Reading portal information from test_data/api_json_system_tests/genesaliases.json | – | |
Debug | – | – | Retrieving chromosome lengths from '/cbioportal/core/src/main/resources/scripts/importer/chromosome_sizes.json' | – | |
Debug | – | – | Retrieving chromosome lengths from '/cbioportal/core/src/main/resources/scripts/importer/chromosome_sizes.json' | – | |
Debug | – | – | Study Tag file found. It will be validated. | – | |
Debug | – | – | Validating case lists | – | |
Info | – | – | Validation of case list folder complete | – | |
Info | – | – | Validation complete | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of meta file | – | |
Info | – | – | Validation of meta file complete | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of meta file | – | |
Info | – | – | Validation of meta file complete | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of meta file | – | |
Info | – | – | Validation of meta file complete | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of meta file | – | |
Info | – | – | Validation of meta file complete | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of meta file | – | |
Info | – | – | Validation of meta file complete | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of file | – | |
Info | – | – | Validation of file complete | – | |
Info | – | – | Read 1 lines. Lines with warning: 0. Lines with error: 0 | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of file | – | |
Info | – | – | Validation of file complete | – | |
Info | – | – | Read 846 lines. Lines with warning: 0. Lines with error: 0 | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of file | – | |
Info | – | – | Validation of file complete | – | |
Info | – | – | Read 850 lines. Lines with warning: 0. Lines with error: 0 | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of file | – | |
Info | 154, 155, 844… | 6 | Values contained in the column cbp_driver_tiers that will appear in the "Mutation Color" menu of the Oncoprint | Class 2, Class 1 |
See all 4 values
|
Info | – | – | Validation of file complete | – | |
Info | – | – | Read 6305 lines. Lines with warning: 0. Lines with error: 0 | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of file | – | |
Info | – | – | Validation of file complete | – | |
Info | – | – | Read 10 lines. Lines with warning: 0. Lines with error: 0 | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of file | – | |
Info | – | – | Validation of file complete | – | |
Info | – | – | Read 8 lines. Lines with warning: 0. Lines with error: 0 | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of file | – | |
Info | – | – | Validation of file complete | – | |
Info | – | – | Read 7 lines. Lines with warning: 0. Lines with error: 0 | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of file | – | |
Info | – | – | Validation of file complete | – | |
Info | – | – | Read 6 lines. Lines with warning: 0. Lines with error: 0 | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of file | – | |
Info | 1 | – | This column can be replaced by a 'gene_panel' property in the respective meta file | gistic | |
Info | – | – | Validation of file complete | – | |
Info | – | – | Read 21 lines. Lines with warning: 0. Lines with error: 0 | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of file | – | |
Info | – | – | Validation of file complete | – | |
Info | – | – | Read 3 lines. Lines with warning: 0. Lines with error: 0 | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of file | – | |
Info | – | – | Validation of file complete | – | |
Info | – | – | Read 12 lines. Lines with warning: 0. Lines with error: 0 | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of file | – | |
Info | – | – | Validation of file complete | – | |
Info | – | – | Read 8 lines. Lines with warning: 0. Lines with error: 0 | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of file | – | |
Info | – | – | Validation of file complete | – | |
Info | – | – | Read 8 lines. Lines with warning: 0. Lines with error: 0 | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of file | – | |
Info | – | – | Validation of file complete | – | |
Info | – | – | Read 9 lines. Lines with warning: 0. Lines with error: 0 | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of file | – | |
Info | – | – | Validation of file complete | – | |
Info | – | – | Read 61 lines. Lines with warning: 0. Lines with error: 0 | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of file | – | |
Info | 4, 5, 6… | 164 | Values contained in the column cbp_driver_tiers that will appear in the "Mutation Color" menu of the Oncoprint | Class 2, Class 1, Class 4… |
See all 11 values
|
Info | 7, 9 | – | Line will not be loaded due to the variant classification filter. Filtered types: [Silent, Intron, 3'UTR, 3'Flank, 5'UTR, 5'Flank, IGR, RNA] | Silent | |
Info | – | – | Validation of file complete | – | |
Info | – | – | Read 38 lines. Lines with warning: 0. Lines with error: 0 | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of file | – | |
Info | – | – | Validation of file complete | – | |
Info | – | – | Read 4 lines. Lines with warning: 0. Lines with error: 0 | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of file | – | |
Info | – | – | Validation of file complete | – | |
Info | – | – | Read 4 lines. Lines with warning: 0. Lines with error: 0 | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of file | – | |
Info | – | – | Validation of file complete | – | |
Info | – | – | Read 4 lines. Lines with warning: 0. Lines with error: 0 | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of file | – | |
Info | – | – | Validation of file complete | – | |
Info | – | – | Read 2 lines. Lines with warning: 0. Lines with error: 0 | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of file | – | |
Info | 48 | – | No Entrez gene id or gene symbol provided for site 2. Assuming either the intragenic, deletion, duplication, translocation or inversion variant | – | |
Info | 49 | – | No Entrez gene id or gene symbol provided for site 1. Assuming either the intragenic, deletion, duplication, translocation or inversion variant | – | |
Info | – | – | Validation of file complete | – | |
Info | – | – | Read 49 lines. Lines with warning: 0. Lines with error: 0 | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of file | – | |
Info | – | – | Validation of file complete | – | |
Info | – | – | Read 11 lines. Lines with warning: 0. Lines with error: 0 | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of file | – | |
Info | – | – | Validation of file complete | – | |
Info | – | – | Read 11 lines. Lines with warning: 0. Lines with error: 0 | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of meta file | – | |
Info | – | – | Validation of meta file complete | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of meta file | – | |
Info | – | – | Validation of meta file complete | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of meta file | – | |
Info | – | – | Validation of meta file complete | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of meta file | – | |
Info | – | – | Validation of meta file complete | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of meta file | – | |
Info | – | – | Validation of meta file complete | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of meta file | – | |
Info | – | – | Validation of meta file complete | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of meta file | – | |
Info | – | – | Validation of meta file complete | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of meta file | – | |
Info | – | – | Validation of meta file complete | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of meta file | – | |
Info | – | – | Validation of meta file complete | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of meta file | – | |
Info | – | – | Validation of meta file complete | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of meta file | – | |
Info | – | – | Validation of meta file complete | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of meta file | – | |
Info | – | – | Validation of meta file complete | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of meta file | – | |
Info | – | – | Validation of meta file complete | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of meta file | – | |
Info | – | – | Validation of meta file complete | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of meta file | – | |
Info | – | – | Validation of meta file complete | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of meta file | – | |
Info | – | – | Validation of meta file complete | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of meta file | – | |
Info | – | – | Validation of meta file complete | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of meta file | – | |
Info | – | – | Validation of meta file complete | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of meta file | – | |
Info | – | – | Validation of meta file complete | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of meta file | – | |
Info | – | – | Validation of meta file complete | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of meta file | – | |
Info | – | – | Validation of meta file complete | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of meta file | – | |
Info | – | – | Validation of meta file complete | – | |
Info | – | – | Setting reference genome to human (GRCh37, hg19) | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of meta file | – | |
Info | – | – | Validation of meta file complete | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of meta file | – | |
Info | – | – | Validation of meta file complete | – |
Line Number | Column Number | Message | Value Encountered | ||
---|---|---|---|---|---|
Debug | – | – | Starting validation of study tags file | – | |
Info | – | – | Validation of study tags file complete. | – |
Click on a filename below to see a table of messages about the data in the file. The colors in the tables have the following meanings:
Error | Error: cBioPortal will not know how to load this, please revise or remove |
Warning | Warning: possible cause of confusion, please check whether this is intended |
Info | Info: this looks good, no action required |
Debug | Verbose output: details on the progress of the validation script |