| 1 |
rule___100_100_100_01 |
ERROR |
There is a critical file parse error for i_Investigation.txt. |
Update i_Investigation.txt file considering error messages. |
| 2 |
rule___100_100_100_02 |
ERROR |
There is a file parse error for i_Investigation.txt. |
Update i_Investigation.txt file considering error messages. |
| 3 |
rule___100_100_100_03 |
WARNING |
There is a file parse warning for i_Investigation.txt. |
Update i_Investigation.txt file considering warning messages. |
| 4 |
rule___100_100_100_04 |
ERROR |
Investigation file name is not i_Investigation.txt |
Update investigation name as i_Investigation.txt |
| 5 |
rule___100_100_100_05 |
ERROR |
There is no parser information for i_Investigation.txt. |
Define i_Investigation.txt in parserMessages. |
| 6 |
rule___100_100_100_06 |
ERROR |
Unreferenced investigation files. |
Delete multiple investigation file within study folder. |
| 7 |
rule_i_100_100_001_01 |
WARNING |
Term Source Name length less than 2 characters in investigation file. |
Term Source Name should be defined with length equal or greater than 2 characters in the ONTOLOGY SOURCE REFERENCE section in i_Investigation.txt. |
| 8 |
rule_i_100_100_002_01 |
WARNING |
Term Source File length less than 2 characters in investigation file. |
Term Source File should be defined with length equal or greater than 2 characters in the ONTOLOGY SOURCE REFERENCE section in i_Investigation.txt. |
| 9 |
rule_i_100_300_001_01 |
ERROR |
No study referenced in investigation file. |
Only one study should be defined in i_Investigation.txt. |
| 10 |
rule_i_100_300_001_02 |
ERROR |
More than one study referenced in investigation file. |
Only one study should be defined in i_Investigation.txt. |
| 11 |
rule_i_100_300_002_01 |
ERROR |
Study Identifier not valid. |
Study Identifier should be valid format (e.g., MTBLS(positive_number) or REQ(datetime)). |
| 12 |
rule_i_100_300_003_01 |
ERROR |
Study Title length less than 25 characters. |
Study Title should be defined with length equal or greater than 25 characters. Please use same title as first publication. |
| 13 |
rule_i_100_300_003_02 |
ERROR |
Non-printable characters in Study Title. |
Study title should contain only printable characters. |
| 14 |
rule_i_100_300_003_03 |
ERROR |
Study Title contains only template message. |
Study title should be updated. Do not use template message 'Please update the study title'. |
| 15 |
rule_i_100_300_004_01 |
ERROR |
Study Description length less than 60 characters. |
Study Description should be defined with length equal or greater than 60 characters. Please use abstract of first publication. |
| 16 |
rule_i_100_300_004_02 |
ERROR |
Study abstract/description contains only template message. |
Study abstract/description should be updated. Do not use template message 'Please update the study abstract/description'. |
| 17 |
rule_i_100_300_004_03 |
ERROR |
Unexpected characters in Study Description. |
Study description should contain only printable characters. |
| 18 |
rule_i_100_300_005_01 |
WARNING |
Study Submission Date not valid. |
Study Submission Date should be valid date and ISO8601 format (e.g., 2023-01-01). |
| 19 |
rule_i_100_300_006_01 |
WARNING |
Study Public Release Date not valid. |
Study Public Release Date should be valid date and ISO8601 format (e.g., 2023-01-01). |
| 20 |
rule_i_100_310_001_01 |
ERROR |
There are less than 3 Study Design Descriptors in the Study Design Descriptors section of investigation file. |
At least 3 study design descriptors should be defined. |
| 21 |
rule_i_100_310_002_01 |
ERROR |
Study Design Type is empty. |
Study Design Type should be defined. |
| 22 |
rule_i_100_310_002_11 |
ERROR |
Value is not in the required ontologies or controlled lists associated with this field. |
A term MUST be selected from the required ontologies or controlled lists associated with this field. |
| 23 |
rule_i_100_310_002_12 |
WARNING |
Value is not in the predefined ontologies or controlled lists associated with this field. |
A term SHOULD be selected from the predefined ontologies or controlled lists associated with this field. |
| 24 |
rule_i_100_310_002_13 |
WARNING |
Value is not in the default ontologies or controlled lists |
A term SHOULD be selected from the default ontologies or controlled lists. |
| 25 |
rule_i_100_310_002_14 |
WARNING |
Study Design Type Term Source REF not referenced in investigation file. |
Study Design Type Term Source REFs should be referenced in the ONTOLOGY SOURCE REFERENCE section in i_Investigation.txt. |
| 26 |
rule_i_100_320_001_01 |
ERROR |
No study publications referenced in investigation file. |
At least one study publications must be defined in i_Investigation.txt. |
| 27 |
rule_i_100_320_003_01 |
ERROR |
DOI is required for published study publication. |
A study publication with status published should have valid DOI. |
| 28 |
rule_i_100_320_003_02 |
ERROR |
DOI format invalid for study publication. |
If DOI is defined, its format should be a valid. |
| 29 |
rule_i_100_320_004_02 |
ERROR |
PubMed ID format invalid for study publication. |
If PubMed ID is defined, its format should be valid PubMed ID. Valid PubMed ID contains only digits. |
| 30 |
rule_i_100_320_005_01 |
ERROR |
Study Publication Title length less than 20 characters. |
Study Publication Title must be defined with length equal or greater than 25 characters. |
| 31 |
rule_i_100_320_006_01 |
ERROR |
Study Publication Author List is empty. |
Study Publication Author List must be defined. |
| 32 |
rule_i_100_320_007_01 |
ERROR |
Study Publication Status Term is empty. |
Study Publication Status Term should be defined |
| 33 |
rule_i_100_320_007_11 |
ERROR |
Value is not in the required ontologies or controlled lists associated with this field. |
A term MUST be selected from the required ontologies or controlled lists associated with this field. |
| 34 |
rule_i_100_320_007_12 |
WARNING |
Value is not in the predefined ontologies or controlled lists associated with this field. |
A term SHOULD be selected from the predefined ontologies or controlled lists associated with this field. |
| 35 |
rule_i_100_320_007_13 |
WARNING |
Value is not in the default ontologies or controlled lists |
A term SHOULD be selected from the default ontologies or controlled lists. |
| 36 |
rule_i_100_320_007_14 |
WARNING |
Study Publication Status Term Source REF not referenced in investigation file. |
Study Publication Status Term Source REFs should be referenced in the ONTOLOGY SOURCE REFERENCE section in i_Investigation.txt. |
| 37 |
rule_i_100_330_001_01 |
ERROR |
No study factors referenced in investigation file. |
At least one study factors must be defined in i_Investigation.txt. |
| 38 |
rule_i_100_330_002_01 |
ERROR |
Study Factor Name is empty. |
Study Factor Name must be defined. |
| 39 |
rule_i_100_330_003_01 |
ERROR |
Study Factor Type Term Source REF is empty. |
Study Factor Type Term Source REF should be defined. |
| 40 |
rule_i_100_330_003_11 |
ERROR |
Value is not in the required ontologies or controlled lists associated with this field. |
A term MUST be selected from the required ontologies or controlled lists associated with this field. |
| 41 |
rule_i_100_330_003_12 |
WARNING |
Value is not in the predefined ontologies or controlled lists associated with this field. |
A term SHOULD be selected from the predefined ontologies or controlled lists associated with this field. |
| 42 |
rule_i_100_330_003_13 |
WARNING |
Value is not in the default ontologies or controlled lists |
A term SHOULD be selected from the default ontologies or controlled lists. |
| 43 |
rule_i_100_330_003_14 |
WARNING |
Study Factor Type Term Source REF is not referenced in investigation file. |
Study Factor Type Term Source REFs should be referenced in the ONTOLOGY SOURCE REFERENCE section in i_Investigation.txt. |
| 44 |
rule_i_100_340_001_01 |
ERROR |
No study assays referenced in investigation file. |
At least one study assays should be defined in i_Investigation.txt. |
| 45 |
rule_i_100_340_002_01 |
ERROR |
Study Assay File Name is empty in investigation file. |
Assay file name should be set for each study in i_Investigation.txt. |
| 46 |
rule_i_100_340_002_02 |
ERROR |
Study Assay File Name not correct pattern. |
Assay file name must start with 'a_' and have extension '.txt'. |
| 47 |
rule_i_100_340_002_03 |
ERROR |
There are invalid characters in assay file name. |
Use only .-_A-Za-z0-9 characters for an assay file name. |
| 48 |
rule_i_100_340_002_04 |
ERROR |
Study Assay File Name must be unique. |
Assay file name must be unique for each study in i_Investigation.txt. |
| 49 |
rule_i_100_340_003_01 |
ERROR |
Study Assay Measurement Type is empty. |
Study Assay Measurement Type should be defined. |
| 50 |
rule_i_100_340_003_11 |
ERROR |
Value is not in the required ontologies or controlled lists associated with this field. |
A term MUST be selected from the required ontologies or controlled lists associated with this field. |
| 51 |
rule_i_100_340_003_12 |
WARNING |
Value is not in the predefined ontologies or controlled lists associated with this field. |
A term SHOULD be selected from the predefined ontologies or controlled lists associated with this field. |
| 52 |
rule_i_100_340_003_13 |
WARNING |
Value is not in the default ontologies or controlled lists |
A term SHOULD be selected from the default ontologies or controlled lists. |
| 53 |
rule_i_100_340_003_14 |
ERROR |
Study Assay Measurement Type Term Source REF not referenced in investigation file. |
Study Assay Measurement Type Term Source REFs should be referenced in the ONTOLOGY SOURCE REFERENCE section in i_Investigation.txt. |
| 54 |
rule_i_100_340_006_01 |
ERROR |
Study Assay Technology Type is empty. |
Study Assay Technology Type should be defined. |
| 55 |
rule_i_100_340_006_11 |
ERROR |
Value is not in the required ontologies or controlled lists associated with this field. |
A term MUST be selected from the required ontologies or controlled lists associated with this field. |
| 56 |
rule_i_100_340_006_12 |
WARNING |
Value is not in the predefined ontologies or controlled lists associated with this field. |
A term SHOULD be selected from the predefined ontologies or controlled lists associated with this field. |
| 57 |
rule_i_100_340_006_13 |
WARNING |
Value is not in the default ontologies or controlled lists |
A term SHOULD be selected from the default ontologies or controlled lists. |
| 58 |
rule_i_100_340_006_14 |
ERROR |
Study Assay Technology Type Term Source REF not referenced in investigation file. |
Study Assay Technology Type Term Source REFs should be referenced in the ONTOLOGY SOURCE REFERENCE section in i_Investigation.txt. |
| 59 |
rule_i_100_340_009_01 |
ERROR |
Study Assay Technology Platform is empty. |
Study Assay Technology Platform should be defined. |
| 60 |
rule_i_100_350_001_01 |
ERROR |
No study protocols referenced in investigation file. |
At least one study protocols should be defined in i_Investigation.txt. |
| 61 |
rule_i_100_350_001_02 |
ERROR |
A study protocol is missing in investigation file. |
All study protocols should be defined considering assay technologies used in study. |
| 62 |
rule_i_100_350_002_01 |
ERROR |
Study Protocol Name length less than 3 characters. |
Study Protocol Name should be defined with length equal or greater than 3 characters. |
| 63 |
rule_i_100_350_002_02 |
ERROR |
Study Protocol Name must be unique. |
Study Protocol Name must be unique for each study in i_Investigation.txt. |
| 64 |
rule_i_100_350_003_01 |
ERROR |
Study Protocol Description length less than 40 characters. |
Study Protocol Description should be defined with length equal or greater than 40 characters. |
| 65 |
rule_i_100_350_003_02 |
ERROR |
Non-printable characters in Study Protocol Description. |
Study Protocol Description should contain only printable characters. |
| 66 |
rule_i_100_350_003_03 |
ERROR |
Study Protocol Description contains only template message. |
Study Protocol Description should be updated. Do not use template message. |
| 67 |
rule_i_100_350_004_01 |
WARNING |
Study Protocol Type length less than 3 characters. |
Study Protocol Type should be defined with length equal or greater than 3 characters. |
| 68 |
rule_i_100_350_007_01 |
ERROR |
Study protocol parameter is missing for a study protocol. |
All default study protocol parameters should be defined for study protocol. |
| 69 |
rule_i_100_350_008_01 |
ERROR |
Study Protocol Parameters Name length less than 3 characters. |
Study protocol parameters name should be defined with length equal or greater than 3 characters. |
| 70 |
rule_i_100_360_001_01 |
ERROR |
No study contacts referenced in investigation file. |
At least one study contacts should be defined in i_Investigation.txt. |
| 71 |
rule_i_100_360_002_01 |
ERROR |
Study Person First Name length less than 2 characters. |
Study Person First Name should be defined with length equal or greater than 2 characters. |
| 72 |
rule_i_100_360_003_01 |
ERROR |
Study Person Last Name length less than 2 characters. |
Study Person Last Name should be defined with length equal or greater than 2 characters. |
| 73 |
rule_i_100_360_004_01 |
ERROR |
Study contacts have no email address. |
At least one study contact must have an email address. |
| 74 |
rule_i_100_360_004_02 |
ERROR |
Study Person Email not valid. |
Study Person Email must have valid format. |
| 75 |
rule_i_100_360_006_01 |
ERROR |
Study Person affiliation length is less than 10 characters. |
Define full name of contact's primary affiliation. e.g. European Bioinformatics Institute |
| 76 |
rule_i_100_360_007_01 |
ERROR |
Study Person Roles is empty. |
At least one role should be defined for a study contact. |
| 77 |
rule_i_100_360_008_01 |
WARNING |
Study Person Role value is empty. |
Study Person Role should be defined. |
| 78 |
rule_i_100_360_008_11 |
ERROR |
Value is not in the required ontologies or controlled lists associated with this field. |
A term MUST be selected from the required ontologies or controlled lists associated with this field. |
| 79 |
rule_i_100_360_008_12 |
WARNING |
Value is not in the predefined ontologies or controlled lists associated with this field. |
A term SHOULD be selected from the predefined ontologies or controlled lists associated with this field. |
| 80 |
rule_i_100_360_008_13 |
WARNING |
Value is not in the default ontologies or controlled lists |
A term SHOULD be selected from the default ontologies or controlled lists. |
| 81 |
rule_i_100_360_008_14 |
WARNING |
Study Person Roles Term Source REF not referenced in investigation file. |
Study Person Roles Term Source REFs should be referenced in the ONTOLOGY SOURCE REFERENCE section in i_Investigation.txt. |
| 82 |
rule_i_100_360_010_03 |
WARNING |
Study Person Roles Term Source REF is empty. |
Study Person Roles Term Source REF should be defined. |
| 83 |
rule_i_100_360_011_01 |
ERROR |
There is no study contact with Principal Investigator role. |
At least one study contact must have Principal Investigator role. |
| 84 |
rule_i_100_360_011_02 |
ERROR |
Principal Investigator contact details not defined. |
Principal Investigator first name, last name, affiliation, and email must be defined. |
| 85 |
rule_i_100_360_011_03 |
ERROR |
Study Person Affiliation ROR ID is not valid. |
Study Person ROR ID must have valid format. e.g., https://ror.org/02catss52 . If your affiliation ROR ID is not defined, you may provide wikidata URL of your primary affiliation. e.g., https://www.wikidata.org/wiki/Q1341845 |
| 86 |
rule_i_100_360_011_04 |
ERROR |
Study Person ORCID is not valid. |
Study Person ORCID must have valid format. |
| 87 |
rule_i_100_360_011_05 |
ERROR |
Study Person Additional Email Address is not valid. |
Study Person Additional Email Address must have valid format. |
| 88 |
rule_i_100_360_011_06 |
WARNING |
Study Person ORCID is not defined for principal investigator. |
Study Person ORCID is not defined for principal investigator. |
| 89 |
rule_i_100_360_011_07 |
WARNING |
Study Person Affiliation ROR ID is not defined for principal investigator. |
Study Person Affiliation ROR ID is not defined for principal investigator. |
| 90 |
rule_i_200_900_001_01 |
WARNING |
Ontology terms are not validated on ontology search service (e.g. OLS). |
Ensure ontology terms are valid and accessible on ontology search service. |