6407294 report - OSSR Reports

Repository Information

Repository Name: ossr-curation
Record ID: 6407294
Repository URL: https://gitlab.in2p3.fr/escape2020/wp3/ossr-curation
Tool Type: SoftwareSourceCode
Version: 1.0

Results

Indicator	generated by	evidence	Value	Run Status	Check passed
https://w3id.org/everse/i/indicators/codemeta_completeness	Codemeta Completeness Tool	Codemeta completeness = 24.3%, minimal threshold to consider this check to pass is set to 20.0%. Found ['codeRepository', 'programmingLanguage', 'author', 'dateCreated', 'dateModified', 'datePublished', 'funder', 'keywords', 'license', 'version', 'isPartOf', 'description', 'name', 'name', 'contIntegration', 'developmentStatus', 'funding', 'issueTracker'] keys in codemeta file.	0.24324324324324326	✅	✅
https://w3id.org/everse/i/indicators/codemeta_completeness	Codemeta Completeness Tool	Codemeta completeness = 24.3%, minimal threshold to consider this check to pass is set to 50.0%. Found ['codeRepository', 'programmingLanguage', 'author', 'dateCreated', 'dateModified', 'datePublished', 'funder', 'keywords', 'license', 'version', 'isPartOf', 'description', 'name', 'name', 'contIntegration', 'developmentStatus', 'funding', 'issueTracker'] keys in codemeta file.	0.24324324324324326	✅	❌
https://w3id.org/everse/i/indicators/doi_presence	SOMEF	DOI not found in SOMEF output. Confidence: 0.0%		⚠️	❌
https://w3id.org/everse/i/indicators/codemeta_discrepancy	SOMEF, Codemeta Completeness Tool	Comparison value: 0.7205882352941176, Threshold: 0.5, Status: True	0.7205882352941176	⚠️	✅

Results Output

https://w3id.org/everse/i/indicators/codemeta_completeness

Status: CompletedActionStatus
Value: 0.24
Evidence: Codemeta completeness = 24.3%, minimal threshold to consider this check to pass is set to 20.0%. Found ['codeRepository', 'programmingLanguage', 'author', 'dateCreated', 'dateModified', 'datePublished', 'funder', 'keywords', 'license', 'version', 'isPartOf', 'description', 'name', 'name', 'contIntegration', 'developmentStatus', 'funding', 'issueTracker'] keys in codemeta file.
Output:

{"pass": true, "value": 0.24324324324324326, "codemeta_dict": {"@context": "https://doi.org/10.5063/schema/codemeta-2.0", "@type": "SoftwareSourceCode", "license": "https://spdx.org/licenses/MIT", "codeRepository": "git+https://gitlab.in2p3.fr/escape2020/wp3/ossr-curation.git", "contIntegration": "https://gitlab.in2p3.fr/escape2020/wp3/ossr-curation/-/pipelines", "dateCreated": "2021-11-27", "datePublished": "2021-04-01", "dateModified": "2021-04-01", "issueTracker": "https://gitlab.in2p3.fr/escape2020/wp3/ossr-curation/-/issues", "name": "ossr-curation", "version": "1.0", "description": "Open curation for the ESCAPE OSSR using gitlab merge requests.", "funding": "ESCAPE 824064", "developmentStatus": "active", "isPartOf": "https://projectescape.eu/", "funder": {"@type": "Organization", "name": "European Union's Horizon 2020 research and innovation programme"}, "keywords": ["ESCAPE", "Zenodo"], "programmingLanguage": ["Python 3"], "author": [{"@type": "Person", "@id": "https://orcid.org/ 0000-0002-5686-2078", "givenName": "Thomas", "familyName": "Vuillaume", "email": "thomas.vuillaume@lapp.in2p3.fr", "affiliation": {"@type": "Organization", "name": "Univ. Savoie Mont-Blanc, CNRS, LAPP"}}]}, "threshold": 0.2}

https://w3id.org/everse/i/indicators/codemeta_completeness

Status: CompletedActionStatus
Value: 0.24
Evidence: Codemeta completeness = 24.3%, minimal threshold to consider this check to pass is set to 50.0%. Found ['codeRepository', 'programmingLanguage', 'author', 'dateCreated', 'dateModified', 'datePublished', 'funder', 'keywords', 'license', 'version', 'isPartOf', 'description', 'name', 'name', 'contIntegration', 'developmentStatus', 'funding', 'issueTracker'] keys in codemeta file.
Output:

{"pass": false, "value": 0.24324324324324326, "codemeta_dict": {"@context": "https://doi.org/10.5063/schema/codemeta-2.0", "@type": "SoftwareSourceCode", "license": "https://spdx.org/licenses/MIT", "codeRepository": "git+https://gitlab.in2p3.fr/escape2020/wp3/ossr-curation.git", "contIntegration": "https://gitlab.in2p3.fr/escape2020/wp3/ossr-curation/-/pipelines", "dateCreated": "2021-11-27", "datePublished": "2021-04-01", "dateModified": "2021-04-01", "issueTracker": "https://gitlab.in2p3.fr/escape2020/wp3/ossr-curation/-/issues", "name": "ossr-curation", "version": "1.0", "description": "Open curation for the ESCAPE OSSR using gitlab merge requests.", "funding": "ESCAPE 824064", "developmentStatus": "active", "isPartOf": "https://projectescape.eu/", "funder": {"@type": "Organization", "name": "European Union's Horizon 2020 research and innovation programme"}, "keywords": ["ESCAPE", "Zenodo"], "programmingLanguage": ["Python 3"], "author": [{"@type": "Person", "@id": "https://orcid.org/ 0000-0002-5686-2078", "givenName": "Thomas", "familyName": "Vuillaume", "email": "thomas.vuillaume@lapp.in2p3.fr", "affiliation": {"@type": "Organization", "name": "Univ. Savoie Mont-Blanc, CNRS, LAPP"}}]}, "threshold": 0.5}

https://w3id.org/everse/i/indicators/codemeta_discrepancy

Status: PotentialActionStatus
Value: 0.72
Evidence: Comparison value: 0.7205882352941176, Threshold: 0.5, Status: True
Output:

{"pass": true, "value": 0.7205882352941176, "threshold": 0.5, "results": {"completeness_1": 0.24324324324324326, "codemeta_version_1": "codemeta-2.0", "codemeta_version_2": "codemeta-3.0", "completeness_2": 0.24324324324324326, "missing_keys_1": ["runtimePlatform", "targetProduct", "applicationCategory", "applicationSubCategory", "downloadUrl", "fileSize", "installUrl", "memoryRequirements", "operatingSystem", "permissions", "processorRequirements", "releaseNotes", "softwareHelp", "softwareRequirements", "softwareVersion", "storageRequirements", "supportingData", "citation", "contributor", "copyrightHolder", "copyrightYear", "editor", "encoding", "fileFormat", "producer", "provider", "publisher", "sponsor", "isAccessibleForFree", "hasPart", "position", "identifier", "sameAs", "url", "relatedLink", "givenName", "familyName", "email", "affiliation", "identifier", "address", "", "", "softwareSuggestions", "maintainer", "buildInstructions", "embargoDate", "referencePublication", "readme", "creator", "", "", "", "endDate", "roleName", "startDate"], "missing_keys_2": ["runtimePlatform", "targetProduct", "applicationCategory", "applicationSubCategory", "fileSize", "installUrl", "memoryRequirements", "operatingSystem", "permissions", "processorRequirements", "softwareHelp", "storageRequirements", "supportingData", "citation", "contributor", "copyrightHolder", "copyrightYear", "editor", "encoding", "fileFormat", "funder", "producer", "provider", "publisher", "sponsor", "version", "isAccessibleForFree", "isPartOf", "hasPart", "position", "identifier", "sameAs", "url", "relatedLink", "givenName", "familyName", "email", "affiliation", "identifier", "address", "", "", "softwareSuggestions", "maintainer", "buildInstructions", "developmentStatus", "embargoEndDate", "funding", "referencePublication", "creator", "review", "reviewAspect", "reviewBody", "endDate", "roleName", "startDate"], "existing_keys_1": ["codeRepository", "programmingLanguage", "author", "dateCreated", "dateModified", "datePublished", "funder", "keywords", "license", "version", "isPartOf", "description", "name", "name", "contIntegration", "developmentStatus", "funding", "issueTracker"], "existing_keys_2": ["codeRepository", "programmingLanguage", "downloadUrl", "releaseNotes", "softwareRequirements", "softwareVersion", "author", "dateCreated", "dateModified", "datePublished", "keywords", "license", "description", "name", "name", "continuousIntegration", "issueTracker", "readme"], "differences": {"codeRepository": {"value_in_1": "git+https://gitlab.in2p3.fr/escape2020/wp3/ossr-curation.git", "value_in_2": "https://gitlab.in2p3.fr/escape2020/wp3/ossr-curation/"}, "downloadUrl": {"value_in_1": null, "value_in_2": "https://gitlab.in2p3.fr/escape2020/wp3/ossr-curation/-/branches"}, "releaseNotes": {"value_in_1": null, "value_in_2": "First release of the OSSR curation.\n\nThis implementation includes:\n\n* automated merge requests opened when a record requests to be added to the OSSR, under the escape2020 community\n* check the validity of the record and metadata implemented in `codemeta.json`"}, "softwareRequirements": {"value_in_1": null, "value_in_2": [{"name": "eossr", "version": ">=1.0"}, {"name": "python-gitlab", "version": ">=2.10.1"}]}, "softwareVersion": {"value_in_1": null, "value_in_2": "v1.0"}, "author": {"value_in_1": [{"@type": "Person", "@id": "https://orcid.org/ 0000-0002-5686-2078", "givenName": "Thomas", "familyName": "Vuillaume", "email": "thomas.vuillaume@lapp.in2p3.fr", "affiliation": {"@type": "Organization", "name": "Univ. Savoie Mont-Blanc, CNRS, LAPP"}}], "value_in_2": [{"@type": "Person", "email": "vuillaume@lapp.in2p3.fr", "name": null}]}, "dateModified": {"value_in_1": "2021-04-01", "value_in_2": "2023-01-18"}, "datePublished": {"value_in_1": "2021-04-01", "value_in_2": "2022-04-02"}, "funder": {"value_in_1": {"@type": "Organization", "name": "European Union's Horizon 2020 research and innovation programme"}, "value_in_2": null}, "keywords": {"value_in_1": ["ESCAPE", "Zenodo"], "value_in_2": "ESCAPE, Zenodo, ossr"}, "license": {"value_in_1": "https://spdx.org/licenses/MIT", "value_in_2": {"name": "MIT License", "url": "https://gitlab.in2p3.fr/escape2020/wp3/ossr-curation/-/raw/master/LICENSE", "identifier": "https://spdx.org/licenses/MIT", "spdx_id": "https://spdx.org/licenses/MIT"}}, "version": {"value_in_1": "1.0", "value_in_2": null}, "isPartOf": {"value_in_1": "https://projectescape.eu/", "value_in_2": null}, "description": {"value_in_1": "Open curation for the ESCAPE OSSR using gitlab merge requests.", "value_in_2": ["Open curation for the ESCAPE OSSR using gitlab merge requests."]}, "contIntegration": {"value_in_1": "https://gitlab.in2p3.fr/escape2020/wp3/ossr-curation/-/pipelines", "value_in_2": null}, "developmentStatus": {"value_in_1": "active", "value_in_2": null}, "funding": {"value_in_1": "ESCAPE 824064", "value_in_2": null}, "issueTracker": {"value_in_1": "https://gitlab.in2p3.fr/escape2020/wp3/ossr-curation/-/issues", "value_in_2": "https://gitlab.in2p3.fr/escape2020/wp3/ossr-curation//issues"}, "readme": {"value_in_1": null, "value_in_2": "https://gitlab.in2p3.fr/escape2020/wp3/ossr-curation/-/blob/master/README.md"}}, "equivalences": {"programmingLanguage": ["Python 3"], "runtimePlatform": null, "targetProduct": null, "applicationCategory": null, "applicationSubCategory": null, "fileSize": null, "installUrl": null, "memoryRequirements": null, "operatingSystem": null, "permissions": null, "processorRequirements": null, "softwareHelp": null, "storageRequirements": null, "supportingData": null, "citation": null, "contributor": null, "copyrightHolder": null, "copyrightYear": null, "dateCreated": "2021-11-27", "editor": null, "encoding": null, "fileFormat": null, "producer": null, "provider": null, "publisher": null, "sponsor": null, "isAccessibleForFree": null, "hasPart": null, "position": null, "identifier": null, "name": "ossr-curation", "sameAs": null, "url": null, "relatedLink": null, "givenName": null, "familyName": null, "email": null, "affiliation": null, "address": null, "": null, "softwareSuggestions": null, "maintainer": null, "buildInstructions": null, "embargoDate": null, "referencePublication": null, "creator": null, "endDate": null, "roleName": null, "startDate": null}}}

Logs

Log File: docs/records/6407294/6407294_codemeta_completeness_tool_log.txt

2026-03-05 11:00:36,998 codemeta_completeness_tool.py:72 INFO [codemeta completeness tool] Running Codemeta Completeness Tool on record ID: 6407294

Log File: docs/records/6407294/6407294_somef_log.txt

2026-03-05 11:00:25,832 somef_tool.py:140 INFO Running SOMEF on repository: https://gitlab.in2p3.fr/escape2020/wp3/ossr-curation
2026-03-05 11:00:36,996 somef_utils.py:43 INFO SOftware Metadata Extraction Framework (SOMEF) Command Line Interface
CODEMETA PARSER - Processing file: /tmp/tmpk8rnrphh/repo/ossr-curation-master-e31194553410ffa2c7a32b0699602e794a31b272/codemeta.json
CODEMETA PARSER - Source: https:///escape2020/wp3/ossr-curation/-/blob/master/codemeta.json
Saving json data to docs/records/6407294/6407294_somef.json
Success

2026-03-05 11:00:36,996 somef_utils.py:45 ERROR 05-Mar-26 11:00:32-DEBUG-Starting new HTTPS connection (1): gitlab.in2p3.fr:443
05-Mar-26 11:00:32-DEBUG-https://gitlab.in2p3.fr:443 "GET /api/v4/projects HTTP/1.1" 200 None
05-Mar-26 11:00:32-INFO-gitlab.in2p3.fr is GitLab.
05-Mar-26 11:00:32-INFO-Loading Repository https://gitlab.in2p3.fr/escape2020/wp3/ossr-curation Information....
05-Mar-26 11:00:32-INFO-Downloading https://gitlab.in2p3.fr/api/v4/projects/escape2020%2Fwp3%2Fossr-curation
05-Mar-26 11:00:32-DEBUG-Starting new HTTPS connection (1): gitlab.in2p3.fr:443
05-Mar-26 11:00:33-DEBUG-https://gitlab.in2p3.fr:443 "GET /api/v4/projects/escape2020%2Fwp3%2Fossr-curation HTTP/1.1" 200 None
05-Mar-26 11:00:33-INFO-Project_id: 15136
05-Mar-26 11:00:33-INFO-Downloading https://gitlab.in2p3.fr/api/v4/projects/15136
05-Mar-26 11:00:33-DEBUG-Starting new HTTPS connection (1): gitlab.in2p3.fr:443
05-Mar-26 11:00:33-DEBUG-https://gitlab.in2p3.fr:443 "GET /api/v4/projects/15136 HTTP/1.1" 200 None
05-Mar-26 11:00:33-INFO-Getting releases from: https://gitlab.in2p3.fr/api/v4/projects/15136/releases?page=1&per_page=100
05-Mar-26 11:00:33-DEBUG-Starting new HTTPS connection (1): gitlab.in2p3.fr:443
05-Mar-26 11:00:34-DEBUG-https://gitlab.in2p3.fr:443 "GET /api/v4/projects/15136/releases?page=1&per_page=100 HTTP/1.1" 200 None
05-Mar-26 11:00:34-INFO-Response: 200
05-Mar-26 11:00:34-DEBUG-Starting new HTTPS connection (1): gitlab.in2p3.fr:443
05-Mar-26 11:00:34-DEBUG-https://gitlab.in2p3.fr:443 "GET /escape2020/wp3/ossr-curation/-/raw/master/LICENSE HTTP/1.1" 200 None
05-Mar-26 11:00:34-INFO-Repository information successfully loaded. 

05-Mar-26 11:00:34-INFO-Downloading https://gitlab.in2p3.fr/escape2020/wp3/ossr-curation/-/archive/master/ossr-curation.zip
05-Mar-26 11:00:34-DEBUG-Starting new HTTPS connection (1): gitlab.in2p3.fr:443
05-Mar-26 11:00:35-DEBUG-https://gitlab.in2p3.fr:443 "GET /escape2020/wp3/ossr-curation/-/archive/master/ossr-curation.zip HTTP/1.1" 200 None
05-Mar-26 11:00:35-INFO-############### Processing package file: requirements.txt ############### 
05-Mar-26 11:00:35-INFO-############### Processing package file: setup.py ############### 
05-Mar-26 11:00:35-ERROR-Tried to add a result without value or type. Discarding it ...
05-Mar-26 11:00:35-INFO-Extracting information using headers
/builds/escape-ossr/rs_quality_checks/.venv/lib/python3.11/site-packages/somef/header_analysis.py:112: FutureWarning: A value is trying to be set on a copy of a DataFrame or Series through chained assignment using an inplace method.
The behavior will change in pandas 3.0. This inplace method will never work because the intermediate object on which we are setting values always behaves as a copy.

For example, when doing 'df[col].method(value, inplace=True)', try using 'df.method({col: value}, inplace=True)' or df[col] = df[col].method(value) instead, to perform the operation inplace on the original object.


  df['Content'].replace('', np.nan, inplace=True)
05-Mar-26 11:00:35-INFO-Labeling headers.
/builds/escape-ossr/rs_quality_checks/.venv/lib/python3.11/site-packages/somef/header_analysis.py:224: FutureWarning: ChainedAssignmentError: behaviour will change in pandas 3.0!
You are setting values through chained assignment. Currently this works in certain cases, but when using Copy-on-Write (which will become the default behaviour in pandas 3.0) this will never work to update the original DataFrame or Series, because the intermediate object on which we are setting values will behave as a copy.
A typical example is when you are setting values in a column of a DataFrame, like:

df["col"][row_indexer] = value

Use `df.loc[row_indexer, "col"] = values` instead, to perform the assignment in a single step and ensure this keeps updating the original `df`.

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy

  data['Group'].iloc[0] = ['unknown']
/builds/escape-ossr/rs_quality_checks/.venv/lib/python3.11/site-packages/somef/header_analysis.py:230: FutureWarning: ChainedAssignmentError: behaviour will change in pandas 3.0!
You are setting values through chained assignment. Currently this works in certain cases, but when using Copy-on-Write (which will become the default behaviour in pandas 3.0) this will never work to update the original DataFrame or Series, because the intermediate object on which we are setting values will behave as a copy.
A typical example is when you are setting values in a column of a DataFrame, like:

df["col"][row_indexer] = value

Use `df.loc[row_indexer, "col"] = values` instead, to perform the assignment in a single step and ensure this keeps updating the original `df`.

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy

  data['Group'].iloc[0] = np.NaN
05-Mar-26 11:00:35-INFO-Header information extracted.
05-Mar-26 11:00:35-INFO-Splitting text into valid excerpts for classification
05-Mar-26 11:00:35-INFO-Extraction of bibtex citation from readme completed. 

05-Mar-26 11:00:35-INFO-Text Successfully split.
05-Mar-26 11:00:35-INFO-Classifying excerpts for the category description
05-Mar-26 11:00:35-INFO-Checking thresholds for classified excerpts.
05-Mar-26 11:00:35-INFO-All excerpts below the threshold have been removed.
05-Mar-26 11:00:35-DEBUG-Starting new HTTPS connection (1): gitlab.in2p3.fr:443
05-Mar-26 11:00:36-DEBUG-https://gitlab.in2p3.fr:443 "GET /escape2020/wp3/ossr-curation/wiki HTTP/1.1" 302 103
05-Mar-26 11:00:36-INFO-Completed extracting regular expressions

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