10977609 report - OSSR Reports

Repository Information

Repository Name: AMIGA-IAA/hcg-16: Updated Binder configuration
Record ID: 10977609
Repository URL: https://github.com/AMIGA-IAA/hcg-16
Tool Type: SoftwareSourceCode
Version: 1.2.1

Results

Indicator	generated by	evidence	Value	Run Status	Check passed
https://w3id.org/everse/i/indicators/codemeta_completeness	Codemeta Completeness Tool	Codemeta completeness = 37.8%, minimal threshold to consider this check to pass is set to 20.0%. Found ['codeRepository', 'programmingLanguage', 'runtimePlatform', 'applicationCategory', 'downloadUrl', 'operatingSystem', 'softwareRequirements', 'softwareVersion', 'author', 'contributor', 'dateCreated', 'dateModified', 'datePublished', 'funder', 'keywords', 'license', 'version', 'description', 'identifier', 'name', 'relatedLink', 'identifier', 'name', 'maintainer', 'developmentStatus', 'issueTracker', 'referencePublication', 'readme'] keys in codemeta file.	0.3783783783783784	✅	✅
https://w3id.org/everse/i/indicators/codemeta_completeness	Codemeta Completeness Tool	Codemeta completeness = 37.8%, minimal threshold to consider this check to pass is set to 50.0%. Found ['codeRepository', 'programmingLanguage', 'runtimePlatform', 'applicationCategory', 'downloadUrl', 'operatingSystem', 'softwareRequirements', 'softwareVersion', 'author', 'contributor', 'dateCreated', 'dateModified', 'datePublished', 'funder', 'keywords', 'license', 'version', 'description', 'identifier', 'name', 'relatedLink', 'identifier', 'name', 'maintainer', 'developmentStatus', 'issueTracker', 'referencePublication', 'readme'] keys in codemeta file.	0.3783783783783784	✅	❌
https://w3id.org/everse/i/indicators/doi_presence	SOMEF	Found DOI: https://zenodo.org/doi/10.5281/zenodo.5534681 with confidence 100.0% from source https://raw.githubusercontent.com/AMIGA-IAA/hcg-16/master/codemeta.json	https://zenodo.org/doi/10.5281/zenodo.5534681	⚠️	✅
https://w3id.org/everse/i/indicators/codemeta_discrepancy	SOMEF, Codemeta Completeness Tool	Comparison value: 0.6617647058823529, Threshold: 0.5, Status: True	0.6617647058823529	⚠️	✅

Results Output

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

Status: CompletedActionStatus
Value: 0.38
Evidence: Codemeta completeness = 37.8%, minimal threshold to consider this check to pass is set to 20.0%. Found ['codeRepository', 'programmingLanguage', 'runtimePlatform', 'applicationCategory', 'downloadUrl', 'operatingSystem', 'softwareRequirements', 'softwareVersion', 'author', 'contributor', 'dateCreated', 'dateModified', 'datePublished', 'funder', 'keywords', 'license', 'version', 'description', 'identifier', 'name', 'relatedLink', 'identifier', 'name', 'maintainer', 'developmentStatus', 'issueTracker', 'referencePublication', 'readme'] keys in codemeta file.
Output:

{"pass": true, "value": 0.3783783783783784, "codemeta_dict": {"@context": "https://doi.org/10.5063/schema/codemeta-2.0", "@type": "SoftwareSourceCode", "license": "https://spdx.org/licenses/MIT", "codeRepository": "git+https://github.com/AMIGA-IAA/hcg-16.git", "dateCreated": "2019-10-09", "datePublished": "2019-10-09", "dateModified": "2021-09-28", "downloadUrl": "https://github.com/AMIGA-IAA/hcg-16/releases/tag/v1.2.1", "issueTracker": "https://github.com/AMIGA-IAA/hcg-16/issues", "name": "Pipeline for HCG-16 Project", "version": "1.2.1", "identifier": "https://zenodo.org/doi/10.5281/zenodo.5534681", "description": "This repository hosts a pipeline to reproduce the data reduction and analysis of Jones et al. 2019.", "applicationCategory": "Astronomy", "developmentStatus": "inactive", "referencePublication": "https://doi.org/10.1051/0004-6361/201936349", "readme": "https://github.com/AMIGA-IAA/hcg-16/blob/master/README.md", "softwareVersion": "1.2.1", "funder": {"@type": "Organization", "name": "MINECO, FEDER"}, "keywords": ["Astronomy", "Galaxies", "Galaxy Groups", "Radio Interferometry", "VLA", "HCG16", "HI line emission"], "programmingLanguage": ["Python"], "runtimePlatform": ["Python", "Docker"], "operatingSystem": ["Linux"], "softwareRequirements": ["https://github.com/AMIGA-IAA/hcg-16/blob/master/conda-linux-64.lock"], "relatedLink": ["https://ui.adsabs.harvard.edu/abs/2019A%26A...632A..78J/abstract"], "author": [{"@type": "Person", "@id": "https://orcid.org/0000-0002-5434-4904", "givenName": "Michael", "familyName": "Jones", "email": "jonesmg@arizona.edu", "affiliation": {"@type": "Organization", "name": "University of Arizona"}}, {"@type": "Person", "@id": "https://orcid.org/0000-0002-3143-4798", "givenName": "Sebastian", "familyName": "Luna-Valero", "email": "sebastian.luna.valero@gmail.com", "affiliation": {"@type": "Organization", "name": "EGI Foundation"}}, {"@type": "Person", "givenName": "Julian", "familyName": "Garrido"}, {"@type": "Person", "givenName": "Susana", "familyName": "Sanchez"}], "contributor": [{"@type": "Person", "@id": "https://orcid.org/0000-0002-5434-4904", "givenName": "Michael", "familyName": "Jones", "email": "jonesmg@arizona.edu", "affiliation": {"@type": "Organization", "name": "University of Arizona"}}, {"@type": "Person", "@id": "https://orcid.org/0000-0002-3143-4798", "givenName": "Sebastian", "familyName": "Luna-Valero", "email": "sebastian.luna.valero@gmail.com", "affiliation": {"@type": "Organization", "name": "EGI Foundation"}}, {"@type": "Person", "givenName": "Julian", "familyName": "Garrido"}], "maintainer": [{"@type": "Person", "@id": "https://orcid.org/0000-0002-5434-4904", "givenName": "Michael", "familyName": "Jones", "email": "jonesmg@arizona.edu", "affiliation": {"@type": "Organization", "name": "University of Arizona"}}]}, "threshold": 0.2}

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

Status: CompletedActionStatus
Value: 0.38
Evidence: Codemeta completeness = 37.8%, minimal threshold to consider this check to pass is set to 50.0%. Found ['codeRepository', 'programmingLanguage', 'runtimePlatform', 'applicationCategory', 'downloadUrl', 'operatingSystem', 'softwareRequirements', 'softwareVersion', 'author', 'contributor', 'dateCreated', 'dateModified', 'datePublished', 'funder', 'keywords', 'license', 'version', 'description', 'identifier', 'name', 'relatedLink', 'identifier', 'name', 'maintainer', 'developmentStatus', 'issueTracker', 'referencePublication', 'readme'] keys in codemeta file.
Output:

{"pass": false, "value": 0.3783783783783784, "codemeta_dict": {"@context": "https://doi.org/10.5063/schema/codemeta-2.0", "@type": "SoftwareSourceCode", "license": "https://spdx.org/licenses/MIT", "codeRepository": "git+https://github.com/AMIGA-IAA/hcg-16.git", "dateCreated": "2019-10-09", "datePublished": "2019-10-09", "dateModified": "2021-09-28", "downloadUrl": "https://github.com/AMIGA-IAA/hcg-16/releases/tag/v1.2.1", "issueTracker": "https://github.com/AMIGA-IAA/hcg-16/issues", "name": "Pipeline for HCG-16 Project", "version": "1.2.1", "identifier": "https://zenodo.org/doi/10.5281/zenodo.5534681", "description": "This repository hosts a pipeline to reproduce the data reduction and analysis of Jones et al. 2019.", "applicationCategory": "Astronomy", "developmentStatus": "inactive", "referencePublication": "https://doi.org/10.1051/0004-6361/201936349", "readme": "https://github.com/AMIGA-IAA/hcg-16/blob/master/README.md", "softwareVersion": "1.2.1", "funder": {"@type": "Organization", "name": "MINECO, FEDER"}, "keywords": ["Astronomy", "Galaxies", "Galaxy Groups", "Radio Interferometry", "VLA", "HCG16", "HI line emission"], "programmingLanguage": ["Python"], "runtimePlatform": ["Python", "Docker"], "operatingSystem": ["Linux"], "softwareRequirements": ["https://github.com/AMIGA-IAA/hcg-16/blob/master/conda-linux-64.lock"], "relatedLink": ["https://ui.adsabs.harvard.edu/abs/2019A%26A...632A..78J/abstract"], "author": [{"@type": "Person", "@id": "https://orcid.org/0000-0002-5434-4904", "givenName": "Michael", "familyName": "Jones", "email": "jonesmg@arizona.edu", "affiliation": {"@type": "Organization", "name": "University of Arizona"}}, {"@type": "Person", "@id": "https://orcid.org/0000-0002-3143-4798", "givenName": "Sebastian", "familyName": "Luna-Valero", "email": "sebastian.luna.valero@gmail.com", "affiliation": {"@type": "Organization", "name": "EGI Foundation"}}, {"@type": "Person", "givenName": "Julian", "familyName": "Garrido"}, {"@type": "Person", "givenName": "Susana", "familyName": "Sanchez"}], "contributor": [{"@type": "Person", "@id": "https://orcid.org/0000-0002-5434-4904", "givenName": "Michael", "familyName": "Jones", "email": "jonesmg@arizona.edu", "affiliation": {"@type": "Organization", "name": "University of Arizona"}}, {"@type": "Person", "@id": "https://orcid.org/0000-0002-3143-4798", "givenName": "Sebastian", "familyName": "Luna-Valero", "email": "sebastian.luna.valero@gmail.com", "affiliation": {"@type": "Organization", "name": "EGI Foundation"}}, {"@type": "Person", "givenName": "Julian", "familyName": "Garrido"}], "maintainer": [{"@type": "Person", "@id": "https://orcid.org/0000-0002-5434-4904", "givenName": "Michael", "familyName": "Jones", "email": "jonesmg@arizona.edu", "affiliation": {"@type": "Organization", "name": "University of Arizona"}}]}, "threshold": 0.5}

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

Status: PotentialActionStatus
Value: 0.66
Evidence: Comparison value: 0.6617647058823529, Threshold: 0.5, Status: True
Output:

{"pass": true, "value": 0.6617647058823529, "threshold": 0.5, "results": {"completeness_1": 0.3783783783783784, "codemeta_version_1": "codemeta-2.0", "codemeta_version_2": "codemeta-3.0", "completeness_2": 0.25675675675675674, "missing_keys_1": ["targetProduct", "applicationSubCategory", "fileSize", "installUrl", "memoryRequirements", "permissions", "processorRequirements", "releaseNotes", "softwareHelp", "storageRequirements", "supportingData", "citation", "copyrightHolder", "copyrightYear", "editor", "encoding", "fileFormat", "producer", "provider", "publisher", "sponsor", "isAccessibleForFree", "isPartOf", "hasPart", "position", "sameAs", "url", "givenName", "familyName", "email", "affiliation", "address", "", "", "softwareSuggestions", "contIntegration", "buildInstructions", "embargoDate", "funding", "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", "sameAs", "url", "relatedLink", "givenName", "familyName", "email", "affiliation", "address", "", "", "softwareSuggestions", "maintainer", "continuousIntegration", "buildInstructions", "developmentStatus", "embargoEndDate", "funding", "referencePublication", "creator", "review", "reviewAspect", "reviewBody", "endDate", "roleName", "startDate"], "existing_keys_1": ["codeRepository", "programmingLanguage", "runtimePlatform", "applicationCategory", "downloadUrl", "operatingSystem", "softwareRequirements", "softwareVersion", "author", "contributor", "dateCreated", "dateModified", "datePublished", "funder", "keywords", "license", "version", "description", "identifier", "name", "relatedLink", "identifier", "name", "maintainer", "developmentStatus", "issueTracker", "referencePublication", "readme"], "existing_keys_2": ["codeRepository", "programmingLanguage", "downloadUrl", "releaseNotes", "softwareRequirements", "softwareVersion", "author", "dateCreated", "dateModified", "datePublished", "keywords", "license", "description", "identifier", "name", "identifier", "name", "issueTracker", "readme"], "differences": {"codeRepository": {"value_in_1": "git+https://github.com/AMIGA-IAA/hcg-16.git", "value_in_2": "https://github.com/AMIGA-IAA/hcg-16"}, "programmingLanguage": {"value_in_1": ["Python"], "value_in_2": ["Python", "Jupyter Notebook"]}, "runtimePlatform": {"value_in_1": ["Python", "Docker"], "value_in_2": null}, "applicationCategory": {"value_in_1": "Astronomy", "value_in_2": null}, "downloadUrl": {"value_in_1": "https://github.com/AMIGA-IAA/hcg-16/releases/tag/v1.2.1", "value_in_2": "https://github.com/AMIGA-IAA/hcg-16/releases"}, "operatingSystem": {"value_in_1": ["Linux"], "value_in_2": null}, "releaseNotes": {"value_in_1": null, "value_in_2": "Updated links in the README file.\r\n\r\nUpdated conda environment and lock file to solve issues."}, "softwareRequirements": {"value_in_1": ["https://github.com/AMIGA-IAA/hcg-16/blob/master/conda-linux-64.lock"], "value_in_2": ["https://github.com/AMIGA-IAA/hcg-16/blob/master/conda-linux-64.lock", "For the pipeline to execute succesfully it will require approximately 20 GB of free space. Approximately 10 GB will be used in the directory where the pipeline is executed, and about 9 GB will be used in `~/.udocker`."]}, "softwareVersion": {"value_in_1": "1.2.1", "value_in_2": "v1.2.3"}, "author": {"value_in_1": [{"@type": "Person", "@id": "https://orcid.org/0000-0002-5434-4904", "givenName": "Michael", "familyName": "Jones", "email": "jonesmg@arizona.edu", "affiliation": {"@type": "Organization", "name": "University of Arizona"}}, {"@type": "Person", "@id": "https://orcid.org/0000-0002-3143-4798", "givenName": "Sebastian", "familyName": "Luna-Valero", "email": "sebastian.luna.valero@gmail.com", "affiliation": {"@type": "Organization", "name": "EGI Foundation"}}, {"@type": "Person", "givenName": "Julian", "familyName": "Garrido"}, {"@type": "Person", "givenName": "Susana", "familyName": "Sanchez"}], "value_in_2": [{"@type": "Organization", "@id": "https://github.com/AMIGA-IAA"}, {"@type": "Person", "email": "jonesmg@arizona.edu", "name": null}, {"@type": "Person", "email": "sebastian.luna.valero@gmail.com", "name": null}, {"@type": "Person", "name": null}, {"@type": "Person", "name": null}]}, "contributor": {"value_in_1": [{"@type": "Person", "@id": "https://orcid.org/0000-0002-5434-4904", "givenName": "Michael", "familyName": "Jones", "email": "jonesmg@arizona.edu", "affiliation": {"@type": "Organization", "name": "University of Arizona"}}, {"@type": "Person", "@id": "https://orcid.org/0000-0002-3143-4798", "givenName": "Sebastian", "familyName": "Luna-Valero", "email": "sebastian.luna.valero@gmail.com", "affiliation": {"@type": "Organization", "name": "EGI Foundation"}}, {"@type": "Person", "givenName": "Julian", "familyName": "Garrido"}], "value_in_2": null}, "dateCreated": {"value_in_1": "2019-10-09", "value_in_2": "2019-02-19"}, "dateModified": {"value_in_1": "2021-09-28", "value_in_2": "2023-06-14"}, "funder": {"value_in_1": {"@type": "Organization", "name": "MINECO, FEDER"}, "value_in_2": null}, "license": {"value_in_1": "https://spdx.org/licenses/MIT", "value_in_2": {"name": "MIT License", "url": "https://raw.githubusercontent.com/AMIGA-IAA/hcg-16/master/LICENSE", "identifier": "https://spdx.org/licenses/MIT", "spdx_id": "MIT"}}, "version": {"value_in_1": "1.2.1", "value_in_2": null}, "description": {"value_in_1": "This repository hosts a pipeline to reproduce the data reduction and analysis of Jones et al. 2019.", "value_in_2": ["This repository hosts a pipeline to reproduce the data reduction and analysis of Jones et al. 2019."]}, "identifier": {"value_in_1": "https://zenodo.org/doi/10.5281/zenodo.5534681", "value_in_2": ["https://zenodo.org/doi/10.5281/zenodo.5534681"]}, "name": {"value_in_1": "Pipeline for HCG-16 Project", "value_in_2": "hcg-16"}, "relatedLink": {"value_in_1": ["https://ui.adsabs.harvard.edu/abs/2019A%26A...632A..78J/abstract"], "value_in_2": null}, "maintainer": {"value_in_1": [{"@type": "Person", "@id": "https://orcid.org/0000-0002-5434-4904", "givenName": "Michael", "familyName": "Jones", "email": "jonesmg@arizona.edu", "affiliation": {"@type": "Organization", "name": "University of Arizona"}}], "value_in_2": null}, "developmentStatus": {"value_in_1": "inactive", "value_in_2": null}, "referencePublication": {"value_in_1": "https://doi.org/10.1051/0004-6361/201936349", "value_in_2": null}}, "equivalences": {"targetProduct": null, "applicationSubCategory": null, "fileSize": null, "installUrl": null, "memoryRequirements": null, "permissions": null, "processorRequirements": null, "softwareHelp": null, "storageRequirements": null, "supportingData": null, "citation": null, "copyrightHolder": null, "copyrightYear": null, "datePublished": "2019-10-09", "editor": null, "encoding": null, "fileFormat": null, "keywords": ["Astronomy", "Galaxies", "Galaxy Groups", "Radio Interferometry", "VLA", "HCG16", "HI line emission"], "producer": null, "provider": null, "publisher": null, "sponsor": null, "isAccessibleForFree": null, "isPartOf": null, "hasPart": null, "position": null, "sameAs": null, "url": null, "givenName": null, "familyName": null, "email": null, "affiliation": null, "address": null, "": null, "softwareSuggestions": null, "contIntegration": null, "buildInstructions": null, "embargoDate": null, "funding": null, "issueTracker": "https://github.com/AMIGA-IAA/hcg-16/issues", "readme": "https://github.com/AMIGA-IAA/hcg-16/blob/master/README.md", "creator": null, "endDate": null, "roleName": null, "startDate": null}}}

Logs

Log File: docs/records/10977609/10977609_somef_log.txt

2026-03-05 10:02:19,703 somef_tool.py:140 INFO Running SOMEF on repository: https://github.com/AMIGA-IAA/hcg-16
2026-03-05 10:02:28,498 somef_utils.py:43 INFO SOftware Metadata Extraction Framework (SOMEF) Command Line Interface
CODEMETA PARSER - Processing file: /tmp/tmp9zsu3jmk/AMIGA-IAA_hcg-16/hcg-16-master/codemeta.json
CODEMETA PARSER - Source: https://raw.githubusercontent.com/AMIGA-IAA/hcg-16/master/codemeta.json
Saving json data to docs/records/10977609/10977609_somef.json
Success

2026-03-05 10:02:28,498 somef_utils.py:45 ERROR 05-Mar-26 10:02:25-DEBUG-Starting new HTTPS connection (1): github.com:443
05-Mar-26 10:02:25-DEBUG-https://github.com:443 "GET /api/v4/projects HTTP/1.1" 404 9
05-Mar-26 10:02:25-INFO-Loading Repository https://github.com/AMIGA-IAA/hcg-16 Information....
05-Mar-26 10:02:25-DEBUG-Starting new HTTPS connection (1): api.github.com:443
05-Mar-26 10:02:25-DEBUG-https://api.github.com:443 "GET /repos/AMIGA-IAA/hcg-16 HTTP/1.1" 200 1418
05-Mar-26 10:02:25-INFO-Remaining GitHub API requests: 38 ### Next rate limit reset at: 2026-03-05 10:56:47
05-Mar-26 10:02:25-ERROR-Error: key homepage not present in github repository
05-Mar-26 10:02:25-DEBUG-Starting new HTTPS connection (1): api.github.com:443
05-Mar-26 10:02:25-DEBUG-https://api.github.com:443 "GET /repos/AMIGA-IAA/hcg-16/languages HTTP/1.1" 200 85
05-Mar-26 10:02:25-INFO-Remaining GitHub API requests: 37 ### Next rate limit reset at: 2026-03-05 10:56:47
05-Mar-26 10:02:25-DEBUG-Starting new HTTPS connection (1): api.github.com:443
05-Mar-26 10:02:25-DEBUG-https://api.github.com:443 "GET /repos/AMIGA-IAA/hcg-16/releases?per_page=100&page=1 HTTP/1.1" 200 None
05-Mar-26 10:02:25-INFO-Remaining GitHub API requests: 36 ### Next rate limit reset at: 2026-03-05 10:56:47
05-Mar-26 10:02:25-DEBUG-Starting new HTTPS connection (1): api.github.com:443
05-Mar-26 10:02:26-DEBUG-https://api.github.com:443 "GET /repos/AMIGA-IAA/hcg-16/releases?per_page=100&page=2 HTTP/1.1" 200 2
05-Mar-26 10:02:26-INFO-Remaining GitHub API requests: 35 ### Next rate limit reset at: 2026-03-05 10:56:47
05-Mar-26 10:02:26-WARNING-Ignoring empty value in release for description
05-Mar-26 10:02:26-INFO-Repository information successfully loaded.

05-Mar-26 10:02:26-INFO-Downloading https://github.com/AMIGA-IAA/hcg-16/archive/master.zip
05-Mar-26 10:02:26-DEBUG-Starting new HTTPS connection (1): github.com:443
05-Mar-26 10:02:26-DEBUG-https://github.com:443 "GET /AMIGA-IAA/hcg-16/archive/master.zip HTTP/1.1" 302 0
05-Mar-26 10:02:26-DEBUG-Starting new HTTPS connection (1): codeload.github.com:443
05-Mar-26 10:02:26-DEBUG-https://codeload.github.com:443 "GET /AMIGA-IAA/hcg-16/zip/refs/heads/master HTTP/1.1" 200 None
05-Mar-26 10:02:26-WARNING-No Content-Length header for https://github.com/AMIGA-IAA/hcg-16/archive/master.zip. Proceeding with download anyway (unable to estimate size).
05-Mar-26 10:02:26-DEBUG-Starting new HTTPS connection (1): github.com:443
05-Mar-26 10:02:26-DEBUG-https://github.com:443 "GET /AMIGA-IAA/hcg-16/archive/master.zip HTTP/1.1" 302 0
05-Mar-26 10:02:26-DEBUG-Starting new HTTPS connection (1): codeload.github.com:443
05-Mar-26 10:02:26-DEBUG-https://codeload.github.com:443 "GET /AMIGA-IAA/hcg-16/zip/refs/heads/master HTTP/1.1" 200 None
05-Mar-26 10:02:26-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 10:02:26-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 10:02:27-INFO-Header information extracted.
05-Mar-26 10:02:27-INFO-Splitting text into valid excerpts for classification
05-Mar-26 10:02:27-INFO-Extraction of bibtex citation from readme completed. 

05-Mar-26 10:02:27-INFO-Text Successfully split.
05-Mar-26 10:02:27-INFO-Classifying excerpts for the category description
05-Mar-26 10:02:27-INFO-Checking thresholds for classified excerpts.
05-Mar-26 10:02:27-INFO-All excerpts below the threshold have been removed.
05-Mar-26 10:02:27-DEBUG-Starting new HTTPS connection (1): github.com:443
05-Mar-26 10:02:27-DEBUG-https://github.com:443 "GET /AMIGA-IAA/hcg-16/wiki HTTP/1.1" 302 0
05-Mar-26 10:02:27-INFO-Completed extracting regular expressions

Log File: docs/records/10977609/10977609_codemeta_completeness_tool_log.txt

2026-03-05 10:02:28,500 codemeta_completeness_tool.py:72 INFO [codemeta completeness tool] Running Codemeta Completeness Tool on record ID: 10977609

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