├── .gitattributes ├── .github └── workflows │ ├── pythonpackage.yaml │ └── pythonpublish.yaml ├── .gitignore ├── CHANGELOG.md ├── LICENSE ├── MANIFEST.in ├── README.md ├── docs ├── .gitignore ├── Makefile ├── mzIdentML1 2.0-release.pdf ├── mzML1.1.0.pdf ├── mzQuantML1.0.0.pdf ├── mzTab_format_specification.pdf └── source │ ├── conf.py │ ├── controlled_vocabulary │ ├── bundled.rst │ ├── controlled_vocabulary.rst │ └── index.rst │ ├── exts │ ├── exec_directive.py │ ├── rst_table.py │ └── xsd_description.py │ ├── index.rst │ ├── mzid │ ├── components.rst │ ├── examples.rst │ ├── index.rst │ └── writer.rst │ ├── mzml │ ├── components.rst │ ├── examples.rst │ ├── index.rst │ └── writer.rst │ ├── mzmlb │ ├── index.rst │ └── writer.rst │ ├── transform │ └── mzml.rst │ └── xml.rst ├── makefile ├── psims ├── __init__.py ├── compression.py ├── controlled_vocabulary │ ├── __init__.py │ ├── controlled_vocabulary.py │ ├── entity.py │ ├── obo.py │ ├── relationship.py │ ├── resid.py │ ├── type_definition.py │ ├── unimod.py │ └── vendor │ │ ├── XLMOD.obo.gz │ │ ├── __init__.py │ │ ├── gno.obo.gz │ │ ├── go.obo.gz │ │ ├── list_cvs.py │ │ ├── pato.obo.gz │ │ ├── psi-mod.obo.gz │ │ ├── psi-ms.obo.gz │ │ ├── record.json │ │ ├── unimod_tables.xml.gz │ │ ├── unit.obo.gz │ │ └── update_vendored_cvs.py ├── document.py ├── example.py ├── mzid │ ├── __init__.py │ ├── components.py │ ├── utils.py │ └── writer.py ├── mzml │ ├── __init__.py │ ├── binary_encoding.py │ ├── components.py │ ├── element_builder.py │ ├── index.py │ ├── native_id.py │ ├── utils.py │ └── writer.py ├── mzmlb │ ├── __init__.py │ ├── components.py │ └── writer.py ├── test │ ├── __init__.py │ ├── mzid_data.py │ ├── test_cv.py │ ├── test_data │ │ ├── __init__.py │ │ ├── small.mzML │ │ └── xiFDR-CrossLinkExample_single_run.mzid │ ├── test_document.py │ ├── test_mzid_writer.py │ ├── test_mzml_writer.py │ ├── test_mzmlb_writer.py │ ├── test_transform_mzid.py │ ├── test_transform_mzml.py │ └── utils.py ├── transform │ ├── __init__.py │ ├── mzid.py │ ├── mzml.py │ └── utils.py ├── utils.py ├── validation │ ├── __init__.py │ ├── semantic │ │ ├── __init__.py │ │ ├── data │ │ │ ├── __init__.py │ │ │ ├── miape-ms-rules.xml │ │ │ └── ms-mapping.xml │ │ └── rule_definitions.py │ ├── validator.py │ └── xsd │ │ ├── __init__.py │ │ ├── mzIdentML1.1.0.xsd │ │ ├── mzIdentML1.1.1.xsd │ │ ├── mzIdentML1.2.0.xsd │ │ ├── mzML1.1.0.xsd │ │ └── mzML1.1.2_idx.xsd ├── version.py └── xml.py ├── pyproject.toml ├── requirements.txt ├── scripts ├── ast_transform.py ├── format_cv_versions.py ├── xml_schema_attributes.csv ├── xsd_analysis.py └── xsd_parser.py └── setup.py /.gitattributes: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/.gitattributes -------------------------------------------------------------------------------- /.github/workflows/pythonpackage.yaml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/.github/workflows/pythonpackage.yaml -------------------------------------------------------------------------------- /.github/workflows/pythonpublish.yaml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/.github/workflows/pythonpublish.yaml -------------------------------------------------------------------------------- /.gitignore: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/.gitignore -------------------------------------------------------------------------------- /CHANGELOG.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/CHANGELOG.md -------------------------------------------------------------------------------- /LICENSE: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/LICENSE -------------------------------------------------------------------------------- /MANIFEST.in: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/MANIFEST.in -------------------------------------------------------------------------------- /README.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/README.md -------------------------------------------------------------------------------- /docs/.gitignore: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/docs/.gitignore -------------------------------------------------------------------------------- /docs/Makefile: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/docs/Makefile -------------------------------------------------------------------------------- /docs/mzIdentML1 2.0-release.pdf: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/docs/mzIdentML1 2.0-release.pdf -------------------------------------------------------------------------------- /docs/mzML1.1.0.pdf: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/docs/mzML1.1.0.pdf -------------------------------------------------------------------------------- /docs/mzQuantML1.0.0.pdf: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/docs/mzQuantML1.0.0.pdf -------------------------------------------------------------------------------- /docs/mzTab_format_specification.pdf: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/docs/mzTab_format_specification.pdf -------------------------------------------------------------------------------- /docs/source/conf.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/docs/source/conf.py -------------------------------------------------------------------------------- /docs/source/controlled_vocabulary/bundled.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/docs/source/controlled_vocabulary/bundled.rst -------------------------------------------------------------------------------- /docs/source/controlled_vocabulary/controlled_vocabulary.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/docs/source/controlled_vocabulary/controlled_vocabulary.rst -------------------------------------------------------------------------------- /docs/source/controlled_vocabulary/index.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/docs/source/controlled_vocabulary/index.rst -------------------------------------------------------------------------------- /docs/source/exts/exec_directive.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/docs/source/exts/exec_directive.py -------------------------------------------------------------------------------- /docs/source/exts/rst_table.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/docs/source/exts/rst_table.py -------------------------------------------------------------------------------- /docs/source/exts/xsd_description.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/docs/source/exts/xsd_description.py -------------------------------------------------------------------------------- /docs/source/index.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/docs/source/index.rst -------------------------------------------------------------------------------- /docs/source/mzid/components.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/docs/source/mzid/components.rst -------------------------------------------------------------------------------- /docs/source/mzid/examples.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/docs/source/mzid/examples.rst -------------------------------------------------------------------------------- /docs/source/mzid/index.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/docs/source/mzid/index.rst -------------------------------------------------------------------------------- /docs/source/mzid/writer.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/docs/source/mzid/writer.rst -------------------------------------------------------------------------------- /docs/source/mzml/components.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/docs/source/mzml/components.rst -------------------------------------------------------------------------------- /docs/source/mzml/examples.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/docs/source/mzml/examples.rst -------------------------------------------------------------------------------- /docs/source/mzml/index.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/docs/source/mzml/index.rst -------------------------------------------------------------------------------- /docs/source/mzml/writer.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/docs/source/mzml/writer.rst -------------------------------------------------------------------------------- /docs/source/mzmlb/index.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/docs/source/mzmlb/index.rst -------------------------------------------------------------------------------- /docs/source/mzmlb/writer.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/docs/source/mzmlb/writer.rst -------------------------------------------------------------------------------- /docs/source/transform/mzml.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/docs/source/transform/mzml.rst -------------------------------------------------------------------------------- /docs/source/xml.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/docs/source/xml.rst -------------------------------------------------------------------------------- /makefile: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/makefile -------------------------------------------------------------------------------- /psims/__init__.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/__init__.py -------------------------------------------------------------------------------- /psims/compression.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/compression.py -------------------------------------------------------------------------------- /psims/controlled_vocabulary/__init__.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/controlled_vocabulary/__init__.py -------------------------------------------------------------------------------- /psims/controlled_vocabulary/controlled_vocabulary.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/controlled_vocabulary/controlled_vocabulary.py -------------------------------------------------------------------------------- /psims/controlled_vocabulary/entity.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/controlled_vocabulary/entity.py -------------------------------------------------------------------------------- /psims/controlled_vocabulary/obo.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/controlled_vocabulary/obo.py -------------------------------------------------------------------------------- /psims/controlled_vocabulary/relationship.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/controlled_vocabulary/relationship.py -------------------------------------------------------------------------------- /psims/controlled_vocabulary/resid.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/controlled_vocabulary/resid.py -------------------------------------------------------------------------------- /psims/controlled_vocabulary/type_definition.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/controlled_vocabulary/type_definition.py -------------------------------------------------------------------------------- /psims/controlled_vocabulary/unimod.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/controlled_vocabulary/unimod.py -------------------------------------------------------------------------------- /psims/controlled_vocabulary/vendor/XLMOD.obo.gz: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/controlled_vocabulary/vendor/XLMOD.obo.gz -------------------------------------------------------------------------------- /psims/controlled_vocabulary/vendor/__init__.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/controlled_vocabulary/vendor/__init__.py -------------------------------------------------------------------------------- /psims/controlled_vocabulary/vendor/gno.obo.gz: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/controlled_vocabulary/vendor/gno.obo.gz -------------------------------------------------------------------------------- /psims/controlled_vocabulary/vendor/go.obo.gz: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/controlled_vocabulary/vendor/go.obo.gz -------------------------------------------------------------------------------- /psims/controlled_vocabulary/vendor/list_cvs.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/controlled_vocabulary/vendor/list_cvs.py -------------------------------------------------------------------------------- /psims/controlled_vocabulary/vendor/pato.obo.gz: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/controlled_vocabulary/vendor/pato.obo.gz -------------------------------------------------------------------------------- /psims/controlled_vocabulary/vendor/psi-mod.obo.gz: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/controlled_vocabulary/vendor/psi-mod.obo.gz -------------------------------------------------------------------------------- /psims/controlled_vocabulary/vendor/psi-ms.obo.gz: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/controlled_vocabulary/vendor/psi-ms.obo.gz -------------------------------------------------------------------------------- /psims/controlled_vocabulary/vendor/record.json: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/controlled_vocabulary/vendor/record.json -------------------------------------------------------------------------------- /psims/controlled_vocabulary/vendor/unimod_tables.xml.gz: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/controlled_vocabulary/vendor/unimod_tables.xml.gz -------------------------------------------------------------------------------- /psims/controlled_vocabulary/vendor/unit.obo.gz: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/controlled_vocabulary/vendor/unit.obo.gz -------------------------------------------------------------------------------- /psims/controlled_vocabulary/vendor/update_vendored_cvs.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/controlled_vocabulary/vendor/update_vendored_cvs.py -------------------------------------------------------------------------------- /psims/document.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/document.py -------------------------------------------------------------------------------- /psims/example.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/example.py -------------------------------------------------------------------------------- /psims/mzid/__init__.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/mzid/__init__.py -------------------------------------------------------------------------------- /psims/mzid/components.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/mzid/components.py -------------------------------------------------------------------------------- /psims/mzid/utils.py: -------------------------------------------------------------------------------- 1 | from psims.utils import ensure_iterable, basestring 2 | -------------------------------------------------------------------------------- /psims/mzid/writer.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/mzid/writer.py -------------------------------------------------------------------------------- /psims/mzml/__init__.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/mzml/__init__.py -------------------------------------------------------------------------------- /psims/mzml/binary_encoding.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/mzml/binary_encoding.py -------------------------------------------------------------------------------- /psims/mzml/components.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/mzml/components.py -------------------------------------------------------------------------------- /psims/mzml/element_builder.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/mzml/element_builder.py -------------------------------------------------------------------------------- /psims/mzml/index.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/mzml/index.py -------------------------------------------------------------------------------- /psims/mzml/native_id.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/mzml/native_id.py -------------------------------------------------------------------------------- /psims/mzml/utils.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/mzml/utils.py -------------------------------------------------------------------------------- /psims/mzml/writer.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/mzml/writer.py -------------------------------------------------------------------------------- /psims/mzmlb/__init__.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/mzmlb/__init__.py -------------------------------------------------------------------------------- /psims/mzmlb/components.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/mzmlb/components.py -------------------------------------------------------------------------------- /psims/mzmlb/writer.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/mzmlb/writer.py -------------------------------------------------------------------------------- /psims/test/__init__.py: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /psims/test/mzid_data.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/test/mzid_data.py -------------------------------------------------------------------------------- /psims/test/test_cv.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/test/test_cv.py -------------------------------------------------------------------------------- /psims/test/test_data/__init__.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/test/test_data/__init__.py -------------------------------------------------------------------------------- /psims/test/test_data/small.mzML: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/test/test_data/small.mzML -------------------------------------------------------------------------------- /psims/test/test_data/xiFDR-CrossLinkExample_single_run.mzid: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/test/test_data/xiFDR-CrossLinkExample_single_run.mzid -------------------------------------------------------------------------------- /psims/test/test_document.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/test/test_document.py -------------------------------------------------------------------------------- /psims/test/test_mzid_writer.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/test/test_mzid_writer.py -------------------------------------------------------------------------------- /psims/test/test_mzml_writer.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/test/test_mzml_writer.py -------------------------------------------------------------------------------- /psims/test/test_mzmlb_writer.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/test/test_mzmlb_writer.py -------------------------------------------------------------------------------- /psims/test/test_transform_mzid.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/test/test_transform_mzid.py -------------------------------------------------------------------------------- /psims/test/test_transform_mzml.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/test/test_transform_mzml.py -------------------------------------------------------------------------------- /psims/test/utils.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/test/utils.py -------------------------------------------------------------------------------- /psims/transform/__init__.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/transform/__init__.py -------------------------------------------------------------------------------- /psims/transform/mzid.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/transform/mzid.py -------------------------------------------------------------------------------- /psims/transform/mzml.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/transform/mzml.py -------------------------------------------------------------------------------- /psims/transform/utils.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/transform/utils.py -------------------------------------------------------------------------------- /psims/utils.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/utils.py -------------------------------------------------------------------------------- /psims/validation/__init__.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/validation/__init__.py -------------------------------------------------------------------------------- /psims/validation/semantic/__init__.py: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /psims/validation/semantic/data/__init__.py: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /psims/validation/semantic/data/miape-ms-rules.xml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/validation/semantic/data/miape-ms-rules.xml -------------------------------------------------------------------------------- /psims/validation/semantic/data/ms-mapping.xml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/validation/semantic/data/ms-mapping.xml -------------------------------------------------------------------------------- /psims/validation/semantic/rule_definitions.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/validation/semantic/rule_definitions.py -------------------------------------------------------------------------------- /psims/validation/validator.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/validation/validator.py -------------------------------------------------------------------------------- /psims/validation/xsd/__init__.py: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /psims/validation/xsd/mzIdentML1.1.0.xsd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/validation/xsd/mzIdentML1.1.0.xsd -------------------------------------------------------------------------------- /psims/validation/xsd/mzIdentML1.1.1.xsd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/validation/xsd/mzIdentML1.1.1.xsd -------------------------------------------------------------------------------- /psims/validation/xsd/mzIdentML1.2.0.xsd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/validation/xsd/mzIdentML1.2.0.xsd -------------------------------------------------------------------------------- /psims/validation/xsd/mzML1.1.0.xsd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/validation/xsd/mzML1.1.0.xsd -------------------------------------------------------------------------------- /psims/validation/xsd/mzML1.1.2_idx.xsd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/validation/xsd/mzML1.1.2_idx.xsd -------------------------------------------------------------------------------- /psims/version.py: -------------------------------------------------------------------------------- 1 | version = '1.3.6' 2 | -------------------------------------------------------------------------------- /psims/xml.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/psims/xml.py -------------------------------------------------------------------------------- /pyproject.toml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/pyproject.toml -------------------------------------------------------------------------------- /requirements.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/requirements.txt -------------------------------------------------------------------------------- /scripts/ast_transform.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/scripts/ast_transform.py -------------------------------------------------------------------------------- /scripts/format_cv_versions.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/scripts/format_cv_versions.py -------------------------------------------------------------------------------- /scripts/xml_schema_attributes.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/scripts/xml_schema_attributes.csv -------------------------------------------------------------------------------- /scripts/xsd_analysis.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/scripts/xsd_analysis.py -------------------------------------------------------------------------------- /scripts/xsd_parser.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/scripts/xsd_parser.py -------------------------------------------------------------------------------- /setup.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mobiusklein/psims/HEAD/setup.py --------------------------------------------------------------------------------