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Make excelparser that converts a filled excel sheet to an ontology #309

Merged
merged 34 commits into from
Dec 12, 2021
Merged

Make excelparser that converts a filled excel sheet to an ontology #309

merged 34 commits into from
Dec 12, 2021

Commits on Nov 26, 2021

  1. Added first draft of excel2onto

    @francescalb
    francescalb committed Nov 26, 2021
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Commits on Dec 1, 2021

  1. Dummy example for make_microstructure_onto.py added. 

    Much of what is in this file should go into the excel2onto tool.
    @francescalb
    francescalb committed Dec 1, 2021
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  2. Added module excelparser which is used by excel2onto 

    Added example folder
    @francescalb
    francescalb committed Dec 1, 2021
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  3. Merge branch 'master' into flb/close-302-excelparser

    @francescalb
    francescalb committed Dec 1, 2021
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  4. Added choice for sheetname for Concepts

    @francescalb
    francescalb committed Dec 1, 2021
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  5. Merge branch 'master' of github.com:emmo-repo/EMMO-python into flb/cl… 

    …ose-302-excelparser
    @francescalb
    francescalb committed Dec 1, 2021
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  6. Cleaned up dataframe to be analysed 

    removed rows with missing value in prefLabel
Convert prefLabel to string
    @francescalb
    francescalb committed Dec 1, 2021
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  7. Added option to read base_iri from metadata

    @francescalb
    francescalb committed Dec 1, 2021
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  8. Added import ontologies from excel

    @francescalb
    francescalb committed Dec 1, 2021
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Commits on Dec 2, 2021

  1. Try to fix documentation

    @francescalb
    francescalb committed Dec 2, 2021
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Commits on Dec 7, 2021

  1. Merge branch 'master' of github.com:emmo-repo/EMMO-python into flb/cl… 

    …ose-302-excelparser
    @francescalb
    francescalb committed Dec 7, 2021
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  2. Fixed documentation error

    @francescalb
    francescalb committed Dec 7, 2021
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  3. Added pandas to requirements

    @francescalb
    francescalb committed Dec 7, 2021
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  4. Corrected google docstring for returning Tuple with typing

    @francescalb
    francescalb committed Dec 7, 2021
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Commits on Dec 8, 2021

  1. Fixed typing error

    @francescalb
    francescalb committed Dec 8, 2021
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  2. Added openpyxl to requirements

    @francescalb
    francescalb committed Dec 8, 2021
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  3. Added first test for adding metadata authors and contributors 

    Metadata should be factored out later
    @francescalb
    francescalb committed Dec 8, 2021
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  4. Added own function for metadata

    @francescalb
    francescalb committed Dec 8, 2021
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  5. Added more metadata and altLabels

    @francescalb
    francescalb committed Dec 8, 2021
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  6. Added altLabel

    @francescalb
    francescalb committed Dec 8, 2021
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  7. Corrected so that empty fields are not included

    @francescalb
    francescalb committed Dec 8, 2021
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Commits on Dec 9, 2021

  1. owlready2.Ontology->ontopy.Ontology 

    Co-authored-by: Jesper Friis <jesper-friis@users.noreply.github.com>
    @francescalb @jesper-friis
    francescalb and jesper-friis committed Dec 9, 2021
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  2. parent=owl:Thing if parents missing in parser 

    Co-authored-by: Jesper Friis <jesper-friis@users.noreply.github.com>
    @francescalb @jesper-friis
    francescalb and jesper-friis committed Dec 9, 2021
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  3. typo 

    Co-authored-by: Jesper Friis <jesper-friis@users.noreply.github.com>
    @francescalb @jesper-friis
    francescalb and jesper-friis committed Dec 9, 2021
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  4. Changed owlready.Ontology to ontopy.ontology.Ontology

    @francescalb
    francescalb committed Dec 9, 2021
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  5. Added helper function for adding metadata

    @francescalb
    francescalb committed Dec 9, 2021
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Commits on Dec 10, 2021

  1. Use function for adding literals also on concepts

    @francescalb
    francescalb committed Dec 10, 2021
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  2. _add_literal/_parse_literal accespt pd.Series and pd.DataFrame for data 

    data  argument can either be metadata (pd.DataFrame)
or a row for a concept (pd.Series)
    @francescalb
    francescalb committed Dec 10, 2021
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  3. Merge branch 'master' of github.com:emmo-repo/EMMO-python into flb/cl… 

    …ose-302-excelparser
    @francescalb
    francescalb committed Dec 10, 2021
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  4. Added a test for the excel_parser

    @francescalb
    francescalb committed Dec 10, 2021
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  5. Corrected path in test

    @francescalb
    francescalb committed Dec 10, 2021
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  6. Added creator instead of author and changed excel2onto arg to --output

    @francescalb
    francescalb committed Dec 10, 2021
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  7. Merge branch 'master' of github.com:emmo-repo/EMMO-python into flb/cl… 

    …ose-302-excelparser
    @francescalb
    francescalb committed Dec 10, 2021
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  8. Updated excelparser ontology for comparison

    @francescalb
    francescalb committed Dec 10, 2021
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