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Add url to FBbi imaging method ontology #51

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Add url to FBbi imaging method ontology #51

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8 changes: 6 additions & 2 deletions pyidr/study_parser.py
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Original file line number Diff line number Diff line change
Expand Up @@ -69,6 +69,7 @@ def __init__(self, pattern, scope, optional=False):
Key('Experiment Description', 'Experiment'),
Key('Experiment Sample Type', 'Experiment'),
Key('Experiment Imaging Method', 'Experiment'),
Key('Experiment Imaging Method Term Accession', 'Experiment'),
Key('Experiment Number', 'Experiment'),
# OPTIONAL_KEYS["Experiment"]
Key('Experiment Data DOI', 'Experiment', optional=True),
Expand All @@ -81,6 +82,7 @@ def __init__(self, pattern, scope, optional=False):
Key('Screen Description', 'Screen'),
Key('Screen Sample Type', 'Screen'),
Key('Screen Imaging Method', 'Screen'),
Key('Screen Imaging Method Term Accession', 'Screen'),
Key('Screen Number', 'Screen'),
Key('Screen Type', 'Screen'),
# OPTIONAL_KEYS["Screen"]
Expand Down Expand Up @@ -330,13 +332,15 @@ class Formatter(object):
]
EXPERIMENT_TECHNOLOGY_PAIRS = [
('Study Type', "%(Study Type)s"),
('Imaging Method', "%(Experiment Imaging Method)s"),
('Imaging Method', "%(Experiment Imaging Method)s "
"http://purl.obolibrary.org/obo/%(Experiment Imaging Method Term Accession)s"),
]
SCREEN_TECHNOLOGY_PAIRS = [
('Study Type', "%(Study Type)s"),
('Screen Type', "%(Screen Type)s"),
('Screen Technology Type', "%(Screen Technology Type)s"),
('Imaging Method', "%(Screen Imaging Method)s"),
('Imaging Method', "%(Screen Imaging Method)s "
"http://purl.obolibrary.org/obo/%(Screen Imaging Method Term Accession)s"),
]
PUBLICATION_PAIRS = [
('Publication Title', "%(Title)s"),
Expand Down