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Feature SBOL datatypes #17482

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merged 8 commits into from
Mar 1, 2024
Merged

Feature SBOL datatypes #17482

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4ead776
feat(datatypes): add SBOL
guillaume-gricourt Feb 15, 2024
1dc9eb9
tests(datatypes): add SBOL
guillaume-gricourt Feb 15, 2024
9db496b
fix(datatypes): reorder SBOL before nt for inference
guillaume-gricourt Feb 15, 2024
5888467
fix(datatypes): show metadata blurb
guillaume-gricourt Feb 15, 2024
fc47eb5
fix(datatypes): add `description`
guillaume-gricourt Feb 16, 2024
13b6f3d
docs(datatypes): improve SBOL description
guillaume-gricourt Feb 16, 2024
318aa68
fix(datatypes): test integration, add new line to test file
guillaume-gricourt Feb 27, 2024
40006f6
fix(datatypes): test integration,add new line to test file
guillaume-gricourt Feb 28, 2024
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2 changes: 2 additions & 0 deletions lib/galaxy/config/sample/datatypes_conf.xml.sample
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Expand Up @@ -570,6 +570,7 @@
<datatype extension="ttl" type="galaxy.datatypes.triples:Turtle" display_in_upload="true"/>
<datatype extension="rdf" type="galaxy.datatypes.triples:Rdf" display_in_upload="true"/>
<datatype extension="jsonld" type="galaxy.datatypes.triples:Jsonld" display_in_upload="true"/>
<datatype extension="sbol" type="galaxy.datatypes.triples:Sbol" description="The SBOL (Synthetic Biology Open Language) standard was developed by the synthetic biology community to create a standardized format for the electronic exchange of information on the structural and functional aspects of biological designs." description_url="https://sbolstandard.org" display_in_upload="true"/>
<!-- Excel datatypes -->
<datatype extension="excel.xls" type="galaxy.datatypes.binary:ExcelXls" display_in_upload="true"/>
<datatype extension="xlsx" type="galaxy.datatypes.binary:Xlsx" display_in_upload="true"/>
Expand Down Expand Up @@ -1126,6 +1127,7 @@
<sniffer type="galaxy.datatypes.proteomics:Wiff"/>
<sniffer type="galaxy.datatypes.proteomics:PEFF"/>
<sniffer type="galaxy.datatypes.molecules:CML"/>
<sniffer type="galaxy.datatypes.triples:Sbol"/>
<sniffer type="galaxy.datatypes.xml:GenericXml"/>
<sniffer type="galaxy.datatypes.triples:HDT"/>
<sniffer type="galaxy.datatypes.triples:Turtle"/>
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1 change: 1 addition & 0 deletions lib/galaxy/datatypes/test/sbol.v2.crispr_example.xml
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1 change: 1 addition & 0 deletions lib/galaxy/datatypes/test/sbol.v3.circuit.nt
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