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sbml from neo4j #20

Merged
merged 34 commits into from
Feb 18, 2024
Merged

sbml from neo4j #20

merged 34 commits into from
Feb 18, 2024

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guillaume-gricourt
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@guillaume-gricourt guillaume-gricourt commented Oct 31, 2023 •
edited

Create SBML file from Neo4j
Related to #16

  • Works with L3V2.7-9 model
  • Speed-up Neo4j queries
  • Test with e_coli_core model
  • Expand tests to L3V2.7-1
  • Update documentation

@guillaume-gricourt
feat(neo4jsbml): skeleton for subcmd
aaa4b75
@guillaume-gricourt
fix(tests): solve same comparison
ad5b9fe
@guillaume-gricourt
refactor(sbml): mv Sbml class to SbmlToNeo4j
45a5572
@guillaume-gricourt
chore(github): update deps
77fe56c
@guillaume-gricourt
feat(arrows): add to_graph()
076e4e9
@guillaume-gricourt
feat(graph_method): new class
0eccece
@guillaume-gricourt
feat(sbml): new class SbmlFromNeo4j
352b471
@guillaume-gricourt
feat(sbml): add to_sbml()
3e41010
@guillaume-gricourt
style(neo4jsbml): super-linter
9b86577
@guillaume-gricourt
fix(neo4jsbml): add missing steps
c34dc13
@guillaume-gricourt
fix(arrows): patch to_graph()
6c0dbe0
@guillaume-gricourt
feat(connect): add query_labels(), query_node(), query_neighbor()
12574d1
@guillaume-gricourt
fix(graph_method): refactor, patch, misc ...
c4d1567
@guillaume-gricourt
fix(sbml): refactor, patch, misc ...
3784e4e
@guillaume-gricourt
tests(graph_method): minimal testing
612c43c
@guillaume-gricourt
chore(github): update
4271356
@guillaume-gricourt
fix(arrows): add or not an id property
de53d35
@guillaume-gricourt
fix(sbml): check return value
ad04ce8
@guillaume-gricourt
fix(graph_method): rm specific case
b78ebd5
@guillaume-gricourt
fix(sbml): add neo4j node as property
c4d61df
@guillaume-gricourt
fix(neo4jsbml): select nodes based on relationships found in Arrows, …
e9e4c55 
…add children based on Id
@guillaume-gricourt
chore(github): ignore supplementary error
0a295a6
@guillaume-gricourt
fix(neo4jsbml): super-linter
bdf77e8
@guillaume-gricourt
tests(neo4jsbml): arrows, to_graph() return nx.MultiDiGraph
4cda351
@guillaume-gricourt guillaume-gricourt self-assigned this Nov 17, 2023
@guillaume-gricourt guillaume-gricourt added the enhancement New feature or request label Nov 17, 2023
@guillaume-gricourt guillaume-gricourt merged commit f20ea02 into main Feb 18, 2024
8 checks passed
@guillaume-gricourt guillaume-gricourt deleted the sbml-from-neo4j branch February 18, 2024 20:26
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