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Pull requests: Reed-CompBio/spras

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Pull requests list

Add override mechanism for algorithm containers, transfer explicit .sif images with HTCondor enhancement New feature or request merge-conflict This PR has merge conflicts.
#464 opened Mar 11, 2026 by jhiemstrawisc Collaborator Loading…
19
Update htcondor instructions documentation Improvements or additions to documentation merge-conflict This PR has merge conflicts.
#459 opened Jan 23, 2026 by jhiemstrawisc Collaborator • Draft
19
feat: timeouts enhancement New feature or request merge-conflict This PR has merge conflicts. P-high This is a blocker for many PRs/issues/features
#457 opened Jan 13, 2026 by tristan-f-r Collaborator Loading…
1
3
ci: force builder removal easy PRs which take at most a minute to review with little thinking. infrastructure misc. changes made to SPRAS itself
#454 opened Dec 24, 2025 by tristan-f-r Collaborator Loading…
chore(evaluation): remove flaky test bug Something isn't working infrastructure misc. changes made to SPRAS itself
#453 opened Dec 8, 2025 by tristan-f-r Collaborator • Draft
1
1
chore(btb): slim infrastructure misc. changes made to SPRAS itself
#450 opened Dec 8, 2025 by tristan-f-r Collaborator Loading…
1
refactor: separate analysis analysis Analysis of PRA outputs merge-conflict This PR has merge conflicts. refactor Changes that don't actually improve anything except for code quality.
#446 opened Nov 26, 2025 by tristan-f-r Collaborator Loading…
1
8
feat: TieDIE algorithm Pathway reconstruction algorithm to add to SPRAS
#445 opened Nov 19, 2025 by tristan-f-r Collaborator Loading…
1
chore(meo): compile from source refactor Changes that don't actually improve anything except for code quality.
#444 opened Nov 18, 2025 by tristan-f-r Collaborator Loading…
chore([st]rwr): add doi easy PRs which take at most a minute to review with little thinking. enhancement New feature or request
#442 opened Nov 18, 2025 by tristan-f-r Collaborator Loading…
4
feat([st]rwr): consider weights algorithm Pathway reconstruction algorithm to add to SPRAS easy PRs which take at most a minute to review with little thinking. enhancement New feature or request
#441 opened Nov 16, 2025 by tristan-f-r Collaborator Loading…
evaluation: edge evaluation no selection analysis Analysis of PRA outputs blocked-by-other-pr needed for benchmarking Priority PRs needed for the benchmarking paper
#437 opened Nov 7, 2025 by ntalluri Collaborator Loading…
1 task
1
feat: enable file output reporting enhancement New feature or request
#434 opened Nov 6, 2025 by tristan-f-r Collaborator Loading…
evaluation: Edge evaluation pca-chosen analysis Analysis of PRA outputs needed for benchmarking Priority PRs needed for the benchmarking paper
#432 opened Oct 30, 2025 by ntalluri Collaborator Loading…
3 tasks done
1
15
feat: heuristics blocked-by-other-pr enhancement New feature or request merge-conflict This PR has merge conflicts. tuning Workflow-spanning algorithm tuning
#431 opened Oct 30, 2025 by tristan-f-r Collaborator Loading…
1 task
12
refactor: separate statistic computation P-medium medium prirotity; this is needed for some external service or another PR refactor Changes that don't actually improve anything except for code quality. tuning Workflow-spanning algorithm tuning
#411 opened Oct 10, 2025 by tristan-f-r Collaborator Loading…
1 task done
24
docs: alg usage & impl details documentation Improvements or additions to documentation merge-conflict This PR has merge conflicts.
#408 opened Oct 8, 2025 by tristan-f-r Collaborator Loading…
1
47
feat: Dataset#category enhancement New feature or request
#406 opened Oct 6, 2025 by tristan-f-r Collaborator Loading…
1 task done
12
ci: artifact test durations infrastructure misc. changes made to SPRAS itself
#402 opened Sep 25, 2025 by tristan-f-r Collaborator Loading…
test: mv algorithm tests to subfolder easy PRs which take at most a minute to review with little thinking. infrastructure misc. changes made to SPRAS itself refactor Changes that don't actually improve anything except for code quality.
#391 opened Sep 6, 2025 by tristan-f-r Collaborator Loading…
3
chore: pixi infrastructure misc. changes made to SPRAS itself merge-conflict This PR has merge conflicts.
#382 opened Aug 28, 2025 by tristan-f-r Collaborator Loading…
1
6
fix: never parse index_col from node data bug Something isn't working easy PRs which take at most a minute to review with little thinking.
#379 opened Aug 21, 2025 by tristan-f-r Collaborator Loading…
1 task done
1
feat: add input nodes as evaluation baseline analysis Analysis of PRA outputs awaiting-author Author of the PR needs to fix something from a review / etc. merge-conflict This PR has merge conflicts. needed for benchmarking Priority PRs needed for the benchmarking paper
#372 opened Aug 14, 2025 by ntalluri Collaborator Loading…
34
ci: windows awaiting-author Author of the PR needs to fix something from a review / etc. blocked-by-other-pr infrastructure misc. changes made to SPRAS itself merge-conflict This PR has merge conflicts.
#364 opened Jul 29, 2025 by tristan-f-r Collaborator • Draft
1 of 3 tasks
6
fix: make dataset nodes ordering stable infrastructure misc. changes made to SPRAS itself merge-conflict This PR has merge conflicts. needed for benchmarking Priority PRs needed for the benchmarking paper
#363 opened Jul 29, 2025 by tristan-f-r Collaborator Loading…
1
2
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