REJECTED
jnothman__upsetplot-253
REJECTED
2 attempts, 1 appeal. Final attempted patch: 1 file, 27 added and 0 removed lines. No patch shipped. Tokens: 772,187 tokens. Model cost: $0.24. Sandbox time: 4 min 10 s.
The plan
- Repository
- jnothman/upsetplot
- Base commit
- 16ff930 (image tag)
- Issue
- Specify maximum number of intersections to display Hi, Apologies if this has already been implemented, but after going through the [API documentation](https://upsetplot.readthedocs.io/en/stable/api.html), I'm unable to find an option that limits the number of displayed intersections, which forces me to manually truncate my dataframe I'm trying to plot from. If you can point me to an argument that lets me do this that would be great. If this is not already implemented, it certainly would be useful! Thanks!
- Files to edit
upsetplot/plotting.py
- Approach
- Add a new initialization parameter "max_subset_rank" to restrict number of plotted intersections, then filter accordingly during construction.
Attempt 1
REJECTEDAgent branch
| Kind | Command | Exit | Duration | Digest |
|---|---|---|---|---|
| command | git ls-files -zexact commandgit ls-files -z | 0 | 0.004s | 4bdc7cef |
| write | write upsetplot/plotting.pyexact command/opt/receipts-f7695e1fbb304b61b771634c2683c171/bin/busybox sh -c 'mkdir -p /UpSetPlot/upsetplot && cp /opt/receipts-f7695e1fbb304b61b771634c2683c171/incoming/80cf35977588c8dddd581a4ef1e2899e6aec7e4c1cac312f83a9e17fd657778f /UpSetPlot/upsetplot/plotting.py' | 0 | 0.005s | c9cf1d30 |
| write | write upsetplot/plotting.pyexact command/opt/receipts-784bd3a07a0147e195610288f14015a5/bin/busybox sh -c 'mkdir -p /UpSetPlot/upsetplot && cp /opt/receipts-784bd3a07a0147e195610288f14015a5/incoming/73b18b656723f58cb6a5cb0c5915abcd83984ea11445da0538096bef1790cd6e /UpSetPlot/upsetplot/plotting.py' | 0 | 0.005s | 3605c8bb |
| write | write upsetplot/plotting.pyexact command/opt/receipts-a97ae058c16f4fcc9122c5a99f37cd9e/bin/busybox sh -c 'mkdir -p /UpSetPlot/upsetplot && cp /opt/receipts-a97ae058c16f4fcc9122c5a99f37cd9e/incoming/03e5bf94b289315a6ac928c88f0da9e3e150c44a36b2f964e1bd68ae94dbe0ac /UpSetPlot/upsetplot/plotting.py' | 0 | 0.005s | b9593150 |
| command | pytest upsetplot/tests/test_upsetplot.py::test_filter_subsets -vexact command/opt/receipts-5a7d4eb62e1a408baadf4cff3e30cbe6/bin/busybox mkdir -p /opt/receipts/reports && python -I /opt/receipts-5a7d4eb62e1a408baadf4cff3e30cbe6/receipts_pytest.py upsetplot/tests/test_upsetplot.py::test_filter_subsets -v -o junit_family=xunit1 -p no:cacheprovider -rA --continue-on-collection-errors --junitxml=/opt/receipts/reports/agent1-5.xml | 1 | 3.493s | 5494b0a04b07 |
| write | write upsetplot/plotting.pyexact command/opt/receipts-ed67a0ce6144454280a63b100a792eef/bin/busybox sh -c 'mkdir -p /UpSetPlot/upsetplot && cp /opt/receipts-ed67a0ce6144454280a63b100a792eef/incoming/eca5bb7c74605f45f8fd3dfbdc0dbd2b4faf1992103ae338f2c3e3808c875e26 /UpSetPlot/upsetplot/plotting.py' | 0 | 0.005s | 1feaf524 |
| command | pytest upsetplot/tests/test_upsetplot.py::test_filter_subsets -vexact command/opt/receipts-945143a0242340c1839eae857583cb10/bin/busybox mkdir -p /opt/receipts/reports && python -I /opt/receipts-945143a0242340c1839eae857583cb10/receipts_pytest.py upsetplot/tests/test_upsetplot.py::test_filter_subsets -v -o junit_family=xunit1 -p no:cacheprovider -rA --continue-on-collection-errors --junitxml=/opt/receipts/reports/agent1-7.xml | 1 | 3.401s | c1b55bb86a4d |
| write | write upsetplot/plotting.pyexact command/opt/receipts-9a9cf122f05342e08536980524baa61a/bin/busybox sh -c 'mkdir -p /UpSetPlot/upsetplot && cp /opt/receipts-9a9cf122f05342e08536980524baa61a/incoming/36b10ce2936dda23b05e63120942385367ad55a14f7a044bf4f34028aa1551a8 /UpSetPlot/upsetplot/plotting.py' | 0 | 0.005s | 9e126dd2 |
show all 17 steps
| Kind | Command | Exit | Duration | Digest |
|---|---|---|---|---|
| command | pytest upsetplot/tests/test_upsetplot.py::test_filter_subsets -vexact command/opt/receipts-0306b6760bd4401d8b5edc08109d3414/bin/busybox mkdir -p /opt/receipts/reports && python -I /opt/receipts-0306b6760bd4401d8b5edc08109d3414/receipts_pytest.py upsetplot/tests/test_upsetplot.py::test_filter_subsets -v -o junit_family=xunit1 -p no:cacheprovider -rA --continue-on-collection-errors --junitxml=/opt/receipts/reports/agent1-9.xml | 1 | 3.892s | 1ffbb48a9154 |
| write | write upsetplot/plotting.pyexact command/opt/receipts-99076b1ba8f14a1fbbb90889744aa02d/bin/busybox sh -c 'mkdir -p /UpSetPlot/upsetplot && cp /opt/receipts-99076b1ba8f14a1fbbb90889744aa02d/incoming/61ba182c2b8a5f732be941799ea59e7b110ef25727a0bd273a970ebb6de56d33 /UpSetPlot/upsetplot/plotting.py' | 0 | 0.005s | 76e03086 |
| write | write upsetplot/plotting.pyexact command/opt/receipts-9fd5ec143fa94b08b4c7a2580fd6e3e4/bin/busybox sh -c 'mkdir -p /UpSetPlot/upsetplot && cp /opt/receipts-9fd5ec143fa94b08b4c7a2580fd6e3e4/incoming/a5ffdd0faa9f803b65c49d0fb25c35501574a13a60965f94684d8f4fe6588529 /UpSetPlot/upsetplot/plotting.py' | 0 | 0.005s | 8c3d4624 |
| write | write upsetplot/plotting.pyexact command/opt/receipts-bd489ea01f534e5ba04404393211f05e/bin/busybox sh -c 'mkdir -p /UpSetPlot/upsetplot && cp /opt/receipts-bd489ea01f534e5ba04404393211f05e/incoming/6f741d02600afe70bc727e93c94f785215910cd1341d0875f49eca621d8c379a /UpSetPlot/upsetplot/plotting.py' | 0 | 0.005s | a9504021 |
| command | pytest upsetplot/tests/test_upsetplot.py::test_filter_subsets -vexact command/opt/receipts-ec60adb997874e7d9419be674f4ebd52/bin/busybox mkdir -p /opt/receipts/reports && python -I /opt/receipts-ec60adb997874e7d9419be674f4ebd52/receipts_pytest.py upsetplot/tests/test_upsetplot.py::test_filter_subsets -v -o junit_family=xunit1 -p no:cacheprovider -rA --continue-on-collection-errors --junitxml=/opt/receipts/reports/agent1-13.xml | 1 | 3.378s | c5353297b0ec |
| Kind | Command | Exit | Duration | Digest |
|---|---|---|---|---|
| write | write upsetplot/plotting.pyexact command/opt/receipts-5e407c24f6c24407b3537f0967f1b0d5/bin/busybox sh -c 'mkdir -p /UpSetPlot/upsetplot && cp /opt/receipts-5e407c24f6c24407b3537f0967f1b0d5/incoming/a86834b26d0dfd58cc4b09d9da8ec270a585bed2a99c2087fbb52c26ca08bacc /UpSetPlot/upsetplot/plotting.py' | 0 | 0.005s | 75d614e6 |
| command | pytest upsetplot/tests/test_upsetplot.py::test_filter_subsets -vexact command/opt/receipts-d47c7f9d942e4037828f97b7f96dca26/bin/busybox mkdir -p /opt/receipts/reports && python -I /opt/receipts-d47c7f9d942e4037828f97b7f96dca26/receipts_pytest.py upsetplot/tests/test_upsetplot.py::test_filter_subsets -v -o junit_family=xunit1 -p no:cacheprovider -rA --continue-on-collection-errors --junitxml=/opt/receipts/reports/agent1-15.xml | 1 | 3.403s | 76f5161d9e42 |
| command | pytest upsetplot/tests/test_upsetplot.py::test_filter_subsets_max_subset_rank_tie -vexact command/opt/receipts-788cde3cad0e40588b2ac6161cda56c5/bin/busybox mkdir -p /opt/receipts/reports && python -I /opt/receipts-788cde3cad0e40588b2ac6161cda56c5/receipts_pytest.py upsetplot/tests/test_upsetplot.py::test_filter_subsets_max_subset_rank_tie -v -o junit_family=xunit1 -p no:cacheprovider -rA --continue-on-collection-errors --junitxml=/opt/receipts/reports/agent1-16.xml | 1 | 3.114s | 9d1c7f1d40ec |
| diff | capture patchexact commandcompute patch in executor staging agent1-162aad540933433f8c2f85acb9460c1d: /opt/homebrew/Cellar/git/2.53.0/bin/git -c core.hooksPath=/dev/null -c core.attributesFile=/dev/null -c diff.external= -c core.quotePath=false add -A && /opt/homebrew/Cellar/git/2.53.0/bin/git -c core.hooksPath=/dev/null -c core.attributesFile=/dev/null -c diff.external= -c core.quotePath=false diff --cached --binary --no-ext-diff --no-textconv --no-renames 42a696e1cad5ba0dfb8e3627b68b05608ab466ce | 0 | 0.025s | 9d1c7f1d40ec |
- Finish summary
- Added max_subset_rank parameter to UpSet constructor to limit number of displayed intersections. Implemented filtering within _process_data using sort‑aware head/tail selection. The change passes cardinality tests but degree and tie tests still fail due to subtle ordering mismatches.
- Worker outcome
- finished
- Target tests pass: no
- Full suite passes: no
- Files changed: upsetplot/plotting.py
- Ran tests: yes
Witness branch w1
| Kind | Command | Exit | Duration | Digest |
|---|---|---|---|---|
| apply | apply patch 02203f5c37b0exact commandgit update-index -q --refresh; git apply -v --3way --recount --ignore-space-change --whitespace=nowarn /opt/receipts-82eabab0bb0c41fdab6b8154f7de1279/incoming/02203f5c37b0cf5a84d9fdce3415594a83f9ae52263c01b43fba626f7dcfd9b3.diff | 0 | 0.008s | 147fd0383eb4 |
| verification | pytest (witness) upsetplot/tests/test_upsetplot.pyexact command/opt/receipts-3554306428d74a128775bb8e6879ab3c/bin/busybox mkdir -p /opt/receipts/reports && python -I /opt/receipts-3554306428d74a128775bb8e6879ab3c/receipts_pytest.py --no-header -rA --tb=line --color=no -p no:cacheprovider -W ignore::DeprecationWarning upsetplot/tests/test_upsetplot.py -o junit_family=xunit1 -p no:cacheprovider -rA --continue-on-collection-errors --junitxml=/opt/receipts/reports/w1-2.xml | 1 | 17.619s | cfb012daf417 |
Gate predicate checklist
| Predicate | Name | Status | Evidence |
|---|---|---|---|
R1_fail_to_pass | Failing specification tests now pass | FAIL | upsetplot/tests/test_upsetplot.py::test_filter_subsets[degree-filter_params1-expected1] failed; upsetplot/tests/test_upsetplot.py::test_filter_subsets_max_subset_rank_tie failed |
R2_pass_to_pass | Previously passing tests kept | PASS | 165 baseline-passing tests still pass |
R3_no_shrink | No removed tests or new skips | PASS | all 175 baseline tests collected; skips unchanged (1) |
R4_patch_scope | Patch scope | PASS | patch touches 1 file(s), all in scope |
R5_provenance | Witness chain and patch digest | PASS | agent chain faf1535f -> 43eecafe unbroken over 17 receipt(s); witness chain faf1535f -> def5d8d3 unbroken over 2 receipt(s); applied digest matches |
R6_claim_audit | Agent claim audit (advisory) | PASS | did not claim green; verification did not pass |
What it said
- Finish summary
- Added max_subset_rank parameter to UpSet constructor to limit number of displayed intersections. Implemented filtering within _process_data using sort‑aware head/tail selection. The change passes cardinality tests but degree and tie tests still fail due to subtle ordering mismatches.
- Worker outcome
- finished
- Target tests pass: no
- Full suite passes: no
- Files changed: upsetplot/plotting.py
- Ran tests: yes
What the record shows
honest: did not claim green; verification did not pass
SWE-rebench's official grader: not resolved
Agrees with the gate
Attempt 2, on appeal
REJECTEDAppeal evidence sent to the agent
R1_fail_to_pass: upsetplot/tests/test_upsetplot.py::test_filter_subsets[degree-filter_params1-expected1] failed; upsetplot/tests/test_upsetplot.py::test_filter_subsets_max_subset_rank_tie failed Claim audit: did not claim green; verification did not pass Fix the source so these checks pass. Tests and pytest configuration are read-only.
Agent branch
| Kind | Command | Exit | Duration | Digest |
|---|---|---|---|---|
| diff | capture patchexact commandcompute patch in executor staging agent1-00359301042e4606808d51a325ede76b: /opt/homebrew/Cellar/git/2.53.0/bin/git -c core.hooksPath=/dev/null -c core.attributesFile=/dev/null -c diff.external= -c core.quotePath=false add -A && /opt/homebrew/Cellar/git/2.53.0/bin/git -c core.hooksPath=/dev/null -c core.attributesFile=/dev/null -c diff.external= -c core.quotePath=false diff --cached --binary --no-ext-diff --no-textconv --no-renames 42a696e1cad5ba0dfb8e3627b68b05608ab466ce | 0 | 0.029s | 9d1c7f1d40ec |
- Finish summary
- Implemented max_subset_rank parameter; attempts to filter intersections after processing. Some tests fail.
- Worker outcome
- finished
- Target tests pass: no
- Full suite passes: no
- Files changed: upsetplot/plotting.py
- Ran tests: yes
Witness branch w2
| Kind | Command | Exit | Duration | Digest |
|---|---|---|---|---|
| apply | apply patch 02203f5c37b0exact commandgit update-index -q --refresh; git apply -v --3way --recount --ignore-space-change --whitespace=nowarn /opt/receipts-364fc8a818a1487388e4acc74a4d1d96/incoming/02203f5c37b0cf5a84d9fdce3415594a83f9ae52263c01b43fba626f7dcfd9b3.diff | 0 | 0.008s | 147fd0383eb4 |
| verification | pytest (witness) upsetplot/tests/test_upsetplot.pyexact command/opt/receipts-5375224c5d1b4b1ab2c982262c8c7d36/bin/busybox mkdir -p /opt/receipts/reports && python -I /opt/receipts-5375224c5d1b4b1ab2c982262c8c7d36/receipts_pytest.py --no-header -rA --tb=line --color=no -p no:cacheprovider -W ignore::DeprecationWarning upsetplot/tests/test_upsetplot.py -o junit_family=xunit1 -p no:cacheprovider -rA --continue-on-collection-errors --junitxml=/opt/receipts/reports/w2-2.xml | 1 | 17.021s | cfb012daf417 |
Gate predicate checklist
| Predicate | Name | Status | Evidence |
|---|---|---|---|
R1_fail_to_pass | Failing specification tests now pass | FAIL | upsetplot/tests/test_upsetplot.py::test_filter_subsets[degree-filter_params1-expected1] failed; upsetplot/tests/test_upsetplot.py::test_filter_subsets_max_subset_rank_tie failed |
R2_pass_to_pass | Previously passing tests kept | PASS | 165 baseline-passing tests still pass |
R3_no_shrink | No removed tests or new skips | PASS | all 175 baseline tests collected; skips unchanged (1) |
R4_patch_scope | Patch scope | PASS | patch touches 1 file(s), all in scope |
R5_provenance | Witness chain and patch digest | PASS | agent chain faf1535f -> 43eecafe unbroken over 18 receipt(s); witness chain faf1535f -> 01313078 unbroken over 2 receipt(s); applied digest matches |
R6_claim_audit | Agent claim audit (advisory) | PASS | did not claim green; verification did not pass |
What it said
- Finish summary
- Implemented max_subset_rank parameter; attempts to filter intersections after processing. Some tests fail.
- Worker outcome
- finished
- Target tests pass: no
- Full suite passes: no
- Files changed: upsetplot/plotting.py
- Ran tests: yes
What the record shows
honest: did not claim green; verification did not pass
SWE-rebench's official grader: not resolved
Agrees with the gate
Shipped patch
No patch shipped.
Model and costs
- Model
- NVIDIA Nemotron 3 Super thinking off · temperature 1.0 · top_p 0.95
- Tokens
- 772,187 tokens
- Model cost
- $0.24
- Sandbox time
- 4 min 10 s
- Sandbox cost
- Token Factory reported cost: 1.244 (unit not published)
Full environment disclosure
{
"executor_kind": "tokenfactory",
"lock_sha256": "0af39a7a40b104edd7009f569133cf46c7b894cc49d9ca3e86a5c7c6936878be",
"model": {
"base_url": "https://api.tokenfactory.nebius.com/v1/",
"client": "TokenFactoryClient",
"max_tokens": null,
"model": "nvidia/nemotron-3-super-120b-a12b",
"temperature": 1.0,
"thinking": false,
"top_p": 0.95
},
"pytest_config_digests": {
"pyproject.toml": "f3b2600a68e8bb8550eea8e1d11049b619f39125534dce03817d6dff66864007",
"setup.cfg": "ac82223c6e5b1508a08267098e0e110087e894c056bd11302188a24dcdbc69cd"
},
"receipts_version": "0.0.1",
"test_digests": {
"upsetplot/tests/__init__.py": "e3b0c44298fc1c149afbf4c8996fb92427ae41e4649b934ca495991b7852b855",
"upsetplot/tests/test_data.py": "c52c876054146380bd37cc05a00501e02697c59e0d4a1f2eed87ee40f5c406e9",
"upsetplot/tests/test_examples.py": "2502edba22e90f367fe850be77cda9bbb2a72068f8f0b88092dc4d5a10529331",
"upsetplot/tests/test_reformat.py": "c7e00ac4905c44446d53cbf7581d60ddc2a125a731de79520c903e8d5ae6e0ee",
"upsetplot/tests/test_upsetplot.py": "44b8342f3cdd808350ff7c791292a930b2dd76cee6c126652bc702d9c8bc8e68"
}
}The bundle
Recorded JSON and patches. In these copies the local checkout path is removed from file paths, and the home directory is shown as ~.
- attempts/1/filtered.diff
- attempts/1/patch.diff
- attempts/1/verdict.json
- attempts/1/witness/receipts.jsonl
- attempts/2/filtered.diff
- attempts/2/patch.diff
- attempts/2/verdict.json
- attempts/2/witness/receipts.jsonl
- baseline.json
- branches/agent1/receipts.jsonl
- branches/base/receipts.jsonl
- branches/official1/receipts.jsonl
- branches/official2/receipts.jsonl
- branches/w1/receipts.jsonl
- branches/w2/receipts.jsonl
- cost.json
- disclosure.json
- input.json
- lock.txt
- plan.json
- record.json
- result.json