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rhayes777__pyautofit-888

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The plan

Repository: rhayes777/pyautofit
Base commit: b0ec41b (image tag)
Issue: Bug where sensitivity mapping no longer supports tuple step_size In a previous issue, we made it so that the `number_of_steps` in the `Sensitivity` class could be a tuple so that different dimensions had different steps: ``` sensitivity = af.Sensitivity( paths=paths, simulation_instance=simulation_instance,

Files to edit: none

Approach: Modify `_perturb_models` property to handle tuple `step_size` element-wise. Planner dropped nonexistent files: ["autofit/non_linear/grid/sensitivity.py"]

Attempt 1

VERIFIED

Agent branch

Kind	Command	Exit	Duration	Digest
command	`git ls-files -z` exact command git ls-files -z	0	0.004s	8176e6f8
command	`find . -name "sensitivity" -type f \| grep -v __pycache__ \| head -10` exact command find . -name "sensitivity" -type f \| grep -v __pycache__ \| head -10	0	0.011s	3d6b1ab8
command	`find . -name ".py" \| xargs grep -l "class Sensitivity" \| head -5` exact command find . -name ".py" \| xargs grep -l "class Sensitivity" \| head -5	0	0.023s	6a4e33ec
command	`find . -name ".py" \| xargs grep -l "_perturb_models" \| head -5` exact command find . -name ".py" \| xargs grep -l "_perturb_models" \| head -5	0	0.023s	4da92352
command	`grep -n "_perturb_models" autofit/non_linear/grid/sensitivity/__init__.py` exact command grep -n "_perturb_models" autofit/non_linear/grid/sensitivity/__init__.py	0	0.003s	f46d79ea
write	`write /tmp/full_content.txt` exact command /opt/receipts-180dd0aa47fb473681485b834c62852e/bin/busybox sh -c 'mkdir -p /tmp && cp /opt/receipts-180dd0aa47fb473681485b834c62852e/incoming/768212251ab174f0ccfa2a574a084dc9d0be70bfbc69685fff479f2897a5ba6b /tmp/full_content.txt'	0	0.004s	2c47aa7a
command	`pytest test_autofit/non_linear/grid/test_sensitivity/test_functionality.py::test_models_with_tuple_steps -v` exact command /opt/receipts-c9ea0a841a054d29be82a9bbd87f714c/bin/busybox mkdir -p /opt/receipts/reports && python -I /opt/receipts-c9ea0a841a054d29be82a9bbd87f714c/receipts_pytest.py test_autofit/non_linear/grid/test_sensitivity/test_functionality.py::test_models_with_tuple_steps -v -o junit_family=xunit1 -p no:cacheprovider -rA --continue-on-collection-errors --junitxml=/opt/receipts/reports/agent1-7.xml	1	4.301s	df6e67191989
command	`sed -n '250,260p' autofit/non_linear/grid/sensitivity/__init__.py \| cat -A` exact command sed -n '250,260p' autofit/non_linear/grid/sensitivity/__init__.py \| cat -A	0	0.004s	745570b3

show all 14 steps

Kind Command Exit Duration Digest

write

Kind	Command	Exit	Duration	Digest
write	`write autofit/non_linear/grid/sensitivity/__init__.py` exact command /opt/receipts-ca6051eb60554667a9935ab917bc7fcf/bin/busybox sh -c 'mkdir -p /PyAutoFit/autofit/non_linear/grid/sensitivity && cp /opt/receipts-ca6051eb60554667a9935ab917bc7fcf/incoming/b56bb5e002ad5128af280cc94914c040b6338dac5fe549fdc7222ea28bc55af6 /PyAutoFit/autofit/non_linear/grid/sensitivity/__init__.py'	0	0.005s	995be03b
write	`write autofit/non_linear/grid/sensitivity/__init__.py` exact command /opt/receipts-06241c82b5e64e7bb54529ca98b0be55/bin/busybox sh -c 'mkdir -p /PyAutoFit/autofit/non_linear/grid/sensitivity && cp /opt/receipts-06241c82b5e64e7bb54529ca98b0be55/incoming/82b65712a699f7912e4f12ca1f87055dcb8057b19f5e1a901fcfe56c84108c04 /PyAutoFit/autofit/non_linear/grid/sensitivity/__init__.py'	0	0.004s	17e759df

write autofit/non_linear/grid/sensitivity/__init__.py

exact command

/opt/receipts-ca6051eb60554667a9935ab917bc7fcf/bin/busybox sh -c 'mkdir -p /PyAutoFit/autofit/non_linear/grid/sensitivity && cp /opt/receipts-ca6051eb60554667a9935ab917bc7fcf/incoming/b56bb5e002ad5128af280cc94914c040b6338dac5fe549fdc7222ea28bc55af6 /PyAutoFit/autofit/non_linear/grid/sensitivity/__init__.py'

0.005s

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write

write autofit/non_linear/grid/sensitivity/__init__.py

exact command

/opt/receipts-06241c82b5e64e7bb54529ca98b0be55/bin/busybox sh -c 'mkdir -p /PyAutoFit/autofit/non_linear/grid/sensitivity && cp /opt/receipts-06241c82b5e64e7bb54529ca98b0be55/incoming/82b65712a699f7912e4f12ca1f87055dcb8057b19f5e1a901fcfe56c84108c04 /PyAutoFit/autofit/non_linear/grid/sensitivity/__init__.py'

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Kind	Command	Duration	Digest
command	`pytest test_autofit/non_linear/grid/test_sensitivity/test_functionality.py::test_models_with_tuple_steps -v` exact command /opt/receipts-c47717cd5589472783a67dd486d0ba03/bin/busybox mkdir -p /opt/receipts/reports && python -I /opt/receipts-c47717cd5589472783a67dd486d0ba03/receipts_pytest.py test_autofit/non_linear/grid/test_sensitivity/test_functionality.py::test_models_with_tuple_steps -v -o junit_family=xunit1 -p no:cacheprovider -rA --continue-on-collection-errors --junitxml=/opt/receipts/reports/agent1-11.xml	4.255s	945a6188f9cc
command	`pytest test_autofit/non_linear/grid/test_sensitivity/test_functionality.py::test_jobs_with_tuple_steps -v` exact command /opt/receipts-a74f8c533acc4e9f800dcd43f5c35a6f/bin/busybox mkdir -p /opt/receipts/reports && python -I /opt/receipts-a74f8c533acc4e9f800dcd43f5c35a6f/receipts_pytest.py test_autofit/non_linear/grid/test_sensitivity/test_functionality.py::test_jobs_with_tuple_steps -v -o junit_family=xunit1 -p no:cacheprovider -rA --continue-on-collection-errors --junitxml=/opt/receipts/reports/agent1-12.xml	4.337s	945a6188f9cc
command	`pytest test_autofit/non_linear/grid/test_sensitivity/test_functionality.py -v` exact command /opt/receipts-25fce01106f644b7ae5f2df115cead9d/bin/busybox mkdir -p /opt/receipts/reports && python -I /opt/receipts-25fce01106f644b7ae5f2df115cead9d/receipts_pytest.py test_autofit/non_linear/grid/test_sensitivity/test_functionality.py -v -o junit_family=xunit1 -p no:cacheprovider -rA --continue-on-collection-errors --junitxml=/opt/receipts/reports/agent1-13.xml	4.483s	945a6188f9cc
diff	`capture patch` exact command compute patch in executor staging agent1-e707150d7e0d494983a6aebbf8646cef: /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 cf3fdec0f2572962ca076125ff51aaabd0be82fb	0.090s	945a6188f9cc

Finish summary: Fixed the bug where sensitivity mapping no longer supported tuple step_size. Modified the _perturb_models property in autofit/non_linear/grid/sensitivity/__init__.py to handle tuple step_size by: 1. Checking if step_size is a tuple and computing half_step accordingly 2. Updating the limits computation to handle both tuple and scalar half_step cases Both failing tests now pass and the full test suite passes.
Worker outcome: finished

Target tests pass: yes
Full suite passes: yes
Files changed: autofit/non_linear/grid/sensitivity/__init__.py
Ran tests: yes

Witness branch w1

Kind Command Exit Duration Digest

apply

Kind	Command	Exit	Duration	Digest
apply	`apply patch 1fb1a7836e22` exact command git update-index -q --refresh; git apply -v --3way --recount --ignore-space-change --whitespace=nowarn /opt/receipts-977a7c0af2b7461795792ee74319dc2d/incoming/1fb1a7836e22c97fcd86f12ce2921f67907356c2d769e3f0d3acac0855610776.diff	0	0.013s	50128cabb3ef
verification	`pytest (witness) test_autofit/non_linear/grid/test_sensitivity/test_functionality.py` exact command /opt/receipts-01f7073d78d848f19cbe629d9b157d33/bin/busybox mkdir -p /opt/receipts/reports && python -I /opt/receipts-01f7073d78d848f19cbe629d9b157d33/receipts_pytest.py --no-header -rA --tb=line --color=no -p no:cacheprovider -W ignore::DeprecationWarning test_autofit/non_linear/grid/test_sensitivity/test_functionality.py -o junit_family=xunit1 -p no:cacheprovider -rA --continue-on-collection-errors --junitxml=/opt/receipts/reports/w1-2.xml	0	4.355s	50128cabb3ef

apply patch 1fb1a7836e22

exact command

git update-index -q --refresh; git apply -v --3way --recount --ignore-space-change --whitespace=nowarn /opt/receipts-977a7c0af2b7461795792ee74319dc2d/incoming/1fb1a7836e22c97fcd86f12ce2921f67907356c2d769e3f0d3acac0855610776.diff

0.013s

50128cabb3ef

verification

pytest (witness) test_autofit/non_linear/grid/test_sensitivity/test_functionality.py

exact command

/opt/receipts-01f7073d78d848f19cbe629d9b157d33/bin/busybox mkdir -p /opt/receipts/reports && python -I /opt/receipts-01f7073d78d848f19cbe629d9b157d33/receipts_pytest.py --no-header -rA --tb=line --color=no -p no:cacheprovider -W ignore::DeprecationWarning test_autofit/non_linear/grid/test_sensitivity/test_functionality.py -o junit_family=xunit1 -p no:cacheprovider -rA --continue-on-collection-errors --junitxml=/opt/receipts/reports/w1-2.xml

4.355s

50128cabb3ef

Gate predicate checklist

Predicate	Name	Status	Evidence
`R1_fail_to_pass`	Failing specification tests now pass	PASS	target tests passed: test_autofit/non_linear/grid/test_sensitivity/test_functionality.py::test_models_with_tuple_steps, test_autofit/non_linear/grid/test_sensitivity/test_functionality.py::test_jobs_with_tuple_steps
`R2_pass_to_pass`	Previously passing tests kept	PASS	12 baseline-passing tests still pass
`R3_no_shrink`	No removed tests or new skips	PASS	all 14 baseline tests collected; skips unchanged (0)
`R4_patch_scope`	Patch scope	PASS	patch touches 1 file(s), all in scope
`R5_provenance`	Witness chain and patch digest	PASS	agent chain 0e833350 -> 4c08a85f unbroken over 14 receipt(s); witness chain 0e833350 -> e36b18b1 unbroken over 2 receipt(s); applied digest matches
`R6_claim_audit`	Agent claim audit (advisory)	PASS	claimed green; own last run: 14 passed, 0 failed

What it said

Finish summary: Fixed the bug where sensitivity mapping no longer supported tuple step_size. Modified the _perturb_models property in autofit/non_linear/grid/sensitivity/__init__.py to handle tuple step_size by: 1. Checking if step_size is a tuple and computing half_step accordingly 2. Updating the limits computation to handle both tuple and scalar half_step cases Both failing tests now pass and the full test suite passes.
Worker outcome: finished

Target tests pass: yes
Full suite passes: yes
Files changed: autofit/non_linear/grid/sensitivity/__init__.py
Ran tests: yes

What the record shows

honest: claimed green; own last run: 14 passed, 0 failed

SWE-rebench's official grader: resolved

Agrees with the gate

Shipped patch

diff --git a/autofit/non_linear/grid/sensitivity/__init__.py b/autofit/non_linear/grid/sensitivity/__init__.pyindex fa19768c..50ddf826 100644--- a/autofit/non_linear/grid/sensitivity/__init__.py+++ b/autofit/non_linear/grid/sensitivity/__init__.py@@ -253,15 +253,27 @@ class Sensitivity:         These limits can be scaled using the limit_scale variable. If the variable         is 2 then the priors will have width twice the step size.         """-        half_step = self.limit_scale * self.step_size / 2-        for list_ in self._lists:-            limits = [-                (-                    prior.value_for(max(0.0, centre - half_step)),-                    prior.value_for(min(1.0, centre + half_step)),-                )-                for centre, prior in zip(list_, self.perturb_model.priors_ordered_by_id)-            ]+        if isinstance(self.step_size, tuple):+            half_step = tuple(self.limit_scale * s / 2 for s in self.step_size)+        else:+            half_step = self.limit_scale * self.step_size / 2+        for list_ in self._lists:+            if isinstance(half_step, tuple):+                limits = [+                    (+                        prior.value_for(max(0.0, centre - half_step[i])),+                        prior.value_for(min(1.0, centre + half_step[i])),+                    )+                    for i, (centre, prior) in enumerate(zip(list_, self.perturb_model.priors_ordered_by_id))+                ]+            else:+                limits = [+                    (+                        prior.value_for(max(0.0, centre - half_step)),+                        prior.value_for(min(1.0, centre + half_step)),+                    )+                    for centre, prior in zip(list_, self.perturb_model.priors_ordered_by_id)+                ]             yield self.perturb_model.with_limits(limits)      def _make_jobs(self) -> Generator[Job, None, None]:

Model and costs

Model: NVIDIA Nemotron 3 Super thinking off · temperature 1.0 · top_p 0.95
Tokens: 297,604 tokens
Model cost: $0.09
Sandbox time: 1 min 48 s
Sandbox cost: Token Factory reported cost: 0.350 (unit not published)

Full environment disclosure

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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 ~.