MutaFix run: sortedcontainers-007

ranker nvidia/NVIDIA-Nemotron-3-Nano-30B-A3B · patcher nvidia/nemotron-3-super-120b-a12b · via Nebius Token Factory

fixedoutcome
139swall time
7model calls
$0.0326API cost
Benchmark ground truth (hidden from the agent)
src/sortedcontainers/sortedlist.py:2338 · operator NEGCOND · function src/sortedcontainers/sortedlist.py::SortedKeyList.index
- if not (start < 0):   (injected bug)+ if start < 0:   (original)
retriever rank 1 of 20 · ranker position 1 · patched the right function yes · exact restore yes

Trace

reproduce
+2.05s
4 failing test(s) · 4 failed, 295 passed · 2.05s
failing tests and errors
tests/test_coverage_sorteddict.py::test_index_key
tests/test_coverage_sortedkeylist_modulo.py::test_index
tests/test_coverage_sortedkeylist_negate.py::test_index
tests/test_stress_sortedkeylist.py::test_stress
tests/test_coverage_sorteddict.py::test_index_key
E   ValueError: 0 is not in list
tests/test_coverage_sortedkeylist_modulo.py::test_index
E   ValueError: 0 is not in list
trace
+3.2s
re-ran 4 test file(s) with the trace plugin: 5 failing and 178 passing tests, 26 library functions ran in a failing test · 1.12s
tests/test_coverage_sorteddict.py, tests/test_coverage_sortedkeylist_modulo.py, tests/test_coverage_sortedkeylist_negate.py, tests/test_stress_sortedkeylist.py
retrieve
+3.2s
129 functions indexed, 91 reachable from tests/test_coverage_sorteddict.py::test_index_key in the static call graph. Kept 20 candidates, ranked by spectrum score (Ochiai), call graph and BM25 break ties.
candidates in retriever order
  1. src/sortedcontainers/sortedlist.py::SortedKeyList.index call depth 1 · Ochiai 0.40 (failing 4, passing 16)
  2. src/sortedcontainers/sortedlist.py::identity call depth - · Ochiai 0.32 (failing 1, passing 1)
  3. src/sortedcontainers/sortedlist.py::SortedKeyList.bisect_left call depth 2 · Ochiai 0.22 (failing 1, passing 3)
  4. src/sortedcontainers/sortedlist.py::SortedList.__reversed__ call depth 2 · Ochiai 0.20 (failing 1, passing 4)
  5. src/sortedcontainers/sortedlist.py::SortedKeyList.__mul__ call depth 3 · Ochiai 0.20 (failing 1, passing 4)
  6. src/sortedcontainers/sortedlist.py::SortedKeyList.bisect_key_left call depth 2 · Ochiai 0.18 (failing 1, passing 5)
  7. src/sortedcontainers/sortedlist.py::SortedKeyList.clear call depth 2 · Ochiai 0.18 (failing 4, passing 93)
  8. src/sortedcontainers/sortedlist.py::SortedKeyList.update call depth 2 · Ochiai 0.16 (failing 4, passing 116)
  9. src/sortedcontainers/sortedlist.py::SortedKeyList.__init__ call depth 3 · Ochiai 0.16 (failing 4, passing 127)
  10. src/sortedcontainers/sortedlist.py::SortedList._reset call depth 1 · Ochiai 0.14 (failing 3, passing 92)
  11. src/sortedcontainers/sortedlist.py::SortedKeyList.remove call depth 2 · Ochiai 0.12 (failing 1, passing 12)
  12. src/sortedcontainers/sortedlist.py::SortedKeyList.__new__ call depth 3 · Ochiai 0.12 (failing 3, passing 119)
  13. src/sortedcontainers/sortedlist.py::SortedList._loc call depth 2 · Ochiai 0.12 (failing 1, passing 13)
  14. src/sortedcontainers/sorteddict.py::SortedDict.__init__ call depth 1 · Ochiai 0.12 (failing 2, passing 55)
  15. src/sortedcontainers/sorteddict.py::SortedDict.update call depth 2 · Ochiai 0.12 (failing 2, passing 55)
  16. src/sortedcontainers/sortedlist.py::SortedList.__new__ call depth 2 · Ochiai 0.12 (failing 2, passing 57)
  17. src/sortedcontainers/sortedlist.py::SortedKeyList._delete call depth 3 · Ochiai 0.12 (failing 1, passing 14)
  18. src/sortedcontainers/sortedlist.py::SortedKeyList.add call depth 2 · Ochiai 0.10 (failing 1, passing 17)
  19. src/sortedcontainers/sortedlist.py::SortedList.__make_cmp.<locals>.comparer call depth - · Ochiai 0.09 (failing 1, passing 23)
  20. src/sortedcontainers/sortedlist.py::SortedList.__getitem__ call depth 2 · Ochiai 0.09 (failing 1, passing 24)
rank
+3.2s
spectrum order kept (no model call)
  1. src/sortedcontainers/sortedlist.py::SortedKeyList.index
  2. src/sortedcontainers/sortedlist.py::identity
  3. src/sortedcontainers/sortedlist.py::SortedKeyList.bisect_left
  4. src/sortedcontainers/sortedlist.py::SortedList.__reversed__
  5. src/sortedcontainers/sortedlist.py::SortedKeyList.__mul__
read
+5.59s
turn 1 · NVIDIA-Nemotron-3-Nano-30B-A3B · 3262 in / 157 out · 2.39s · $0.00023

read src/sortedcontainers/sortedlist.py::SortedKeyList.index

The failing tests show `ValueError: 0 is not in list` when calling `index` on a SortedDict with negated keys. The test creates a SortedDict with negate function and range(100), then calls `_reset(7)` and checks `index(val)`. The error suggests `index` incorrectly raises ValueError for value 0, which should be present. The `SortedKeyList.index` method (candidate 1) has logic that may mishandle the negated key lookup or bounds checking, especially with `_reset` affecting internal state. This method is the most frequently failing and directly involved in the error.

patch
+7.84s
turn 2 · NVIDIA-Nemotron-3-Nano-30B-A3B · 4633 in / 274 out · 1.88s · $0.00034

The issue occurs because the `stop` parameter is modified in-place by `stop -= 1` on line 2360, which can cause `stop <= start` to become true even when the value should be found. This leads to a false ValueError. The original logic should not alter `stop` before the bounds check, as it affects the validity of the search range. The fix is to move the `stop -= 1` adjustment to after the bounds check, ensuring the condition uses the original `stop` value for validation.

tests: 4 failing (target tests) 4 failed

tests/test_coverage_sorteddict.py::test_index_key
tests/test_coverage_sortedkeylist_modulo.py::test_index
tests/test_coverage_sortedkeylist_negate.py::test_index
tests/test_stress_sortedkeylist.py::test_stress
read
+20.08s
turn 3 · nemotron-3-super-120b-a12b · 5013 in / 1364 out · 12.24s · $0.00273

read src/sortedcontainers/sortedlist.py::SortedList._reset

We need to understand what _reset does, as it is called before the failing index operation. It might affect internal state like _lists, _keys, _maxes, etc., causing the index search to fail.

model reasoning (excerpt)
We need to re-examine the problem. The test failure indicates that `index` is raising ValueError for value 0 when it should be present. Let's look at the test again:

In test_index_key:
    temp = SortedDict(negate, ((val, val) for val in range(100)))
    temp._reset(7)
    assert all(temp.index(val) == (99 - val) for val in range(100))

So we have a SortedDict with key function `negate` (which I assume is `lambda x: -x`). The items are (val, val) for val in 0..99. So the keys are -val, i.e., 0, -1, -2, ..., -99. Since the key is negate, the sorted order of keys is ascending: -99, -98, ..., -1, 0? Wait: negate(val) = -val. So for val=0 -> key=0; val=1 -> key=-1; ... val=99 -> key=-99. So keys are 0, -1, -2, ..., -99. Sorted in ascending order: -99, -98, ..., -1, 0. So the sorted list of values (by key) should be: val=99 (key=-99), val=98 (key=-98), ..., val=0 (key=0). So the index of val should be 99-val? Indeed, val=0 -> index 99, val=99 -> index 0. The test expects index(val) == 99 - val.

Now, after `temp._reset(7)`, what does _reset do? We need to look at SortedList._reset (candidate 10). Let's examine that.

But first, note that the error is "0 is not in list". Which 0? The value being searched is 0 (the integer 0). In the SortedDict, the values are the same as keys? Actually SortedDict maps key to value, but here we constructed with ((val, val) for val in range(100)), so both key and value are val. So we are looking for value 0, which corresponds to key=0 (since key=neg
read
+47.3s
turn 4 · nemotron-3-super-120b-a12b · 10906 in / 4172 out · 27.21s · $0.00703

read src/sortedcontainers/sortedlist.py::SortedKeyList.update

_reset calls _update via self._update(values). We need to examine _update to see how it rebuilds the internal structure (_lists, _keys, _maxes). A bug in _update could cause the index search to fail due to incorrect _maxes or _keys.

model reasoning (excerpt)
We have to look at the failure again. The test does:
    temp = SortedDict(negate, ((val, val) for val in range(100)))
    temp._reset(7)
    assert all(temp.index(val) == (99 - val) for val in range(100))

So we create a SortedDict with keys being the values from 0 to 99, but the key function is `negate` (which I assume is `lambda x: -x`). So the SortedDict is ordered by negative keys, meaning the actual order of the keys in the dict is from 99 down to 0? Actually, if we negate, then the key for value 0 is 0, for 1 is -1, ... for 99 is -99. So the sorted order by key (ascending) would be: -99, -98, ..., 0. That corresponds to the original values: 99, 98, ..., 0. So the SortedDict's keys (the original values) are in descending order: 99,98,...,0.

Then we call `_reset(7)`. This resets the internal structure (the _lists, _keys, etc.) with a load factor of 7. Then we check that `temp.index(val)` returns `99 - val`. For val=0, we expect index 99; for val=99, we expect index 0.

But the error says: `ValueError: 0 is not in list` when trying to get the index of 0. So the index method is failing to find the value 0.

Now, note that the SortedDict is built on top of SortedKeyList (for the keys). The index method we are looking at is from SortedKeyList. However, the SortedDict's index method might be overridden? Let's check the candidates: we don't see SortedDict.index in the list. But the test is calling `temp.index` on a SortedDict. We must look at the SortedDict class to see if it
read
+82.88s
turn 5 · nemotron-3-super-120b-a12b · 12276 in / 4317 out · 35.57s · $0.00757

read src/sortedcontainers/sortedlist.py::SortedKeyList.index

Having examined _reset and _update, I now suspect the issue is in the index method itself. Specifically, line 2360 does `stop -= 1`, which modifies the stop parameter. This is likely incorrect because the bounds check `if start <= loc <= stop` uses this modified stop. However, the original stop (from user input or default) should define the inclusive upper bound. Decrementing it makes the bound exclusive, but then the condition `loc <= stop` becomes too strict. For example, if the user expects to search up to index 5, after `stop -= 1` we only allow up to 4. But the real problem is that this adjustment is done unconditionally, and it interferes with the logic when combined with negative indices or after _reset changes the structure. Let's revert the previous ineffective patch and instead fix the stop decrement by moving it or removing it entirely, since the search loop should respect the original stop as an inclusive bound.

model reasoning (excerpt)
We have identified that the problem is in the `index` method of `SortedKeyList`. The test case uses a `SortedDict` with a `negate` key function, which means the keys are negative of the values. The test does:

    temp = SortedDict(negate, ((val, val) for val in range(100)))
    temp._reset(7)
    assert all(temp.index(val) == (99 - val) for val in range(100))

After `_reset(7)`, the internal structure is rebuilt. The `index` method is expected to return the index of `val` in the sorted-key list, which for the negate key function should be in descending order.

Looking at the `index` method, we see that it computes:

    key = self._key(value)

For the negate key function, `self._key(value) = -value`.

Then it does:

    pos = bisect_left(_maxes, key)

Here, `_maxes` is a list of the maximum keys in each sublist. Since the keys are negative of the values, and the values are in ascending order in the original data, the keys are in descending order. However, note that the `_maxes` are computed from the `_keys` which are the keys of each sublist, and each sublist's keys are in ascending order? Actually, no: the entire list is sorted by the key function. So if the key function is `negate`, then the list is sorted in descending order of the original values.

But wait: the `SortedKeyList` maintains the invariant that the list is sorted according to the key function. So for key=negate, the list is sorted in ascending order of the key, which is descending order of the value.

Now, th
invalid
+106.8s
turn 6 · nemotron-3-super-120b-a12b · 7573 in / 4096 out · 23.92s · $0.00596

invalid: {"action": "patch", "candidate": 1, "old": " if start is None:\n start = 0\n if not (start < 0):\n start += _len\n if start < 0:\n start = 0\n\n if stop is None:\n stop = _len\n if stop < 0:\n stop += _len\n

model reasoning (excerpt)
We have identified that the line `stop -= 1` (line 2360) is problematic. The comment says that `stop` is the stop index (default None, end of sorted-key list). In Python slicing and indexing, the stop index is exclusive. However, the method's docstring says: "Index must be between `start` and `stop` for the `value` to be considered present." This implies that `stop` is inclusive? Actually, in the context of the `index` method, it is similar to `list.index` which takes `start` and `stop` as slice-like indices (so stop is exclusive). But note: the built-in `list.index(x, start, stop)` uses stop as exclusive.

However, the current code does:
   if stop is None: stop = _len
   ... adjust for negatives and clamp ...
   then if stop <= start: raise error
   then stop -= 1

This makes the stop exclusive? Let's see: after adjusting, stop is in [0, _len]. Then we subtract 1, so stop becomes in [-1, _len-1]. Then we use `start <= loc <= stop` (inclusive). So if the user passed stop=_len (meaning the whole list), after adjustment stop becomes _len-1, and then we allow loc up to _len-1 (the last index). That seems correct for an inclusive bound? But wait: the built-in `list.index` with stop=_len would search up to but not including the element at index _len (which doesn't exist). So the built-in stop is exclusive.

In our code, we want to mimic the built-in: the stop index is exclusive. So we should not include the element at index `stop`. Therefore, the condition should be `start <= loc
patch
+138.77s
turn 7 · nemotron-3-super-120b-a12b · 15584 in / 4461 out · 28.75s · $0.00869

The original start normalization had a bug: it added _len when start was NOT negative (line 2338-2339), which is wrong. It should only adjust negative indices by adding _len. The condition `if not (start < 0)` triggered for non-negative start, causing start to be increased by _len unnecessarily, making it out of bounds. This broke the index search, especially after _reset. The fix is to change the condition to `if start < 0` so that only negative indices are adjusted. This matches standard Python list indexing behavior.

--- a/src/sortedcontainers/sortedlist.py+++ b/src/sortedcontainers/sortedlist.py@@ -2336,8 +2336,8 @@         if start is None:             start = 0-        if not (start < 0):+        if start < 0:             start += _len-        if start < 0:-            start = 0+        if start > _len:+            start = _len          if stop is None:

tests: all tests pass 299 passed

model reasoning (excerpt)
We have identified that the issue is likely in the handling of the `stop` parameter in the `index` method.
 The current code does:
   if stop is None:
       stop = _len
   if stop < 0:
       stop += _len
   if stop > _len:
       stop = _len

   Then later: stop -= 1

 And then in the loop: if start <= loc <= stop: ... elif loc > stop: break

 The problem is that the `stop` parameter is intended to be inclusive? Actually, in Python list indexing, slicing uses stop as exclusive.
 However, the docstring says: "Index must be between `start` and `stop` for the `value` to be considered present."

 Let's look at the example in the docstring of the index method:
   >>> skl = SortedKeyList([5, 4, 3, 2, 1], key=neg)
   >>> skl.index(2)
   3

 In this example, the list is [5,4,3,2,1] and the key function is neg, so the keys are [-5,-4,-3,-2,-1] and the values are sorted by key: [5,4,3,2,1] (because neg(5)=-5 is the smallest, so 5 comes first? Actually, wait: the key is applied to the value, and the list is kept sorted by the key. So with key=neg, the list [5,4,3,2,1] becomes sorted by neg: 
   neg(5) = -5, neg(4)=-4, ... neg(1)=-1 -> so the order of keys is -5, -4, -3, -2, -1 (ascending). Therefore the list of values is [5,4,3,2,1] (because the value with the smallest key comes first).

 Now, skl.index(2) returns 3. Indeed, the value 2 is at index 3 (0-indexed) in [5,4,3,2,1].

 The docstring also shows:
   >>> skl.index(0)
   Traceback (most recent call last):
     ...
   ValueError

Final patch

--- a/src/sortedcontainers/sortedlist.py+++ b/src/sortedcontainers/sortedlist.py@@ -2336,8 +2336,8 @@         if start is None:             start = 0-        if not (start < 0):+        if start < 0:             start += _len-        if start < 0:-            start = 0+        if start > _len:+            start = _len          if stop is None: