ROLLOUT 3 · reanahub/reana-client
reanahub__reana-client-701
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9tool calls
11model calls
3,808tokens generated
93,986prompt tokens read
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⚠ The request log has 10 model calls but the trace has 12 agent calls, so tokens are listed separately instead of beside each turn.
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System instructions 4,822 characters
You are a principal Python software engineer resolving a repository issue in `/workspace`. Your sole objective is to produce a minimal, root-cause source patch that passes every hidden fail-to-pass and pass-to-pass regression test on the first grading run. ## Critical Environment & Grader Rules 1. **Air-Gapped Sandbox & Available CLI Tools**: No network access. Never run `pip`, `uv`, `conda`, or `git fetch`. Note: `rg` (`ripgrep`) is NOT installed in the container — always use `grep -rn --include="*.py"` for fast exact searches so you never waste a tool call on `command not found`. 2. **Protected Grading Paths**: Before running official verification, the grading harness **strips and reverts all changes** to `tests/`, `test/`, `testing/`, `test_*.py`, `*_test.py`, `conftest.py`, `pyproject.toml`, `setup.cfg`, `pytest.ini`, and `tox.ini`. Every part of your fix MUST reside in non-test production source files. 3. **Untracked File Trap (`git add -N .`)**: `submit_patch` stages ALL untracked files inside `/workspace`! Never leave reproduction or scratch files inside `/workspace` — run reproductions inline via `python3 - <<'PY'` or inside `/tmp/repro.py` in a single `run_command`. 4. **Stdout Truncation Rule**: `run_command` truncates stdout after the first 5,000 characters from the TOP. Always run pytest quietly with short tracebacks: `pytest path/to/test_file.py -k pattern -q --tb=short --no-header` If a test file is large, redirect output to `/tmp/pytest.log` and inspect `tail -n 80 /tmp/pytest.log` so failure tracebacks at the bottom are never cut off. 5. **Strict Pacing Discipline**: `get_status` and `submit_patch` are free and do NOT count toward `max_tool_calls`. Target **16-22 counted tool calls total**, and **begin your first `edit_file` change no later than tool call 15**. Reserve at least 4 calls for verification, `git status --short && git diff`, and submission. ## Execution Protocol ### Phase 1 — Pinpoint Code & Tests Immediately (1-2 tool calls) - The user message already contains `Workspace Layout` — do NOT waste a turn running `ls` on top-level directories. - Run a single compound `run_command` with `grep -rn --include="*.py"` to locate: (a) the exact symbols, error strings, or functions from the problem description, (b) **all parallel or sibling implementations** (for example sync + async variants, `Client` + `AsyncClient`, serializer + deserializer, multiple backends/dialects, base + subclass methods, `__init__.py` / `__all__` exports), and (c) the closest existing unit test files under `tests/`. ### Phase 2 — Deep Read & Spec Anchor (2-5 tool calls) - Use `read_file` with generous `start_line` and `end_line` windows (180-300 lines per call so you read whole modules in fewer calls) on the target function/class, callers, type annotations, and neighboring tests. - Before editing, verify every explicit and implicit requirement from the issue: exact parameter names, defaults, boundary/domain edge cases, exception types/messages, `None` vs empty collection vs falsy (`0`, `False`, `""`) semantics, mutability/copying, and return types. ### Phase 3 — Reproduce Bug in One Call (1 tool call) - Run ONE concise command (`python3 - <<'PY' ... PY` or targeted `pytest ... -q --tb=short --no-header`) via `run_command` to observe the exact pre-fix failure. Do NOT spend multiple tool calls writing separate reproduction scripts. ### Phase 4 — Surgical Implementation Across All Parallel Paths (1-4 tool calls) - Begin editing by tool call 15! Use `edit_file` with 4-6 lines of exact surrounding context copied from `read_file`. - Update ALL parallel codepaths (sync/async, multiple classes/dialects, type hints) consistently so partial fixes do not fail sibling tests. - **2-Strike Edit Rule**: If `edit_file` fails twice on the same block due to whitespace or escaping, do not retry `edit_file` a third time — apply an atomic Python transformation via `run_command` and immediately verify `python3 -m py_compile path/to/file.py`. ### Phase 5 — Edge-Case Verification, Diff Hygiene & Clean Exit (2-4 tool calls) - Run a single compound `run_command` testing both your reproduction + boundary edge cases (`None`, empty input, leading/trailing delimiters, subdomain/prefix boundaries, subclass/async parity) AND the relevant existing `pytest` module(s) with `-q --tb=short --no-header`. - Run `git status --short && git diff` via `run_command`. Confirm: - ZERO untracked (`??`) files in `/workspace` (`rm -f` any untracked workspace files immediately), - ZERO modifications to `tests/` or protected config files (`git checkout -- tests/` if touched), - Minimal, clean diff with valid imports and indentation. - Call `submit_patch` once verification passes, then respond with a brief 2-sentence plain-text summary and make NO further tool calls.
Task prompt 6,896 characters
You are evaluating a software engineering task for repository reanahub/reana-client. Problem Statement: cli: duration of stopped workflows is not displayed correctly Similarly to what was happening in reanahub/reana-ui#386, when running `reana-client status --include-duration` for a stopped workflow, the displayed duration is not the time between the moment in which the run was started and the moment in which the run was stopped, but the total time passed from the beginning of the run until the current moment. ```console ❯ reana-client status -w recast --include-duration --json | jq '.[0].status' "stopped" ❯ reana-client status -w recast --include-duration --json | jq '.[0].duration' 2598 # After a few seconds... ❯ reana-client status -w recast --include-duration --json | jq '.[0].duration' 2604 ``` This is very likely because in [`reana_client.utils.get_workflow_duration`](https://github.com/reanahub/reana-client/blob/5b278f131b59d3ecfd3c7f129040a126cd01b60a/reana_client/utils.py#L134) we only look at `run_finished_at`, but not at `run_stopped_at`. ## Hints: codecov[bot]: ## [Codecov](https://app.codecov.io/gh/reanahub/reana-client/pull/701?src=pr&el=h1&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=reanahub) Report All modified and coverable lines are covered by tests :white_check_mark: > Comparison is base [(`fa5b7c7`)](https://app.codecov.io/gh/reanahub/reana-client/commit/fa5b7c76eb25bfb1591e6fae4a142d975e14b937?el=desc&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=reanahub) 58.57% compared to head [(`d3925f2`)](https://app.codecov.io/gh/reanahub/reana-client/pull/701?src=pr&el=desc&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=reanahub) 58.62%. <details><summary>Additional details and impacted files</summary> [](https://app.codecov.io/gh/reanahub/reana-client/pull/701?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=reanahub) ```diff @@ Coverage Diff @@ ## master #701 +/- ## ========================================== + Coverage 58.57% 58.62% +0.05% ========================================== Files 24 24 Lines 2390 2393 +3 ========================================== + Hits 1400 1403 +3 Misses 990 990 ``` | [Files](https://app.codecov.io/gh/reanahub/reana-client/pull/701?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=reanahub) | Coverage Δ | | |---|---|---| | [reana\_client/api/client.py](https://app.codecov.io/gh/reanahub/reana-client/pull/701?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=reanahub#diff-cmVhbmFfY2xpZW50L2FwaS9jbGllbnQucHk=) | `45.54% <100.00%> (ø)` | | | [reana\_client/utils.py](https://app.codecov.io/gh/reanahub/reana-client/pull/701?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=reanahub#diff-cmVhbmFfY2xpZW50L3V0aWxzLnB5) | `76.47% <100.00%> (+0.60%)` | :arrow_up: | | [reana\_client/validation/environments.py](https://app.codecov.io/gh/reanahub/reana-client/pull/701?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=reanahub#diff-cmVhbmFfY2xpZW50L3ZhbGlkYXRpb24vZW52aXJvbm1lbnRzLnB5) | `32.50% <ø> (ø)` | | </details> giuseppe-steduto: Note for the reviewer: I chose `status` as the scope of the commit because I think that the commands affected by the PR are a nice user-facing scope for changes to the client. For example, this PR fixes `status`, `list`, and in general the commands that use the `--include-duration` flag, I chose `status` as it is the one most evidently impacted. WDYT? mdonadoni: Regarding the scope, I think `fix(status)` can be a good choice. WDYT @tiborsimko ? ## Task Budget (Session terminates when any budget is exhausted) - Time allowance: 7.5 minutes - Tool calls allowance: 30 calls - Max loop iterations: 40 turns ## Execution Environment Rules - Single command timeout: 90 seconds (commands exceeding this fail without ending the session) - Command output limit: 5000 characters - File view limit: 150 lines per read_file call - File character limit: 10000 characters per read_file call - Environment is offline (no network/PyPI access). All repository and test dependencies are ALREADY pre-installed. Do NOT attempt to run pip install or download packages. ## Instructions: 0. All source code is under `/workspace`. Do NOT search outside `/workspace` (e.g. `/usr/`, `/wheels/`, system site-packages). If imports fail, the issue is in the source code under `/workspace`, not in missing system packages. 1. Analyze the problem statement and any provided hints carefully to identify all requested script paths, CLI subcommands, or Python modules. 2. Inspect existing codebase conventions and test files before making edits. 3. Verify your implementation using targeted tests or inline assertions before submitting. 4. Call submit_patch only after your implementation is complete and verified. 5. As your final action, you must return a text-only response reporting your completion to terminate the session. ## Workspace Layout The repository is located at `/workspace`. Here is the directory tree (up to 3 levels): ``` ./AUTHORS.rst ./CHANGELOG.md ./CHANGES.rst ./CONTRIBUTING.rst ./LICENSE ./MANIFEST.in ./README.rst ./docs ./pytest.ini ./reana_client ./reana_client/__init__.py ./reana_client/api ./reana_client/api/__init__.py ./reana_client/api/client.py ./reana_client/api/utils.py ./reana_client/cli ./reana_client/cli/__init__.py ./reana_client/cli/cwl_runner.py ./reana_client/cli/files.py ./reana_client/cli/ping.py ./reana_client/cli/quotas.py ./reana_client/cli/retention_rules.py ./reana_client/cli/secrets.py ./reana_client/cli/utils.py ./reana_client/cli/workflow.py ./reana_client/config.py ./reana_client/errors.py ./reana_client/printer.py ./reana_client/utils.py ./reana_client/validation ./reana_client/validation/__init__.py ./reana_client/validation/compute_backends.py ./reana_client/validation/environments.py ./reana_client/validation/parameters.py ./reana_client/validation/utils.py ./reana_client/validation/workspace.py ./reana_client/version.py ./requirements-dev.txt ./run-tests.sh ./scripts ./scripts/create-appimage.sh ./scripts/generate_cli_api.py ./setup.cfg ./setup.py ./tests ./tox.ini ```
Turn 1at 16 s225 tokens out4,359 prompt tokens
The user is reporting a bug in `reana-client` where the duration of stopped workflows is incorrectly displayed. Specifically, for a stopped workflow, the duration is being calculated as the time from the start of the run until the current moment, instead of the time from the start of the run until the run was stopped. The problem statement points to `reana_client.utils.get_workflow_duration` as the likely cause, stating that it only looks at `run_finished_at` and not `run_stopped_at`. I need to: 1. Examine `reana_client/utils.py` to find `get_workflow_duration`. 2. Understand how it calculates duration. 3. Implement a fix that considers `run_stopped_at` for stopped workflows. 4. Verify the fix with a test case. Let's start by exploring the code.
TOOL CALL · run_command
{
"command": "grep -rn --include=\"*.py\" \"get_workflow_duration\" ."
}Result of run_command 748 characters
{
"status": "ok",
"stdout": "./reana_client/cli/workflow.py:43: get_workflow_duration,\n./reana_client/cli/workflow.py:251: workflow[\"duration\"] = get_workflow_duration(workflow)\n./reana_client/cli/workflow.py:796: data[-1] += [get_workflow_duration(workflow_response) or \"-\"]\n./reana_client/utils.py:134:def get_workflow_duration(workflow: Dict) -> Optional[int]:\n./tests/test_utils.py:14:from reana_client.utils import get_workflow_duration\n./tests/test_utils.py:24: assert get_workflow_duration(workflow) is None\n./tests/test_utils.py:34: assert get_workflow_duration(workflow) == 60 + 11\n./tests/test_utils.py:49: assert get_workflow_duration(workflow) == 60 + 11\n",
"stderr": "",
"exit_code": 0
}Turn 2at 24 s124 tokens out4,865 prompt tokens
Okay, `get_workflow_duration` is defined in `reana_client/utils.py` at line 134. It is used in `reana_client/cli/workflow.py` and tested in `tests/test_utils.py`. Let's read the implementation of `get_workflow_duration` in `reana_client/utils.py`.
TOOL CALL · read_file
{
"end_line": 160,
"filepath": "reana_client/utils.py",
"start_line": 130
}Result of read_file 1,235 characters
{
"status": "ok",
"filepath": "reana_client/utils.py",
"content": " # Return the name given as parameter without a `run_number`.\n return workflow_name, \"\"\n\n\ndef get_workflow_duration(workflow: Dict) -> Optional[int]:\n \"\"\"Calculate the duration of the workflow.\n\n :param workflow: Workflow details returned by the server.\n :return: The duration of the workflow in seconds or ``None`` if the starting\n time is not present.\n \"\"\"\n\n # FIXME: Use datetime.fromisoformat when moving to Python 3.7 or higher\n def fromisoformat(date_string):\n return datetime.strptime(date_string, \"%Y-%m-%dT%H:%M:%S\")\n\n progress = workflow.get(\"progress\", {})\n run_started_at = progress.get(\"run_started_at\")\n run_finished_at = progress.get(\"run_finished_at\")\n\n duration = None\n if run_started_at:\n start_time = fromisoformat(run_started_at)\n if run_finished_at:\n end_time = fromisoformat(run_finished_at)\n else:\n end_time = datetime.utcnow()\n duration = round((end_time - start_time).total_seconds())\n return duration\n\n",
"start_line": 130,
"end_line": 160,
"total_lines": 277,
"is_truncated": false
}Turn 3at 61 s585 tokens out5,384 prompt tokens
The implementation of `get_workflow_duration` is:
```python
def get_workflow_duration(workflow: Dict) -> Optional[int]:
"""Calculate the duration of the workflow.
:param workflow: Workflow details returned by the server.
:return: The duration of the workflow in seconds or ``None`` if the starting
time is not present.
"""
# FIXME: Use datetime.fromisoformat when moving to Python 3.7 or higher
def fromisoformat(date_string):
return datetime.strptime(date_string, "%Y-%m-%dT%H:%M:%S")
progress = workflow.get("progress", {})
run_started_at = progress.get("run_started_at")
run_finished_at = progress.get("run_finished_at")
duration = None
if run_started_at:
start_time = fromisoformat(run_started_at)
if run_finished_at:
end_time = fromisoformat(run_finished_at)
else:
end_time = datetime.utcnow()
duration = round((end_time - start_time).total_seconds())
return duration
```
The bug is that it only checks for `run_finished_at`. If the workflow was stopped, it should use `run_stopped_at` if `run_finished_at` is not present (or maybe prefer `run_stopped_at` in certain cases?).
The problem description says: "the displayed duration is not the time between the moment in which the run was started and the moment in which the run was stopped, but the total time passed from the beginning of the run until the current moment."
This confirms that if `run_finished_at` is None, it uses `datetime.utcnow()`. If the workflow is stopped, `run_stopped_at` should be used instead of `datetime.utcnow()`.
Wait, if a workflow is stopped, does it have `run_finished_at`?
According to the description, it doesn't (or at least it's not being used).
"This is very likely because in `reana_client.utils.get_workflow_duration` we only look at `run_finished_at`, but not at `run_stopped_at`."
So I should check for `run_stopped_at` in the `progress` dictionary.
Let's examine `tests/test_utils.py` to see how it is currently tested.
TOOL CALL · read_file
{
"filepath": "tests/test_utils.py"
}Result of read_file 1,574 characters
{
"status": "ok",
"filepath": "tests/test_utils.py",
"content": "# -*- coding: utf-8 -*-\n#\n# This file is part of REANA.\n# Copyright (C) 2022 CERN.\n#\n# REANA is free software; you can redistribute it and/or modify it\n# under the terms of the MIT License; see LICENSE file for more details.\n\n\"\"\"REANA client utils tests.\"\"\"\n\nfrom unittest.mock import patch\nfrom datetime import datetime\n\nfrom reana_client.utils import get_workflow_duration\n\n\ndef test_duration_pending_workflow():\n workflow = {\n \"progress\": {\n \"run_started_at\": None,\n \"run_finished_at\": None,\n }\n }\n assert get_workflow_duration(workflow) is None\n\n\ndef test_duration_finished_workflow():\n workflow = {\n \"progress\": {\n \"run_started_at\": \"2022-06-16T14:42:11\",\n \"run_finished_at\": \"2022-06-16T14:43:22\",\n }\n }\n assert get_workflow_duration(workflow) == 60 + 11\n\n\ndef test_duration_running_workflow():\n workflow = {\n \"progress\": {\n \"run_started_at\": \"2022-07-16T14:42:11\",\n \"run_finished_at\": None,\n }\n }\n with patch(\"reana_client.utils.datetime\") as mock_datetime:\n mock_datetime.utcnow.return_value = datetime(2022, 7, 16, 14, 43, 22)\n mock_datetime.strptime.side_effect = lambda *args, **kw: datetime.strptime(\n *args, **kw\n )\n assert get_workflow_duration(workflow) == 60 + 11",
"start_line": 1,
"end_line": 49,
"total_lines": 49,
"is_truncated": false
}Turn 4at 102 s546 tokens out6,523 prompt tokens
I can add a test case for a stopped workflow. A stopped workflow would have `run_started_at` and `run_stopped_at`, but `run_finished_at` would be `None`. Let's create a reproduction script to verify the bug.
TOOL CALL · run_command
{
"command": "python3 - <<'PY'\nfrom datetime import datetime\nfrom reana_client.utils import get_workflow_duration\n\ndef test_duration_stopped_workflow():\n # Started at 14:42:11, stopped at 14:43:22.\n # Should be 71 seconds.\n workflow = {\n \"progress\": {\n \"run_started_at\": \"2022-06-16T14:42:11\",\n \"run_finished_at\": None,\n \"run_stopped_at\": \"2022-06-16T14:43:22\",\n }\n }\n \n # We expect this to return 71.\n # Currently it probably uses datetime.utcnow() and returns something larger.\n duration = get_workflow_duration(workflow)\n print(f\"Duration: {duration}\")\n \n # Since we can't easily know what utcnow() is, we just check if it is not 71.\n # Or better, mock utcnow.\n from unittest.mock import patch\n with patch(\"reana_client.utils.datetime\") as mock_datetime:\n mock_datetime.utcnow.return_value = datetime(2024, 1, 1, 12, 0, 0)\n mock_datetime.strptime.side_effect = lambda *args, **kw: datetime.strptime(\n *args, **kw\n )\n duration = get_workflow_duration(workflow)\n print(f\"Mocked Duration: {duration}\")\n assert duration != 71, f\"Duration was 71 but we expected it to be something else (probably based on utcnow)\"\n\nif __name__ == \"__main__\":\n try:\n test_duration_stopped_workflow()\n print(\"Reproduction successful: duration was NOT equal to 71 as expected (bug present)\")\n except AssertionError as e:\n print(f\"Reproduction failed: {e}\")\nPY\n"
}Result of run_command 524 characters
{
"status": "ok",
"stdout": "Duration: 139241110\nMocked Duration: 48719869\nReproduction successful: duration was NOT equal to 71 as expected (bug present)\n",
"stderr": "/usr/local/lib/python3.10/site-packages/reana_commons/config.py:15: UserWarning: pkg_resources is deprecated as an API. See https://setuptools.pypa.io/en/latest/pkg_resources.html. The pkg_resources package is slated for removal as early as 2025-11-30. Refrain from using this package or pin to Setuptools<81.\n import pkg_resources\n",
"exit_code": 0
}Turn 5at 169 s1,096 tokens out7,265 prompt tokens
The reproduction confirms the bug. For a stopped workflow, `get_workflow_duration` ignores `run_stopped_at` and uses `datetime.utcnow()` because `run_finished_at` is `None`.
Now let's fix it. I should update `get_workflow_duration` to check for `run_stopped_at` if `run_finished_at` is None.
Wait, let's check if `run_stopped_at` should take precedence over `run_finished_at` or if it should be the fallback when `run_finished_at` is missing. Usually, if a workflow is finished, it's finished. If it's stopped, it's stopped.
If it's stopped, it's not "finished" in the sense of completing its task, but it's no longer running.
If both are present, which one should we use?
Commonly, `run_finished_at` might only be set if it completed successfully or failed. Stopped might be a separate state.
Let's look at the current code again:
```python
progress = workflow.get("progress", {})
run_started_at = progress.get("run_started_at")
run_finished_at = progress.get("run_finished_at")
duration = None
if run_started_at:
start_time = fromisoformat(run_started_at)
if run_finished_at:
end_time = fromisoformat(run_finished_at)
else:
end_time = datetime.utcnow()
duration = round((end_time - start_time).total_seconds())
```
I should change it to:
```python
progress = workflow.get("progress", {})
run_started_at = progress.get("run_started_at")
run_finished_at = progress.get("run_finished_at")
run_stopped_at = progress.get("run_stopped_at")
duration = None
if run_started_at:
start_time = fromisoformat(run_started_at)
if run_finished_at:
end_time = fromisoformat(run_finished_at)
elif run_stopped_at:
end_time = fromisoformat(run_stopped_at)
else:
end_time = datetime.utcnow()
duration = round((end_time - start_time).total_seconds())
```
This way, we check `run_finished_at` first, then `run_stopped_at`, and finally fall back to `datetime.utcnow()`.
Let's verify if there are any other fields that could indicate when it ended. The issue specifically mentioned `run_stopped_at`.
Wait, if a workflow is "stopped", does it have `run_finished_at`?
The problem says: "when running `reana-client status --include-duration` for a stopped workflow, the displayed duration is not the time between the moment in which the run was started and the moment in which the run was stopped, but the total time passed from the beginning of the run until the current moment."
This implies that for a stopped workflow, `run_finished_at` is not set (or at least not set to the stop time).
Let's apply the fix.
TOOL CALL · edit_file
{
"filepath": "reana_client/utils.py",
"new_string": " progress = workflow.get(\"progress\", {})\n run_started_at = progress.get(\"run_started_at\")\n run_finished_at = progress.get(\"run_finished_at\")\n run_stopped_at = progress.get(\"run_stopped_at\")\n\n duration = None\n if run_started_at:\n start_time = fromisoformat(run_started_at)\n if run_finished_at:\n end_time = fromisoformat(run_finished_at)\n elif run_stopped_at:\n end_time = fromisoformat(run_stopped_at)\n else:\n end_time = datetime.utcnow()\n duration = round((end_time - start_time).total_seconds())",
"old_string": " progress = workflow.get(\"progress\", {})\n run_started_at = progress.get(\"run_started_at\")\n run_finished_at = progress.get(\"run_finished_at\")\n\n duration = None\n if run_started_at:\n start_time = fromisoformat(run_started_at)\n if run_finished_at:\n end_time = fromisoformat(run_finished_at)\n else:\n end_time = datetime.utcnow()\n duration = round((end_time - start_time).total_seconds())"
}Result of edit_file 828 characters
{
"status": "ok",
"filepath": "reana_client/utils.py",
"occurrences": 1,
"strategy": "exact",
"diff": "--- a/reana_client/utils.py\n+++ b/reana_client/utils.py\n@@ -146,12 +146,15 @@\n progress = workflow.get(\"progress\", {})\n run_started_at = progress.get(\"run_started_at\")\n run_finished_at = progress.get(\"run_finished_at\")\n+ run_stopped_at = progress.get(\"run_stopped_at\")\n \n duration = None\n if run_started_at:\n start_time = fromisoformat(run_started_at)\n if run_finished_at:\n end_time = fromisoformat(run_finished_at)\n+ elif run_stopped_at:\n+ end_time = fromisoformat(run_stopped_at)\n else:\n end_time = datetime.utcnow()\n duration = round((end_time - start_time).total_seconds())\n",
"is_truncated": false
}Turn 6at 212 s716 tokens out8,657 prompt tokens
Now let's verify the fix with the reproduction script and the existing tests.
TOOL CALL · run_command
{
"command": "python3 - <<'PY'\nfrom datetime import datetime\nfrom reana_client.utils import get_workflow_duration\n\ndef test_duration_stopped_workflow():\n # Started at 14:42:11, stopped at 14:43:22.\n # Should be 71 seconds.\n workflow = {\n \"progress\": {\n \"run_started_at\": \"2022-06-16T14:42:11\",\n \"run_finished_at\": None,\n \"run_stopped_at\": \"2022-06-16T14:43:22\",\n }\n }\n \n duration = get_workflow_duration(workflow)\n print(f\"Duration: {duration}\")\n assert duration == 71, f\"Expected 71, got {duration}\"\n\n # Also verify that if both finished and stopped are present, finished takes precedence (as per current logic)\n workflow_both = {\n \"progress\": {\n \"run_started_at\": \"2022-06-16T14:42:11\",\n \"run_finished_at\": \"2022-06-16T14:43:22\",\n \"run_stopped_at\": \"2022-06-16T14:44:00\",\n }\n }\n duration_both = get_workflow_duration(workflow_both)\n print(f\"Duration Both: {duration_both}\")\n assert duration_both == 71, f\"Expected 71, got {duration_both}\"\n\n # Verify that it still uses utcnow if neither are present\n workflow_running = {\n \"progress\": {\n \"run_started_at\": \"2022-06-16T14:42:11\",\n \"run_finished_at\": None,\n \"run_stopped_at\": None,\n }\n }\n from unittest.mock import patch\n with patch(\"reana_client.utils.datetime\") as mock_datetime:\n mock_datetime.utcnow.return_value = datetime(2022, 6, 16, 14, 43, 22)\n mock_datetime.strptime.side_effect = lambda *args, **kw: datetime.strptime(\n *args, **kw\n )\n duration_running = get_workflow_duration(workflow_running)\n print(f\"Mocked Running Duration: {duration_running}\")\n assert duration_running == 71, f\"Expected 71, got {duration_running}\"\n\nif __name__ == \"__main__\":\n try:\n test_duration_stopped_workflow()\n print(\"All checks passed!\")\n except AssertionError as e:\n print(f\"Check failed: {e}\")\nPY\n"
}Result of run_command 477 characters
{
"status": "ok",
"stdout": "Duration: 71\nDuration Both: 71\nMocked Running Duration: 71\nAll checks passed!\n",
"stderr": "/usr/local/lib/python3.10/site-packages/reana_commons/config.py:15: UserWarning: pkg_resources is deprecated as an API. See https://setuptools.pypa.io/en/latest/pkg_resources.html. The pkg_resources package is slated for removal as early as 2025-11-30. Refrain from using this package or pin to Setuptools<81.\n import pkg_resources\n",
"exit_code": 0
}Turn 7at 220 s49 tokens out9,551 prompt tokens
The fix works as intended. Now let's run the existing tests.
TOOL CALL · run_command
{
"command": "pytest tests/test_utils.py -q --tb=short --no-header"
}Result of run_command 2,957 characters
{
"status": "ok",
"stdout": "... [100%]\n\n---------- coverage: platform linux, python 3.10.19-final-0 ----------\nName Stmts Miss Cover Missing\n---------------------------------------------------------------------------\nreana_client/__init__.py 4 0 100%\nreana_client/api/__init__.py 2 2 0% 9-11\nreana_client/api/client.py 415 415 0% 8-1282\nreana_client/api/utils.py 9 9 0% 8-19\nreana_client/cli/__init__.py 47 47 0% 8-97\nreana_client/cli/cwl_runner.py 159 159 0% 8-265\nreana_client/cli/files.py 306 306 0% 8-649\nreana_client/cli/ping.py 60 60 0% 8-130\nreana_client/cli/quotas.py 41 41 0% 8-116\nreana_client/cli/retention_rules.py 28 28 0% 8-73\nreana_client/cli/secrets.py 73 73 0% 8-160\nreana_client/cli/utils.py 183 183 0% 8-408\nreana_client/cli/workflow.py 579 579 0% 8-1459\nreana_client/config.py 35 0 100%\nreana_client/errors.py 4 0 100%\nreana_client/printer.py 17 13 24% 31-62\nreana_client/utils.py 120 78 35% 30-39, 57-78, 84-89, 94-98, 114-131, 157, 166-185, 194, 206-224, 234-251, 256-257, 262-280\nreana_client/validation/__init__.py 1 0 100%\nreana_client/validation/compute_backends.py 14 7 50% 29-39\nreana_client/validation/environments.py 200 167 16% 42-62, 74-77, 81-86, 90, 94-95, 108-121, 129-144, 148-175, 186-221, 225-244, 249-308, 312-373, 380-395, 399, 407-410, 419-429, 434-462, 471-484, 492-503\nreana_client/validation/parameters.py 31 19 39% 26-37, 42-44, 49, 58, 67, 75-79\nreana_client/validation/utils.py 64 48 25% 38-109, 118-131, 136-144, 151-155\nreana_client/validation/workspace.py 15 8 47% 31-45\nreana_client/version.py 3 0 100%\n---------------------------------------------------------------------------\nTOTAL 2410 2242 7%\nCoverage XML written to file coverage.xml\n\n3 passed in 0.28s\n",
"stderr": "/usr/local/lib/python3.10/site-packages/pytest_reana/fixtures.py:19: UserWarning: pkg_resources is deprecated as an API. See https://setuptools.pypa.io/en/latest/pkg_resources.html. The pkg_resources package is slated for removal as early as 2025-11-30. Refrain from using this package or pin to Setuptools<81.\n import pkg_resources\n",
"exit_code": 0
}Turn 8at 235 s188 tokens out10,757 prompt tokens
Existing tests passed. I should check if there are any other places where duration is calculated and where I might have missed something. The `grep` result showed: - `reana_client/cli/workflow.py:43` - `reana_client/cli/workflow.py:251` - `reana_client/cli/workflow.py:796` - `reana_client/utils.py:134` All of these use `get_workflow_duration` from `reana_client/utils.py`, which I have fixed. I'll double check `reana_client/api/client.py` just in case there is some other duration logic.
TOOL CALL · run_command
{
"command": "grep -rn --include=\"*.py\" \"duration\" ."
}Result of run_command 2,644 characters
{
"status": "ok",
"stdout": "./reana_client/cli/workflow.py:43: get_workflow_duration,\n./reana_client/cli/workflow.py:108: \"progress, duration.\",\n./reana_client/cli/workflow.py:126: \"--include-duration\",\n./reana_client/cli/workflow.py:127: \"include_duration\",\n./reana_client/cli/workflow.py:130: help=\"Include the duration of the workflows in seconds. In case a workflow is in \"\n./reana_client/cli/workflow.py:131: \"progress, its duration as of now will be shown.\",\n./reana_client/cli/workflow.py:172: include_duration: bool,\n./reana_client/cli/workflow.py:225: duration_header = [\"duration\"]\n./reana_client/cli/workflow.py:243: if verbose or include_duration:\n./reana_client/cli/workflow.py:244: headers[type] += duration_header\n./reana_client/cli/workflow.py:251: workflow[\"duration\"] = get_workflow_duration(workflow)\n./reana_client/cli/workflow.py:688: \"--include-duration\",\n./reana_client/cli/workflow.py:689: \"include_duration\",\n./reana_client/cli/workflow.py:692: help=\"Include the duration of the workflow in seconds. In case the workflow is in \"\n./reana_client/cli/workflow.py:693: \"progress, its duration as of now will be shown.\",\n./reana_client/cli/workflow.py:700: ctx, workflow, _format, output_format, include_duration, access_token, verbose\n./reana_client/cli/workflow.py:794: if verbose or include_duration:\n./reana_client/cli/workflow.py:795: headers += [\"duration\"]\n./reana_client/cli/workflow.py:796: data[-1] += [get_workflow_duration(workflow_response) or \"-\"]\n./reana_client/utils.py:134:def get_workflow_duration(workflow: Dict) -> Optional[int]:\n./reana_client/utils.py:135: \"\"\"Calculate the duration of the workflow.\n./reana_client/utils.py:138: :return: The duration of the workflow in seconds or ``None`` if the starting\n./reana_client/utils.py:151: duration = None\n./reana_client/utils.py:160: duration = round((end_time - start_time).total_seconds())\n./reana_client/utils.py:161: return duration\n./tests/test_utils.py:14:from reana_client.utils import get_workflow_duration\n./tests/test_utils.py:17:def test_duration_pending_workflow():\n./tests/test_utils.py:24: assert get_workflow_duration(workflow) is None\n./tests/test_utils.py:27:def test_duration_finished_workflow():\n./tests/test_utils.py:34: assert get_workflow_duration(workflow) == 60 + 11\n./tests/test_utils.py:37:def test_duration_running_workflow():\n./tests/test_utils.py:49: assert get_workflow_duration(workflow) == 60 + 11\n",
"stderr": "",
"exit_code": 0
}Turn 9at 242 s100 tokens out11,877 prompt tokens
It seems `get_workflow_duration` is the only place where duration is calculated. I have: 1. Identified the bug in `reana_client/utils.py`. 2. Reproduced the bug with a script. 3. Implemented the fix. 4. Verified the fix with a script and existing tests. Final verification of the diff.
TOOL CALL · run_command
{
"command": "git status --short && git diff"
}Result of run_command 938 characters
{
"status": "ok",
"stdout": " M reana_client/utils.py\ndiff --git a/reana_client/utils.py b/reana_client/utils.py\nindex b8596bf..c19ac20 100644\n--- a/reana_client/utils.py\n+++ b/reana_client/utils.py\n@@ -146,12 +146,15 @@ def get_workflow_duration(workflow: Dict) -> Optional[int]:\n progress = workflow.get(\"progress\", {})\n run_started_at = progress.get(\"run_started_at\")\n run_finished_at = progress.get(\"run_finished_at\")\n+ run_stopped_at = progress.get(\"run_stopped_at\")\n \n duration = None\n if run_started_at:\n start_time = fromisoformat(run_started_at)\n if run_finished_at:\n end_time = fromisoformat(run_finished_at)\n+ elif run_stopped_at:\n+ end_time = fromisoformat(run_stopped_at)\n else:\n end_time = datetime.utcnow()\n duration = round((end_time - start_time).total_seconds())\n",
"stderr": "",
"exit_code": 0
}Turn 10at 246 s57 tokens out12,326 prompt tokens
The diff looks exactly as intended. No untracked files. Note that the reproduction script was run via `python3 - <<'PY'`, so it didn't leave any files. I'm ready to submit.
TOOL CALL · submit_patch
Result of submit_patch 55 characters
{
"status": "ok",
"patch_size": 824,
"files_changed": 1
}Turn 11at 257 s122 tokens out12,422 prompt tokens
I have successfully fixed the bug where the duration of stopped workflows was not displayed correctly. I updated `reana_client.utils.get_workflow_duration` to consider `run_stopped_at` when `run_finished_at` is not present.
Turn 12at 257 s
The duration calculation for stopped workflows in `reana-client` was incorrectly using the current time instead of the time the run was stopped. I updated `reana_client.utils.get_workflow_duration` to check for `run_stopped_at` if `run_finished_at` is missing.
Model calls (not matched to turns)
Generated tokens 225 tokens · stopped: STOP
The user is reporting a bug in `reana-client` where the duration of stopped workflows is incorrectly displayed. Specifically, for a stopped workflow, the duration is being calculated as the time from the start of the run until the current moment, instead of the time from the start of the run until the run was stopped. The problem statement points to `reana_client.utils.get_workflow_duration` as the likely cause, stating that it only looks at `run_finished_at` and not `run_stopped_at`. I need to: 1. Examine `reana_client/utils.py` to find `get_workflow_duration`. 2. Understand how it calculates duration. 3. Implement a fix that considers `run_stopped_at` for stopped workflows. 4. Verify the fix with a test case. Let's start by exploring the code.
<|channel>thought
The user is reporting a bug in `reana-client` where the duration of stopped workflows is incorrectly displayed.
Specifically, for a stopped workflow, the duration is being calculated as the time from the start of the run until the current moment, instead of the time from the start of the run until the run was stopped.
The problem statement points to `reana_client.utils.get_workflow_duration` as the likely cause, stating that it only looks at `run_finished_at` and not `run_stopped_at`.
I need to:
1. Examine `reana_client/utils.py` to find `get_workflow_duration`.
2. Understand how it calculates duration.
3. Implement a fix that considers `run_stopped_at` for stopped workflows.
4. Verify the fix with a test case.
Let's start by exploring the code.<channel|><|tool_call>call:run_command{command:<|"|>grep -rn --include="*.py" "get_workflow_duration" .<|"|>}<tool_call|><|tool_response>
Generated tokens 124 tokens · stopped: STOP
Okay, `get_workflow_duration` is defined in `reana_client/utils.py` at line 134. It is used in `reana_client/cli/workflow.py` and tested in `tests/test_utils.py`. Let's read the implementation of `get_workflow_duration` in `reana_client/utils.py`.
Okay, `get_workflow_duration` is defined in `reana_client/utils.py` at line 134.
It is used in `reana_client/cli/workflow.py` and tested in `tests/test_utils.py`.
Let's read the implementation of `get_workflow_duration` in `reana_client/utils.py`.
<channel|><|tool_call>call:read_file{filepath:<|"|>reana_client/utils.py<|"|>,start_line:130,end_line:160}<tool_call|><|tool_response>
Generated tokens 585 tokens · stopped: STOP
The implementation of `get_workflow_duration` is:
```python
def get_workflow_duration(workflow: Dict) -> Optional[int]:
"""Calculate the duration of the workflow.
:param workflow: Workflow details returned by the server.
:return: The duration of the workflow in seconds or ``None`` if the starting
time is not present.
"""
# FIXME: Use datetime.fromisoformat when moving to Python 3.7 or higher
def fromisoformat(date_string):
return datetime.strptime(date_string, "%Y-%m-%dT%H:%M:%S")
progress = workflow.get("progress", {})
run_started_at = progress.get("run_started_at")
run_finished_at = progress.get("run_finished_at")
duration = None
if run_started_at:
start_time = fromisoformat(run_started_at)
if run_finished_at:
end_time = fromisoformat(run_finished_at)
else:
end_time = datetime.utcnow()
duration = round((end_time - start_time).total_seconds())
return duration
```
The bug is that it only checks for `run_finished_at`. If the workflow was stopped, it should use `run_stopped_at` if `run_finished_at` is not present (or maybe prefer `run_stopped_at` in certain cases?).
The problem description says: "the displayed duration is not the time between the moment in which the run was started and the moment in which the run was stopped, but the total time passed from the beginning of the run until the current moment."
This confirms that if `run_finished_at` is None, it uses `datetime.utcnow()`. If the workflow is stopped, `run_stopped_at` should be used instead of `datetime.utcnow()`.
Wait, if a workflow is stopped, does it have `run_finished_at`?
According to the description, it doesn't (or at least it's not being used).
"This is very likely because in `reana_client.utils.get_workflow_duration` we only look at `run_finished_at`, but not at `run_stopped_at`."
So I should check for `run_stopped_at` in the `progress` dictionary.
Let's examine `tests/test_utils.py` to see how it is currently tested.
The implementation of `get_workflow_duration` is:
```python
def get_workflow_duration(workflow: Dict) -> Optional[int]:
"""Calculate the duration of the workflow.
:param workflow: Workflow details returned by the server.
:return: The duration of the workflow in seconds or ``None`` if the starting
time is not present.
"""
# FIXME: Use datetime.fromisoformat when moving to Python 3.7 or higher
def fromisoformat(date_string):
return datetime.strptime(date_string, "%Y-%m-%dT%H:%M:%S")
progress = workflow.get("progress", {})
run_started_at = progress.get("run_started_at")
run_finished_at = progress.get("run_finished_at")
duration = None
if run_started_at:
start_time = fromisoformat(run_started_at)
if run_finished_at:
end_time = fromisoformat(run_finished_at)
else:
end_time = datetime.utcnow()
duration = round((end_time - start_time).total_seconds())
return duration
```
The bug is that it only checks for `run_finished_at`. If the workflow was stopped, it should use `run_stopped_at` if `run_finished_at` is not present (or maybe prefer `run_stopped_at` in certain cases?).
The problem description says: "the displayed duration is not the time between the moment in which the run was started and the moment in which the run was stopped, but the total time passed from the beginning of the run until the current moment."
This confirms that if `run_finished_at` is None, it uses `datetime.utcnow()`. If the workflow is stopped, `run_stopped_at` should be used instead of `datetime.utcnow()`.
Wait, if a workflow is stopped, does it have `run_finished_at`?
According to the description, it doesn't (or at least it's not being used).
"This is very likely because in `reana_client.utils.get_workflow_duration` we only look at `run_finished_at`, but not at `run_stopped_at`."
So I should check for `run_stopped_at` in the `progress` dictionary.
Let's examine `tests/test_utils.py` to see how it is currently tested.
<channel|><|tool_call>call:read_file{filepath:<|"|>tests/test_utils.py<|"|>}<tool_call|><|tool_response>
Generated tokens 546 tokens · stopped: STOP
I can add a test case for a stopped workflow. A stopped workflow would have `run_started_at` and `run_stopped_at`, but `run_finished_at` would be `None`. Let's create a reproduction script to verify the bug.
I can add a test case for a stopped workflow.
A stopped workflow would have `run_started_at` and `run_stopped_at`, but `run_finished_at` would be `None`.
Let's create a reproduction script to verify the bug.
<channel|><|tool_call>call:run_command{command:<|"|>python3 - <<'PY'
from datetime import datetime
from reana_client.utils import get_workflow_duration
def test_duration_stopped_workflow():
# Started at 14:42:11, stopped at 14:43:22.
# Should be 71 seconds.
workflow = {
"progress": {
"run_started_at": "2022-06-16T14:42:11",
"run_finished_at": None,
"run_stopped_at": "2022-06-16T14:43:22",
}
}
# We expect this to return 71.
# Currently it probably uses datetime.utcnow() and returns something larger.
duration = get_workflow_duration(workflow)
print(f"Duration: {duration}")
# Since we can't easily know what utcnow() is, we just check if it is not 71.
# Or better, mock utcnow.
from unittest.mock import patch
with patch("reana_client.utils.datetime") as mock_datetime:
mock_datetime.utcnow.return_value = datetime(2024, 1, 1, 12, 0, 0)
mock_datetime.strptime.side_effect = lambda *args, **kw: datetime.strptime(
*args, **kw
)
duration = get_workflow_duration(workflow)
print(f"Mocked Duration: {duration}")
assert duration != 71, f"Duration was 71 but we expected it to be something else (probably based on utcnow)"
if __name__ == "__main__":
try:
test_duration_stopped_workflow()
print("Reproduction successful: duration was NOT equal to 71 as expected (bug present)")
except AssertionError as e:
print(f"Reproduction failed: {e}")
PY
<|"|>}<tool_call|><|tool_response>
Generated tokens 1,096 tokens · stopped: STOP
The reproduction confirms the bug. For a stopped workflow, `get_workflow_duration` ignores `run_stopped_at` and uses `datetime.utcnow()` because `run_finished_at` is `None`.
Now let's fix it. I should update `get_workflow_duration` to check for `run_stopped_at` if `run_finished_at` is None.
Wait, let's check if `run_stopped_at` should take precedence over `run_finished_at` or if it should be the fallback when `run_finished_at` is missing. Usually, if a workflow is finished, it's finished. If it's stopped, it's stopped.
If it's stopped, it's not "finished" in the sense of completing its task, but it's no longer running.
If both are present, which one should we use?
Commonly, `run_finished_at` might only be set if it completed successfully or failed. Stopped might be a separate state.
Let's look at the current code again:
```python
progress = workflow.get("progress", {})
run_started_at = progress.get("run_started_at")
run_finished_at = progress.get("run_finished_at")
duration = None
if run_started_at:
start_time = fromisoformat(run_started_at)
if run_finished_at:
end_time = fromisoformat(run_finished_at)
else:
end_time = datetime.utcnow()
duration = round((end_time - start_time).total_seconds())
```
I should change it to:
```python
progress = workflow.get("progress", {})
run_started_at = progress.get("run_started_at")
run_finished_at = progress.get("run_finished_at")
run_stopped_at = progress.get("run_stopped_at")
duration = None
if run_started_at:
start_time = fromisoformat(run_started_at)
if run_finished_at:
end_time = fromisoformat(run_finished_at)
elif run_stopped_at:
end_time = fromisoformat(run_stopped_at)
else:
end_time = datetime.utcnow()
duration = round((end_time - start_time).total_seconds())
```
This way, we check `run_finished_at` first, then `run_stopped_at`, and finally fall back to `datetime.utcnow()`.
Let's verify if there are any other fields that could indicate when it ended. The issue specifically mentioned `run_stopped_at`.
Wait, if a workflow is "stopped", does it have `run_finished_at`?
The problem says: "when running `reana-client status --include-duration` for a stopped workflow, the displayed duration is not the time between the moment in which the run was started and the moment in which the run was stopped, but the total time passed from the beginning of the run until the current moment."
This implies that for a stopped workflow, `run_finished_at` is not set (or at least not set to the stop time).
Let's apply the fix.The reproduction confirms the bug. For a stopped workflow, `get_workflow_duration` ignores `run_stopped_at` and uses `datetime.utcnow()` because `run_finished_at` is `None`.
Now let's fix it. I should update `get_workflow_duration` to check for `run_stopped_at` if `run_finished_at` is None.
Wait, let's check if `run_stopped_at` should take precedence over `run_finished_at` or if it should be the fallback when `run_finished_at` is missing. Usually, if a workflow is finished, it's finished. If it's stopped, it's stopped.
If it's stopped, it's not "finished" in the sense of completing its task, but it's no longer running.
If both are present, which one should we use?
Commonly, `run_finished_at` might only be set if it completed successfully or failed. Stopped might be a separate state.
Let's look at the current code again:
```python
progress = workflow.get("progress", {})
run_started_at = progress.get("run_started_at")
run_finished_at = progress.get("run_finished_at")
duration = None
if run_started_at:
start_time = fromisoformat(run_started_at)
if run_finished_at:
end_time = fromisoformat(run_finished_at)
else:
end_time = datetime.utcnow()
duration = round((end_time - start_time).total_seconds())
```
I should change it to:
```python
progress = workflow.get("progress", {})
run_started_at = progress.get("run_started_at")
run_finished_at = progress.get("run_finished_at")
run_stopped_at = progress.get("run_stopped_at")
duration = None
if run_started_at:
start_time = fromisoformat(run_started_at)
if run_finished_at:
end_time = fromisoformat(run_finished_at)
elif run_stopped_at:
end_time = fromisoformat(run_stopped_at)
else:
end_time = datetime.utcnow()
duration = round((end_time - start_time).total_seconds())
```
This way, we check `run_finished_at` first, then `run_stopped_at`, and finally fall back to `datetime.utcnow()`.
Let's verify if there are any other fields that could indicate when it ended. The issue specifically mentioned `run_stopped_at`.
Wait, if a workflow is "stopped", does it have `run_finished_at`?
The problem says: "when running `reana-client status --include-duration` for a stopped workflow, the displayed duration is not the time between the moment in which the run was started and the moment in which the run was stopped, but the total time passed from the beginning of the run until the current moment."
This implies that for a stopped workflow, `run_finished_at` is not set (or at least not set to the stop time).
Let's apply the fix.<channel|><|tool_call>call:edit_file{filepath:<|"|>reana_client/utils.py<|"|>,new_string:<|"|> progress = workflow.get("progress", {})
run_started_at = progress.get("run_started_at")
run_finished_at = progress.get("run_finished_at")
run_stopped_at = progress.get("run_stopped_at")
duration = None
if run_started_at:
start_time = fromisoformat(run_started_at)
if run_finished_at:
end_time = fromisoformat(run_finished_at)
elif run_stopped_at:
end_time = fromisoformat(run_stopped_at)
else:
end_time = datetime.utcnow()
duration = round((end_time - start_time).total_seconds())<|"|>,old_string:<|"|> progress = workflow.get("progress", {})
run_started_at = progress.get("run_started_at")
run_finished_at = progress.get("run_finished_at")
duration = None
if run_started_at:
start_time = fromisoformat(run_started_at)
if run_finished_at:
end_time = fromisoformat(run_finished_at)
else:
end_time = datetime.utcnow()
duration = round((end_time - start_time).total_seconds())<|"|>}<tool_call|><|tool_response>
Generated tokens 716 tokens · stopped: STOP
Now let's verify the fix with the reproduction script and the existing tests.
Now let's verify the fix with the reproduction script and the existing tests.
<channel|><|tool_call>call:run_command{command:<|"|>python3 - <<'PY'
from datetime import datetime
from reana_client.utils import get_workflow_duration
def test_duration_stopped_workflow():
# Started at 14:42:11, stopped at 14:43:22.
# Should be 71 seconds.
workflow = {
"progress": {
"run_started_at": "2022-06-16T14:42:11",
"run_finished_at": None,
"run_stopped_at": "2022-06-16T14:43:22",
}
}
duration = get_workflow_duration(workflow)
print(f"Duration: {duration}")
assert duration == 71, f"Expected 71, got {duration}"
# Also verify that if both finished and stopped are present, finished takes precedence (as per current logic)
workflow_both = {
"progress": {
"run_started_at": "2022-06-16T14:42:11",
"run_finished_at": "2022-06-16T14:43:22",
"run_stopped_at": "2022-06-16T14:44:00",
}
}
duration_both = get_workflow_duration(workflow_both)
print(f"Duration Both: {duration_both}")
assert duration_both == 71, f"Expected 71, got {duration_both}"
# Verify that it still uses utcnow if neither are present
workflow_running = {
"progress": {
"run_started_at": "2022-06-16T14:42:11",
"run_finished_at": None,
"run_stopped_at": None,
}
}
from unittest.mock import patch
with patch("reana_client.utils.datetime") as mock_datetime:
mock_datetime.utcnow.return_value = datetime(2022, 6, 16, 14, 43, 22)
mock_datetime.strptime.side_effect = lambda *args, **kw: datetime.strptime(
*args, **kw
)
duration_running = get_workflow_duration(workflow_running)
print(f"Mocked Running Duration: {duration_running}")
assert duration_running == 71, f"Expected 71, got {duration_running}"
if __name__ == "__main__":
try:
test_duration_stopped_workflow()
print("All checks passed!")
except AssertionError as e:
print(f"Check failed: {e}")
PY
<|"|>}<tool_call|><|tool_response>
Generated tokens 49 tokens · stopped: STOP
The fix works as intended. Now let's run the existing tests.
The fix works as intended. Now let's run the existing tests.
<channel|><|tool_call>call:run_command{command:<|"|>pytest tests/test_utils.py -q --tb=short --no-header<|"|>}<tool_call|><|tool_response>
Generated tokens 188 tokens · stopped: STOP
Existing tests passed. I should check if there are any other places where duration is calculated and where I might have missed something. The `grep` result showed: - `reana_client/cli/workflow.py:43` - `reana_client/cli/workflow.py:251` - `reana_client/cli/workflow.py:796` - `reana_client/utils.py:134` All of these use `get_workflow_duration` from `reana_client/utils.py`, which I have fixed. I'll double check `reana_client/api/client.py` just in case there is some other duration logic.
Existing tests passed.
I should check if there are any other places where duration is calculated and where I might have missed something.
The `grep` result showed:
- `reana_client/cli/workflow.py:43`
- `reana_client/cli/workflow.py:251`
- `reana_client/cli/workflow.py:796`
- `reana_client/utils.py:134`
All of these use `get_workflow_duration` from `reana_client/utils.py`, which I have fixed.
I'll double check `reana_client/api/client.py` just in case there is some other duration logic.
<channel|><|tool_call>call:run_command{command:<|"|>grep -rn --include="*.py" "duration" .<|"|>}<tool_call|><|tool_response>
Generated tokens 100 tokens · stopped: STOP
It seems `get_workflow_duration` is the only place where duration is calculated. I have: 1. Identified the bug in `reana_client/utils.py`. 2. Reproduced the bug with a script. 3. Implemented the fix. 4. Verified the fix with a script and existing tests. Final verification of the diff.
It seems `get_workflow_duration` is the only place where duration is calculated.
I have:
1. Identified the bug in `reana_client/utils.py`.
2. Reproduced the bug with a script.
3. Implemented the fix.
4. Verified the fix with a script and existing tests.
Final verification of the diff.
<channel|><|tool_call>call:run_command{command:<|"|>git status --short && git diff<|"|>}<tool_call|><|tool_response>
Generated tokens 57 tokens · stopped: STOP
The diff looks exactly as intended. No untracked files. Note that the reproduction script was run via `python3 - <<'PY'`, so it didn't leave any files. I'm ready to submit.
The diff looks exactly as intended. No untracked files. Note that the reproduction script was run via `python3 - <<'PY'`, so it didn't leave any files.
I'm ready to submit.
<channel|><|tool_call>call:submit_patch{}<tool_call|><|tool_response>
Patch, tests and logs
Final code change Included
diff --git a/reana_client/utils.py b/reana_client/utils.py
index b8596bf..c19ac20 100644
--- a/reana_client/utils.py
+++ b/reana_client/utils.py
@@ -146,12 +146,15 @@ def get_workflow_duration(workflow: Dict) -> Optional[int]:
progress = workflow.get("progress", {})
run_started_at = progress.get("run_started_at")
run_finished_at = progress.get("run_finished_at")
+ run_stopped_at = progress.get("run_stopped_at")
duration = None
if run_started_at:
start_time = fromisoformat(run_started_at)
if run_finished_at:
end_time = fromisoformat(run_finished_at)
+ elif run_stopped_at:
+ end_time = fromisoformat(run_stopped_at)
else:
end_time = datetime.utcnow()
duration = round((end_time - start_time).total_seconds())
Test output Included
============================= test session starts ============================== collected 139 items tests/test_cli_files.py ................... [ 13%] tests/test_cli_ping.py .... [ 16%] tests/test_cli_retention_rules.py . [ 17%] tests/test_cli_secrets.py ......... [ 23%] tests/test_cli_workflows.py ............................................ [ 55%] ...x.... [ 61%] tests/test_utils.py .... [ 64%] tests/test_validate_compute_backends.py .................... [ 78%] tests/test_validate_environments.py ................ [ 89%] tests/test_validate_parameters.py ........ [ 95%] tests/test_validate_server_capabilities.py ..... [ 99%] tests/test_version.py . [100%] ==================================== PASSES ==================================== _____________ test_create_snakemake_workflow_from_json_parameters ______________ ----------------------------- Captured stdout call ----------------------------- Building DAG of jobs... Job stats: job count ----- ------- foo 1 total 1 ------------------------------ Captured log call ------------------------------- WARNING snakemake.logging:logging.py:580 Building DAG of jobs... WARNING snakemake.logging:logging.py:590 Job stats: job count ----- ------- foo 1 total 1 _________________________ test_validate_parameters_cwl _________________________ ----------------------------- Captured stderr call ----------------------------- /usr/local/lib/python3.10/site-packages/cwltool/main.py:37: UserWarning: pkg_resources is deprecated as an API. See https://setuptools.pypa.io/en/latest/pkg_resources.html. The pkg_resources package is slated for removal as early as 2025-11-30. Refrain from using this package or pin to Setuptools<81. import pkg_resources # part of setuptools /usr/local/lib/python3.10/site-packages/cwltool/main.py:37: UserWarning: pkg_resources is deprecated as an API. See https://setuptools.pypa.io/en/latest/pkg_resources.html. The pkg_resources package is slated for removal as early as 2025-11-30. Refrain from using this package or pin to Setuptools<81. import pkg_resources # part of setuptools - generated xml file: /tmp/rebench-grade-4121cf42cc1043a883f806f93e921459.xml -- ---------- coverage: platform linux, python 3.10.19-final-0 ---------- Name Stmts Miss Cover Missing --------------------------------------------------------------------------- reana_client/__init__.py 4 0 100% reana_client/api/__init__.py 2 0 100% reana_client/api/client.py 415 226 46% 57, 63-71, 84-105, 155-170, 190-205, 229-244, 286, 288, 290, 293, 303, 328-343, 367-382, 411-427, 442-469, 507-525, 554, 560-567, 598-613, 629, 631-634, 640-641, 646, 649-650, 655-665, 677, 686-692, 711-726, 738-760, 776-811, 825-850, 869-896, 923-937, 956-970, 995-1010, 1039-1054, 1080, 1096-1098, 1116-1136, 1154-1169, 1190-1205, 1220-1244, 1269-1282 reana_client/api/utils.py 9 0 100% reana_client/cli/__init__.py 47 18 62% 60-77 reana_client/cli/cwl_runner.py 159 159 0% 8-265 reana_client/cli/files.py 306 74 76% 45, 159-168, 221-236, 257, 265-280, 282, 322-328, 336-342, 350-354, 373-374, 404-405, 411-412, 421-438, 440, 490-497, 530-534, 577-584, 643-649 reana_client/cli/ping.py 60 22 63% 25, 67-74, 87, 112-130 reana_client/cli/quotas.py 41 22 46% 30, 72-116 reana_client/cli/retention_rules.py 28 5 82% 29, 64-67 reana_client/cli/secrets.py 73 18 75% 30, 85-91, 113-127, 154-160 reana_client/cli/utils.py 183 52 72% 162, 165-166, 186-190, 193, 197-203, 211-212, 257-258, 288-294, 300-304, 322-328, 340-408 reana_client/cli/workflow.py 579 210 64% 60, 67, 369-370, 388-395, 488-497, 589-668, 718, 726, 731, 749-751, 761-765, 770-773, 800-808, 844-937, 1003-1011, 1013-1020, 1022-1028, 1054-1080, 1207-1235, 1277-1336, 1342, 1412-1421, 1450-1459 reana_client/config.py 35 0 100% reana_client/errors.py 4 0 100% reana_client/printer.py 17 2 88% 41-47 reana_client/utils.py 120 29 76% 31-37, 74, 78, 89, 97, 119-124, 128-131, 166-185, 244-251, 280 reana_client/validation/__init__.py 1 0 100% reana_client/validation/compute_backends.py 14 3 79% 32-38 reana_client/validation/environments.py 200 135 32% 42-62, 81-86, 90, 94-95, 108-121, 129-144, 148-175, 225-244, 249-308, 325, 328-338, 341-363, 380-395, 407-410, 419-429, 434-462, 471-484, 492-503 reana_client/validation/parameters.py 31 0 100% reana_client/validation/utils.py 64 17 73% 39-47, 56, 62-81, 87, 105-109 reana_client/validation/workspace.py 15 0 100% reana_client/version.py 3 0 100% --------------------------------------------------------------------------- TOTAL 2410 992 59% Coverage XML written to file coverage.xml =========================== short test summary info ============================ PASSED tests/test_cli_files.py::test_list_files_server_not_reachable PASSED tests/test_cli_files.py::test_list_files_server_no_token PASSED tests/test_cli_files.py::test_list_files_ok PASSED tests/test_cli_files.py::test_list_files_url PASSED tests/test_cli_files.py::test_download_file PASSED tests/test_cli_files.py::test_download_file_stdout PASSED tests/test_cli_files.py::test_download_multiple_files_stdout PASSED tests/test_cli_files.py::test_upload_file PASSED tests/test_cli_files.py::test_upload_file_respect_gitignore PASSED tests/test_cli_files.py::test_upload_file_skip_empty_git_and_reana_ignore_files PASSED tests/test_cli_files.py::test_upload_file_respect_reanaignore_and_gitignore PASSED tests/test_cli_files.py::test_delete_file PASSED tests/test_cli_files.py::test_delete_non_existing_file PASSED tests/test_cli_files.py::test_move_files PASSED tests/test_cli_files.py::test_list_files_filter PASSED tests/test_cli_files.py::test_list_disk_usage_with_valid_filter PASSED tests/test_cli_files.py::test_list_disk_usage_with_invalid_filter PASSED tests/test_cli_files.py::test_list_files_filter_with_filename PASSED tests/test_cli_files.py::test_prune_workspace PASSED tests/test_cli_ping.py::test_ping_token_not_set PASSED tests/test_cli_ping.py::test_ping_server_not_set PASSED tests/test_cli_ping.py::test_ping_server_not_reachable PASSED tests/test_cli_ping.py::test_ping_ok PASSED tests/test_cli_retention_rules.py::test_retention_rules_list PASSED tests/test_cli_secrets.py::test_secrets_list_server_not_reachable PASSED tests/test_cli_secrets.py::test_secrets_list_server_no_token PASSED tests/test_cli_secrets.py::test_secrets_list_ok PASSED tests/test_cli_secrets.py::test_secrets_add[USER=reanauser] PASSED tests/test_cli_secrets.py::test_secrets_add[USER=reana=user] PASSED tests/test_cli_secrets.py::test_secrets_add_wrong_format[wrongformat] PASSED tests/test_cli_secrets.py::test_secrets_add_wrong_format[PASS:123] PASSED tests/test_cli_secrets.py::test_secrets_add_already_exist PASSED tests/test_cli_secrets.py::test_secrets_delete PASSED tests/test_cli_workflows.py::test_workflows_server_not_connected PASSED tests/test_cli_workflows.py::test_workflows_no_token PASSED tests/test_cli_workflows.py::test_workflows_server_ok PASSED tests/test_cli_workflows.py::test_deleted_workflows[cli_options0-expected_status_filter0] PASSED tests/test_cli_workflows.py::test_deleted_workflows[cli_options1-expected_status_filter1] PASSED tests/test_cli_workflows.py::test_deleted_workflows[cli_options2-expected_status_filter2] PASSED tests/test_cli_workflows.py::test_deleted_workflows[cli_options3-expected_status_filter3] PASSED tests/test_cli_workflows.py::test_deleted_workflows[cli_options4-expected_status_filter4] PASSED tests/test_cli_workflows.py::test_deleted_workflows[cli_options5-expected_status_filter5] PASSED tests/test_cli_workflows.py::test_deleted_workflows[cli_options6-expected_status_filter6] PASSED tests/test_cli_workflows.py::test_deleted_workflows[cli_options7-expected_status_filter7] PASSED tests/test_cli_workflows.py::test_deleted_workflows[cli_options8-expected_status_filter8] PASSED tests/test_cli_workflows.py::test_workflows_sorting[cli_options0-mytest 15 2018-06-13T10:55:37 - - running\nmytest 2 2018-06-13T09:55:35 - - running\nmytest 1 * 2018-06-13T09:47:35 2018-06-13T09:47:40 2018-06-13T10:30:03 running] PASSED tests/test_cli_workflows.py::test_workflows_sorting[cli_options1-mytest 1 * 2018-06-13T09:47:35 2018-06-13T09:47:40 2018-06-13T10:30:03 running 1.55 MiB\nmytest 2 2018-06-13T09:55:35 - - running 540 KiB \nmytest 15 2018-06-13T10:55:37 - - running 192 KiB ] PASSED tests/test_cli_workflows.py::test_workflows_sessions PASSED tests/test_cli_workflows.py::test_workflows_valid_json PASSED tests/test_cli_workflows.py::test_workflows_include_progress PASSED tests/test_cli_workflows.py::test_workflows_without_include_progress PASSED tests/test_cli_workflows.py::test_workflows_include_workspace_size PASSED tests/test_cli_workflows.py::test_workflows_without_include_workspace_size PASSED tests/test_cli_workflows.py::test_workflows_format PASSED tests/test_cli_workflows.py::test_workflows_filter PASSED tests/test_cli_workflows.py::test_workflow_create_failed PASSED tests/test_cli_workflows.py::test_workflow_create_successful PASSED tests/test_cli_workflows.py::test_workflow_create_not_valid_name PASSED tests/test_cli_workflows.py::test_create_workflow_from_json PASSED tests/test_cli_workflows.py::test_create_snakemake_workflow_from_json_parameters PASSED tests/test_cli_workflows.py::test_workflow_start_successful[created-0] PASSED tests/test_cli_workflows.py::test_workflow_start_successful[pending-0] PASSED tests/test_cli_workflows.py::test_workflow_start_successful[queued-0] PASSED tests/test_cli_workflows.py::test_workflow_start_successful[running-0] PASSED tests/test_cli_workflows.py::test_workflow_start_successful[finished-0] PASSED tests/test_cli_workflows.py::test_workflow_start_successful[failed-1] PASSED tests/test_cli_workflows.py::test_workflow_start_successful[deleted-1] PASSED tests/test_cli_workflows.py::test_workflow_start_successful[stopped-1] PASSED tests/test_cli_workflows.py::test_workflow_start_follow[running-finished-0] PASSED tests/test_cli_workflows.py::test_workflow_start_follow[running-failed-1] PASSED tests/test_cli_workflows.py::test_workflow_start_follow[running-stopped-1] PASSED tests/test_cli_workflows.py::test_workflow_start_follow[queued-finished-0] PASSED tests/test_cli_workflows.py::test_workflow_start_follow[pending-deleted-1] PASSED tests/test_cli_workflows.py::test_workflows_validate PASSED tests/test_cli_workflows.py::test_get_workflow_status_ok PASSED tests/test_cli_workflows.py::test_run PASSED tests/test_cli_workflows.py::test_workflow_input_parameters PASSED tests/test_cli_workflows.py::test_open_interactive_session[jupyter-reana_info0-True] PASSED tests/test_cli_workflows.py::test_open_interactive_session[jupyter-reana_info1-False] PASSED tests/test_cli_workflows.py::test_open_interactive_session[jupyter-reana_info2-False] PASSED tests/test_cli_workflows.py::test_close_interactive_session PASSED tests/test_cli_workflows.py::test_multiple_specifications PASSED tests/test_cli_workflows.py::test_yml_ext_specification PASSED tests/test_cli_workflows.py::test_run_with_no_inputs PASSED tests/test_utils.py::test_duration_pending_workflow PASSED tests/test_utils.py::test_duration_finished_workflow PASSED tests/test_utils.py::test_duration_stopped_workflow PASSED tests/test_utils.py::test_duration_running_workflow PASSED tests/test_validate_compute_backends.py::test_validate_compute_backends_serial[kubernetes-supported_backends0-True] PASSED tests/test_validate_compute_backends.py::test_validate_compute_backends_serial[kubernetes-supported_backends1-True] PASSED tests/test_validate_compute_backends.py::test_validate_compute_backends_serial[slurmcern-supported_backends2-True] PASSED tests/test_validate_compute_backends.py::test_validate_compute_backends_serial[slurmcern-supported_backends3-False] PASSED tests/test_validate_compute_backends.py::test_validate_compute_backends_serial[htcondorcern-supported_backends4-False] PASSED tests/test_validate_compute_backends.py::test_validate_compute_backends_yadage[kubernetes-supported_backends0-True] PASSED tests/test_validate_compute_backends.py::test_validate_compute_backends_yadage[kubernetes-supported_backends1-True] PASSED tests/test_validate_compute_backends.py::test_validate_compute_backends_yadage[slurmcern-supported_backends2-True] PASSED tests/test_validate_compute_backends.py::test_validate_compute_backends_yadage[slurmcern-supported_backends3-False] PASSED tests/test_validate_compute_backends.py::test_validate_compute_backends_yadage[htcondorcern-supported_backends4-False] PASSED tests/test_validate_compute_backends.py::test_validate_compute_backends_snakemake[kubernetes-supported_backends0-True] PASSED tests/test_validate_compute_backends.py::test_validate_compute_backends_snakemake[kubernetes-supported_backends1-True] PASSED tests/test_validate_compute_backends.py::test_validate_compute_backends_snakemake[slurmcern-supported_backends2-True] PASSED tests/test_validate_compute_backends.py::test_validate_compute_backends_snakemake[slurmcern-supported_backends3-False] PASSED tests/test_validate_compute_backends.py::test_validate_compute_backends_snakemake[htcondorcern-supported_backends4-False] PASSED tests/test_validate_compute_backends.py::test_validate_compute_backends_cwl[kubernetes-supported_backends0-True] PASSED tests/test_validate_compute_backends.py::test_validate_compute_backends_cwl[kubernetes-supported_backends1-True] PASSED tests/test_validate_compute_backends.py::test_validate_compute_backends_cwl[slurmcern-supported_backends2-True] PASSED tests/test_validate_compute_backends.py::test_validate_compute_backends_cwl[slurmcern-supported_backends3-False] PASSED tests/test_validate_compute_backends.py::test_validate_compute_backends_cwl[htcondorcern-supported_backends4-False] PASSED tests/test_validate_environments.py::test_validate_environment_image_tag[foo:bar-has the correct format-False] PASSED tests/test_validate_environments.py::test_validate_environment_image_tag[foo/bar:baz-has the correct format-False] PASSED tests/test_validate_environments.py::test_validate_environment_image_tag[foo/bar-not have an explicit tag-False] PASSED tests/test_validate_environments.py::test_validate_environment_image_tag[foo/bar:-tag is not recommended-False] PASSED tests/test_validate_environments.py::test_validate_environment_image_tag[foo/bar:latest-tag is not recommended-False] PASSED tests/test_validate_environments.py::test_validate_environment_image_tag[foo:master-tag is not recommended-False] PASSED tests/test_validate_environments.py::test_validate_environment_image_tag[foo:bar:baz-has invalid tag-True] PASSED tests/test_validate_environments.py::test_validate_environment_image_tag[foo:bar:-has invalid tag-True] PASSED tests/test_validate_environments.py::test_validate_environment_image_tag[foo:bar -contains illegal characters-True] PASSED tests/test_validate_environments.py::test_get_full_image_name[foo-bar-foo:bar] PASSED tests/test_validate_environments.py::test_get_full_image_name[foo--foo] PASSED tests/test_validate_environments.py::test_get_full_image_name[foo-None-foo] PASSED tests/test_validate_environments.py::test_get_full_image_name[foo-latest-foo:latest] PASSED tests/test_validate_environments.py::test_image_exists_in_dockerhub[reanahub/reana-env-aliphysics:vAN-20180614-1-https://hub.docker.com/v2/repositories/reanahub/reana-env-aliphysics/tags/vAN-20180614-1] PASSED tests/test_validate_environments.py::test_image_exists_in_dockerhub[docker.io/reanahub/reana-env-aliphysics:vAN-20180614-1-https://hub.docker.com/v2/repositories/reanahub/reana-env-aliphysics/tags/vAN-20180614-1] PASSED tests/test_validate_environments.py::test_image_exists_in_dockerhub[python:2.7-https://hub.docker.com/v2/repositories/library/python/tags/2.7] PASSED tests/test_validate_parameters.py::test_validate_parameters_cwl PASSED tests/test_validate_parameters.py::test_validate_parameters_serial PASSED tests/test_validate_parameters.py::test_validate_parameters_yadage PASSED tests/test_validate_parameters.py::test_validate_dangerous_operations[commands0-gendata-] PASSED tests/test_validate_parameters.py::test_validate_dangerous_operations[commands1-fitdata-"sudo" found in step "fitdata" might be dangerous.] PASSED tests/test_validate_parameters.py::test_validate_dangerous_operations[commands2-fitdata-"sudo" found in step "fitdata" might be dangerous.] PASSED tests/test_validate_parameters.py::test_validate_dangerous_operations[commands3-installation-"cd /" found in step "installation" might be dangerous.] PASSED tests/test_validate_parameters.py::test_validate_dangerous_operations[commands4-None-"sudo" might be dangerous.] PASSED tests/test_validate_server_capabilities.py::test_validate_workspaces[False-cli_args0-appear valid-0-available_workspaces0] PASSED tests/test_validate_server_capabilities.py::test_validate_workspaces[False-cli_args1-Please provide your access token by using the -t/--access-token flag, or by setting the REANA_ACCESS_TOKEN environment variable.-1-available_workspaces1] PASSED tests/test_validate_server_capabilities.py::test_validate_workspaces[False-cli_args2-Valid REANA specification file.-0-available_workspaces2] PASSED tests/test_validate_server_capabilities.py::test_validate_workspaces[True-cli_args3-Workflow workspace appears valid.-0-available_workspaces3] PASSED tests/test_validate_server_capabilities.py::test_validate_workspaces[True-cli_args4-Desired workspace "/var/reana" is not valid.-1-available_workspaces4] PASSED tests/test_version.py::test_version XFAIL tests/test_cli_workflows.py::test_open_interactive_session[wrong-interactive-type-reana_info3-True] ======================= 138 passed, 1 xfailed in 11.65s ========================
Test errors Included
/usr/local/lib/python3.10/site-packages/pytest_reana/fixtures.py:19: UserWarning: pkg_resources is deprecated as an API. See https://setuptools.pypa.io/en/latest/pkg_resources.html. The pkg_resources package is slated for removal as early as 2025-11-30. Refrain from using this package or pin to Setuptools<81. import pkg_resources
Test report (JUnit) Included
<?xml version="1.0" encoding="utf-8"?><testsuites><testsuite name="pytest" errors="0" failures="0" skipped="1" tests="139" time="11.649" timestamp="2026-11-14T04:50:00.024185" hostname="b222e801ae39"><testcase classname="tests.test_cli_files" name="test_list_files_server_not_reachable" time="0.002" /><testcase classname="tests.test_cli_files" name="test_list_files_server_no_token" time="0.001" /><testcase classname="tests.test_cli_files" name="test_list_files_ok" time="0.137" /><testcase classname="tests.test_cli_files" name="test_list_files_url" time="0.126" /><testcase classname="tests.test_cli_files" name="test_download_file" time="0.125" /><testcase classname="tests.test_cli_files" name="test_download_file_stdout" time="0.002" /><testcase classname="tests.test_cli_files" name="test_download_multiple_files_stdout" time="0.004" /><testcase classname="tests.test_cli_files" name="test_upload_file" time="0.003" /><testcase classname="tests.test_cli_files" name="test_upload_file_respect_gitignore" time="0.002" /><testcase classname="tests.test_cli_files" name="test_upload_file_skip_empty_git_and_reana_ignore_files" time="0.003" /><testcase classname="tests.test_cli_files" name="test_upload_file_respect_reanaignore_and_gitignore" time="0.004" /><testcase classname="tests.test_cli_files" name="test_delete_file" time="0.124" /><testcase classname="tests.test_cli_files" name="test_delete_non_existing_file" time="0.124" /><testcase classname="tests.test_cli_files" name="test_move_files" time="0.001" /><testcase classname="tests.test_cli_files" name="test_list_files_filter" time="0.125" /><testcase classname="tests.test_cli_files" name="test_list_disk_usage_with_valid_filter" time="0.125" /><testcase classname="tests.test_cli_files" name="test_list_disk_usage_with_invalid_filter" time="0.124" /><testcase classname="tests.test_cli_files" name="test_list_files_filter_with_filename" time="0.123" /><testcase classname="tests.test_cli_files" name="test_prune_workspace" time="0.171" /><testcase classname="tests.test_cli_ping" name="test_ping_token_not_set" time="0.001" /><testcase classname="tests.test_cli_ping" name="test_ping_server_not_set" time="0.001" /><testcase classname="tests.test_cli_ping" name="test_ping_server_not_reachable" time="0.124" /><testcase classname="tests.test_cli_ping" name="test_ping_ok" time="0.124" /><testcase classname="tests.test_cli_retention_rules" name="test_retention_rules_list" time="0.001" /><testcase classname="tests.test_cli_secrets" name="test_secrets_list_server_not_reachable" time="0.001" /><testcase classname="tests.test_cli_secrets" name="test_secrets_list_server_no_token" time="0.001" /><testcase classname="tests.test_cli_secrets" name="test_secrets_list_ok" time="0.124" /><testcase classname="tests.test_cli_secrets" name="test_secrets_add[USER=reanauser]" time="0.125" /><testcase classname="tests.test_cli_secrets" name="test_secrets_add[USER=reana=user]" time="0.125" /><testcase classname="tests.test_cli_secrets" name="test_secrets_add_wrong_format[wrongformat]" time="0.001" /><testcase classname="tests.test_cli_secrets" name="test_secrets_add_wrong_format[PASS:123]" time="0.001" /><testcase classname="tests.test_cli_secrets" name="test_secrets_add_already_exist" time="0.001" /><testcase classname="tests.test_cli_secrets" name="test_secrets_delete" time="0.123" /><testcase classname="tests.test_cli_workflows" name="test_workflows_server_not_connected" time="0.001" /><testcase classname="tests.test_cli_workflows" name="test_workflows_no_token" time="0.001" /><testcase classname="tests.test_cli_workflows" name="test_workflows_server_ok" time="0.129" /><testcase classname="tests.test_cli_workflows" name="test_deleted_workflows[cli_options0-expected_status_filter0]" time="0.002" /><testcase classname="tests.test_cli_workflows" name="test_deleted_workflows[cli_options1-expected_status_filter1]" time="0.001" /><testcase classname="tests.test_cli_workflows" name="test_deleted_workflows[cli_options2-expected_status_filter2]" time="0.001" /><testcase classname="tests.test_cli_workflows" name="test_deleted_workflows[cli_options3-expected_status_filter3]" time="0.001" /><testcase classname="tests.test_cli_workflows" name="test_deleted_workflows[cli_options4-expected_status_filter4]" time="0.001" /><testcase classname="tests.test_cli_workflows" name="test_deleted_workflows[cli_options5-expected_status_filter5]" time="0.001" /><testcase classname="tests.test_cli_workflows" name="test_deleted_workflows[cli_options6-expected_status_filter6]" time="0.001" /><testcase classname="tests.test_cli_workflows" name="test_deleted_workflows[cli_options7-expected_status_filter7]" time="0.001" /><testcase classname="tests.test_cli_workflows" name="test_deleted_workflows[cli_options8-expected_status_filter8]" time="0.001" /><testcase classname="tests.test_cli_workflows" name="test_workflows_sorting[cli_options0-mytest 15 2018-06-13T10:55:37 - - running\nmytest 2 2018-06-13T09:55:35 - - running\nmytest 1 * 2018-06-13T09:47:35 2018-06-13T09:47:40 2018-06-13T10:30:03 running]" time="0.125" /><testcase classname="tests.test_cli_workflows" name="test_workflows_sorting[cli_options1-mytest 1 * 2018-06-13T09:47:35 2018-06-13T09:47:40 2018-06-13T10:30:03 running 1.55 MiB\nmytest 2 2018-06-13T09:55:35 - - running 540 KiB \nmytest 15 2018-06-13T10:55:37 - - running 192 KiB ]" time="0.124" /><testcase classname="tests.test_cli_workflows" name="test_workflows_sessions" time="0.124" /><testcase classname="tests.test_cli_workflows" name="test_workflows_valid_json" time="0.124" /><testcase classname="tests.test_cli_workflows" name="test_workflows_include_progress" time="0.124" /><testcase classname="tests.test_cli_workflows" name="test_workflows_without_include_progress" time="0.127" /><testcase classname="tests.test_cli_workflows" name="test_workflows_include_workspace_size" time="0.128" /><testcase classname="tests.test_cli_workflows" name="test_workflows_without_include_workspace_size" time="0.124" /><testcase classname="tests.test_cli_workflows" name="test_workflows_format" time="0.126" /><testcase classname="tests.test_cli_workflows" name="test_workflows_filter" time="0.124" /><testcase classname="tests.test_cli_workflows" name="test_workflow_create_failed" time="0.001" /><testcase classname="tests.test_cli_workflows" name="test_workflow_create_successful" time="0.129" /><testcase classname="tests.test_cli_workflows" name="test_workflow_create_not_valid_name" time="0.001" /><testcase classname="tests.test_cli_workflows" name="test_create_workflow_from_json" time="0.129" /><testcase classname="tests.test_cli_workflows" name="test_create_snakemake_workflow_from_json_parameters" time="0.322" /><testcase classname="tests.test_cli_workflows" name="test_workflow_start_successful[created-0]" time="0.122" /><testcase classname="tests.test_cli_workflows" name="test_workflow_start_successful[pending-0]" time="0.123" /><testcase classname="tests.test_cli_workflows" name="test_workflow_start_successful[queued-0]" time="0.123" /><testcase classname="tests.test_cli_workflows" name="test_workflow_start_successful[running-0]" time="0.124" /><testcase classname="tests.test_cli_workflows" name="test_workflow_start_successful[finished-0]" time="0.123" /><testcase classname="tests.test_cli_workflows" name="test_workflow_start_successful[failed-1]" time="0.124" /><testcase classname="tests.test_cli_workflows" name="test_workflow_start_successful[deleted-1]" time="0.124" /><testcase classname="tests.test_cli_workflows" name="test_workflow_start_successful[stopped-1]" time="0.124" /><testcase classname="tests.test_cli_workflows" name="test_workflow_start_follow[running-finished-0]" time="0.002" /><testcase classname="tests.test_cli_workflows" name="test_workflow_start_follow[running-failed-1]" time="0.001" /><testcase classname="tests.test_cli_workflows" name="test_workflow_start_follow[running-stopped-1]" time="0.002" /><testcase classname="tests.test_cli_workflows" name="test_workflow_start_follow[queued-finished-0]" time="0.002" /><testcase classname="tests.test_cli_workflows" name="test_workflow_start_follow[pending-deleted-1]" time="0.002" /><testcase classname="tests.test_cli_workflows" name="test_workflows_validate" time="0.008" /><testcase classname="tests.test_cli_workflows" name="test_get_workflow_status_ok" time="0.124" /><testcase classname="tests.test_cli_workflows" name="test_run" time="0.002" /><testcase classname="tests.test_cli_workflows" name="test_workflow_input_parameters" time="0.124" /><testcase classname="tests.test_cli_workflows" name="test_open_interactive_session[jupyter-reana_info0-True]" time="0.124" /><testcase classname="tests.test_cli_workflows" name="test_open_interactive_session[jupyter-reana_info1-False]" time="0.123" /><testcase classname="tests.test_cli_workflows" name="test_open_interactive_session[jupyter-reana_info2-False]" time="0.125" /><testcase classname="tests.test_cli_workflows" name="test_open_interactive_session[wrong-interactive-type-reana_info3-True]" time="0.125"><skipped type="pytest.xfail" message="" /></testcase><testcase classname="tests.test_cli_workflows" name="test_close_interactive_session" time="0.123" /><testcase classname="tests.test_cli_workflows" name="test_multiple_specifications" time="0.001" /><testcase classname="tests.test_cli_workflows" name="test_yml_ext_specification" time="0.008" /><testcase classname="tests.test_cli_workflows" name="test_run_with_no_inputs" time="0.003" /><testcase classname="tests.test_utils" name="test_duration_pending_workflow" time="0.000" /><testcase classname="tests.test_utils" name="test_duration_finished_workflow" time="0.000" /><testcase classname="tests.test_utils" name="test_duration_stopped_workflow" time="0.000" /><testcase classname="tests.test_utils" name="test_duration_running_workflow" time="0.001" /><testcase classname="tests.test_validate_compute_backends" name="test_validate_compute_backends_serial[kubernetes-supported_backends0-True]" time="0.003" /><testcase classname="tests.test_validate_compute_backends" name="test_validate_compute_backends_serial[kubernetes-supported_backends1-True]" time="0.003" /><testcase classname="tests.test_validate_compute_backends" name="test_validate_compute_backends_serial[slurmcern-supported_backends2-True]" time="0.003" /><testcase classname="tests.test_validate_compute_backends" name="test_validate_compute_backends_serial[slurmcern-supported_backends3-False]" time="0.003" /><testcase classname="tests.test_validate_compute_backends" name="test_validate_compute_backends_serial[htcondorcern-supported_backends4-False]" time="0.003" /><testcase classname="tests.test_validate_compute_backends" name="test_validate_compute_backends_yadage[kubernetes-supported_backends0-True]" time="0.001" /><testcase classname="tests.test_validate_compute_backends" name="test_validate_compute_backends_yadage[kubernetes-supported_backends1-True]" time="0.001" /><testcase classname="tests.test_validate_compute_backends" name="test_validate_compute_backends_yadage[slurmcern-supported_backends2-True]" time="0.001" /><testcase classname="tests.test_validate_compute_backends" name="test_validate_compute_backends_yadage[slurmcern-supported_backends3-False]" time="0.001" /><testcase classname="tests.test_validate_compute_backends" name="test_validate_compute_backends_yadage[htcondorcern-supported_backends4-False]" time="0.001" /><testcase classname="tests.test_validate_compute_backends" name="test_validate_compute_backends_snakemake[kubernetes-supported_backends0-True]" time="0.001" /><testcase classname="tests.test_validate_compute_backends" name="test_validate_compute_backends_snakemake[kubernetes-supported_backends1-True]" time="0.001" /><testcase classname="tests.test_validate_compute_backends" name="test_validate_compute_backends_snakemake[slurmcern-supported_backends2-True]" time="0.001" /><testcase classname="tests.test_validate_compute_backends" name="test_validate_compute_backends_snakemake[slurmcern-supported_backends3-False]" time="0.001" /><testcase classname="tests.test_validate_compute_backends" name="test_validate_compute_backends_snakemake[htcondorcern-supported_backends4-False]" time="0.001" /><testcase classname="tests.test_validate_compute_backends" name="test_validate_compute_backends_cwl[kubernetes-supported_backends0-True]" time="0.001" /><testcase classname="tests.test_validate_compute_backends" name="test_validate_compute_backends_cwl[kubernetes-supported_backends1-True]" time="0.001" /><testcase classname="tests.test_validate_compute_backends" name="test_validate_compute_backends_cwl[slurmcern-supported_backends2-True]" time="0.001" /><testcase classname="tests.test_validate_compute_backends" name="test_validate_compute_backends_cwl[slurmcern-supported_backends3-False]" time="0.001" /><testcase classname="tests.test_validate_compute_backends" name="test_validate_compute_backends_cwl[htcondorcern-supported_backends4-False]" time="0.001" /><testcase classname="tests.test_validate_environments" name="test_validate_environment_image_tag[foo:bar-has the correct format-False]" time="0.000" /><testcase classname="tests.test_validate_environments" name="test_validate_environment_image_tag[foo/bar:baz-has the correct format-False]" time="0.000" /><testcase classname="tests.test_validate_environments" name="test_validate_environment_image_tag[foo/bar-not have an explicit tag-False]" time="0.000" /><testcase classname="tests.test_validate_environments" name="test_validate_environment_image_tag[foo/bar:-tag is not recommended-False]" time="0.000" /><testcase classname="tests.test_validate_environments" name="test_validate_environment_image_tag[foo/bar:latest-tag is not recommended-False]" time="0.000" /><testcase classname="tests.test_validate_environments" name="test_validate_environment_image_tag[foo:master-tag is not recommended-False]" time="0.000" /><testcase classname="tests.test_validate_environments" name="test_validate_environment_image_tag[foo:bar:baz-has invalid tag-True]" time="0.001" /><testcase classname="tests.test_validate_environments" name="test_validate_environment_image_tag[foo:bar:-has invalid tag-True]" time="0.000" /><testcase classname="tests.test_validate_environments" name="test_validate_environment_image_tag[foo:bar -contains illegal characters-True]" time="0.000" /><testcase classname="tests.test_validate_environments" name="test_get_full_image_name[foo-bar-foo:bar]" time="0.000" /><testcase classname="tests.test_validate_environments" name="test_get_full_image_name[foo--foo]" time="0.000" /><testcase classname="tests.test_validate_environments" name="test_get_full_image_name[foo-None-foo]" time="0.000" /><testcase classname="tests.test_validate_environments" name="test_get_full_image_name[foo-latest-foo:latest]" time="0.000" /><testcase classname="tests.test_validate_environments" name="test_image_exists_in_dockerhub[reanahub/reana-env-aliphysics:vAN-20180614-1-https://hub.docker.com/v2/repositories/reanahub/reana-env-aliphysics/tags/vAN-20180614-1]" time="0.001" /><testcase classname="tests.test_validate_environments" name="test_image_exists_in_dockerhub[docker.io/reanahub/reana-env-aliphysics:vAN-20180614-1-https://hub.docker.com/v2/repositories/reanahub/reana-env-aliphysics/tags/vAN-20180614-1]" time="0.001" /><testcase classname="tests.test_validate_environments" name="test_image_exists_in_dockerhub[python:2.7-https://hub.docker.com/v2/repositories/library/python/tags/2.7]" time="0.001" /><testcase classname="tests.test_validate_parameters" name="test_validate_parameters_cwl" time="3.961" /><testcase classname="tests.test_validate_parameters" name="test_validate_parameters_serial" time="0.003" /><testcase classname="tests.test_validate_parameters" name="test_validate_parameters_yadage" time="0.003" /><testcase classname="tests.test_validate_parameters" name="test_validate_dangerous_operations[commands0-gendata-]" time="0.001" /><testcase classname="tests.test_validate_parameters" name="test_validate_dangerous_operations[commands1-fitdata-"sudo" found in step "fitdata" might be dangerous.]" time="0.001" /><testcase classname="tests.test_validate_parameters" name="test_validate_dangerous_operations[commands2-fitdata-"sudo" found in step "fitdata" might be dangerous.]" time="0.001" /><testcase classname="tests.test_validate_parameters" name="test_validate_dangerous_operations[commands3-installation-"cd /" found in step "installation" might be dangerous.]" time="0.001" /><testcase classname="tests.test_validate_parameters" name="test_validate_dangerous_operations[commands4-None-"sudo" might be dangerous.]" time="0.000" /><testcase classname="tests.test_validate_server_capabilities" name="test_validate_workspaces[False-cli_args0-appear valid-0-available_workspaces0]" time="0.130" /><testcase classname="tests.test_validate_server_capabilities" name="test_validate_workspaces[False-cli_args1-Please provide your access token by using the -t/--access-token flag, or by setting the REANA_ACCESS_TOKEN environment variable.-1-available_workspaces1]" time="0.123" /><testcase classname="tests.test_validate_server_capabilities" name="test_validate_workspaces[False-cli_args2-Valid REANA specification file.-0-available_workspaces2]" time="0.131" /><testcase classname="tests.test_validate_server_capabilities" name="test_validate_workspaces[True-cli_args3-Workflow workspace appears valid.-0-available_workspaces3]" time="0.132" /><testcase classname="tests.test_validate_server_capabilities" name="test_validate_workspaces[True-cli_args4-Desired workspace "/var/reana" is not valid.-1-available_workspaces4]" time="0.131" /><testcase classname="tests.test_version" name="test_version" time="0.000" /></testsuite></testsuites>
Agent log Included
[ 0.0s] 📋 System Prompt: You are a principal Python software engineer resolving a repository issue in `/workspace`.
[ 0.0s] 🎯 Task Prompt: You are evaluating a software engineering task for repository reanahub/reana-client.
[ 15.2s] 💭 (757 chars) "The user is reporting a bug in `reana-client` where the duration of stopped workflows is
incorrectly displayed.
Specific..."
[ 15.2s] 🔧 run_command grep -rn --include="*.py" "get_workflow_duration" .
[ 15.3s] → ./reana_client/cli/workflow.py:43: get_workflow_duration,
[ 23.1s] 💭 (248 chars) "Okay, `get_workflow_duration` is defined in `reana_client/utils.py` at line 134.
It is used in `reana_client/cli/workflo..."
[ 23.1s] 📖 read_file (reana_client/utils.py)
[ 23.1s] ✓ {'status': 'ok', 'filepath': 'reana_client/utils.py', 'content': ' # Return the name given as
parameter without a…
[ 60.6s] 💭 (2047 chars) "The implementation of `get_workflow_duration` is:
```python
def get_workflow_duration(workflow: Dict) -> Optional[int]:..."
[ 60.6s] 📖 read_file (tests/test_utils.py)
[ 60.6s] ✓ {'status': 'ok', 'filepath': 'tests/test_utils.py', 'content': '# -*- coding: utf-8 -*-\n#\n# This file
is part of REANA…
[ 101.1s] 💭 (208 chars) "I can add a test case for a stopped workflow.
A stopped workflow would have `run_started_at` and `run_stopped_at`, but `..."
[ 101.1s] 🔧 run_command (39 lines) python3 - <<'PY'
[ 101.8s] → Duration: 139241110
[ 168.9s] 💭 (2675 chars) "The reproduction confirms the bug. For a stopped workflow, `get_workflow_duration` ignores
`run_stopped_at` and uses `da..."
[ 168.9s] ✏️ edit_file (reana_client/utils.py)
[ 169.1s] ✓ {'status': 'ok', 'filepath': 'reana_client/utils.py', 'occurrences': 1, 'strategy': 'exact', 'diff':
'--- a/reana_client…
[ 211.5s] 💭 (77 chars) "Now let's verify the fix with the reproduction script and the existing tests."
[ 211.5s] 🔧 run_command (56 lines) python3 - <<'PY'
[ 211.8s] → Duration: 71
[ 219.8s] 💭 (60 chars) "The fix works as intended. Now let's run the existing tests."
[ 219.8s] 🔧 run_command pytest tests/test_utils.py -q --tb=short --no-header
[ 221.7s] → ... [100%]
[ 234.7s] 💭 (493 chars) "Existing tests passed.
I should check if there are any other places where duration is calculated and where I might have..."
[ 234.7s] 🔧 run_command grep -rn --include="*.py" "duration" .
[ 234.7s] → ./reana_client/cli/workflow.py:43: get_workflow_duration,
[ 241.4s] 💭 (287 chars) "It seems `get_workflow_duration` is the only place where duration is calculated.
I have:
1. Identified the bug in `rean..."
[ 241.4s] 🔧 run_command git status --short && git diff
[ 241.4s] → M reana_client/utils.py
[ 245.8s] 💭 (173 chars) "The diff looks exactly as intended. No untracked files. Note that the reproduction script
was run via `python3 - <<'PY'`..."
[ 245.8s] 🤖 submit_patch
[ 245.9s] → submit_patch: {"status": "ok", "patch_size": 824, "files_changed": 1}
[ 256.3s] 💭 (223 chars) "I have successfully fixed the bug where the duration of stopped workflows was not displayed
correctly. I updated `reana_..."
[ 256.3s] ✅ Agent finished: The duration calculation for stopped workflows in `reana-client` was incorrectly using
the current time instead of the time the run was stopped. I updated `reana_client.utils.get_workflow_duration` to...
Native result row
{
"agent_error": null,
"duration_seconds": 273.48,
"error": null,
"grade": {
"collected_tests": 139,
"competition_junit_ok": true,
"error": null,
"required_issues_count": 0,
"resolved": true,
"status_counts": {
"PASSED": 138,
"SKIPPED": 1
},
"strict_clean_patch": true,
"test_exit_code": 0
},
"instance_id": "reanahub__reana-client-701",
"pass_idx": 0,
"patch_chars": 824,
"phase1_seconds": 259.08,
"repo": "reanahub/reana-client",
"request_log_path": "/kaggle-root/working/r31/rollouts_X/requests/reanahub__reana-client-701__p0__r3.jsonl",
"resolved": true,
"rollout_idx": 3,
"run_key": "reanahub__reana-client-701__p0__r3",
"strict_clean_patch": true,
"tool_calls": 9,
"total_llm_calls": 11,
"trace_path": "/kaggle-root/working/r31/rollouts_X/traces/trace_reanahub__reana-client-701__p0__r3.json"
}