ROLLOUT 1 · reanahub/reana-client
reanahub__reana-client-701
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10tool calls
12model calls
3,302tokens generated
92,129prompt tokens read
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⚠ The request log has 11 model calls but the trace has 13 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 15 s229 tokens out4,359 prompt tokens
The user is reporting a bug in `reana-client status --include-duration` where the duration of stopped workflows is calculated as the time from the start of the run until the current moment, instead of the time from the start until it was stopped. The problem description points to `reana_client.utils.get_workflow_duration` as the likely location of the bug. It suggests that `run_stopped_at` is not being considered, only `run_finished_at`. I need to: 1. Examine `reana_client/utils.py` and the `get_workflow_duration` function. 2. Understand how it's calculated and how to incorporate `run_stopped_at`. 3. Create a reproduction test case. 4. Fix the bug. 5. Verify the fix. Let's start by exploring `reana_client/utils.py`.
TOOL CALL · run_command
{
"command": "grep -rn \"get_workflow_duration\" reana_client/utils.py"
}Result of run_command 125 characters
{
"status": "ok",
"stdout": "134:def get_workflow_duration(workflow: Dict) -> Optional[int]:\n",
"stderr": "",
"exit_code": 0
}Turn 2at 20 s68 tokens out4,649 prompt tokens
Okay, the function is at line 134 of `reana_client/utils.py`. Let's read its implementation.
TOOL CALL · read_file
{
"end_line": 160,
"filepath": "reana_client/utils.py",
"start_line": 134
}Result of read_file 1,125 characters
{
"status": "ok",
"filepath": "reana_client/utils.py",
"content": "def 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": 134,
"end_line": 160,
"total_lines": 277,
"is_truncated": false
}Turn 3at 48 s499 tokens out5,084 prompt tokens
The implementation of `get_workflow_duration` is as follows:
```python
def get_workflow_duration(workflow: Dict) -> Optional[int]:
# ...
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
```
It takes `run_started_at` and `run_finished_at`. If `run_finished_at` is missing, it uses `datetime.utcnow()`.
The problem statement says it should also consider `run_stopped_at`.
If a workflow is "stopped", it might not have a `run_finished_at` but might have a `run_stopped_at`.
If it's stopped, the duration should be until it was stopped, not until now.
So it should probably be something like:
`end_time` = `run_finished_at` or `run_stopped_at` or `datetime.utcnow()`.
Wait, what's the priority?
Usually, `run_finished_at` indicates a successful or failed completion. `run_stopped_at` indicates it was manually stopped.
If both are present, `run_finished_at` would likely be later or the definitive end.
Let's check what the typical API response looks like for stopped workflows. The problem statement says "when running `reana-client status --include-duration` for a stopped workflow".
I should check if `run_stopped_at` is actually available in the `progress` dictionary.
Let's see if there are any tests that use `get_workflow_duration`.
TOOL CALL · run_command
{
"command": "grep -rn \"get_workflow_duration\" tests/"
}Result of run_command 372 characters
{
"status": "ok",
"stdout": "tests/test_utils.py:14:from reana_client.utils import get_workflow_duration\ntests/test_utils.py:24: assert get_workflow_duration(workflow) is None\ntests/test_utils.py:34: assert get_workflow_duration(workflow) == 60 + 11\ntests/test_utils.py:49: assert get_workflow_duration(workflow) == 60 + 11\n",
"stderr": "",
"exit_code": 0
}Turn 4at 51 s36 tokens out5,734 prompt tokens
Let's read `tests/test_utils.py`.
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 5at 85 s513 tokens out6,325 prompt tokens
I can add a test case for a stopped workflow to `tests/test_utils.py` to reproduce the bug. A stopped workflow would have `run_started_at` and `run_stopped_at`, but `run_finished_at` would be `None`. If I run `get_workflow_duration` on such a workflow currently, it will use `datetime.utcnow()`, which is incorrect if the workflow was stopped some time ago. Let's create a reproduction script.
TOOL CALL · run_command
{
"command": "python3 - <<'PY'\nfrom datetime import datetime\nfrom reana_client.utils import get_workflow_duration\n\nworkflow = {\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# Current implementation: should use utcnow() because run_finished_at is None\n# We can mock utcnow() to see what happens\nimport reana_client.utils\nfrom unittest.mock import patch\n\nwith patch(\"reana_client.utils.datetime\") as mock_datetime:\n # Mock utcnow to be way in the future\n mock_datetime.utcnow.return_value = datetime(2023, 7, 16, 14, 43, 22)\n mock_datetime.strptime.side_effect = lambda *args, **kw: datetime.strptime(*args, **kw)\n \n duration = get_workflow_duration(workflow)\n print(f\"Duration: {duration}\")\n # Expected correct duration: (2022-06-16 14:43:22) - (2022-06-16 14:42:11) = 71 seconds\n # Actual duration with bug: (2023-07-16 14:43:22) - (2022-06-16 14:42:11) = ... much more\nPY\n"
}Result of run_command 415 characters
{
"status": "ok",
"stdout": "Duration: 34128071\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 6at 116 s621 tokens out6,999 prompt tokens
The duration is indeed huge because it used `utcnow()`. It should have been 71. Now let's fix `get_workflow_duration` in `reana_client/utils.py`. I should check for `run_finished_at`, then `run_stopped_at`, and finally fall back to `datetime.utcnow()`. Wait, if a workflow is "stopped", it means it didn't "finish" in the usual sense, but it did end. If it's "running", it has no `run_finished_at` and no `run_stopped_at`. So the logic should be: 1. `run_started_at` must exist. 2. If `run_finished_at` exists, use it. 3. Else if `run_stopped_at` exists, use it. 4. Else use `datetime.utcnow()`. Let's verify if `run_stopped_at` is the correct field. The issue description says: "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 will modify `reana_client/utils.py`.
TOOL CALL · edit_file
{
"filepath": "reana_client/utils.py",
"new_string": " 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",
"old_string": " 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"
}Result of edit_file 832 characters
{
"status": "ok",
"filepath": "reana_client/utils.py",
"occurrences": 1,
"strategy": "unescaped",
"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 7at 125 s281 tokens out7,917 prompt tokens
Now let's run the reproduction script again to verify the fix.
TOOL CALL · run_command
{
"command": "python3 - <<'PY'\nfrom datetime import datetime\nfrom reana_client.utils import get_workflow_duration\n\nworkflow = {\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\nimport reana_client.utils\nfrom unittest.mock import patch\n\nwith patch(\"reana_client.utils.datetime\") as mock_datetime:\n # Mock utcnow to be way in the future\n mock_datetime.utcnow.return_value = datetime(2023, 7, 16, 14, 43, 22)\n mock_datetime.strptime.side_effect = lambda *args, **kw: datetime.strptime(*args, **kw)\n \n duration = get_workflow_duration(workflow)\n print(f\"Duration: {duration}\")\nPY\n"
}Result of run_command 409 characters
{
"status": "ok",
"stdout": "Duration: 71\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 8at 131 s61 tokens out8,353 prompt tokens
The duration is now 71, which is correct. Now let's run the existing tests to make sure no regressions.
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 9at 159 s270 tokens out9,571 prompt tokens
The tests passed. I have:
1. Identified the bug in `reana_client/utils.py`.
2. Verified the bug with a reproduction script.
3. Fixed the bug by incorporating `run_stopped_at`.
4. Verified the fix with the reproduction script.
5. Verified no regressions by running existing tests.
I should check if any other functions need similar treatment, but the issue specifically mentioned `get_workflow_duration`.
Wait, I should check if `fromisoformat` function handles the format of `run_stopped_at` correctly.
In `get_workflow_duration`, it uses:
```python
def fromisoformat(date_string):
return datetime.strptime(date_string, "%Y-%m-%dT%H:%M:%S")
```
This is the same function used for `run_started_at` and `run_finished_at`. So as long as `run_stopped_at` follows the same format, it should be fine.
Let's double check if there are other places where duration is calculated.
TOOL CALL · run_command
{
"command": "grep -rn \"duration\" reana_client/ | grep -v \"utils.py\""
}Result of run_command 1,622 characters
{
"status": "ok",
"stdout": "reana_client/cli/workflow.py:43: get_workflow_duration,\nreana_client/cli/workflow.py:108: \"progress, duration.\",\nreana_client/cli/workflow.py:126: \"--include-duration\",\nreana_client/cli/workflow.py:127: \"include_duration\",\nreana_client/cli/workflow.py:130: help=\"Include the duration of the workflows in seconds. In case a workflow is in \"\nreana_client/cli/workflow.py:131: \"progress, its duration as of now will be shown.\",\nreana_client/cli/workflow.py:172: include_duration: bool,\nreana_client/cli/workflow.py:225: duration_header = [\"duration\"]\nreana_client/cli/workflow.py:243: if verbose or include_duration:\nreana_client/cli/workflow.py:244: headers[type] += duration_header\nreana_client/cli/workflow.py:251: workflow[\"duration\"] = get_workflow_duration(workflow)\nreana_client/cli/workflow.py:688: \"--include-duration\",\nreana_client/cli/workflow.py:689: \"include_duration\",\nreana_client/cli/workflow.py:692: help=\"Include the duration of the workflow in seconds. In case the workflow is in \"\nreana_client/cli/workflow.py:693: \"progress, its duration as of now will be shown.\",\nreana_client/cli/workflow.py:700: ctx, workflow, _format, output_format, include_duration, access_token, verbose\nreana_client/cli/workflow.py:794: if verbose or include_duration:\nreana_client/cli/workflow.py:795: headers += [\"duration\"]\nreana_client/cli/workflow.py:796: data[-1] += [get_workflow_duration(workflow_response) or \"-\"]\n",
"stderr": "",
"exit_code": 0
}Turn 10at 202 s584 tokens out10,405 prompt tokens
It seems `get_workflow_duration` is the central place where duration is calculated for workflows in the CLI.
I'll do one more check. Is `run_stopped_at` always available if the workflow is stopped?
The issue says "when running `reana-client status --include-duration` for a stopped workflow...’".
It's highly likely that `run_stopped_at` is the correct field provided by the REANA API for stopped workflows.
Final check of the code change:
```python
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())
```
If it's finished, it uses `run_finished_at`.
If it's not finished but stopped, it uses `run_stopped_at`.
If it's neither finished nor stopped (meaning it's still running/pending), it uses `utcnow()`.
This matches the intended behavior.
Wait, if `run_started_at` is `None`, `duration` will be `None`. This is also correct as we can't calculate duration without a start time.
One detail: `fromisoformat` is defined inside `get_workflow_duration`. I used it for `run_stopped_at` as well.
```python
def fromisoformat(date_string):
return datetime.strptime(date_string, "%Y-%m-%dT%H:%M:%S")
```
Is it possible that `run_stopped_at` has a different format? Based on the REANA API and common patterns, it's unlikely. All these timestamp fields usually follow the same ISO-like format.
I'm confident in the fix.
Final check of the project structure and any untracked files.
I didn't create any files in `/workspace`.
I'll run `git status --short && git diff` just to be sure.
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 11at 204 s18 tokens out11,338 prompt tokens
The diff looks clean and minimal.
TOOL CALL · submit_patch
Result of submit_patch 55 characters
{
"status": "ok",
"patch_size": 824,
"files_changed": 1
}Turn 12at 217 s122 tokens out11,395 prompt tokens
I have fixed the bug where the duration of stopped workflows was calculated up to the current time instead of the time they were stopped. I verified the fix with a reproduction script and by running the existing test suite.
Turn 13at 217 s
The bug was caused by `get_workflow_duration` in `reana_client/utils.py` only considering `run_finished_at` and falling back to the current time if it was missing, ignoring `run_stopped_at`. I updated the logic to use `run_stopped_at` as a fallback before defaulting to `datetime.utcnow()`.
Model calls (not matched to turns)
Generated tokens 229 tokens · stopped: STOP
The user is reporting a bug in `reana-client status --include-duration` where the duration of stopped workflows is calculated as the time from the start of the run until the current moment, instead of the time from the start until it was stopped. The problem description points to `reana_client.utils.get_workflow_duration` as the likely location of the bug. It suggests that `run_stopped_at` is not being considered, only `run_finished_at`. I need to: 1. Examine `reana_client/utils.py` and the `get_workflow_duration` function. 2. Understand how it's calculated and how to incorporate `run_stopped_at`. 3. Create a reproduction test case. 4. Fix the bug. 5. Verify the fix. Let's start by exploring `reana_client/utils.py`.
<|channel>thought
The user is reporting a bug in `reana-client status --include-duration` where the duration of stopped workflows is calculated as the time from the start of the run until the current moment, instead of the time from the start until it was stopped.
The problem description points to `reana_client.utils.get_workflow_duration` as the likely location of the bug. It suggests that `run_stopped_at` is not being considered, only `run_finished_at`.
I need to:
1. Examine `reana_client/utils.py` and the `get_workflow_duration` function.
2. Understand how it's calculated and how to incorporate `run_stopped_at`.
3. Create a reproduction test case.
4. Fix the bug.
5. Verify the fix.
Let's start by exploring `reana_client/utils.py`.<channel|><|tool_call>call:run_command{command:<|"|>grep -rn "get_workflow_duration" reana_client/utils.py<|"|>}<tool_call|><|tool_response>
Generated tokens 68 tokens · stopped: STOP
Okay, the function is at line 134 of `reana_client/utils.py`. Let's read its implementation.
Okay, the function is at line 134 of `reana_client/utils.py`. Let's read its implementation.<channel|><|tool_call>call:read_file{filepath:<|"|>reana_client/utils.py<|"|>,start_line:134,end_line:160}<tool_call|><|tool_response>
Generated tokens 499 tokens · stopped: STOP
The implementation of `get_workflow_duration` is as follows:
```python
def get_workflow_duration(workflow: Dict) -> Optional[int]:
# ...
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
```
It takes `run_started_at` and `run_finished_at`. If `run_finished_at` is missing, it uses `datetime.utcnow()`.
The problem statement says it should also consider `run_stopped_at`.
If a workflow is "stopped", it might not have a `run_finished_at` but might have a `run_stopped_at`.
If it's stopped, the duration should be until it was stopped, not until now.
So it should probably be something like:
`end_time` = `run_finished_at` or `run_stopped_at` or `datetime.utcnow()`.
Wait, what's the priority?
Usually, `run_finished_at` indicates a successful or failed completion. `run_stopped_at` indicates it was manually stopped.
If both are present, `run_finished_at` would likely be later or the definitive end.
Let's check what the typical API response looks like for stopped workflows. The problem statement says "when running `reana-client status --include-duration` for a stopped workflow".
I should check if `run_stopped_at` is actually available in the `progress` dictionary.
Let's see if there are any tests that use `get_workflow_duration`.
The implementation of `get_workflow_duration` is as follows:
```python
def get_workflow_duration(workflow: Dict) -> Optional[int]:
# ...
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
```
It takes `run_started_at` and `run_finished_at`. If `run_finished_at` is missing, it uses `datetime.utcnow()`.
The problem statement says it should also consider `run_stopped_at`.
If a workflow is "stopped", it might not have a `run_finished_at` but might have a `run_stopped_at`.
If it's stopped, the duration should be until it was stopped, not until now.
So it should probably be something like:
`end_time` = `run_finished_at` or `run_stopped_at` or `datetime.utcnow()`.
Wait, what's the priority?
Usually, `run_finished_at` indicates a successful or failed completion. `run_stopped_at` indicates it was manually stopped.
If both are present, `run_finished_at` would likely be later or the definitive end.
Let's check what the typical API response looks like for stopped workflows. The problem statement says "when running `reana-client status --include-duration` for a stopped workflow".
I should check if `run_stopped_at` is actually available in the `progress` dictionary.
Let's see if there are any tests that use `get_workflow_duration`.
<channel|><|tool_call>call:run_command{command:<|"|>grep -rn "get_workflow_duration" tests/<|"|>}<tool_call|><|tool_response>
Generated tokens 36 tokens · stopped: STOP
Let's read `tests/test_utils.py`.
Let's read `tests/test_utils.py`.
<channel|><|tool_call>call:read_file{filepath:<|"|>tests/test_utils.py<|"|>}<tool_call|><|tool_response>
Generated tokens 513 tokens · stopped: STOP
I can add a test case for a stopped workflow to `tests/test_utils.py` to reproduce the bug. A stopped workflow would have `run_started_at` and `run_stopped_at`, but `run_finished_at` would be `None`. If I run `get_workflow_duration` on such a workflow currently, it will use `datetime.utcnow()`, which is incorrect if the workflow was stopped some time ago. Let's create a reproduction script.
I can add a test case for a stopped workflow to `tests/test_utils.py` to reproduce the bug.
A stopped workflow would have `run_started_at` and `run_stopped_at`, but `run_finished_at` would be `None`.
If I run `get_workflow_duration` on such a workflow currently, it will use `datetime.utcnow()`, which is incorrect if the workflow was stopped some time ago.
Let's create a reproduction script.
<channel|><|tool_call>call:run_command{command:<|"|>python3 - <<'PY'
from datetime import datetime
from reana_client.utils import get_workflow_duration
workflow = {
"progress": {
"run_started_at": "2022-06-16T14:42:11",
"run_finished_at": None,
"run_stopped_at": "2022-06-16T14:43:22",
}
}
# Current implementation: should use utcnow() because run_finished_at is None
# We can mock utcnow() to see what happens
import reana_client.utils
from unittest.mock import patch
with patch("reana_client.utils.datetime") as mock_datetime:
# Mock utcnow to be way in the future
mock_datetime.utcnow.return_value = datetime(2023, 7, 16, 14, 43, 22)
mock_datetime.strptime.side_effect = lambda *args, **kw: datetime.strptime(*args, **kw)
duration = get_workflow_duration(workflow)
print(f"Duration: {duration}")
# Expected correct duration: (2022-06-16 14:43:22) - (2022-06-16 14:42:11) = 71 seconds
# Actual duration with bug: (2023-07-16 14:43:22) - (2022-06-16 14:42:11) = ... much more
PY
<|"|>}<tool_call|><|tool_response>
Generated tokens 621 tokens · stopped: STOP
The duration is indeed huge because it used `utcnow()`. It should have been 71. Now let's fix `get_workflow_duration` in `reana_client/utils.py`. I should check for `run_finished_at`, then `run_stopped_at`, and finally fall back to `datetime.utcnow()`. Wait, if a workflow is "stopped", it means it didn't "finish" in the usual sense, but it did end. If it's "running", it has no `run_finished_at` and no `run_stopped_at`. So the logic should be: 1. `run_started_at` must exist. 2. If `run_finished_at` exists, use it. 3. Else if `run_stopped_at` exists, use it. 4. Else use `datetime.utcnow()`. Let's verify if `run_stopped_at` is the correct field. The issue description says: "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 will modify `reana_client/utils.py`.
The duration is indeed huge because it used `utcnow()`. It should have been 71.
Now let's fix `get_workflow_duration` in `reana_client/utils.py`.
I should check for `run_finished_at`, then `run_stopped_at`, and finally fall back to `datetime.utcnow()`.
Wait, if a workflow is "stopped", it means it didn't "finish" in the usual sense, but it did end.
If it's "running", it has no `run_finished_at` and no `run_stopped_at`.
So the logic should be:
1. `run_started_at` must exist.
2. If `run_finished_at` exists, use it.
3. Else if `run_stopped_at` exists, use it.
4. Else use `datetime.utcnow()`.
Let's verify if `run_stopped_at` is the correct field. The issue description says: "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 will modify `reana_client/utils.py`.
<channel|><|tool_call>call:edit_file{filepath:<|"|>reana_client/utils.py<|"|>,new_string:<|"|> 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<|"|>,old_string:<|"|> 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<|"|>}<tool_call|><|tool_response>
Generated tokens 281 tokens · stopped: STOP
Now let's run the reproduction script again to verify the fix.
Now let's run the reproduction script again to verify the fix.
<channel|><|tool_call>call:run_command{command:<|"|>python3 - <<'PY'
from datetime import datetime
from reana_client.utils import get_workflow_duration
workflow = {
"progress": {
"run_started_at": "2022-06-16T14:42:11",
"run_finished_at": None,
"run_stopped_at": "2022-06-16T14:43:22",
}
}
import reana_client.utils
from unittest.mock import patch
with patch("reana_client.utils.datetime") as mock_datetime:
# Mock utcnow to be way in the future
mock_datetime.utcnow.return_value = datetime(2023, 7, 16, 14, 43, 22)
mock_datetime.strptime.side_effect = lambda *args, **kw: datetime.strptime(*args, **kw)
duration = get_workflow_duration(workflow)
print(f"Duration: {duration}")
PY
<|"|>}<tool_call|><|tool_response>
Generated tokens 61 tokens · stopped: STOP
The duration is now 71, which is correct. Now let's run the existing tests to make sure no regressions.
The duration is now 71, which is correct.
Now let's run the existing tests to make sure no regressions.
<channel|><|tool_call>call:run_command{command:<|"|>pytest tests/test_utils.py -q --tb=short --no-header<|"|>}<tool_call|><|tool_response>
Generated tokens 270 tokens · stopped: STOP
The tests passed. I have:
1. Identified the bug in `reana_client/utils.py`.
2. Verified the bug with a reproduction script.
3. Fixed the bug by incorporating `run_stopped_at`.
4. Verified the fix with the reproduction script.
5. Verified no regressions by running existing tests.
I should check if any other functions need similar treatment, but the issue specifically mentioned `get_workflow_duration`.
Wait, I should check if `fromisoformat` function handles the format of `run_stopped_at` correctly.
In `get_workflow_duration`, it uses:
```python
def fromisoformat(date_string):
return datetime.strptime(date_string, "%Y-%m-%dT%H:%M:%S")
```
This is the same function used for `run_started_at` and `run_finished_at`. So as long as `run_stopped_at` follows the same format, it should be fine.
Let's double check if there are other places where duration is calculated.
The tests passed. I have:
1. Identified the bug in `reana_client/utils.py`.
2. Verified the bug with a reproduction script.
3. Fixed the bug by incorporating `run_stopped_at`.
4. Verified the fix with the reproduction script.
5. Verified no regressions by running existing tests.
I should check if any other functions need similar treatment, but the issue specifically mentioned `get_workflow_duration`.
Wait, I should check if `fromisoformat` function handles the format of `run_stopped_at` correctly.
In `get_workflow_duration`, it uses:
```python
def fromisoformat(date_string):
return datetime.strptime(date_string, "%Y-%m-%dT%H:%M:%S")
```
This is the same function used for `run_started_at` and `run_finished_at`. So as long as `run_stopped_at` follows the same format, it should be fine.
Let's double check if there are other places where duration is calculated.
<channel|><|tool_call>call:run_command{command:<|"|>grep -rn "duration" reana_client/ | grep -v "utils.py"<|"|>}<tool_call|><|tool_response>
Generated tokens 584 tokens · stopped: STOP
It seems `get_workflow_duration` is the central place where duration is calculated for workflows in the CLI.
I'll do one more check. Is `run_stopped_at` always available if the workflow is stopped?
The issue says "when running `reana-client status --include-duration` for a stopped workflow...’".
It's highly likely that `run_stopped_at` is the correct field provided by the REANA API for stopped workflows.
Final check of the code change:
```python
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())
```
If it's finished, it uses `run_finished_at`.
If it's not finished but stopped, it uses `run_stopped_at`.
If it's neither finished nor stopped (meaning it's still running/pending), it uses `utcnow()`.
This matches the intended behavior.
Wait, if `run_started_at` is `None`, `duration` will be `None`. This is also correct as we can't calculate duration without a start time.
One detail: `fromisoformat` is defined inside `get_workflow_duration`. I used it for `run_stopped_at` as well.
```python
def fromisoformat(date_string):
return datetime.strptime(date_string, "%Y-%m-%dT%H:%M:%S")
```
Is it possible that `run_stopped_at` has a different format? Based on the REANA API and common patterns, it's unlikely. All these timestamp fields usually follow the same ISO-like format.
I'm confident in the fix.
Final check of the project structure and any untracked files.
I didn't create any files in `/workspace`.
I'll run `git status --short && git diff` just to be sure.
It seems `get_workflow_duration` is the central place where duration is calculated for workflows in the CLI.
I'll do one more check. Is `run_stopped_at` always available if the workflow is stopped?
The issue says "when running `reana-client status --include-duration` for a stopped workflow...’".
It's highly likely that `run_stopped_at` is the correct field provided by the REANA API for stopped workflows.
Final check of the code change:
```python
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())
```
If it's finished, it uses `run_finished_at`.
If it's not finished but stopped, it uses `run_stopped_at`.
If it's neither finished nor stopped (meaning it's still running/pending), it uses `utcnow()`.
This matches the intended behavior.
Wait, if `run_started_at` is `None`, `duration` will be `None`. This is also correct as we can't calculate duration without a start time.
One detail: `fromisoformat` is defined inside `get_workflow_duration`. I used it for `run_stopped_at` as well.
```python
def fromisoformat(date_string):
return datetime.strptime(date_string, "%Y-%m-%dT%H:%M:%S")
```
Is it possible that `run_stopped_at` has a different format? Based on the REANA API and common patterns, it's unlikely. All these timestamp fields usually follow the same ISO-like format.
I'm confident in the fix.
Final check of the project structure and any untracked files.
I didn't create any files in `/workspace`.
I'll run `git status --short && git diff` just to be sure.
<channel|><|tool_call>call:run_command{command:<|"|>git status --short && git diff<|"|>}<tool_call|><|tool_response>
Generated tokens 18 tokens · stopped: STOP
The diff looks clean and minimal.
The diff looks clean and minimal.
<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-14e1dcfd872f4d80a4490cd4e38de29a.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 11.62s ========================
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="11.623" timestamp="2026-11-14T04:49:01.090184" hostname="1015250e4a7b"><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="0.132" /><testcase classname="tests.test_cli_files" name="test_list_files_url" time="0.122" /><testcase classname="tests.test_cli_files" name="test_download_file" time="0.122" /><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="0.003" /><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="0.122" /><testcase classname="tests.test_cli_files" name="test_delete_non_existing_file" time="0.121" /><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="0.122" /><testcase classname="tests.test_cli_files" name="test_list_disk_usage_with_valid_filter" time="0.123" /><testcase classname="tests.test_cli_files" name="test_list_disk_usage_with_invalid_filter" time="0.122" /><testcase classname="tests.test_cli_files" name="test_list_files_filter_with_filename" time="0.122" /><testcase classname="tests.test_cli_files" name="test_prune_workspace" time="0.169" /><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="0.123" /><testcase classname="tests.test_cli_ping" name="test_ping_ok" time="0.123" /><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="0.123" /><testcase classname="tests.test_cli_secrets" name="test_secrets_add[USER=reanauser]" time="0.124" /><testcase classname="tests.test_cli_secrets" name="test_secrets_add[USER=reana=user]" time="0.124" /><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="0.128" /><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" 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name="test_workflows_without_include_workspace_size" time="0.123" /><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="0.128" /><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="0.127" /><testcase classname="tests.test_cli_workflows" name="test_create_snakemake_workflow_from_json_parameters" time="0.329" /><testcase classname="tests.test_cli_workflows" name="test_workflow_start_successful[created-0]" time="0.123" /><testcase classname="tests.test_cli_workflows" name="test_workflow_start_successful[pending-0]" time="0.122" 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classname="tests.test_cli_workflows" name="test_open_interactive_session[wrong-interactive-type-reana_info3-True]" time="0.124"><skipped type="pytest.xfail" message="" /></testcase><testcase classname="tests.test_cli_workflows" name="test_close_interactive_session" time="0.122" /><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" 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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 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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="3.992" /><testcase classname="tests.test_validate_parameters" name="test_validate_parameters_serial" time="0.004" /><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="0.000" /><testcase classname="tests.test_validate_parameters" name="test_validate_dangerous_operations[commands3-installation-"cd /" found in step "installation" might be dangerous.]" time="0.000" /><testcase classname="tests.test_validate_parameters" name="test_validate_dangerous_operations[commands4-None-"sudo" might be dangerous.]" time="0.001" /><testcase classname="tests.test_validate_server_capabilities" name="test_validate_workspaces[False-cli_args0-appear valid-0-available_workspaces0]" time="0.127" /><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="0.121" /><testcase classname="tests.test_validate_server_capabilities" name="test_validate_workspaces[False-cli_args2-Valid REANA specification file.-0-available_workspaces2]" time="0.128" /><testcase classname="tests.test_validate_server_capabilities" name="test_validate_workspaces[True-cli_args3-Workflow workspace appears valid.-0-available_workspaces3]" time="0.129" /><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="0.128" /><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.
[ 14.7s] 💭 (728 chars) "The user is reporting a bug in `reana-client status --include-duration` where the duration
of stopped workflows is calcu..."
[ 14.7s] 🔧 run_command grep -rn "get_workflow_duration" reana_client/utils.py
[ 14.7s] → 134:def get_workflow_duration(workflow: Dict) -> Optional[int]:
[ 19.2s] 💭 (92 chars) "Okay, the function is at line 134 of `reana_client/utils.py`. Let's read its implementation."
[ 19.2s] 📖 read_file (reana_client/utils.py)
[ 19.2s] ✓ {'status': 'ok', 'filepath': 'reana_client/utils.py', 'content': 'def get_workflow_duration(workflow:
Dict) -> Optional[…
[ 47.5s] 💭 (1684 chars) "The implementation of `get_workflow_duration` is as follows:
```python
def get_workflow_duration(workflow: Dict) -> Opt..."
[ 47.5s] 🔧 run_command grep -rn "get_workflow_duration" tests/
[ 47.5s] → tests/test_utils.py:14:from reana_client.utils import get_workflow_duration
[ 50.7s] 💭 (33 chars) "Let's read `tests/test_utils.py`."
[ 50.7s] 📖 read_file (tests/test_utils.py)
[ 50.7s] ✓ {'status': 'ok', 'filepath': 'tests/test_utils.py', 'content': '# -*- coding: utf-8 -*-\n#\n# This file
is part of REANA…
[ 84.5s] 💭 (395 chars) "I can add a test case for a stopped workflow to `tests/test_utils.py` to reproduce the bug.
A stopped workflow would hav..."
[ 84.5s] 🔧 run_command (27 lines) python3 - <<'PY'
[ 85.3s] → Duration: 34128071
[ 115.9s] 💭 (865 chars) "The duration is indeed huge because it used `utcnow()`. It should have been 71.
Now let's fix `get_workflow_duration` i..."
[ 115.9s] ✏️ edit_file (reana_client/utils.py)
[ 116.0s] ✓ {'status': 'ok', 'filepath': 'reana_client/utils.py', 'occurrences': 1, 'strategy': 'unescaped', 'diff':
'--- a/reana_cl…
[ 125.0s] 💭 (62 chars) "Now let's run the reproduction script again to verify the fix."
[ 125.0s] 🔧 run_command (23 lines) python3 - <<'PY'
[ 125.3s] → Duration: 71
[ 130.6s] 💭 (104 chars) "The duration is now 71, which is correct.
Now let's run the existing tests to make sure no regressions."
[ 130.6s] 🔧 run_command pytest tests/test_utils.py -q --tb=short --no-header
[ 132.5s] → ... [100%]
[ 158.3s] 💭 (884 chars) "The tests passed. I have:
1. Identified the bug in `reana_client/utils.py`.
2. Verified the bug with a reproduction scri..."
[ 158.3s] 🔧 run_command grep -rn "duration" reana_client/ | grep -v "utils.py"
[ 158.4s] → reana_client/cli/workflow.py:43: get_workflow_duration,
[ 202.1s] 💭 (1988 chars) "It seems `get_workflow_duration` is the central place where duration is calculated for
workflows in the CLI.
I'll do on..."
[ 202.1s] 🔧 run_command git status --short && git diff
[ 202.1s] → M reana_client/utils.py
[ 203.4s] 💭 (33 chars) "The diff looks clean and minimal."
[ 203.4s] 🤖 submit_patch
[ 203.5s] → submit_patch: {"status": "ok", "patch_size": 824, "files_changed": 1}
[ 216.7s] 💭 (223 chars) "I have fixed the bug where the duration of stopped workflows was calculated up to the
current time instead of the time t..."
[ 216.7s] ✅ Agent finished: The bug was caused by `get_workflow_duration` in `reana_client/utils.py` only considering
`run_finished_at` and falling back to the current time if it was missing, ignoring `run_stopped_at`. I updated...
Native result row
{
"agent_error": null,
"duration_seconds": 234.23,
"error": null,
"grade": {
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"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": 219.35,
"repo": "reanahub/reana-client",
"request_log_path": "/kaggle-root/working/r31/rollouts_X/requests/reanahub__reana-client-701__p0__r1.jsonl",
"resolved": true,
"rollout_idx": 1,
"run_key": "reanahub__reana-client-701__p0__r1",
"strict_clean_patch": true,
"tool_calls": 10,
"total_llm_calls": 12,
"trace_path": "/kaggle-root/working/r31/rollouts_X/traces/trace_reanahub__reana-client-701__p0__r1.json"
}