[BUG]: Coverage in parallel #60

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Open
[BUG]: Coverage in parallel#60
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jorgensd
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bugSomething isn't working

Description

@jorgensd
jorgensd
opened on Oct 27, 2022

How to reproduce the bug

mpirun -n 2 python3 -m pytest .

Error output

============================= test session starts ==============================
platform linux -- Python 3.10.6, pytest-7.2.0, pluggy-1.0.0 -- /usr/bin/python3
cachedir: .pytest_cache
rootdir: /root/reproducibility, configfile: pyproject.toml, testpaths: test
plugins: cov-4.0.0
collecting ... ============================= test session starts ==============================
platform linux -- Python 3.10.6, pytest-7.2.0, pluggy-1.0.0 -- /usr/bin/python3
cachedir: .pytest_cache
rootdir: /root/reproducibility, configfile: pyproject.toml, testpaths: test
plugins: cov-4.0.0
collecting ... collected 1 item
test/test_code.py::test_addition collected 1 item
test/test_code.py::test_addition PASSED [100%]PASSED [100%]
INTERNALERROR> Traceback (most recent call last):
INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 1106, in execute
INTERNALERROR>return self.con.execute(sql, parameters)
INTERNALERROR> sqlite3.OperationalError: no such table: coverage_schema
INTERNALERROR> INTERNALERROR> During handling of the above exception, another exception occurred:
INTERNALERROR> INTERNALERROR> Traceback (most recent call last):
INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 1111, in execute
INTERNALERROR>return self.con.execute(sql, parameters)
INTERNALERROR> sqlite3.OperationalError: no such table: coverage_schema
INTERNALERROR> INTERNALERROR> The above exception was the direct cause of the following exception:
INTERNALERROR> INTERNALERROR> Traceback (most recent call last):
INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 272, in _read_db
INTERNALERROR> schema_version, = db.execute_one("select version from coverage_schema")
INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 1147, in execute_one
INTERNALERROR> rows = list(self.execute(sql, parameters))
INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 1128, in execute
INTERNALERROR> raise DataError(f"Couldn't use data file {self.filename!r}: {msg}") from exc
INTERNALERROR> coverage.exceptions.DataError: Couldn't use data file '/root/reproducibility/.coverage': no such table: coverage_schemaINTERNALERROR> INTERNALERROR> During handling of the above exception, another exception occurred:INTERNALERROR> INTERNALERROR> Traceback (most recent call last):INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/_pytest/main.py", line 270, in wrap_sessionINTERNALERROR> session.exitstatus = doit(config, session) or 0INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/_pytest/main.py", line 324, in _mainINTERNALERROR> config.hook.pytest_runtestloop(session=session)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pluggy/_hooks.py", line 265, in __call__INTERNALERROR> return self._hookexec(self.name, self.get_hookimpls(), kwargs, firstresult)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pluggy/_manager.py", line 80, in _hookexecINTERNALERROR> return self._inner_hookexec(hook_name, methods, kwargs, firstresult)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pluggy/_callers.py", line 55, in _multicallINTERNALERROR> gen.send(outcome)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pytest_cov/plugin.py", line 297, in pytest_runtestloopINTERNALERROR> self.cov_controller.finish()INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pytest_cov/engine.py", line 44, in ensure_topdir_wrapperINTERNALERROR> return meth(self, *args, **kwargs)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pytest_cov/engine.py", line 247, in finishINTERNALERROR> self.cov.combine()INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/control.py", line 755, in combineINTERNALERROR> combine_parallel_data(INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/data.py", line 132, in combine_parallel_dataINTERNALERROR> data.update(new_data, aliases=aliases)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 657, in updateINTERNALERROR> with self._connect() as con:INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 315, in _connectINTERNALERROR> self._open_db()INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 266, in _open_dbINTERNALERROR> self._read_db()INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 275, in _read_dbINTERNALERROR> self._init_db(db)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 301, in _init_dbINTERNALERROR> db.executescript(SCHEMA)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 1178, in executescriptINTERNALERROR> self.con.executescript(script)INTERNALERROR> sqlite3.OperationalError: table coverage_schema already exists============================== 1 passed in 0.01s ===============================---------- coverage: platform linux, python 3.10.6-final-0 -----------Name Stmts Miss Cover Missing----------------------------------------------------------------------------------------------/usr/local/lib/python3.10/dist-packages/mypackage/__init__.py 5 0 100%/usr/local/lib/python3.10/dist-packages/mypackage/functions.py 7 3 57% 16-18----------------------------------------------------------------------------------------------TOTAL 12 3 75%Coverage HTML written to dir htmlcov============================== 1 passed in 0.02s ===============================

Version

main branch

system

FROM ubuntu:22.04
WORKDIR /root/
RUN apt-get update && \
apt-get install -y git mpich python3-pip && \
python3 -m pip install --upgrade pip setuptools && \
apt-get purge -y python3-setuptools
RUN git clone https://github.com/scientificcomputing/reproducibility
RUN python3 -m pip install ./reproducibility[test]

Additional information

Fixed with adding --cov-append to

[tool.pytest.ini_options]
addopts

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    , 'i'); if (__m === '*' || __re.test(location.href)) { injectUserscript("// Add copy buttons to all 
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var __re = new RegExp('^' + "github\\.com" + '

    Skip to content
    [BUG]: Coverage in parallel #60
    Open
    Open
    [BUG]: Coverage in parallel#60
    Assignees
    jorgensd
    Labels
    bugSomething isn't working
    Description
    @jorgensd
    jorgensd
    opened on Oct 27, 2022
    How to reproduce the bug
    mpirun -n 2 python3 -m pytest .
    Error output
    ============================= test session starts ==============================
platform linux -- Python 3.10.6, pytest-7.2.0, pluggy-1.0.0 -- /usr/bin/python3
cachedir: .pytest_cache
rootdir: /root/reproducibility, configfile: pyproject.toml, testpaths: test
plugins: cov-4.0.0
collecting ... ============================= test session starts ==============================
platform linux -- Python 3.10.6, pytest-7.2.0, pluggy-1.0.0 -- /usr/bin/python3
cachedir: .pytest_cache
rootdir: /root/reproducibility, configfile: pyproject.toml, testpaths: test
plugins: cov-4.0.0
collecting ... collected 1 item
test/test_code.py::test_addition collected 1 item
test/test_code.py::test_addition PASSED [100%]PASSED [100%]
INTERNALERROR> Traceback (most recent call last):
INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 1106, in execute
INTERNALERROR>return self.con.execute(sql, parameters)
INTERNALERROR> sqlite3.OperationalError: no such table: coverage_schema
INTERNALERROR> INTERNALERROR> During handling of the above exception, another exception occurred:
INTERNALERROR> INTERNALERROR> Traceback (most recent call last):
INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 1111, in execute
INTERNALERROR>return self.con.execute(sql, parameters)
INTERNALERROR> sqlite3.OperationalError: no such table: coverage_schema
INTERNALERROR> INTERNALERROR> The above exception was the direct cause of the following exception:
INTERNALERROR> INTERNALERROR> Traceback (most recent call last):
INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 272, in _read_db
INTERNALERROR> schema_version, = db.execute_one("select version from coverage_schema")
INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 1147, in execute_one
INTERNALERROR> rows = list(self.execute(sql, parameters))
INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 1128, in execute
INTERNALERROR> raise DataError(f"Couldn't use data file {self.filename!r}: {msg}") from exc
INTERNALERROR> coverage.exceptions.DataError: Couldn't use data file '/root/reproducibility/.coverage': no such table: coverage_schemaINTERNALERROR> INTERNALERROR> During handling of the above exception, another exception occurred:INTERNALERROR> INTERNALERROR> Traceback (most recent call last):INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/_pytest/main.py", line 270, in wrap_sessionINTERNALERROR> session.exitstatus = doit(config, session) or 0INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/_pytest/main.py", line 324, in _mainINTERNALERROR> config.hook.pytest_runtestloop(session=session)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pluggy/_hooks.py", line 265, in __call__INTERNALERROR> return self._hookexec(self.name, self.get_hookimpls(), kwargs, firstresult)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pluggy/_manager.py", line 80, in _hookexecINTERNALERROR> return self._inner_hookexec(hook_name, methods, kwargs, firstresult)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pluggy/_callers.py", line 55, in _multicallINTERNALERROR> gen.send(outcome)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pytest_cov/plugin.py", line 297, in pytest_runtestloopINTERNALERROR> self.cov_controller.finish()INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pytest_cov/engine.py", line 44, in ensure_topdir_wrapperINTERNALERROR> return meth(self, *args, **kwargs)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pytest_cov/engine.py", line 247, in finishINTERNALERROR> self.cov.combine()INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/control.py", line 755, in combineINTERNALERROR> combine_parallel_data(INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/data.py", line 132, in combine_parallel_dataINTERNALERROR> data.update(new_data, aliases=aliases)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 657, in updateINTERNALERROR> with self._connect() as con:INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 315, in _connectINTERNALERROR> self._open_db()INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 266, in _open_dbINTERNALERROR> self._read_db()INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 275, in _read_dbINTERNALERROR> self._init_db(db)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 301, in _init_dbINTERNALERROR> db.executescript(SCHEMA)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 1178, in executescriptINTERNALERROR> self.con.executescript(script)INTERNALERROR> sqlite3.OperationalError: table coverage_schema already exists============================== 1 passed in 0.01s ===============================---------- coverage: platform linux, python 3.10.6-final-0 -----------Name Stmts Miss Cover Missing----------------------------------------------------------------------------------------------/usr/local/lib/python3.10/dist-packages/mypackage/__init__.py 5 0 100%/usr/local/lib/python3.10/dist-packages/mypackage/functions.py 7 3 57% 16-18----------------------------------------------------------------------------------------------TOTAL 12 3 75%Coverage HTML written to dir htmlcov============================== 1 passed in 0.02s ===============================
    Version
    main branch
    system
    FROM ubuntu:22.04
WORKDIR /root/
RUN apt-get update && \
apt-get install -y git mpich python3-pip && \
python3 -m pip install --upgrade pip setuptools && \
apt-get purge -y python3-setuptools
RUN git clone https://github.com/scientificcomputing/reproducibility
RUN python3 -m pip install ./reproducibility[test]

    Additional information
    Fixed with adding --cov-append to
    [tool.pytest.ini_options]
addopts
    Metadata
    Metadata
    Assignees
    Labels
    bugSomething isn't working
    Type
    No type
    Projects
    No projects
      Milestone
      No milestone
      Relationships
      None yet
      Development
      No branches or pull requests
      Issue actions
      
, 'i');
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})();
(function(){
try {
var __m = "*";
var __re = new RegExp('^' + ".*" + '

      Skip to content
      [BUG]: Coverage in parallel #60
      Open
      Open
      [BUG]: Coverage in parallel#60
      Assignees
      jorgensd
      Labels
      bugSomething isn't working
      Description
      @jorgensd
      jorgensd
      opened on Oct 27, 2022
      How to reproduce the bug
      mpirun -n 2 python3 -m pytest .
      Error output
      ============================= test session starts ==============================
platform linux -- Python 3.10.6, pytest-7.2.0, pluggy-1.0.0 -- /usr/bin/python3
cachedir: .pytest_cache
rootdir: /root/reproducibility, configfile: pyproject.toml, testpaths: test
plugins: cov-4.0.0
collecting ... ============================= test session starts ==============================
platform linux -- Python 3.10.6, pytest-7.2.0, pluggy-1.0.0 -- /usr/bin/python3
cachedir: .pytest_cache
rootdir: /root/reproducibility, configfile: pyproject.toml, testpaths: test
plugins: cov-4.0.0
collecting ... collected 1 item
test/test_code.py::test_addition collected 1 item
test/test_code.py::test_addition PASSED [100%]PASSED [100%]
INTERNALERROR> Traceback (most recent call last):
INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 1106, in execute
INTERNALERROR>return self.con.execute(sql, parameters)
INTERNALERROR> sqlite3.OperationalError: no such table: coverage_schema
INTERNALERROR> INTERNALERROR> During handling of the above exception, another exception occurred:
INTERNALERROR> INTERNALERROR> Traceback (most recent call last):
INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 1111, in execute
INTERNALERROR>return self.con.execute(sql, parameters)
INTERNALERROR> sqlite3.OperationalError: no such table: coverage_schema
INTERNALERROR> INTERNALERROR> The above exception was the direct cause of the following exception:
INTERNALERROR> INTERNALERROR> Traceback (most recent call last):
INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 272, in _read_db
INTERNALERROR> schema_version, = db.execute_one("select version from coverage_schema")
INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 1147, in execute_one
INTERNALERROR> rows = list(self.execute(sql, parameters))
INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 1128, in execute
INTERNALERROR> raise DataError(f"Couldn't use data file {self.filename!r}: {msg}") from exc
INTERNALERROR> coverage.exceptions.DataError: Couldn't use data file '/root/reproducibility/.coverage': no such table: coverage_schemaINTERNALERROR> INTERNALERROR> During handling of the above exception, another exception occurred:INTERNALERROR> INTERNALERROR> Traceback (most recent call last):INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/_pytest/main.py", line 270, in wrap_sessionINTERNALERROR> session.exitstatus = doit(config, session) or 0INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/_pytest/main.py", line 324, in _mainINTERNALERROR> config.hook.pytest_runtestloop(session=session)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pluggy/_hooks.py", line 265, in __call__INTERNALERROR> return self._hookexec(self.name, self.get_hookimpls(), kwargs, firstresult)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pluggy/_manager.py", line 80, in _hookexecINTERNALERROR> return self._inner_hookexec(hook_name, methods, kwargs, firstresult)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pluggy/_callers.py", line 55, in _multicallINTERNALERROR> gen.send(outcome)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pytest_cov/plugin.py", line 297, in pytest_runtestloopINTERNALERROR> self.cov_controller.finish()INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pytest_cov/engine.py", line 44, in ensure_topdir_wrapperINTERNALERROR> return meth(self, *args, **kwargs)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pytest_cov/engine.py", line 247, in finishINTERNALERROR> self.cov.combine()INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/control.py", line 755, in combineINTERNALERROR> combine_parallel_data(INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/data.py", line 132, in combine_parallel_dataINTERNALERROR> data.update(new_data, aliases=aliases)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 657, in updateINTERNALERROR> with self._connect() as con:INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 315, in _connectINTERNALERROR> self._open_db()INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 266, in _open_dbINTERNALERROR> self._read_db()INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 275, in _read_dbINTERNALERROR> self._init_db(db)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 301, in _init_dbINTERNALERROR> db.executescript(SCHEMA)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 1178, in executescriptINTERNALERROR> self.con.executescript(script)INTERNALERROR> sqlite3.OperationalError: table coverage_schema already exists============================== 1 passed in 0.01s ===============================---------- coverage: platform linux, python 3.10.6-final-0 -----------Name Stmts Miss Cover Missing----------------------------------------------------------------------------------------------/usr/local/lib/python3.10/dist-packages/mypackage/__init__.py 5 0 100%/usr/local/lib/python3.10/dist-packages/mypackage/functions.py 7 3 57% 16-18----------------------------------------------------------------------------------------------TOTAL 12 3 75%Coverage HTML written to dir htmlcov============================== 1 passed in 0.02s ===============================
      Version
      main branch
      system
      FROM ubuntu:22.04
WORKDIR /root/
RUN apt-get update && \
apt-get install -y git mpich python3-pip && \
python3 -m pip install --upgrade pip setuptools && \
apt-get purge -y python3-setuptools
RUN git clone https://github.com/scientificcomputing/reproducibility
RUN python3 -m pip install ./reproducibility[test]

      Additional information
      Fixed with adding --cov-append to
      [tool.pytest.ini_options]
addopts
      Metadata
      Metadata
      Assignees
      Labels
      bugSomething isn't working
      Type
      No type
      Projects
      No projects
        Milestone
        No milestone
        Relationships
        None yet
        Development
        No branches or pull requests
        Issue actions
        
, 'i');
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(function(){
try {
var __m = "*";
var __re = new RegExp('^' + ".*" + '

        Skip to content
        [BUG]: Coverage in parallel #60
        Open
        Open
        [BUG]: Coverage in parallel#60
        Assignees
        jorgensd
        Labels
        bugSomething isn't working
        Description
        @jorgensd
        jorgensd
        opened on Oct 27, 2022
        How to reproduce the bug
        mpirun -n 2 python3 -m pytest .
        Error output
        ============================= test session starts ==============================
platform linux -- Python 3.10.6, pytest-7.2.0, pluggy-1.0.0 -- /usr/bin/python3
cachedir: .pytest_cache
rootdir: /root/reproducibility, configfile: pyproject.toml, testpaths: test
plugins: cov-4.0.0
collecting ... ============================= test session starts ==============================
platform linux -- Python 3.10.6, pytest-7.2.0, pluggy-1.0.0 -- /usr/bin/python3
cachedir: .pytest_cache
rootdir: /root/reproducibility, configfile: pyproject.toml, testpaths: test
plugins: cov-4.0.0
collecting ... collected 1 item
test/test_code.py::test_addition collected 1 item
test/test_code.py::test_addition PASSED [100%]PASSED [100%]
INTERNALERROR> Traceback (most recent call last):
INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 1106, in execute
INTERNALERROR>return self.con.execute(sql, parameters)
INTERNALERROR> sqlite3.OperationalError: no such table: coverage_schema
INTERNALERROR> INTERNALERROR> During handling of the above exception, another exception occurred:
INTERNALERROR> INTERNALERROR> Traceback (most recent call last):
INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 1111, in execute
INTERNALERROR>return self.con.execute(sql, parameters)
INTERNALERROR> sqlite3.OperationalError: no such table: coverage_schema
INTERNALERROR> INTERNALERROR> The above exception was the direct cause of the following exception:
INTERNALERROR> INTERNALERROR> Traceback (most recent call last):
INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 272, in _read_db
INTERNALERROR> schema_version, = db.execute_one("select version from coverage_schema")
INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 1147, in execute_one
INTERNALERROR> rows = list(self.execute(sql, parameters))
INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 1128, in execute
INTERNALERROR> raise DataError(f"Couldn't use data file {self.filename!r}: {msg}") from exc
INTERNALERROR> coverage.exceptions.DataError: Couldn't use data file '/root/reproducibility/.coverage': no such table: coverage_schemaINTERNALERROR> INTERNALERROR> During handling of the above exception, another exception occurred:INTERNALERROR> INTERNALERROR> Traceback (most recent call last):INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/_pytest/main.py", line 270, in wrap_sessionINTERNALERROR> session.exitstatus = doit(config, session) or 0INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/_pytest/main.py", line 324, in _mainINTERNALERROR> config.hook.pytest_runtestloop(session=session)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pluggy/_hooks.py", line 265, in __call__INTERNALERROR> return self._hookexec(self.name, self.get_hookimpls(), kwargs, firstresult)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pluggy/_manager.py", line 80, in _hookexecINTERNALERROR> return self._inner_hookexec(hook_name, methods, kwargs, firstresult)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pluggy/_callers.py", line 55, in _multicallINTERNALERROR> gen.send(outcome)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pytest_cov/plugin.py", line 297, in pytest_runtestloopINTERNALERROR> self.cov_controller.finish()INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pytest_cov/engine.py", line 44, in ensure_topdir_wrapperINTERNALERROR> return meth(self, *args, **kwargs)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pytest_cov/engine.py", line 247, in finishINTERNALERROR> self.cov.combine()INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/control.py", line 755, in combineINTERNALERROR> combine_parallel_data(INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/data.py", line 132, in combine_parallel_dataINTERNALERROR> data.update(new_data, aliases=aliases)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 657, in updateINTERNALERROR> with self._connect() as con:INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 315, in _connectINTERNALERROR> self._open_db()INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 266, in _open_dbINTERNALERROR> self._read_db()INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 275, in _read_dbINTERNALERROR> self._init_db(db)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 301, in _init_dbINTERNALERROR> db.executescript(SCHEMA)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 1178, in executescriptINTERNALERROR> self.con.executescript(script)INTERNALERROR> sqlite3.OperationalError: table coverage_schema already exists============================== 1 passed in 0.01s ===============================---------- coverage: platform linux, python 3.10.6-final-0 -----------Name Stmts Miss Cover Missing----------------------------------------------------------------------------------------------/usr/local/lib/python3.10/dist-packages/mypackage/__init__.py 5 0 100%/usr/local/lib/python3.10/dist-packages/mypackage/functions.py 7 3 57% 16-18----------------------------------------------------------------------------------------------TOTAL 12 3 75%Coverage HTML written to dir htmlcov============================== 1 passed in 0.02s ===============================
        Version
        main branch
        system
        FROM ubuntu:22.04
WORKDIR /root/
RUN apt-get update && \
apt-get install -y git mpich python3-pip && \
python3 -m pip install --upgrade pip setuptools && \
apt-get purge -y python3-setuptools
RUN git clone https://github.com/scientificcomputing/reproducibility
RUN python3 -m pip install ./reproducibility[test]

        Additional information
        Fixed with adding --cov-append to
        [tool.pytest.ini_options]
addopts
        Metadata
        Metadata
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        Labels
        bugSomething isn't working
        Type
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          None yet
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, 'i');
if (__m === '*' || __re.test(location.href)) {
injectUserscript("// Strip utm_, fbclid, gclid, etc. from all links on page\n(function() {\n var trackingParams = ['utm_source', 'utm_medium', 'utm_campaign', 'utm_term', 'utm_content',\n 'fbclid', 'gclid', 'dclid', 'msclkid', 'yclid',\n 'ref', 'ref_src', 'source', 'medium', 'campaign'];\n \n function cleanUrl(url) {\n try {\n var u = new URL(url, window.location.origin);\n var changed = false;\n trackingParams.forEach(function(p) {\n if (u.searchParams.has(p)) {\n u.searchParams.delete(p);\n changed = true;\n }\n });\n return changed ? u.toString() : url;\n } catch (e) {\n return url;\n }\n }\n \n function cleanLinks() {\n document.querySelectorAll('a[href]').forEach(function(a) {\n var clean = cleanUrl(a.href);\n if (clean !== a.href) a.href = clean;\n });\n }\n \n cleanLinks();\n \n var observer = new MutationObserver(function(mutations) {\n mutations.forEach(function(m) {\n m.addedNodes.forEach(function(node) {\n if (node.nodeType === 1) {\n if (node.tagName === 'A') cleanLinks();\n node.querySelectorAll('a[href]').forEach(function(a) {\n var clean = cleanUrl(a.href);\n if (clean !== a.href) a.href = clean;\n });\n }\n });\n });\n });\n observer.observe(document.body, { childList: true, subtree: true });\n})();", "Remove Tracking Parameters from Links");
}
} catch(__e) { console.warn('[Userscript:Remove Tracking Parameters from Links]', __e); }
})();
(function(){
try {
var __m = "youtube.com";
var __re = new RegExp('^' + "youtube\\.com" + '

          Skip to content
          [BUG]: Coverage in parallel #60
          Open
          Open
          [BUG]: Coverage in parallel#60
          Assignees
          jorgensd
          Labels
          bugSomething isn't working
          Description
          @jorgensd
          jorgensd
          opened on Oct 27, 2022
          How to reproduce the bug
          mpirun -n 2 python3 -m pytest .
          Error output
          ============================= test session starts ==============================
platform linux -- Python 3.10.6, pytest-7.2.0, pluggy-1.0.0 -- /usr/bin/python3
cachedir: .pytest_cache
rootdir: /root/reproducibility, configfile: pyproject.toml, testpaths: test
plugins: cov-4.0.0
collecting ... ============================= test session starts ==============================
platform linux -- Python 3.10.6, pytest-7.2.0, pluggy-1.0.0 -- /usr/bin/python3
cachedir: .pytest_cache
rootdir: /root/reproducibility, configfile: pyproject.toml, testpaths: test
plugins: cov-4.0.0
collecting ... collected 1 item
test/test_code.py::test_addition collected 1 item
test/test_code.py::test_addition PASSED [100%]PASSED [100%]
INTERNALERROR> Traceback (most recent call last):
INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 1106, in execute
INTERNALERROR>return self.con.execute(sql, parameters)
INTERNALERROR> sqlite3.OperationalError: no such table: coverage_schema
INTERNALERROR> INTERNALERROR> During handling of the above exception, another exception occurred:
INTERNALERROR> INTERNALERROR> Traceback (most recent call last):
INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 1111, in execute
INTERNALERROR>return self.con.execute(sql, parameters)
INTERNALERROR> sqlite3.OperationalError: no such table: coverage_schema
INTERNALERROR> INTERNALERROR> The above exception was the direct cause of the following exception:
INTERNALERROR> INTERNALERROR> Traceback (most recent call last):
INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 272, in _read_db
INTERNALERROR> schema_version, = db.execute_one("select version from coverage_schema")
INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 1147, in execute_one
INTERNALERROR> rows = list(self.execute(sql, parameters))
INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 1128, in execute
INTERNALERROR> raise DataError(f"Couldn't use data file {self.filename!r}: {msg}") from exc
INTERNALERROR> coverage.exceptions.DataError: Couldn't use data file '/root/reproducibility/.coverage': no such table: coverage_schemaINTERNALERROR> INTERNALERROR> During handling of the above exception, another exception occurred:INTERNALERROR> INTERNALERROR> Traceback (most recent call last):INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/_pytest/main.py", line 270, in wrap_sessionINTERNALERROR> session.exitstatus = doit(config, session) or 0INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/_pytest/main.py", line 324, in _mainINTERNALERROR> config.hook.pytest_runtestloop(session=session)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pluggy/_hooks.py", line 265, in __call__INTERNALERROR> return self._hookexec(self.name, self.get_hookimpls(), kwargs, firstresult)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pluggy/_manager.py", line 80, in _hookexecINTERNALERROR> return self._inner_hookexec(hook_name, methods, kwargs, firstresult)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pluggy/_callers.py", line 55, in _multicallINTERNALERROR> gen.send(outcome)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pytest_cov/plugin.py", line 297, in pytest_runtestloopINTERNALERROR> self.cov_controller.finish()INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pytest_cov/engine.py", line 44, in ensure_topdir_wrapperINTERNALERROR> return meth(self, *args, **kwargs)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pytest_cov/engine.py", line 247, in finishINTERNALERROR> self.cov.combine()INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/control.py", line 755, in combineINTERNALERROR> combine_parallel_data(INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/data.py", line 132, in combine_parallel_dataINTERNALERROR> data.update(new_data, aliases=aliases)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 657, in updateINTERNALERROR> with self._connect() as con:INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 315, in _connectINTERNALERROR> self._open_db()INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 266, in _open_dbINTERNALERROR> self._read_db()INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 275, in _read_dbINTERNALERROR> self._init_db(db)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 301, in _init_dbINTERNALERROR> db.executescript(SCHEMA)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 1178, in executescriptINTERNALERROR> self.con.executescript(script)INTERNALERROR> sqlite3.OperationalError: table coverage_schema already exists============================== 1 passed in 0.01s ===============================---------- coverage: platform linux, python 3.10.6-final-0 -----------Name Stmts Miss Cover Missing----------------------------------------------------------------------------------------------/usr/local/lib/python3.10/dist-packages/mypackage/__init__.py 5 0 100%/usr/local/lib/python3.10/dist-packages/mypackage/functions.py 7 3 57% 16-18----------------------------------------------------------------------------------------------TOTAL 12 3 75%Coverage HTML written to dir htmlcov============================== 1 passed in 0.02s ===============================
          Version
          main branch
          system
          FROM ubuntu:22.04
WORKDIR /root/
RUN apt-get update && \
apt-get install -y git mpich python3-pip && \
python3 -m pip install --upgrade pip setuptools && \
apt-get purge -y python3-setuptools
RUN git clone https://github.com/scientificcomputing/reproducibility
RUN python3 -m pip install ./reproducibility[test]

          Additional information
          Fixed with adding --cov-append to
          [tool.pytest.ini_options]
addopts
          Metadata
          Metadata
          Assignees
          Labels
          bugSomething isn't working
          Type
          No type
          Projects
          No projects
            Milestone
            No milestone
            Relationships
            None yet
            Development
            No branches or pull requests
            Issue actions
            
, 'i');
if (__m === '*' || __re.test(location.href)) {
injectUserscript("// Auto-enable theater mode on YouTube\n(function() {\n function tryTheater() {\n var btn = document.querySelector('button[aria-label=\"Theater mode\"], ytd-player #player button[title=\"Theater mode\"]');\n if (btn && !btn.classList.contains('activated')) {\n btn.click();\n }\n }\n \n // Try immediately\n tryTheater();\n \n // Try after navigation (SPA)\n var lastUrl = location.href;\n setInterval(function() {\n if (location.href !== lastUrl) {\n lastUrl = location.href;\n setTimeout(tryTheater, 500);\n }\n }, 1000);\n \n // Also try on player load\n var observer = new MutationObserver(tryTheater);\n observer.observe(document.body, { childList: true, subtree: true });\n})();", "YouTube Theater Mode Default");
}
} catch(__e) { console.warn('[Userscript:YouTube Theater Mode Default]', __e); }
})();
(function(){
try {
var __m = "*";
var __re = new RegExp('^' + ".*" + '

            Skip to content
            [BUG]: Coverage in parallel #60
            Open
            Open
            [BUG]: Coverage in parallel#60
            Assignees
            jorgensd
            Labels
            bugSomething isn't working
            Description
            @jorgensd
            jorgensd
            opened on Oct 27, 2022
            How to reproduce the bug
            mpirun -n 2 python3 -m pytest .
            Error output
            ============================= test session starts ==============================
platform linux -- Python 3.10.6, pytest-7.2.0, pluggy-1.0.0 -- /usr/bin/python3
cachedir: .pytest_cache
rootdir: /root/reproducibility, configfile: pyproject.toml, testpaths: test
plugins: cov-4.0.0
collecting ... ============================= test session starts ==============================
platform linux -- Python 3.10.6, pytest-7.2.0, pluggy-1.0.0 -- /usr/bin/python3
cachedir: .pytest_cache
rootdir: /root/reproducibility, configfile: pyproject.toml, testpaths: test
plugins: cov-4.0.0
collecting ... collected 1 item
test/test_code.py::test_addition collected 1 item
test/test_code.py::test_addition PASSED [100%]PASSED [100%]
INTERNALERROR> Traceback (most recent call last):
INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 1106, in execute
INTERNALERROR>return self.con.execute(sql, parameters)
INTERNALERROR> sqlite3.OperationalError: no such table: coverage_schema
INTERNALERROR> INTERNALERROR> During handling of the above exception, another exception occurred:
INTERNALERROR> INTERNALERROR> Traceback (most recent call last):
INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 1111, in execute
INTERNALERROR>return self.con.execute(sql, parameters)
INTERNALERROR> sqlite3.OperationalError: no such table: coverage_schema
INTERNALERROR> INTERNALERROR> The above exception was the direct cause of the following exception:
INTERNALERROR> INTERNALERROR> Traceback (most recent call last):
INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 272, in _read_db
INTERNALERROR> schema_version, = db.execute_one("select version from coverage_schema")
INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 1147, in execute_one
INTERNALERROR> rows = list(self.execute(sql, parameters))
INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 1128, in execute
INTERNALERROR> raise DataError(f"Couldn't use data file {self.filename!r}: {msg}") from exc
INTERNALERROR> coverage.exceptions.DataError: Couldn't use data file '/root/reproducibility/.coverage': no such table: coverage_schemaINTERNALERROR> INTERNALERROR> During handling of the above exception, another exception occurred:INTERNALERROR> INTERNALERROR> Traceback (most recent call last):INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/_pytest/main.py", line 270, in wrap_sessionINTERNALERROR> session.exitstatus = doit(config, session) or 0INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/_pytest/main.py", line 324, in _mainINTERNALERROR> config.hook.pytest_runtestloop(session=session)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pluggy/_hooks.py", line 265, in __call__INTERNALERROR> return self._hookexec(self.name, self.get_hookimpls(), kwargs, firstresult)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pluggy/_manager.py", line 80, in _hookexecINTERNALERROR> return self._inner_hookexec(hook_name, methods, kwargs, firstresult)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pluggy/_callers.py", line 55, in _multicallINTERNALERROR> gen.send(outcome)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pytest_cov/plugin.py", line 297, in pytest_runtestloopINTERNALERROR> self.cov_controller.finish()INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pytest_cov/engine.py", line 44, in ensure_topdir_wrapperINTERNALERROR> return meth(self, *args, **kwargs)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pytest_cov/engine.py", line 247, in finishINTERNALERROR> self.cov.combine()INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/control.py", line 755, in combineINTERNALERROR> combine_parallel_data(INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/data.py", line 132, in combine_parallel_dataINTERNALERROR> data.update(new_data, aliases=aliases)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 657, in updateINTERNALERROR> with self._connect() as con:INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 315, in _connectINTERNALERROR> self._open_db()INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 266, in _open_dbINTERNALERROR> self._read_db()INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 275, in _read_dbINTERNALERROR> self._init_db(db)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 301, in _init_dbINTERNALERROR> db.executescript(SCHEMA)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 1178, in executescriptINTERNALERROR> self.con.executescript(script)INTERNALERROR> sqlite3.OperationalError: table coverage_schema already exists============================== 1 passed in 0.01s ===============================---------- coverage: platform linux, python 3.10.6-final-0 -----------Name Stmts Miss Cover Missing----------------------------------------------------------------------------------------------/usr/local/lib/python3.10/dist-packages/mypackage/__init__.py 5 0 100%/usr/local/lib/python3.10/dist-packages/mypackage/functions.py 7 3 57% 16-18----------------------------------------------------------------------------------------------TOTAL 12 3 75%Coverage HTML written to dir htmlcov============================== 1 passed in 0.02s ===============================
            Version
            main branch
            system
            FROM ubuntu:22.04
WORKDIR /root/
RUN apt-get update && \
apt-get install -y git mpich python3-pip && \
python3 -m pip install --upgrade pip setuptools && \
apt-get purge -y python3-setuptools
RUN git clone https://github.com/scientificcomputing/reproducibility
RUN python3 -m pip install ./reproducibility[test]

            Additional information
            Fixed with adding --cov-append to
            [tool.pytest.ini_options]
addopts
            Metadata
            Metadata
            Assignees
            Labels
            bugSomething isn't working
            Type
            No type
            Projects
            No projects
              Milestone
              No milestone
              Relationships
              None yet
              Development
              No branches or pull requests
              Issue actions
              
, 'i');
if (__m === '*' || __re.test(location.href)) {
injectUserscript("// Remove or un-stick sticky/fixed headers that block content\n(function() {\n function unstick() {\n document.querySelectorAll('header, nav, [role=\"banner\"], .header, .navbar, .sticky, .fixed-top, [style*=\"position: fixed\"], [style*=\"position:sticky\"]').forEach(function(el) {\n if (el.style.position === 'fixed' || el.style.position === 'sticky' || \n getComputedStyle(el).position === 'fixed' || getComputedStyle(el).position === 'sticky') {\n el.style.position = 'static';\n el.style.top = 'auto';\n el.style.zIndex = 'auto';\n }\n });\n }\n \n unstick();\n \n var observer = new MutationObserver(unstick);\n observer.observe(document.body, { childList: true, subtree: true, attributes: true, attributeFilter: ['style', 'class'] });\n})();", "Kill Sticky Headers");
}
} catch(__e) { console.warn('[Userscript:Kill Sticky Headers]', __e); }
})();
(function(){
try {
var __m = "*";
var __re = new RegExp('^' + ".*" + '

              Skip to content
              [BUG]: Coverage in parallel #60
              Open
              Open
              [BUG]: Coverage in parallel#60
              Assignees
              jorgensd
              Labels
              bugSomething isn't working
              Description
              @jorgensd
              jorgensd
              opened on Oct 27, 2022
              How to reproduce the bug
              mpirun -n 2 python3 -m pytest .
              Error output
              ============================= test session starts ==============================
platform linux -- Python 3.10.6, pytest-7.2.0, pluggy-1.0.0 -- /usr/bin/python3
cachedir: .pytest_cache
rootdir: /root/reproducibility, configfile: pyproject.toml, testpaths: test
plugins: cov-4.0.0
collecting ... ============================= test session starts ==============================
platform linux -- Python 3.10.6, pytest-7.2.0, pluggy-1.0.0 -- /usr/bin/python3
cachedir: .pytest_cache
rootdir: /root/reproducibility, configfile: pyproject.toml, testpaths: test
plugins: cov-4.0.0
collecting ... collected 1 item
test/test_code.py::test_addition collected 1 item
test/test_code.py::test_addition PASSED [100%]PASSED [100%]
INTERNALERROR> Traceback (most recent call last):
INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 1106, in execute
INTERNALERROR>return self.con.execute(sql, parameters)
INTERNALERROR> sqlite3.OperationalError: no such table: coverage_schema
INTERNALERROR> INTERNALERROR> During handling of the above exception, another exception occurred:
INTERNALERROR> INTERNALERROR> Traceback (most recent call last):
INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 1111, in execute
INTERNALERROR>return self.con.execute(sql, parameters)
INTERNALERROR> sqlite3.OperationalError: no such table: coverage_schema
INTERNALERROR> INTERNALERROR> The above exception was the direct cause of the following exception:
INTERNALERROR> INTERNALERROR> Traceback (most recent call last):
INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 272, in _read_db
INTERNALERROR> schema_version, = db.execute_one("select version from coverage_schema")
INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 1147, in execute_one
INTERNALERROR> rows = list(self.execute(sql, parameters))
INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 1128, in execute
INTERNALERROR> raise DataError(f"Couldn't use data file {self.filename!r}: {msg}") from exc
INTERNALERROR> coverage.exceptions.DataError: Couldn't use data file '/root/reproducibility/.coverage': no such table: coverage_schemaINTERNALERROR> INTERNALERROR> During handling of the above exception, another exception occurred:INTERNALERROR> INTERNALERROR> Traceback (most recent call last):INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/_pytest/main.py", line 270, in wrap_sessionINTERNALERROR> session.exitstatus = doit(config, session) or 0INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/_pytest/main.py", line 324, in _mainINTERNALERROR> config.hook.pytest_runtestloop(session=session)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pluggy/_hooks.py", line 265, in __call__INTERNALERROR> return self._hookexec(self.name, self.get_hookimpls(), kwargs, firstresult)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pluggy/_manager.py", line 80, in _hookexecINTERNALERROR> return self._inner_hookexec(hook_name, methods, kwargs, firstresult)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pluggy/_callers.py", line 55, in _multicallINTERNALERROR> gen.send(outcome)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pytest_cov/plugin.py", line 297, in pytest_runtestloopINTERNALERROR> self.cov_controller.finish()INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pytest_cov/engine.py", line 44, in ensure_topdir_wrapperINTERNALERROR> return meth(self, *args, **kwargs)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pytest_cov/engine.py", line 247, in finishINTERNALERROR> self.cov.combine()INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/control.py", line 755, in combineINTERNALERROR> combine_parallel_data(INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/data.py", line 132, in combine_parallel_dataINTERNALERROR> data.update(new_data, aliases=aliases)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 657, in updateINTERNALERROR> with self._connect() as con:INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 315, in _connectINTERNALERROR> self._open_db()INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 266, in _open_dbINTERNALERROR> self._read_db()INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 275, in _read_dbINTERNALERROR> self._init_db(db)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 301, in _init_dbINTERNALERROR> db.executescript(SCHEMA)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 1178, in executescriptINTERNALERROR> self.con.executescript(script)INTERNALERROR> sqlite3.OperationalError: table coverage_schema already exists============================== 1 passed in 0.01s ===============================---------- coverage: platform linux, python 3.10.6-final-0 -----------Name Stmts Miss Cover Missing----------------------------------------------------------------------------------------------/usr/local/lib/python3.10/dist-packages/mypackage/__init__.py 5 0 100%/usr/local/lib/python3.10/dist-packages/mypackage/functions.py 7 3 57% 16-18----------------------------------------------------------------------------------------------TOTAL 12 3 75%Coverage HTML written to dir htmlcov============================== 1 passed in 0.02s ===============================
              Version
              main branch
              system
              FROM ubuntu:22.04
WORKDIR /root/
RUN apt-get update && \
apt-get install -y git mpich python3-pip && \
python3 -m pip install --upgrade pip setuptools && \
apt-get purge -y python3-setuptools
RUN git clone https://github.com/scientificcomputing/reproducibility
RUN python3 -m pip install ./reproducibility[test]

              Additional information
              Fixed with adding --cov-append to
              [tool.pytest.ini_options]
addopts
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, 'i');
if (__m === '*' || __re.test(location.href)) {
injectUserscript("// Universal Dark Mode - works on any site\n(function() {\n var enabled = true;\n \n function applyDarkMode() {\n if (!enabled) return;\n \n // Create style element if it doesn't exist\n var style = document.getElementById('universal-dark-mode-style');\n if (!style) {\n style = document.createElement('style');\n style.id = 'universal-dark-mode-style';\n document.head.appendChild(style);\n }\n \n // Dark mode CSS - inverts colors but preserves images/video\n style.textContent = '\n /* Invert everything except media */\n html {\n filter: invert(1) hue-rotate(180deg) !important;\n background: #1a1a2e !important;\n }\n \n /* Restore images, videos, iframes, canvas */\n img, video, iframe, canvas, svg, picture, [style*=\"background-image\"] {\n filter: invert(1) hue-rotate(180deg) !important;\n }\n \n /* Preserve specific elements that should not be inverted */\n .no-dark-mode, .no-dark-mode *,\n [data-theme=\"light\"], [data-theme=\"light\"],\n .ace_editor, .ace_editor *,\n .CodeMirror, .CodeMirror *,\n .monaco-editor, .monaco-editor *,\n .markdown-body pre, .markdown-body pre *,\n .highlight, .highlight *,\n pre code, pre code * {\n filter: none !important;\n }\n \n /* Fix common UI elements */\n .modal, .popup, .dropdown-menu, .tooltip, .popover {\n filter: invert(1) hue-rotate(180deg) !important;\n background: #2d2d44 !important;\n border-color: #444 !important;\n }\n \n /* Scrollbars */\n ::-webkit-scrollbar { background: #1a1a2e !important; }\n ::-webkit-scrollbar-thumb { background: #444 !important; }\n ::-webkit-scrollbar-thumb:hover { background: #555 !important; }\n \n /* Selection */\n ::selection { background: #4ecdc4 !important; color: #1a1a2e !important; }\n ::-moz-selection { background: #4ecdc4 !important; color: #1a1a2e !important; }\n ';\n }\n \n function removeDarkMode() {\n var style = document.getElementById('universal-dark-mode-style');\n if (style) style.remove();\n }\n \n // Toggle with Alt+Shift+D\n document.addEventListener('keydown', function(e) {\n if (e.altKey && e.shiftKey && e.key === 'D') {\n e.preventDefault();\n enabled = !enabled;\n if (enabled) {\n applyDarkMode();\n console.log('[Universal Dark Mode] Enabled');\n } else {\n removeDarkMode();\n console.log('[Universal Dark Mode] Disabled');\n }\n }\n });\n \n // Apply on load\n applyDarkMode();\n \n // Re-apply on dynamic content\n var observer = new MutationObserver(function(mutations) {\n if (enabled && !document.getElementById('universal-dark-mode-style')) {\n applyDarkMode();\n }\n });\n observer.observe(document.head, { childList: true });\n \n console.log('[Universal Dark Mode] Loaded - Press Alt+Shift+D to toggle');\n})();", "Universal Dark Mode");
}
} catch(__e) { console.warn('[Userscript:Universal Dark Mode]', __e); }
})();
})();

                Skip to content
                [BUG]: Coverage in parallel #60
                Open
                Open
                [BUG]: Coverage in parallel#60
                Assignees
                jorgensd
                Labels
                bugSomething isn't working
                Description
                @jorgensd
                jorgensd
                opened on Oct 27, 2022
                How to reproduce the bug
                mpirun -n 2 python3 -m pytest .
                Error output
                ============================= test session starts ==============================
platform linux -- Python 3.10.6, pytest-7.2.0, pluggy-1.0.0 -- /usr/bin/python3
cachedir: .pytest_cache
rootdir: /root/reproducibility, configfile: pyproject.toml, testpaths: test
plugins: cov-4.0.0
collecting ... ============================= test session starts ==============================
platform linux -- Python 3.10.6, pytest-7.2.0, pluggy-1.0.0 -- /usr/bin/python3
cachedir: .pytest_cache
rootdir: /root/reproducibility, configfile: pyproject.toml, testpaths: test
plugins: cov-4.0.0
collecting ... collected 1 item
test/test_code.py::test_addition collected 1 item
test/test_code.py::test_addition PASSED [100%]PASSED [100%]
INTERNALERROR> Traceback (most recent call last):
INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 1106, in execute
INTERNALERROR>return self.con.execute(sql, parameters)
INTERNALERROR> sqlite3.OperationalError: no such table: coverage_schema
INTERNALERROR> INTERNALERROR> During handling of the above exception, another exception occurred:
INTERNALERROR> INTERNALERROR> Traceback (most recent call last):
INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 1111, in execute
INTERNALERROR>return self.con.execute(sql, parameters)
INTERNALERROR> sqlite3.OperationalError: no such table: coverage_schema
INTERNALERROR> INTERNALERROR> The above exception was the direct cause of the following exception:
INTERNALERROR> INTERNALERROR> Traceback (most recent call last):
INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 272, in _read_db
INTERNALERROR> schema_version, = db.execute_one("select version from coverage_schema")
INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 1147, in execute_one
INTERNALERROR> rows = list(self.execute(sql, parameters))
INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 1128, in execute
INTERNALERROR> raise DataError(f"Couldn't use data file {self.filename!r}: {msg}") from exc
INTERNALERROR> coverage.exceptions.DataError: Couldn't use data file '/root/reproducibility/.coverage': no such table: coverage_schemaINTERNALERROR> INTERNALERROR> During handling of the above exception, another exception occurred:INTERNALERROR> INTERNALERROR> Traceback (most recent call last):INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/_pytest/main.py", line 270, in wrap_sessionINTERNALERROR> session.exitstatus = doit(config, session) or 0INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/_pytest/main.py", line 324, in _mainINTERNALERROR> config.hook.pytest_runtestloop(session=session)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pluggy/_hooks.py", line 265, in __call__INTERNALERROR> return self._hookexec(self.name, self.get_hookimpls(), kwargs, firstresult)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pluggy/_manager.py", line 80, in _hookexecINTERNALERROR> return self._inner_hookexec(hook_name, methods, kwargs, firstresult)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pluggy/_callers.py", line 55, in _multicallINTERNALERROR> gen.send(outcome)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pytest_cov/plugin.py", line 297, in pytest_runtestloopINTERNALERROR> self.cov_controller.finish()INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pytest_cov/engine.py", line 44, in ensure_topdir_wrapperINTERNALERROR> return meth(self, *args, **kwargs)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/pytest_cov/engine.py", line 247, in finishINTERNALERROR> self.cov.combine()INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/control.py", line 755, in combineINTERNALERROR> combine_parallel_data(INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/data.py", line 132, in combine_parallel_dataINTERNALERROR> data.update(new_data, aliases=aliases)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 657, in updateINTERNALERROR> with self._connect() as con:INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 315, in _connectINTERNALERROR> self._open_db()INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 266, in _open_dbINTERNALERROR> self._read_db()INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 275, in _read_dbINTERNALERROR> self._init_db(db)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 301, in _init_dbINTERNALERROR> db.executescript(SCHEMA)INTERNALERROR> File "/usr/local/lib/python3.10/dist-packages/coverage/sqldata.py", line 1178, in executescriptINTERNALERROR> self.con.executescript(script)INTERNALERROR> sqlite3.OperationalError: table coverage_schema already exists============================== 1 passed in 0.01s ===============================---------- coverage: platform linux, python 3.10.6-final-0 -----------Name Stmts Miss Cover Missing----------------------------------------------------------------------------------------------/usr/local/lib/python3.10/dist-packages/mypackage/__init__.py 5 0 100%/usr/local/lib/python3.10/dist-packages/mypackage/functions.py 7 3 57% 16-18----------------------------------------------------------------------------------------------TOTAL 12 3 75%Coverage HTML written to dir htmlcov============================== 1 passed in 0.02s ===============================
                Version
                main branch
                system
                FROM ubuntu:22.04
WORKDIR /root/
RUN apt-get update && \
apt-get install -y git mpich python3-pip && \
python3 -m pip install --upgrade pip setuptools && \
apt-get purge -y python3-setuptools
RUN git clone https://github.com/scientificcomputing/reproducibility
RUN python3 -m pip install ./reproducibility[test]

                Additional information
                Fixed with adding --cov-append to
                [tool.pytest.ini_options]
addopts
                Metadata
                Metadata
                Assignees
                Labels
                bugSomething isn't working
                Type
                No type
                Projects
                No projects
                  Milestone
                  No milestone
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                  None yet
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                  Issue actions