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code_checks.sh
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#!/bin/bash
#
# Run checks related to code quality.
#
# This script is intended for both the CI and to check locally that code standards are
# respected. We run doctests here (currently some files only), and we
# validate formatting error in docstrings.
#
# Usage:
# $ ./ci/code_checks.sh # run all checks
# $ ./ci/code_checks.sh code # checks on imported code
# $ ./ci/code_checks.sh doctests # run doctests
# $ ./ci/code_checks.sh docstrings # validate docstring errors
# $ ./ci/code_checks.sh single-docs # check single-page docs build warning-free
# $ ./ci/code_checks.sh notebooks # check execution of documentation notebooks
set -uo pipefail
if [[ -v 1 ]]; then
CHECK=$1
else
# script will fail if it uses an unset variable (i.e. $1 is not provided)
CHECK=""
fi
[[ -z "$CHECK" || "$CHECK" == "code" || "$CHECK" == "doctests" || "$CHECK" == "docstrings" || "$CHECK" == "single-docs" || "$CHECK" == "notebooks" ]] || \
{ echo "Unknown command $1. Usage: $0 [code|doctests|docstrings|single-docs|notebooks]"; exit 9999; }
BASE_DIR="$(dirname $0)/.."
RET=0
### CODE ###
if [[ -z "$CHECK" || "$CHECK" == "code" ]]; then
MSG='Check import. No warnings, and blocklist some optional dependencies' ; echo $MSG
python -W error -c "
import sys
import pandas
blocklist = {'bs4', 'gcsfs', 'html5lib', 'http', 'ipython', 'jinja2', 'hypothesis',
'lxml', 'matplotlib', 'openpyxl', 'py', 'pytest', 's3fs', 'scipy',
'tables', 'urllib.request', 'xlrd', 'xlsxwriter'}
# GH#28227 for some of these check for top-level modules, while others are
# more specific (e.g. urllib.request)
import_mods = set(m.split('.')[0] for m in sys.modules) | set(sys.modules)
mods = blocklist & import_mods
if mods:
sys.stderr.write('err: pandas should not import: {}\n'.format(', '.join(mods)))
sys.exit(len(mods))
"
RET=$(($RET + $?)) ; echo $MSG "DONE"
fi
### DOCTESTS ###
if [[ -z "$CHECK" || "$CHECK" == "doctests" ]]; then
MSG='Python and Cython Doctests' ; echo $MSG
python -c 'import pandas as pd; pd.test(run_doctests=True)'
RET=$(($RET + $?)) ; echo $MSG "DONE"
fi
### DOCSTRINGS ###
if [[ -z "$CHECK" || "$CHECK" == "docstrings" ]]; then
MSG='Validate Docstrings' ; echo $MSG
$BASE_DIR/scripts/validate_docstrings.py \
--format=actions \
-i ES01 `# For now it is ok if docstrings are missing the extended summary` \
-i "pandas.Series.dt PR01" `# Accessors are implemented as classes, but we do not document the Parameters section` \
-i "pandas.Period.freq GL08" \
-i "pandas.Period.ordinal GL08" \
-i "pandas.RangeIndex.from_range PR01,SA01" \
-i "pandas.Series.dt.freq GL08" \
-i "pandas.Series.dt.unit GL08" \
-i "pandas.Series.pad PR01,SA01" \
-i "pandas.Timedelta.max PR02" \
-i "pandas.Timedelta.min PR02" \
-i "pandas.Timedelta.resolution PR02" \
-i "pandas.Timestamp.max PR02" \
-i "pandas.Timestamp.min PR02" \
-i "pandas.Timestamp.nanosecond GL08" \
-i "pandas.Timestamp.resolution PR02" \
-i "pandas.Timestamp.tzinfo GL08" \
-i "pandas.Timestamp.year GL08" \
-i "pandas.api.types.is_integer PR01,SA01" \
-i "pandas.api.types.is_iterator PR07,SA01" \
-i "pandas.api.types.is_re_compilable PR07,SA01" \
-i "pandas.api.types.pandas_dtype PR07,RT03,SA01" \
-i "pandas.arrays.ArrowExtensionArray PR07,SA01" \
-i "pandas.arrays.IntegerArray SA01" \
-i "pandas.arrays.IntervalArray.left SA01" \
-i "pandas.arrays.IntervalArray.length SA01" \
-i "pandas.arrays.IntervalArray.right SA01" \
-i "pandas.arrays.NumpyExtensionArray SA01" \
-i "pandas.arrays.SparseArray PR07,SA01" \
-i "pandas.arrays.TimedeltaArray PR07,SA01" \
-i "pandas.core.groupby.DataFrameGroupBy.__iter__ RT03,SA01" \
-i "pandas.core.groupby.DataFrameGroupBy.boxplot PR07,RT03,SA01" \
-i "pandas.core.groupby.DataFrameGroupBy.get_group RT03,SA01" \
-i "pandas.core.groupby.DataFrameGroupBy.groups SA01" \
-i "pandas.core.groupby.DataFrameGroupBy.indices SA01" \
-i "pandas.core.groupby.DataFrameGroupBy.nth PR02" \
-i "pandas.core.groupby.DataFrameGroupBy.nunique SA01" \
-i "pandas.core.groupby.DataFrameGroupBy.plot PR02" \
-i "pandas.core.groupby.DataFrameGroupBy.sem SA01" \
-i "pandas.core.groupby.SeriesGroupBy.__iter__ RT03,SA01" \
-i "pandas.core.groupby.SeriesGroupBy.get_group RT03,SA01" \
-i "pandas.core.groupby.SeriesGroupBy.groups SA01" \
-i "pandas.core.groupby.SeriesGroupBy.indices SA01" \
-i "pandas.core.groupby.SeriesGroupBy.is_monotonic_decreasing SA01" \
-i "pandas.core.groupby.SeriesGroupBy.is_monotonic_increasing SA01" \
-i "pandas.core.groupby.SeriesGroupBy.nth PR02" \
-i "pandas.core.groupby.SeriesGroupBy.plot PR02" \
-i "pandas.core.groupby.SeriesGroupBy.sem SA01" \
-i "pandas.core.resample.Resampler.__iter__ RT03,SA01" \
-i "pandas.core.resample.Resampler.get_group RT03,SA01" \
-i "pandas.core.resample.Resampler.groups SA01" \
-i "pandas.core.resample.Resampler.indices SA01" \
-i "pandas.core.resample.Resampler.max PR01,RT03,SA01" \
-i "pandas.core.resample.Resampler.mean SA01" \
-i "pandas.core.resample.Resampler.min PR01,RT03,SA01" \
-i "pandas.core.resample.Resampler.prod SA01" \
-i "pandas.core.resample.Resampler.quantile PR01,PR07" \
-i "pandas.core.resample.Resampler.sem SA01" \
-i "pandas.core.resample.Resampler.std SA01" \
-i "pandas.core.resample.Resampler.sum SA01" \
-i "pandas.core.resample.Resampler.transform PR01,RT03,SA01" \
-i "pandas.core.resample.Resampler.var SA01" \
-i "pandas.errors.AttributeConflictWarning SA01" \
-i "pandas.errors.CSSWarning SA01" \
-i "pandas.errors.ChainedAssignmentError SA01" \
-i "pandas.errors.DataError SA01" \
-i "pandas.errors.DuplicateLabelError SA01" \
-i "pandas.errors.IntCastingNaNError SA01" \
-i "pandas.errors.InvalidIndexError SA01" \
-i "pandas.errors.NullFrequencyError SA01" \
-i "pandas.errors.NumExprClobberingError SA01" \
-i "pandas.errors.NumbaUtilError SA01" \
-i "pandas.errors.OptionError SA01" \
-i "pandas.errors.OutOfBoundsTimedelta SA01" \
-i "pandas.errors.PerformanceWarning SA01" \
-i "pandas.errors.PossibleDataLossError SA01" \
-i "pandas.errors.PossiblePrecisionLoss SA01" \
-i "pandas.errors.UndefinedVariableError PR01,SA01" \
-i "pandas.errors.UnsortedIndexError SA01" \
-i "pandas.errors.UnsupportedFunctionCall SA01" \
-i "pandas.errors.ValueLabelTypeMismatch SA01" \
-i "pandas.infer_freq SA01" \
-i "pandas.io.json.build_table_schema PR07,RT03,SA01" \
-i "pandas.io.stata.StataWriter.write_file SA01" \
-i "pandas.json_normalize RT03,SA01" \
-i "pandas.plotting.andrews_curves RT03,SA01" \
-i "pandas.plotting.scatter_matrix PR07,SA01" \
-i "pandas.set_eng_float_format RT03,SA01" \
-i "pandas.tseries.offsets.BDay PR02,SA01" \
-i "pandas.tseries.offsets.BQuarterBegin.is_on_offset GL08" \
-i "pandas.tseries.offsets.BQuarterBegin.n GL08" \
-i "pandas.tseries.offsets.BQuarterBegin.normalize GL08" \
-i "pandas.tseries.offsets.BQuarterBegin.rule_code GL08" \
-i "pandas.tseries.offsets.BQuarterBegin.startingMonth GL08" \
-i "pandas.tseries.offsets.BQuarterEnd.is_on_offset GL08" \
-i "pandas.tseries.offsets.BQuarterEnd.n GL08" \
-i "pandas.tseries.offsets.BQuarterEnd.normalize GL08" \
-i "pandas.tseries.offsets.BQuarterEnd.rule_code GL08" \
-i "pandas.tseries.offsets.BQuarterEnd.startingMonth GL08" \
-i "pandas.tseries.offsets.BYearBegin.is_on_offset GL08" \
-i "pandas.tseries.offsets.BYearBegin.month GL08" \
-i "pandas.tseries.offsets.BYearBegin.n GL08" \
-i "pandas.tseries.offsets.BYearBegin.normalize GL08" \
-i "pandas.tseries.offsets.BYearEnd.is_on_offset GL08" \
-i "pandas.tseries.offsets.BYearEnd.month GL08" \
-i "pandas.tseries.offsets.BYearEnd.n GL08" \
-i "pandas.tseries.offsets.BYearEnd.normalize GL08" \
-i "pandas.tseries.offsets.BusinessDay PR02,SA01" \
-i "pandas.tseries.offsets.BusinessDay.calendar GL08" \
-i "pandas.tseries.offsets.BusinessDay.holidays GL08" \
-i "pandas.tseries.offsets.BusinessDay.is_on_offset GL08" \
-i "pandas.tseries.offsets.BusinessDay.n GL08" \
-i "pandas.tseries.offsets.BusinessDay.normalize GL08" \
-i "pandas.tseries.offsets.BusinessDay.weekmask GL08" \
-i "pandas.tseries.offsets.BusinessHour PR02,SA01" \
-i "pandas.tseries.offsets.BusinessHour.calendar GL08" \
-i "pandas.tseries.offsets.BusinessHour.end GL08" \
-i "pandas.tseries.offsets.BusinessHour.holidays GL08" \
-i "pandas.tseries.offsets.BusinessHour.is_on_offset GL08" \
-i "pandas.tseries.offsets.BusinessHour.n GL08" \
-i "pandas.tseries.offsets.BusinessHour.normalize GL08" \
-i "pandas.tseries.offsets.BusinessHour.start GL08" \
-i "pandas.tseries.offsets.BusinessHour.weekmask GL08" \
-i "pandas.tseries.offsets.BusinessMonthBegin.is_on_offset GL08" \
-i "pandas.tseries.offsets.BusinessMonthBegin.n GL08" \
-i "pandas.tseries.offsets.BusinessMonthBegin.normalize GL08" \
-i "pandas.tseries.offsets.BusinessMonthEnd.is_on_offset GL08" \
-i "pandas.tseries.offsets.BusinessMonthEnd.n GL08" \
-i "pandas.tseries.offsets.BusinessMonthEnd.normalize GL08" \
-i "pandas.tseries.offsets.CBMonthBegin PR02" \
-i "pandas.tseries.offsets.CBMonthEnd PR02" \
-i "pandas.tseries.offsets.CDay PR02,SA01" \
-i "pandas.tseries.offsets.CustomBusinessDay PR02,SA01" \
-i "pandas.tseries.offsets.CustomBusinessDay.calendar GL08" \
-i "pandas.tseries.offsets.CustomBusinessDay.holidays GL08" \
-i "pandas.tseries.offsets.CustomBusinessDay.is_on_offset GL08" \
-i "pandas.tseries.offsets.CustomBusinessDay.n GL08" \
-i "pandas.tseries.offsets.CustomBusinessDay.normalize GL08" \
-i "pandas.tseries.offsets.CustomBusinessDay.weekmask GL08" \
-i "pandas.tseries.offsets.CustomBusinessHour PR02,SA01" \
-i "pandas.tseries.offsets.CustomBusinessHour.calendar GL08" \
-i "pandas.tseries.offsets.CustomBusinessHour.end GL08" \
-i "pandas.tseries.offsets.CustomBusinessHour.holidays GL08" \
-i "pandas.tseries.offsets.CustomBusinessHour.is_on_offset GL08" \
-i "pandas.tseries.offsets.CustomBusinessHour.n GL08" \
-i "pandas.tseries.offsets.CustomBusinessHour.normalize GL08" \
-i "pandas.tseries.offsets.CustomBusinessHour.start GL08" \
-i "pandas.tseries.offsets.CustomBusinessHour.weekmask GL08" \
-i "pandas.tseries.offsets.CustomBusinessMonthBegin PR02" \
-i "pandas.tseries.offsets.CustomBusinessMonthBegin.calendar GL08" \
-i "pandas.tseries.offsets.CustomBusinessMonthBegin.holidays GL08" \
-i "pandas.tseries.offsets.CustomBusinessMonthBegin.is_on_offset SA01" \
-i "pandas.tseries.offsets.CustomBusinessMonthBegin.m_offset GL08" \
-i "pandas.tseries.offsets.CustomBusinessMonthBegin.n GL08" \
-i "pandas.tseries.offsets.CustomBusinessMonthBegin.normalize GL08" \
-i "pandas.tseries.offsets.CustomBusinessMonthBegin.weekmask GL08" \
-i "pandas.tseries.offsets.CustomBusinessMonthEnd PR02" \
-i "pandas.tseries.offsets.CustomBusinessMonthEnd.calendar GL08" \
-i "pandas.tseries.offsets.CustomBusinessMonthEnd.holidays GL08" \
-i "pandas.tseries.offsets.CustomBusinessMonthEnd.is_on_offset SA01" \
-i "pandas.tseries.offsets.CustomBusinessMonthEnd.m_offset GL08" \
-i "pandas.tseries.offsets.CustomBusinessMonthEnd.n GL08" \
-i "pandas.tseries.offsets.CustomBusinessMonthEnd.normalize GL08" \
-i "pandas.tseries.offsets.CustomBusinessMonthEnd.weekmask GL08" \
-i "pandas.tseries.offsets.DateOffset.is_on_offset GL08" \
-i "pandas.tseries.offsets.DateOffset.n GL08" \
-i "pandas.tseries.offsets.DateOffset.normalize GL08" \
-i "pandas.tseries.offsets.Day.is_on_offset GL08" \
-i "pandas.tseries.offsets.Day.n GL08" \
-i "pandas.tseries.offsets.Day.normalize GL08" \
-i "pandas.tseries.offsets.Easter.is_on_offset GL08" \
-i "pandas.tseries.offsets.Easter.n GL08" \
-i "pandas.tseries.offsets.Easter.normalize GL08" \
-i "pandas.tseries.offsets.FY5253.get_rule_code_suffix GL08" \
-i "pandas.tseries.offsets.FY5253.get_year_end GL08" \
-i "pandas.tseries.offsets.FY5253.is_on_offset GL08" \
-i "pandas.tseries.offsets.FY5253.n GL08" \
-i "pandas.tseries.offsets.FY5253.normalize GL08" \
-i "pandas.tseries.offsets.FY5253.rule_code GL08" \
-i "pandas.tseries.offsets.FY5253.startingMonth GL08" \
-i "pandas.tseries.offsets.FY5253.variation GL08" \
-i "pandas.tseries.offsets.FY5253.weekday GL08" \
-i "pandas.tseries.offsets.FY5253Quarter.get_rule_code_suffix GL08" \
-i "pandas.tseries.offsets.FY5253Quarter.get_weeks GL08" \
-i "pandas.tseries.offsets.FY5253Quarter.is_on_offset GL08" \
-i "pandas.tseries.offsets.FY5253Quarter.n GL08" \
-i "pandas.tseries.offsets.FY5253Quarter.normalize GL08" \
-i "pandas.tseries.offsets.FY5253Quarter.qtr_with_extra_week GL08" \
-i "pandas.tseries.offsets.FY5253Quarter.rule_code GL08" \
-i "pandas.tseries.offsets.FY5253Quarter.startingMonth GL08" \
-i "pandas.tseries.offsets.FY5253Quarter.variation GL08" \
-i "pandas.tseries.offsets.FY5253Quarter.weekday GL08" \
-i "pandas.tseries.offsets.FY5253Quarter.year_has_extra_week GL08" \
-i "pandas.tseries.offsets.Hour.is_on_offset GL08" \
-i "pandas.tseries.offsets.Hour.n GL08" \
-i "pandas.tseries.offsets.Hour.normalize GL08" \
-i "pandas.tseries.offsets.LastWeekOfMonth SA01" \
-i "pandas.tseries.offsets.LastWeekOfMonth.is_on_offset GL08" \
-i "pandas.tseries.offsets.LastWeekOfMonth.n GL08" \
-i "pandas.tseries.offsets.LastWeekOfMonth.normalize GL08" \
-i "pandas.tseries.offsets.LastWeekOfMonth.week GL08" \
-i "pandas.tseries.offsets.LastWeekOfMonth.weekday GL08" \
-i "pandas.tseries.offsets.Micro.is_on_offset GL08" \
-i "pandas.tseries.offsets.Micro.n GL08" \
-i "pandas.tseries.offsets.Micro.normalize GL08" \
-i "pandas.tseries.offsets.Milli.is_on_offset GL08" \
-i "pandas.tseries.offsets.Milli.n GL08" \
-i "pandas.tseries.offsets.Milli.normalize GL08" \
-i "pandas.tseries.offsets.Minute.is_on_offset GL08" \
-i "pandas.tseries.offsets.Minute.n GL08" \
-i "pandas.tseries.offsets.Minute.normalize GL08" \
-i "pandas.tseries.offsets.MonthBegin.is_on_offset GL08" \
-i "pandas.tseries.offsets.MonthBegin.n GL08" \
-i "pandas.tseries.offsets.MonthBegin.normalize GL08" \
-i "pandas.tseries.offsets.MonthEnd.is_on_offset GL08" \
-i "pandas.tseries.offsets.MonthEnd.n GL08" \
-i "pandas.tseries.offsets.MonthEnd.normalize GL08" \
-i "pandas.tseries.offsets.Nano.is_on_offset GL08" \
-i "pandas.tseries.offsets.Nano.normalize GL08" \
-i "pandas.tseries.offsets.Nano.n GL08" \
-i "pandas.tseries.offsets.QuarterBegin.is_on_offset GL08" \
-i "pandas.tseries.offsets.QuarterBegin.n GL08" \
-i "pandas.tseries.offsets.QuarterBegin.normalize GL08" \
-i "pandas.tseries.offsets.QuarterBegin.rule_code GL08" \
-i "pandas.tseries.offsets.QuarterBegin.startingMonth GL08" \
-i "pandas.tseries.offsets.QuarterEnd.is_on_offset GL08" \
-i "pandas.tseries.offsets.QuarterEnd.n GL08" \
-i "pandas.tseries.offsets.QuarterEnd.normalize GL08" \
-i "pandas.tseries.offsets.QuarterEnd.rule_code GL08" \
-i "pandas.tseries.offsets.QuarterEnd.startingMonth GL08" \
-i "pandas.tseries.offsets.Second.is_on_offset GL08" \
-i "pandas.tseries.offsets.Second.n GL08" \
-i "pandas.tseries.offsets.Second.normalize GL08" \
-i "pandas.tseries.offsets.SemiMonthBegin SA01" \
-i "pandas.tseries.offsets.SemiMonthBegin.day_of_month GL08" \
-i "pandas.tseries.offsets.SemiMonthBegin.is_on_offset GL08" \
-i "pandas.tseries.offsets.SemiMonthBegin.n GL08" \
-i "pandas.tseries.offsets.SemiMonthBegin.normalize GL08" \
-i "pandas.tseries.offsets.SemiMonthBegin.rule_code GL08" \
-i "pandas.tseries.offsets.SemiMonthEnd.day_of_month GL08" \
-i "pandas.tseries.offsets.SemiMonthEnd.is_on_offset GL08" \
-i "pandas.tseries.offsets.SemiMonthEnd.n GL08" \
-i "pandas.tseries.offsets.SemiMonthEnd.normalize GL08" \
-i "pandas.tseries.offsets.SemiMonthEnd.rule_code GL08" \
-i "pandas.tseries.offsets.Tick GL08" \
-i "pandas.tseries.offsets.Tick.is_on_offset GL08" \
-i "pandas.tseries.offsets.Tick.n GL08" \
-i "pandas.tseries.offsets.Tick.normalize GL08" \
-i "pandas.tseries.offsets.Week.is_on_offset GL08" \
-i "pandas.tseries.offsets.Week.n GL08" \
-i "pandas.tseries.offsets.Week.normalize GL08" \
-i "pandas.tseries.offsets.Week.weekday GL08" \
-i "pandas.tseries.offsets.WeekOfMonth.is_on_offset GL08" \
-i "pandas.tseries.offsets.WeekOfMonth.n GL08" \
-i "pandas.tseries.offsets.WeekOfMonth.normalize GL08" \
-i "pandas.tseries.offsets.WeekOfMonth.week GL08" \
-i "pandas.tseries.offsets.WeekOfMonth.weekday GL08" \
-i "pandas.tseries.offsets.YearBegin.is_on_offset GL08" \
-i "pandas.tseries.offsets.YearBegin.month GL08" \
-i "pandas.tseries.offsets.YearBegin.n GL08" \
-i "pandas.tseries.offsets.YearBegin.normalize GL08" \
-i "pandas.tseries.offsets.YearEnd.is_on_offset GL08" \
-i "pandas.tseries.offsets.YearEnd.month GL08" \
-i "pandas.tseries.offsets.YearEnd.n GL08" \
-i "pandas.tseries.offsets.YearEnd.normalize GL08" \
-i "pandas.util.hash_pandas_object PR07,SA01" # There should be no backslash in the final line, please keep this comment in the last ignored function
RET=$(($RET + $?)) ; echo $MSG "DONE"
fi
### DOCUMENTATION NOTEBOOKS ###
if [[ -z "$CHECK" || "$CHECK" == "notebooks" ]]; then
MSG='Notebooks' ; echo $MSG
jupyter nbconvert --execute $(find doc/source -name '*.ipynb') --to notebook
RET=$(($RET + $?)) ; echo $MSG "DONE"
fi
### SINGLE-PAGE DOCS ###
if [[ -z "$CHECK" || "$CHECK" == "single-docs" ]]; then
python doc/make.py --warnings-are-errors --no-browser --single pandas.Series.value_counts
python doc/make.py --warnings-are-errors --no-browser --single pandas.Series.str.split
fi
exit $RET