Atom-beautify: "autopep8: error: no such option: --indent-size" on Ubuntu
I get the following error when trying to beautify python code:
Atom Beautify - Debugging information
The following debugging information was generated by Atom Beautify on Fri Jun 26 2015 00:19:12 GMT+0100 (BST).
Platform: linux
Versions
Atom Version: 1.0.0
Atom Beautify Version: 0.28.6
Original file to be beautified
Original File Path: /home/john/MCG/AnalysisPrograms/MCG/mcg/dsp.py
Original File Grammar: Python
Original File Language: Python
Original File Contents:
import mcg
from scipy.signal import butter, lfilter, bessel
from scipy.signal import correlate2d as c2d
from skimage.feature import match_template
import numpy as np
import copy
import os
def CreateFiles(key):
"""Creates CoilData and ECGAve; single cycle averaged data, directly from raw data.
MinuteDataRange is a chronological list of minutes i.e. (3,4,5,6).
"""
mainpath = mcg.mainpath
ECGCoil = mcg.ECGCoil
data = np.float64(np.load(os.path.join(mainpath,key,"TotalRaw.npy")))
invertECG = mcg.scanDataFrame.loc[key,'invertECG']
print invertECG
print "CreateFiles key = ",key
leftlimit = 1000
rightlimit = 2000
sec = 60
MinuteDataRange = mcg.scanDataFrame.loc[key, "Minutelist"]
ECGth = mcg.scanDataFrame.loc[key, 'ECG-Threshold']
ECGAve = []
if mcg.deviceID == 'alphaPlus':
rwaveTriggers = np.float64(np.load(os.path.join(mainpath,key,"rwaveTriggers.npy")))
print "alphaPlus: using rwaveTriggers.npy"
# else:
# ECG = Coil[ECGCoil]
for minute in MinuteDataRange:
print "Minute", minute
Coil = []
for i in range(mcg.numcoils+1):
Coil.append(data[i][minute*2000*sec:(minute+1)*2000*sec])
if invertECG == True:
print "inverting ECG"
Coil[ECGCoil] = Coil[ECGCoil]*-1
if mcg.deviceID == 'alphaPlus':
print "using rwaveTriggers..."
ECG = rwaveTriggers[minute*2000*sec:(minute+1)*2000*sec]
else:
ECG = Coil[ECGCoil]
Trigger, count = TriggerFinder(ECG, ECGth)
print "len(Trigger);", len(Trigger)
if minute == min(MinuteDataRange):
ECGAve = Averager(Coil,ECGCoil,leftlimit,rightlimit,Trigger,1)/10000
else:
ECGAve = np.add(ECGAve,Averager(Coil,ECGCoil,leftlimit,rightlimit,Trigger,1)/10000)
CoilInput = [] # Data representing 1 minute - reset every minute
for i in range(0, mcg.numcoils):
CoilInput.append(Averager(Coil,i,leftlimit,rightlimit,Trigger,40))
if minute == min(MinuteDataRange):
CoilData = CoilInput
else:
CoilData = np.add(CoilData,CoilInput)
##print 'Minute number '+ str(minute)
np.save(os.path.join(mainpath,key,'CoilData.npy'), CoilData) # x,y,z equal sized 1D arrays
np.save(os.path.join(mainpath,key,'ECGData.npy'), ECGAve) # x,y,z equal sized 1D arrays
def RTinterval():
"""RT interval calculated from TwaveZC - RwaveZC.
First DF columns are sanitised; setting any "not found" strings
to the default R zero crossing position, 1000.
Then RTinterval is populated.
"""
mcg.scanDataFrame['RpeakZC'] = mcg.scanDataFrame['RpeakZC'].convert_objects(convert_numeric=True)
mcg.scanDataFrame['TpeakZC'] = mcg.scanDataFrame['TpeakZC'].convert_objects(convert_numeric=True)
for num,item in enumerate(mcg.scanDataFrame['RpeakZC']):
if np.isnan(item) == True:
item = 1000
mcg.scanDataFrame['RTinterval'] = mcg.scanDataFrame['TpeakZC'] - mcg.scanDataFrame['RpeakZC']
Beautification options
Editor Options:
Options from Atom Editor settings
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Config Options:
Options from Atom Beautify package settings
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}
Home Options:
Options from /home/john/.jsbeautifyrc
{
"_default": {}
}
EditorConfig Options:
Options from EditorConfig file
{
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}
Project Options:
Options from .jsbeautifyrc files starting from directory /home/john/MCG/AnalysisPrograms/MCG/mcg and going up to root
[
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{
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Final Options:
Final combined options that are used
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"ignore": [
"E24"
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Package Settings:
The raw package settings options
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Results
Beautified File Contents:
Error: Usage: autopep8 [options] [filename [filename ...]]
Use filename '-' for stdin.
autopep8: error: no such option: --indent-size
Logs:
2015-06-25T23:19:12.131Z - info: [/home/john/.atom/packages/atom-beautify/src/beautifiers/index.coffee] beautify import mcg
from scipy.signal import butter, lfilter, bessel
from scipy.signal import correlate2d as c2d
from skimage.feature import match_template
import numpy as np
import copy
import os
def CreateFiles(key):
"""Creates CoilData and ECGAve; single cycle averaged data, directly from raw data.
MinuteDataRange is a chronological list of minutes i.e. (3,4,5,6).
"""
mainpath = mcg.mainpath
ECGCoil = mcg.ECGCoil
data = np.float64(np.load(os.path.join(mainpath,key,"TotalRaw.npy")))
invertECG = mcg.scanDataFrame.loc[key,'invertECG']
print invertECG
print "CreateFiles key = ",key
leftlimit = 1000
rightlimit = 2000
sec = 60
MinuteDataRange = mcg.scanDataFrame.loc[key, "Minutelist"]
ECGth = mcg.scanDataFrame.loc[key, 'ECG-Threshold']
ECGAve = []
if mcg.deviceID == 'alphaPlus':
rwaveTriggers = np.float64(np.load(os.path.join(mainpath,key,"rwaveTriggers.npy")))
print "alphaPlus: using rwaveTriggers.npy"
# else:
# ECG = Coil[ECGCoil]
for minute in MinuteDataRange:
print "Minute", minute
Coil = []
for i in range(mcg.numcoils+1):
Coil.append(data[i][minute*2000*sec:(minute+1)*2000*sec])
if invertECG == True:
print "inverting ECG"
Coil[ECGCoil] = Coil[ECGCoil]*-1
if mcg.deviceID == 'alphaPlus':
print "using rwaveTriggers..."
ECG = rwaveTriggers[minute*2000*sec:(minute+1)*2000*sec]
else:
ECG = Coil[ECGCoil]
Trigger, count = TriggerFinder(ECG, ECGth)
print "len(Trigger);", len(Trigger)
if minute == min(MinuteDataRange):
ECGAve = Averager(Coil,ECGCoil,leftlimit,rightlimit,Trigger,1)/10000
else:
ECGAve = np.add(ECGAve,Averager(Coil,ECGCoil,leftlimit,rightlimit,Trigger,1)/10000)
CoilInput = [] # Data representing 1 minute - reset every minute
for i in range(0, mcg.numcoils):
CoilInput.append(Averager(Coil,i,leftlimit,rightlimit,Trigger,40))
if minute == min(MinuteDataRange):
CoilData = CoilInput
else:
CoilData = np.add(CoilData,CoilInput)
##print 'Minute number '+ str(minute)
np.save(os.path.join(mainpath,key,'CoilData.npy'), CoilData) # x,y,z equal sized 1D arrays
np.save(os.path.join(mainpath,key,'ECGData.npy'), ECGAve) # x,y,z equal sized 1D arrays
#
#
#
def RTinterval():
"""RT interval calculated from TwaveZC - RwaveZC.
First DF columns are sanitised; setting any "not found" strings
to the default R zero crossing position, 1000.
Then RTinterval is populated.
"""
mcg.scanDataFrame['RpeakZC'] = mcg.scanDataFrame['RpeakZC'].convert_objects(convert_numeric=True)
mcg.scanDataFrame['TpeakZC'] = mcg.scanDataFrame['TpeakZC'].convert_objects(convert_numeric=True)
for num,item in enumerate(mcg.scanDataFrame['RpeakZC']):
if np.isnan(item) == True:
item = 1000
mcg.scanDataFrame['RTinterval'] = mcg.scanDataFrame['TpeakZC'] - mcg.scanDataFrame['RpeakZC']
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{ _default: {} } ] Python /home/john/MCG/AnalysisPrograms/MCG/mcg/dsp.py undefined
2015-06-25T23:19:12.131Z - verbose: [/home/john/.atom/packages/atom-beautify/src/beautifiers/index.coffee] indent_size=1, indent_char= , indent_with_tabs=true, configPath=, configPath=, configPath=, indent_size=2, indent_char= , selector_separator_newline=false, newline_between_rules=false, preserve_newlines=false, wrap_line_length=0, indent_comments=true, force_indentation=false, convert_quotes=none, align_assignments=false, configPath=, emacs_path=, emacs_script_path=, indent_inner_html=false, indent_size=2, indent_char= , brace_style=collapse, indent_scripts=normal, wrap_line_length=250, wrap_attributes=auto, wrap_attributes_indent_size=2, preserve_newlines=true, max_preserve_newlines=10, unformatted=[a, sub, sup, b, i, u], end_with_newline=false, configPath=, indent_size=2, indent_char= , indent_level=0, indent_with_tabs=false, preserve_newlines=true, max_preserve_newlines=10, space_in_paren=false, jslint_happy=false, space_after_anon_function=false, brace_style=collapse, break_chained_methods=false, keep_array_indentation=false, keep_function_indentation=false, space_before_conditional=true, eval_code=false, unescape_strings=false, wrap_line_length=0, end_with_newline=false, configPath=, configPath=, perltidy_profile=, cs_fixer_path=, fixers=, level=, max_line_length=79, indent_size=2, ignore=[E24], indent_size=2, indent_char= , rustfmt_path=, indent_size=2, keywords=upper, identifiers=lower, configPath=, , , , , , , ,
2015-06-25T23:19:12.132Z - verbose: [/home/john/.atom/packages/atom-beautify/src/beautifiers/index.coffee] [ { name: 'Python',
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beautifiers: [ 'autopep8' ] } ] 'Python' 'py'
2015-06-25T23:19:12.132Z - verbose: [/home/john/.atom/packages/atom-beautify/src/beautifiers/index.coffee] Language Python supported
2015-06-25T23:19:12.133Z - verbose: [/home/john/.atom/packages/atom-beautify/src/beautifiers/index.coffee] getOptions selections [ 'python' ] indent_size=1, indent_char= , indent_with_tabs=true, configPath=, configPath=, configPath=, indent_size=2, indent_char= , selector_separator_newline=false, newline_between_rules=false, preserve_newlines=false, wrap_line_length=0, indent_comments=true, force_indentation=false, convert_quotes=none, align_assignments=false, configPath=, emacs_path=, emacs_script_path=, indent_inner_html=false, indent_size=2, indent_char= , brace_style=collapse, indent_scripts=normal, wrap_line_length=250, wrap_attributes=auto, wrap_attributes_indent_size=2, preserve_newlines=true, max_preserve_newlines=10, unformatted=[a, sub, sup, b, i, u], end_with_newline=false, configPath=, indent_size=2, indent_char= , indent_level=0, indent_with_tabs=false, preserve_newlines=true, max_preserve_newlines=10, space_in_paren=false, jslint_happy=false, space_after_anon_function=false, brace_style=collapse, break_chained_methods=false, keep_array_indentation=false, keep_function_indentation=false, space_before_conditional=true, eval_code=false, unescape_strings=false, wrap_line_length=0, end_with_newline=false, configPath=, configPath=, perltidy_profile=, cs_fixer_path=, fixers=, level=, max_line_length=79, indent_size=2, ignore=[E24], indent_size=2, indent_char= , rustfmt_path=, indent_size=2, keywords=upper, identifiers=lower, configPath=, , , , , , , ,
2015-06-25T23:19:12.133Z - verbose: [/home/john/.atom/packages/atom-beautify/src/beautifiers/index.coffee] true indent_size=1, indent_char= , indent_with_tabs=true
2015-06-25T23:19:12.133Z - verbose: [/home/john/.atom/packages/atom-beautify/src/beautifiers/index.coffee] options python undefined
2015-06-25T23:19:12.133Z - verbose: [/home/john/.atom/packages/atom-beautify/src/beautifiers/index.coffee] options python indent_size=1, indent_char= , indent_with_tabs=true
2015-06-25T23:19:12.133Z - verbose: [/home/john/.atom/packages/atom-beautify/src/beautifiers/index.coffee] true configPath=, configPath=, configPath=, indent_size=2, indent_char= , selector_separator_newline=false, newline_between_rules=false, preserve_newlines=false, wrap_line_length=0, indent_comments=true, force_indentation=false, convert_quotes=none, align_assignments=false, configPath=, emacs_path=, emacs_script_path=, indent_inner_html=false, indent_size=2, indent_char= , brace_style=collapse, indent_scripts=normal, wrap_line_length=250, wrap_attributes=auto, wrap_attributes_indent_size=2, preserve_newlines=true, max_preserve_newlines=10, unformatted=[a, sub, sup, b, i, u], end_with_newline=false, configPath=, indent_size=2, indent_char= , indent_level=0, indent_with_tabs=false, preserve_newlines=true, max_preserve_newlines=10, space_in_paren=false, jslint_happy=false, space_after_anon_function=false, brace_style=collapse, break_chained_methods=false, keep_array_indentation=false, keep_function_indentation=false, space_before_conditional=true, eval_code=false, unescape_strings=false, wrap_line_length=0, end_with_newline=false, configPath=, configPath=, perltidy_profile=, cs_fixer_path=, fixers=, level=, max_line_length=79, indent_size=2, ignore=[E24], indent_size=2, indent_char= , rustfmt_path=, indent_size=2, keywords=upper, identifiers=lower, configPath=
2015-06-25T23:19:12.134Z - verbose: [/home/john/.atom/packages/atom-beautify/src/beautifiers/index.coffee] options python max_line_length=79, indent_size=2, ignore=[E24]
2015-06-25T23:19:12.134Z - verbose: [/home/john/.atom/packages/atom-beautify/src/beautifiers/index.coffee] options python max_line_length=79, indent_size=2, ignore=[E24]
2015-06-25T23:19:12.134Z - verbose: [/home/john/.atom/packages/atom-beautify/src/beautifiers/index.coffee] true
2015-06-25T23:19:12.134Z - verbose: [/home/john/.atom/packages/atom-beautify/src/beautifiers/index.coffee] options python undefined
2015-06-25T23:19:12.134Z - verbose: [/home/john/.atom/packages/atom-beautify/src/beautifiers/index.coffee] options python
2015-06-25T23:19:12.134Z - verbose: [/home/john/.atom/packages/atom-beautify/src/beautifiers/index.coffee] true
2015-06-25T23:19:12.134Z - verbose: [/home/john/.atom/packages/atom-beautify/src/beautifiers/index.coffee] options python undefined
2015-06-25T23:19:12.134Z - verbose: [/home/john/.atom/packages/atom-beautify/src/beautifiers/index.coffee] options python
2015-06-25T23:19:12.134Z - verbose: [/home/john/.atom/packages/atom-beautify/src/beautifiers/index.coffee] true
2015-06-25T23:19:12.134Z - verbose: [/home/john/.atom/packages/atom-beautify/src/beautifiers/index.coffee] options python undefined
2015-06-25T23:19:12.134Z - verbose: [/home/john/.atom/packages/atom-beautify/src/beautifiers/index.coffee] options python
2015-06-25T23:19:12.134Z - verbose: [/home/john/.atom/packages/atom-beautify/src/beautifiers/index.coffee] true
2015-06-25T23:19:12.134Z - verbose: [/home/john/.atom/packages/atom-beautify/src/beautifiers/index.coffee] options python undefined
2015-06-25T23:19:12.134Z - verbose: [/home/john/.atom/packages/atom-beautify/src/beautifiers/index.coffee] options python
2015-06-25T23:19:12.135Z - verbose: [/home/john/.atom/packages/atom-beautify/src/beautifiers/index.coffee] true
2015-06-25T23:19:12.135Z - verbose: [/home/john/.atom/packages/atom-beautify/src/beautifiers/index.coffee] options python undefined
2015-06-25T23:19:12.135Z - verbose: [/home/john/.atom/packages/atom-beautify/src/beautifiers/index.coffee] options python
2015-06-25T23:19:12.135Z - verbose: [/home/john/.atom/packages/atom-beautify/src/beautifiers/index.coffee] true
2015-06-25T23:19:12.135Z - verbose: [/home/john/.atom/packages/atom-beautify/src/beautifiers/index.coffee] options python undefined
2015-06-25T23:19:12.135Z - verbose: [/home/john/.atom/packages/atom-beautify/src/beautifiers/index.coffee] options python
2015-06-25T23:19:12.135Z - verbose: [/home/john/.atom/packages/atom-beautify/src/beautifiers/index.coffee] true
2015-06-25T23:19:12.135Z - verbose: [/home/john/.atom/packages/atom-beautify/src/beautifiers/index.coffee] options python undefined
2015-06-25T23:19:12.135Z - verbose: [/home/john/.atom/packages/atom-beautify/src/beautifiers/index.coffee] options python
2015-06-25T23:19:12.135Z - verbose: [/home/john/.atom/packages/atom-beautify/src/beautifiers/index.coffee] true
2015-06-25T23:19:12.135Z - verbose: [/home/john/.atom/packages/atom-beautify/src/beautifiers/index.coffee] options python undefined
2015-06-25T23:19:12.135Z - verbose: [/home/john/.atom/packages/atom-beautify/src/beautifiers/index.coffee] options python
2015-06-25T23:19:12.135Z - verbose: [/home/john/.atom/packages/atom-beautify/src/beautifiers/index.coffee] Python name=Python, namespace=python, grammars=[Python], extensions=[py], type=integer, default=79, description=set maximum allowed line length (Supported by autopep8), title=Python - Max line length, beautifiers=[autopep8], type=integer, default=2, minimum=0, description=Indentation size/length (Supported by autopep8), title=Python - Indent size, beautifiers=[autopep8], type=array, default=[E24], type=string, description=do not fix these errors/warnings (Supported by autopep8), title=Python - Ignore, beautifiers=[autopep8], beautifiers=[autopep8]
2015-06-25T23:19:12.135Z - verbose: [/home/john/.atom/packages/atom-beautify/src/beautifiers/index.coffee] options indent_size=2, indent_char= , indent_with_tabs=true, max_line_length=79, ignore=[E24]
2015-06-25T23:19:12.136Z - verbose: [/home/john/.atom/packages/atom-beautify/src/beautifiers/index.coffee] beautifiers silly=function (msg) {
// build argument list (level, msg, ... [string interpolate], [{metadata}], [callback])
var args = [level].concat(Array.prototype.slice.call(arguments));
target.log.apply(target, args);
}, debug=function (msg) {
// build argument list (level, msg, ... [string interpolate], [{metadata}], [callback])
var args = [level].concat(Array.prototype.slice.call(arguments));
target.log.apply(target, args);
}, verbose=function (msg) {
// build argument list (level, msg, ... [string interpolate], [{metadata}], [callback])
var args = [level].concat(Array.prototype.slice.call(arguments));
target.log.apply(target, args);
}, info=function (msg) {
// build argument list (level, msg, ... [string interpolate], [{metadata}], [callback])
var args = [level].concat(Array.prototype.slice.call(arguments));
target.log.apply(target, args);
}, warn=function (msg) {
// build argument list (level, msg, ... [string interpolate], [{metadata}], [callback])
var args = [level].concat(Array.prototype.slice.call(arguments));
target.log.apply(target, args);
}, error=function (msg) {
// build argument list (level, msg, ... [string interpolate], [{metadata}], [callback])
var args = [level].concat(Array.prototype.slice.call(arguments));
target.log.apply(target, args);
}, onLogging=function (handler) {
var subscription;
subscription = emitter.on('logging', handler);
return subscription;
}, silly=function (msg) {
// build argument list (level, msg, ... [string interpolate], [{metadata}], [callback])
var args = [level].concat(Array.prototype.slice.call(arguments));
target.log.apply(target, args);
}, debug=function (msg) {
// build argument list (level, msg, ... [string interpolate], [{metadata}], [callback])
var args = [level].concat(Array.prototype.slice.call(arguments));
target.log.apply(target, args);
}, verbose=function (msg) {
// build argument list (level, msg, ... [string interpolate], [{metadata}], [callback])
var args = [level].concat(Array.prototype.slice.call(arguments));
target.log.apply(target, args);
}, info=function (msg) {
// build argument list (level, msg, ... [string interpolate], [{metadata}], [callback])
var args = [level].concat(Array.prototype.slice.call(arguments));
target.log.apply(target, args);
}, warn=function (msg) {
// build argument list (level, msg, ... [string interpolate], [{metadata}], [callback])
var args = [level].concat(Array.prototype.slice.call(arguments));
target.log.apply(target, args);
}, error=function (msg) {
// build argument list (level, msg, ... [string interpolate], [{metadata}], [callback])
var args = [level].concat(Array.prototype.slice.call(arguments));
target.log.apply(target, args);
}, onLogging=function (handler) {
var subscription;
subscription = emitter.on('logging', handler);
return subscription;
}, languages=[Python], XDG_VTNR=7, XDG_SESSION_ID=c2, XDG_GREETER_DATA_DIR=/var/lib/lightdm-data/john, CLUTTER_IM_MODULE=xim, GIO_LAUNCHED_DESKTOP_FILE_PID=18627, SESSION=ubuntu, GPG_AGENT_INFO=/run/user/1000/keyring/gpg:0:1, SHELL=/bin/bash, UPSTART_SESSION=unix:abstract, GNOME_KEYRING_CONTROL=, GTK_MODULES=overlay-scrollbar:unity-gtk-module, ATOM_HOME=/home/john/.atom, USER=john, LS_COLORS=, XDG_SESSION_PATH=/org/freedesktop/DisplayManager/Session0, XDG_SEAT_PATH=/org/freedesktop/DisplayManager/Seat0, SSH_AUTH_SOCK=/run/user/1000/keyring/ssh, DEFAULTS_PATH=/usr/share/gconf/ubuntu.default.path, GIO_LAUNCHED_DESKTOP_FILE=/usr/share/applications/atom.desktop, XDG_CONFIG_DIRS=/etc/xdg/xdg-ubuntu:/usr/share/upstart/xdg:/etc/xdg, GOOGLE_API_KEY=AIzaSyAQfxPJiounkhOjODEO5ZieffeBv6yft2Q, DESKTOP_SESSION=ubuntu, PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games, QT_QPA_PLATFORMTHEME=appmenu-qt5, QT_IM_MODULE=ibus, JOB=unity-settings-daemon, XDG_SESSION_TYPE=x11, PWD=/home/john, XMODIFIERS=@im, GNOME_KEYRING_PID=, LANG=en_GB.UTF-8, GDM_LANG=en_GB, MANDATORY_PATH=/usr/share/gconf/ubuntu.mandatory.path, NODE_PATH=/usr/share/atom/resources/app.asar/exports, CHROME_DESKTOP=Atom.desktop, COMPIZ_CONFIG_PROFILE=ubuntu, IM_CONFIG_PHASE=1, NODE_ENV=production, JAVA_TOOL_OPTIONS=-javaagent:/usr/share/java/jayatanaag.jar , GDMSESSION=ubuntu, SESSIONTYPE=gnome-session, HOME=/home/john, XDG_SEAT=seat0, SHLVL=1, LANGUAGE=en_GB:en, GNOME_DESKTOP_SESSION_ID=this-is-deprecated, UPSTART_INSTANCE=, UPSTART_EVENTS=xsession started, LOGNAME=john, XDG_SESSION_DESKTOP=ubuntu, COMPIZ_BIN_PATH=/usr/bin/, DBUS_SESSION_BUS_ADDRESS=unix:abstract, XDG_DATA_DIRS=/usr/share/ubuntu:/usr/share/gnome:/usr/local/share/:/usr/share/, QT4_IM_MODULE=xim, LESSOPEN=| /usr/bin/lesspipe %s, UPSTART_JOB=unity7, INSTANCE=, DISPLAY=:0, XDG_RUNTIME_DIR=/run/user/1000, XDG_CURRENT_DESKTOP=Unity, GTK_IM_MODULE=ibus, LESSCLOSE=/usr/bin/lesspipe %s %s, XAUTHORITY=/home/john/.Xauthority, _=/usr/bin/env, _envCacheDate=Fri Jun 26 2015 00:18:48 GMT+0100 (BST)
2015-06-25T23:19:12.136Z - verbose: [/home/john/.atom/packages/atom-beautify/src/beautifiers/index.coffee] Python /home/john/MCG/AnalysisPrograms/MCG/mcg/dsp.py { indent_size: 2,
indent_char: '\t',
indent_with_tabs: true,
max_line_length: 79,
ignore: [ 'E24' ] } indent_size=1, indent_char= , indent_with_tabs=true, configPath=, configPath=, configPath=, indent_size=2, indent_char= , selector_separator_newline=false, newline_between_rules=false, preserve_newlines=false, wrap_line_length=0, indent_comments=true, force_indentation=false, convert_quotes=none, align_assignments=false, configPath=, emacs_path=, emacs_script_path=, indent_inner_html=false, indent_size=2, indent_char= , brace_style=collapse, indent_scripts=normal, wrap_line_length=250, wrap_attributes=auto, wrap_attributes_indent_size=2, preserve_newlines=true, max_preserve_newlines=10, unformatted=[a, sub, sup, b, i, u], end_with_newline=false, configPath=, indent_size=2, indent_char= , indent_level=0, indent_with_tabs=false, preserve_newlines=true, max_preserve_newlines=10, space_in_paren=false, jslint_happy=false, space_after_anon_function=false, brace_style=collapse, break_chained_methods=false, keep_array_indentation=false, keep_function_indentation=false, space_before_conditional=true, eval_code=false, unescape_strings=false, wrap_line_length=0, end_with_newline=false, configPath=, configPath=, perltidy_profile=, cs_fixer_path=, fixers=, level=, max_line_length=79, indent_size=2, ignore=[E24], indent_size=2, indent_char= , rustfmt_path=, indent_size=2, keywords=upper, identifiers=lower, configPath=, , , , , , , ,
2015-06-25T23:19:12.137Z - verbose: [/home/john/.atom/packages/atom-beautify/src/beautifiers/index.coffee] beautifier autopep8 silly=function (msg) {
// build argument list (level, msg, ... [string interpolate], [{metadata}], [callback])
var args = [level].concat(Array.prototype.slice.call(arguments));
target.log.apply(target, args);
}, debug=function (msg) {
// build argument list (level, msg, ... [string interpolate], [{metadata}], [callback])
var args = [level].concat(Array.prototype.slice.call(arguments));
target.log.apply(target, args);
}, verbose=function (msg) {
// build argument list (level, msg, ... [string interpolate], [{metadata}], [callback])
var args = [level].concat(Array.prototype.slice.call(arguments));
target.log.apply(target, args);
}, info=function (msg) {
// build argument list (level, msg, ... [string interpolate], [{metadata}], [callback])
var args = [level].concat(Array.prototype.slice.call(arguments));
target.log.apply(target, args);
}, warn=function (msg) {
// build argument list (level, msg, ... [string interpolate], [{metadata}], [callback])
var args = [level].concat(Array.prototype.slice.call(arguments));
target.log.apply(target, args);
}, error=function (msg) {
// build argument list (level, msg, ... [string interpolate], [{metadata}], [callback])
var args = [level].concat(Array.prototype.slice.call(arguments));
target.log.apply(target, args);
}, onLogging=function (handler) {
var subscription;
subscription = emitter.on('logging', handler);
return subscription;
}, silly=function (msg) {
// build argument list (level, msg, ... [string interpolate], [{metadata}], [callback])
var args = [level].concat(Array.prototype.slice.call(arguments));
target.log.apply(target, args);
}, debug=function (msg) {
// build argument list (level, msg, ... [string interpolate], [{metadata}], [callback])
var args = [level].concat(Array.prototype.slice.call(arguments));
target.log.apply(target, args);
}, verbose=function (msg) {
// build argument list (level, msg, ... [string interpolate], [{metadata}], [callback])
var args = [level].concat(Array.prototype.slice.call(arguments));
target.log.apply(target, args);
}, info=function (msg) {
// build argument list (level, msg, ... [string interpolate], [{metadata}], [callback])
var args = [level].concat(Array.prototype.slice.call(arguments));
target.log.apply(target, args);
}, warn=function (msg) {
// build argument list (level, msg, ... [string interpolate], [{metadata}], [callback])
var args = [level].concat(Array.prototype.slice.call(arguments));
target.log.apply(target, args);
}, error=function (msg) {
// build argument list (level, msg, ... [string interpolate], [{metadata}], [callback])
var args = [level].concat(Array.prototype.slice.call(arguments));
target.log.apply(target, args);
}, onLogging=function (handler) {
var subscription;
subscription = emitter.on('logging', handler);
return subscription;
}, languages=[Python], XDG_VTNR=7, XDG_SESSION_ID=c2, XDG_GREETER_DATA_DIR=/var/lib/lightdm-data/john, CLUTTER_IM_MODULE=xim, GIO_LAUNCHED_DESKTOP_FILE_PID=18627, SESSION=ubuntu, GPG_AGENT_INFO=/run/user/1000/keyring/gpg:0:1, SHELL=/bin/bash, UPSTART_SESSION=unix:abstract, GNOME_KEYRING_CONTROL=, GTK_MODULES=overlay-scrollbar:unity-gtk-module, ATOM_HOME=/home/john/.atom, USER=john, LS_COLORS=, XDG_SESSION_PATH=/org/freedesktop/DisplayManager/Session0, XDG_SEAT_PATH=/org/freedesktop/DisplayManager/Seat0, SSH_AUTH_SOCK=/run/user/1000/keyring/ssh, DEFAULTS_PATH=/usr/share/gconf/ubuntu.default.path, GIO_LAUNCHED_DESKTOP_FILE=/usr/share/applications/atom.desktop, XDG_CONFIG_DIRS=/etc/xdg/xdg-ubuntu:/usr/share/upstart/xdg:/etc/xdg, GOOGLE_API_KEY=AIzaSyAQfxPJiounkhOjODEO5ZieffeBv6yft2Q, DESKTOP_SESSION=ubuntu, PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games, QT_QPA_PLATFORMTHEME=appmenu-qt5, QT_IM_MODULE=ibus, JOB=unity-settings-daemon, XDG_SESSION_TYPE=x11, PWD=/home/john, XMODIFIERS=@im, GNOME_KEYRING_PID=, LANG=en_GB.UTF-8, GDM_LANG=en_GB, MANDATORY_PATH=/usr/share/gconf/ubuntu.mandatory.path, NODE_PATH=/usr/share/atom/resources/app.asar/exports, CHROME_DESKTOP=Atom.desktop, COMPIZ_CONFIG_PROFILE=ubuntu, IM_CONFIG_PHASE=1, NODE_ENV=production, JAVA_TOOL_OPTIONS=-javaagent:/usr/share/java/jayatanaag.jar , GDMSESSION=ubuntu, SESSIONTYPE=gnome-session, HOME=/home/john, XDG_SEAT=seat0, SHLVL=1, LANGUAGE=en_GB:en, GNOME_DESKTOP_SESSION_ID=this-is-deprecated, UPSTART_INSTANCE=, UPSTART_EVENTS=xsession started, LOGNAME=john, XDG_SESSION_DESKTOP=ubuntu, COMPIZ_BIN_PATH=/usr/bin/, DBUS_SESSION_BUS_ADDRESS=unix:abstract, XDG_DATA_DIRS=/usr/share/ubuntu:/usr/share/gnome:/usr/local/share/:/usr/share/, QT4_IM_MODULE=xim, LESSOPEN=| /usr/bin/lesspipe %s, UPSTART_JOB=unity7, INSTANCE=, DISPLAY=:0, XDG_RUNTIME_DIR=/run/user/1000, XDG_CURRENT_DESKTOP=Unity, GTK_IM_MODULE=ibus, LESSCLOSE=/usr/bin/lesspipe %s %s, XAUTHORITY=/home/john/.Xauthority, _=/usr/bin/env, _envCacheDate=Fri Jun 26 2015 00:18:48 GMT+0100 (BST)
2015-06-25T23:19:12.159Z - debug: [/home/john/.atom/packages/atom-beautify/src/beautifiers/beautifier.coffee] tempFile input null path=/tmp/input115526-18660-1yk8x7z, fd=72
2015-06-25T23:19:12.162Z - debug: [/home/john/.atom/packages/atom-beautify/src/beautifiers/beautifier.coffee] exeName, args: autopep8 0=/tmp/input115526-18660-1yk8x7z, 1=--max-line-length, 2=79, 3=--indent-size, 4=2, 5=--ignore, 6=E24
2015-06-25T23:19:12.387Z - debug: [/home/john/.atom/packages/atom-beautify/src/beautifiers/beautifier.coffee] exePath, env: /usr/bin/autopep8 XDG_VTNR=7, XDG_SESSION_ID=c2, XDG_GREETER_DATA_DIR=/var/lib/lightdm-data/john, CLUTTER_IM_MODULE=xim, GIO_LAUNCHED_DESKTOP_FILE_PID=18627, SESSION=ubuntu, GPG_AGENT_INFO=/run/user/1000/keyring/gpg:0:1, SHELL=/bin/bash, UPSTART_SESSION=unix:abstract, GNOME_KEYRING_CONTROL=, GTK_MODULES=overlay-scrollbar:unity-gtk-module, ATOM_HOME=/home/john/.atom, USER=john, LS_COLORS=, XDG_SESSION_PATH=/org/freedesktop/DisplayManager/Session0, XDG_SEAT_PATH=/org/freedesktop/DisplayManager/Seat0, SSH_AUTH_SOCK=/run/user/1000/keyring/ssh, DEFAULTS_PATH=/usr/share/gconf/ubuntu.default.path, GIO_LAUNCHED_DESKTOP_FILE=/usr/share/applications/atom.desktop, XDG_CONFIG_DIRS=/etc/xdg/xdg-ubuntu:/usr/share/upstart/xdg:/etc/xdg, GOOGLE_API_KEY=AIzaSyAQfxPJiounkhOjODEO5ZieffeBv6yft2Q, DESKTOP_SESSION=ubuntu, PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games, QT_QPA_PLATFORMTHEME=appmenu-qt5, QT_IM_MODULE=ibus, JOB=unity-settings-daemon, XDG_SESSION_TYPE=x11, PWD=/home/john, XMODIFIERS=@im, GNOME_KEYRING_PID=, LANG=en_GB.UTF-8, GDM_LANG=en_GB, MANDATORY_PATH=/usr/share/gconf/ubuntu.mandatory.path, NODE_PATH=/usr/share/atom/resources/app.asar/exports, CHROME_DESKTOP=Atom.desktop, COMPIZ_CONFIG_PROFILE=ubuntu, IM_CONFIG_PHASE=1, NODE_ENV=production, JAVA_TOOL_OPTIONS=-javaagent:/usr/share/java/jayatanaag.jar , GDMSESSION=ubuntu, SESSIONTYPE=gnome-session, HOME=/home/john, XDG_SEAT=seat0, SHLVL=1, LANGUAGE=en_GB:en, GNOME_DESKTOP_SESSION_ID=this-is-deprecated, UPSTART_INSTANCE=, UPSTART_EVENTS=xsession started, LOGNAME=john, XDG_SESSION_DESKTOP=ubuntu, COMPIZ_BIN_PATH=/usr/bin/, DBUS_SESSION_BUS_ADDRESS=unix:abstract, XDG_DATA_DIRS=/usr/share/ubuntu:/usr/share/gnome:/usr/local/share/:/usr/share/, QT4_IM_MODULE=xim, LESSOPEN=| /usr/bin/lesspipe %s, UPSTART_JOB=unity7, INSTANCE=, DISPLAY=:0, XDG_RUNTIME_DIR=/run/user/1000, XDG_CURRENT_DESKTOP=Unity, GTK_IM_MODULE=ibus, LESSCLOSE=/usr/bin/lesspipe %s %s, XAUTHORITY=/home/john/.Xauthority, _=/usr/bin/env
2015-06-25T23:19:12.387Z - debug: [/home/john/.atom/packages/atom-beautify/src/beautifiers/beautifier.coffee] spawn /usr/bin/autopep8 0=/tmp/input115526-18660-1yk8x7z, 1=--max-line-length, 2=79, 3=--indent-size, 4=2, 5=--ignore, 6=E24
2015-06-25T23:19:12.525Z - debug: [/home/john/.atom/packages/atom-beautify/src/beautifiers/beautifier.coffee] spawn done 2 Usage: autopep8 [options] [filename [filename ...]]
Use filename '-' for stdin.
autopep8: error: no such option: --indent-size
2015-06-25T23:19:12.525Z - verbose: [/home/john/.atom/packages/atom-beautify/src/beautifiers/beautifier.coffee] spawn result 2 Usage: autopep8 [options] [filename [filename ...]]
Use filename '-' for stdin.
autopep8: error: no such option: --indent-size
2015-06-25T23:19:12.526Z - verbose: [/home/john/.atom/packages/atom-beautify/src/beautifiers/beautifier.coffee] Usage: autopep8 [options] [filename [filename ...]]
Use filename '-' for stdin.
autopep8: error: no such option: --indent-size
is not recognized as an internal or external command
mooneyj
All 10 comments
This is strange. indent-size is most definitely an option.
$ autopep8 --help
usage: autopep8 [-h] [--version] [-v] [-d] [-i] [--global-config filename]
[--ignore-local-config] [-r] [-j n] [-p n] [-a]
[--experimental] [--exclude globs] [--list-fixes]
[--ignore errors] [--select errors] [--max-line-length n]
[--range line line] [--indent-size n]
[files [files ...]]
Automatically formats Python code to conform to the PEP 8 style guide.
positional arguments:
files files to format or '-' for standard in
optional arguments:
-h, --help show this help message and exit
--version show program's version number and exit
-v, --verbose print verbose messages; multiple -v result in more
verbose messages
-d, --diff print the diff for the fixed source
-i, --in-place make changes to files in place
--global-config filename
path to a global pep8 config file; if this file does
not exist then this is ignored (default:
/Users/glavin/.config/pep8)
--ignore-local-config
don't look for and apply local config files; if not
passed, defaults are updated with any config files in
the project's root directory
-r, --recursive run recursively over directories; must be used with
--in-place or --diff
-j n, --jobs n number of parallel jobs; match CPU count if value is
less than 1
-p n, --pep8-passes n
maximum number of additional pep8 passes (default:
infinite)
-a, --aggressive enable non-whitespace changes; multiple -a result in
more aggressive changes
--experimental enable experimental fixes
--exclude globs exclude file/directory names that match these comma-
separated globs
--list-fixes list codes for fixes; used by --ignore and --select
--ignore errors do not fix these errors/warnings (default: E24)
--select errors fix only these errors/warnings (e.g. E4,W)
--max-line-length n set maximum allowed line length (default: 79)
--range line line only fix errors found within this inclusive range of
line numbers (e.g. 1 99); line numbers are indexed at
1
--indent-size n number of spaces per indent level (default 4)
Could you check your version?
$ autopep8 --version
autopep8 1.1.1
Glavin001
on 26 Jun 2015
$ autopep8 --version
autopep8 0.9.1
I will update autopep8 and try again...
mooneyj
on 26 Jun 2015
It works with 1.5.7
Ubuntu 15.04 repo has 0.9.1 version. Needed to apt-get remove it then install through pip:
pip install autopep8
Thanks for your help.
mooneyj
on 26 Jun 2015
Great! Now other users will have this issue to help them if the encounter it as well.
Glavin001
on 26 Jun 2015
I had the same issue here but in my case I needed to use sudo permissions
$ sudo apt-get install autopep8
Then checked that the system could find it
$ which autopep8
/usr/local/bin/autopep8
Otherwise it was listed in the pip packages (pip list) but not found with which autopep8
obust
on 14 Jan 2016
Still happens with a fresh Ubuntu 16.04 (autopep8 0.9.1).
Would be nice to detect this older version, and ignore the indent-size parameter.
DZPM
on 23 Mar 2016
👍2
not able to get it working. Tried all approaches mentioned
$ sudo apt-get install autopep8
Reading package lists... Done
Building dependency tree
Reading state information... Done
E: Unable to locate package autopep8
$ sudo apt-get install python-autopep8
Install old version 0.9.1-2 which is buggy
pip install --upgrade autopep8
Install but running which autopep8 throws error
autopep8 not found
harryi3t
on 15 Feb 2017
got it working.
First search for the installation location of autopep8 using
find ~ -name autopep8
for me it was /home/USER_NAME/.local/bin/autopep8
next set a symlink in usr/bin
sudo ln -s /home/USER_NAME/.local/bin/autopep8 /usr/bin/autopep8
now which autopep8 will work and the plugin too
harryi3t
on 15 Feb 2017
👍1
AWESOME!! Thanks for providing your solution @harryi3t
prettydiff
on 15 Feb 2017
@harryi3t Thanks your solution still works!
chadhumphrey
on 11 Nov 2017
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Most helpful comment
Still happens with a fresh Ubuntu 16.04 (autopep8 0.9.1).
Would be nice to detect this older version, and ignore the
indent-sizeparameter.