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Indentation handling when running code cells (IndentationError: unexpected indent)

See original GitHub issue

Issue Report Checklist

Searched the issues page for similar reports
Read the relevant sections of the Spyder Troubleshooting Guide and followed its advice
Reproduced the issue after updating with conda update spyder (or pip, if not using Anaconda)
Could not reproduce inside jupyter qtconsole (if console-related)
Tried basic troubleshooting (if a bug/error)
- Restarted Spyder
- Reset preferences with spyder --reset
- Reinstalled the latest version of Anaconda
- Tried the other applicable steps from the Troubleshooting Guide
Completed the Problem Description, Steps to Reproduce and Version sections below

Problem Description

A cell with indented code cannot be run as it could before. In this example the second cell cannot be run:

print ('hello')

if 1:
    print('hello again')

#%%
    print ('hello')

Versions

Spyder version: 4.1.2
Python version: 3.7.2 64b
Qt version: 5.9.6
PyQt version: 5.9.2
Operating System name/version: Win7 64b

Dependencies

# Mandatory:
atomicwrites >=1.2.0           :  1.2.1 (OK)
chardet >=2.0.0                :  3.0.4 (OK)
cloudpickle >=0.5.0            :  0.6.1 (OK)
diff_match_patch >=20181111    :  20181111 (OK)
intervaltree                   :  None (OK)
IPython >=4.0                  :  7.2.0 (OK)
jedi =0.15.2                   :  0.15.2 (OK)
nbconvert >=4.0                :  5.3.1 (OK)
numpydoc >=0.6.0               :  0.8.0 (OK)
paramiko >=2.4.0               :  2.4.2 (OK)
parso =0.5.2                   :  0.5.2 (OK)
pexpect >=4.4.0                :  4.7.0 (OK)
pickleshare >=0.4              :  0.7.5 (OK)
psutil >=5.3                   :  5.4.8 (OK)
pygments >=2.0                 :  2.3.1 (OK)
pylint >=0.25                  :  2.2.2 (OK)
pyls >=0.31.9;<0.32.0          :  0.31.9 (OK)
qdarkstyle >=2.8               :  2.8 (OK)
qtawesome >=0.5.7              :  0.5.7 (OK)
qtconsole >=4.6.0              :  4.6.0 (OK)
qtpy >=1.5.0                   :  1.5.2 (OK)
rtree >=0.8.3                  :  0.8.3 (OK)
sphinx >=0.6.6                 :  1.8.2 (OK)
spyder_kernels >=1.9.0;<1.10.0 :  1.9.0 (OK)
watchdog                       :  None (OK)
zmq >=17                       :  17.1.2 (OK)

# Optional:
cython >=0.21                  :  0.29.2 (OK)
matplotlib >=2.0.0             :  3.0.2 (OK)
numpy >=1.7                    :  1.15.4 (OK)
pandas >=0.13.1                :  0.24.2 (OK)
scipy >=0.17.0                 :  1.2.1 (OK)
sympy >=0.7.3                  :  1.3 (OK)