Repository: kevin218/eureka
Issue: [Bug]: time array shape does not agree with sci array shape for MIRI drift NEW data of NGTS10

### FAQ check

- [X] Yes, I checked the FAQ and my question has not been addressed.

### Instrument

MIRI (Stages 1-3)

### What happened?

I ran Stage 3 of MIRI using the Stage 2 Output on the Box (MIRI Stage 2 output drift NEW). There seems to be a dimension issue in the time array.
 
For segment no1, _time_ has the shape of (46) and _sci_ has (45, 72, 416). So _time_ is too long by one element.

I believe the bug arises from line 118 in miri.py. Instead of _data.attrs['intend']_ it should be _data.attrs['intend'] - 1_. Like in line 113 or 132. The same error can be seen in line 126.

I can create a quick PR if that's actually a bug and not my fault in some way..

### Error traceback output

/home/zieba/anaconda3/envs/eureka_repo_reorg/bin/python /home/zieba/Desktop/Projects/Open_source/Eureka_repo_reorg/Eureka/demos/JWST/run_eureka.py
WARNING: The package jwst has not been installed. As a result, Eureka!'s Stages 1 and 2 will not work.
WARNING: Unable to find an output metadata file from Eureka!'s S2 in the folder:
"/home/zieba/Desktop/Data/JWST-Sim-Data_Challenge/MIRI/Stage_2_output_drift_NEW/"
Assuming this S2 data was produced by the JWST pipeline instead.

Starting Stage 3 Reduction

Input directory: /home/zieba/Desktop/Data/JWST-Sim-Data_Challenge/MIRI/Stage_2_output_drift_NEW/
Output directory: /home/zieba/Desktop/Data/JWST-Sim-Data_Challenge/MIRI/my_Stage_2_output_drift_NEW_June2022/S3_2022-06-27_miri_lrs_template_run3/ap4_bg8/
Using ap=4, bg=8
Copying S3 control file

Found 42 data file(s) ending in calints.fits
Reading file 1 of 42
  WARNING: The wavelength for the simulated MIRI data are currently hardcoded
           because they are not in the .fits files themselves
  WARNING: The timestamps for the simulated MIRI data are currently hardcoded
           because they are not in the .fits files themselves
Traceback (most recent call last):
  File "/home/zieba/Desktop/Projects/Open_source/Eureka_repo_reorg/Eureka/demos/JWST/run_eureka.py", line 27, in <module>
    s3_spec, s3_meta = s3.reduce(eventlabel, ecf_path=ecf_path)
  File "/home/zieba/anaconda3/envs/eureka_repo_reorg/lib/python3.9/site-packages/eureka/S3_data_reduction/s3_reduce.py", line 214, in reduce
    data, meta = inst.read(meta.segment_list[m], data, meta)
  File "/home/zieba/anaconda3/envs/eureka_repo_reorg/lib/python3.9/site-packages/eureka/S3_data_reduction/miri.py", line 161, in read
    data['flux'] = xrio.makeFluxLikeDA(sci, time, flux_units, time_units,
  File "/home/zieba/anaconda3/envs/eureka_repo_reorg/lib/python3.9/site-packages/astraeus/xarrayIO.py", line 114, in makeFluxLikeDA
    da = xr.DataArray(
  File "/home/zieba/anaconda3/envs/eureka_repo_reorg/lib/python3.9/site-packages/xarray/core/dataarray.py", line 402, in __init__
    coords, dims = _infer_coords_and_dims(data.shape, coords, dims)
  File "/home/zieba/anaconda3/envs/eureka_repo_reorg/lib/python3.9/site-packages/xarray/core/dataarray.py", line 152, in _infer_coords_and_dims
    raise ValueError(
ValueError: conflicting sizes for dimension 'time': length 45 on the data but length 46 on coordinate 'time'

Process finished with exit code 1


### What operating system are you using?

Ubuntu 18.04.6 LTS

### What version of Python are you running?

Python 3.9

### What Python packages do you have installed?

_libgcc_mutex             0.1                        main  
_openmp_mutex             5.1                       1_gnu  
alabaster                 0.7.12                   pypi_0    pypi
asdf                      2.12.0                   pypi_0    pypi
asdf-astropy              0.2.1                    pypi_0    pypi
asdf-coordinates-schemas  0.1.0                    pypi_0    pypi
asdf-standard             1.0.2                    pypi_0    pypi
asdf-transform-schemas    0.2.2                    pypi_0    pypi
asdf-wcs-schemas          0.1.1                    pypi_0    pypi
asteval                   0.9.27                   pypi_0    pypi
astraeus                  0.2                      pypi_0    pypi
astropy                   5.1                      pypi_0    pypi
astropy-healpix           0.6                      pypi_0    pypi
astroquery                0.4.6                    pypi_0    pypi
astroscrappy              1.1.0                    pypi_0    pypi
asttokens                 2.0.5                    pypi_0    pypi
attrs                     21.4.0                   pypi_0    pypi
babel                     2.10.3                   pypi_0    pypi
backcall                  0.2.0                    pypi_0    pypi
batman-package            2.4.9                    pypi_0    pypi
beautifulsoup4            4.11.1                   pypi_0    pypi
bokeh                     2.4.3                    pypi_0    pypi
bottleneck                1.3.4                    pypi_0    pypi
ca-certificates           2022.4.26            h06a4308_0  
ccdproc                   2.3.1                    pypi_0    pypi
celerite                  0.4.2                    pypi_0    pypi
certifi                   2022.5.18.1      py39h06a4308_0  
cffi                      1.15.0                   pypi_0    pypi
cftime                    1.6.0                    pypi_0    pypi
charset-normalizer        2.0.12                   pypi_0    pypi
cloudpickle               2.1.0                    pypi_0    pypi
corner                    2.2.1                    pypi_0    pypi
crds                      11.16.3                  pypi_0    pypi
cryptography              37.0.2                   pypi_0    pypi
cycler                    0.11.0                   pypi_0    pypi
cython                    0.29.30                  pypi_0    pypi
dask                      2022.6.0                 pypi_0    pypi
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emcee                     3.1.2                    pypi_0    pypi
eureka                    0.0.1                    pypi_0    pypi
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future                    0.18.2                   pypi_0    pypi
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h5netcdf                  1.0.0                    pypi_0    pypi
h5py                      3.1.0                    pypi_0    pypi
html5lib                  1.1                      pypi_0    pypi
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imagesize                 1.3.0                    pypi_0    pypi
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photutils                 1.4.0                    pypi_0    pypi
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pip                       21.2.4           py39h06a4308_0  
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pure-eval                 0.2.2                    pypi_0    pypi
py                        1.11.0                   pypi_0    pypi
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pysynphot                 2.0.0                    pypi_0    pypi
pytest                    7.1.2                    pypi_0    pypi
python                    3.9.7                h12debd9_1  
python-dateutil           2.8.2                    pypi_0    pypi
pytz                      2022.1                   pypi_0    pypi
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zlib                      1.2.12               h7f8727e_2  


### Code of Conduct

- [X] I agree to follow this project's Code of Conduct

Changed files:
src/eureka/S3_data_reduction/miri.py

diff --git a/src/eureka/S3_data_reduction/miri.py b/src/eureka/S3_data_reduction/miri.py
index 19adea44..bf19479c 100644
--- a/src/eureka/S3_data_reduction/miri.py
+++ b/src/eureka/S3_data_reduction/miri.py
@@ -115,7 +115,7 @@ def read(filename, data, meta):
             # Time array for the newest MIRISIM observations
             time = np.linspace(0, 47.712*(1849)/3600/24, 1849,
                                endpoint=True)[data.attrs['intstart']-1:
-                                              data.attrs['intend']]
+                                              data.attrs['intend']-1]
         elif data.attrs['mhdr']['EFFINTTM'] == 10.3376:
             # There is no time information in the old simulated MIRI data
             # As a placeholder, I am creating timestamps indentical to the