TypeError: bad operand type for unary ~: 'NoneType' #466
Comments
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I have gotten that Stage 6 error before, but I'm pretty sure I fixed that with a patch to Eureka a little while ago. I do see that you're using v0.4 of Eureka, so updating to the latest v0.5 might help resolve that issue. As for your question about running just Stage 6 alone, if you edit your run_eureka.py file you can just comment out any stages that you don't want to run (and you'll need to remove the s5_meta argument to the Stage 6 function if it is there in your run_eureka.py file). |
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I updated to v0.5 but still got that error. However, when I ran stage 6 alone that error does not come up |
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Oh right, so that's isn't actually an error (Stage 6 should've run to completion successfully), but somehow an xarray save file gets closed and then something else tries to close the already closed file. I wouldn't be too worried about it if the code does run successfully when that message is displayed, but I'll keep this open for now until we figure out what's causing this (it may well not be our code, but one of our dependencies' code) |
taylorbell57
changed the title
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Alright sounds good. Thanks for your help! |
Instrument
Light curve fitting (Stages 4-6)
What happened?
Getting this error once I get to the stage 6 in the quickstart demos. I was also curious if there is a way to start directly at stage 6 with the S5 data from a previous run.
Error traceback output
Starting Stage 6: Light Curve Fitting
Input directory: /Users/michael/Eureka_test/DataAnalysis/JWST/MyFirstEureka/Stage5/S5_2022-09-28_wasp39b_run2/ap6_bg7/
Output directory: /Users/michael/Eureka_test/DataAnalysis/JWST/MyFirstEureka/Stage6/S6_2022-09-28_wasp39b_run2/ap6_bg7/
Copying S6 control file
Calculated g=55.25 m/s^2 with Rp=0.95 R_jup and Mp=2 M_jup
Calculated H=91.6 km with g=55.25 m/s^2, Teq=1400 K, and mu=2.3 u
Total time (min): 0.02
Saving results as astropy table
Saving results
Exception ignored in: <function CachingFileManager.del at 0x7f7eef4e81f0>
Traceback (most recent call last):
File "/Users/michael/opt/anaconda3/lib/python3.9/site-packages/xarray/backends/file_manager.py", line 244, in del
File "/Users/michael/opt/anaconda3/lib/python3.9/site-packages/xarray/backends/file_manager.py", line 222, in close
File "/Users/michael/opt/anaconda3/lib/python3.9/site-packages/h5netcdf/core.py", line 1130, in close
File "/Users/michael/opt/anaconda3/lib/python3.9/site-packages/h5py/_hl/files.py", line 445, in close
TypeError: bad operand type for unary ~: 'NoneType'
Exception ignored in: <function File.close at 0x7f7eef53e040>
Traceback (most recent call last):
File "/Users/michael/opt/anaconda3/lib/python3.9/site-packages/h5netcdf/core.py", line 1130, in close
File "/Users/michael/opt/anaconda3/lib/python3.9/site-packages/h5py/_hl/files.py", line 445, in close
TypeError: bad operand type for unary ~: 'NoneType'
What operating system are you using?
macOS 12.5.1 Monterey
What version of Python are you running?
Python 3.9.12
What Python packages do you have installed?
Name Version Build Channel
_ipyw_jlab_nb_ext_conf 0.1.0 py39hecd8cb5_1
aiohttp 3.8.1 py39hca72f7f_1
aiosignal 1.2.0 pyhd3eb1b0_0
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altair 4.2.0 pypi_0 pypi
anaconda 2022.05 py39_0
anaconda-client 1.9.0 py39hecd8cb5_0
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anyio 3.5.0 py39hecd8cb5_0
appdirs 1.4.4 pyhd3eb1b0_0
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appscript 1.1.2 py39h9ed2024_0
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arrow 1.2.2 pyhd3eb1b0_0
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asdf-transform-schemas 0.3.0 pypi_0 pypi
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intel-openmp 2021.4.0 hecd8cb5_3538
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ipython 8.2.0 py39hecd8cb5_0
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spherical-geometry 1.2.22 pypi_0 pypi
sphinx 4.4.0 pyhd3eb1b0_0
sphinxcontrib-applehelp 1.0.2 pyhd3eb1b0_0
sphinxcontrib-devhelp 1.0.2 pyhd3eb1b0_0
sphinxcontrib-htmlhelp 2.0.0 pyhd3eb1b0_0
sphinxcontrib-jsmath 1.0.1 pyhd3eb1b0_0
sphinxcontrib-qthelp 1.0.3 pyhd3eb1b0_0
sphinxcontrib-serializinghtml 1.1.5 pyhd3eb1b0_0
spyder 5.1.5 py39hecd8cb5_1
spyder-kernels 2.1.3 py39hecd8cb5_0
sqlalchemy 1.4.32 py39hca72f7f_0
sqlite 3.38.2 h707629a_0
stack_data 0.2.0 pyhd3eb1b0_0
statsmodels 0.13.2 py39hca72f7f_0
stcal 1.1.0 pypi_0 pypi
stdatamodels 0.4.3 pypi_0 pypi
stpipe 0.4.2 pypi_0 pypi
stsci-image 2.3.5 pypi_0 pypi
stsci-imagestats 1.6.3 pypi_0 pypi
stsci-stimage 0.2.5 pypi_0 pypi
svo-filters 0.4.4 pypi_0 pypi
sympy 1.10.1 py39hecd8cb5_0
tabulate 0.8.9 py39hecd8cb5_0
tbb 2021.5.0 haf03e11_0
tbb4py 2021.5.0 py39haf03e11_0
tblib 1.7.0 pyhd3eb1b0_0
tenacity 8.0.1 py39hecd8cb5_0
terminado 0.13.1 py39hecd8cb5_0
testpath 0.5.0 pyhd3eb1b0_0
text-unidecode 1.3 pyhd3eb1b0_0
textdistance 4.2.1 pyhd3eb1b0_0
threadpoolctl 2.2.0 pyh0d69192_0
three-merge 0.1.1 pyhd3eb1b0_0
tifffile 2021.7.2 pyhd3eb1b0_2
tinycss 0.4 pyhd3eb1b0_1002
tk 8.6.11 h7bc2e8c_0
tldextract 3.2.0 pyhd3eb1b0_0
toml 0.10.2 pyhd3eb1b0_0
tomli 1.2.2 pyhd3eb1b0_0
toolz 0.11.2 pyhd3eb1b0_0
tornado 6.1 py39h9ed2024_0
tqdm 4.64.0 py39hecd8cb5_0
traitlets 5.1.1 pyhd3eb1b0_0
tweakwcs 0.8.0 pypi_0 pypi
twisted 22.2.0 py39hca72f7f_0
typed-ast 1.4.3 py39h9ed2024_1
typing-extensions 4.1.1 hd3eb1b0_0
typing_extensions 4.1.1 pyh06a4308_0
tzdata 2022a hda174b7_0
ujson 5.1.0 py39he9d5cce_0
uncertainties 3.1.7 pypi_0 pypi
unidecode 1.2.0 pyhd3eb1b0_0
unixodbc 2.3.9 haf1e3a3_0
urllib3 1.26.9 py39hecd8cb5_0
w3lib 1.21.0 pyhd3eb1b0_0
watchdog 2.1.6 py39h999c104_0
wcwidth 0.2.5 pyhd3eb1b0_0
webencodings 0.5.1 py39hecd8cb5_1
websocket-client 0.58.0 py39hecd8cb5_4
werkzeug 2.0.3 pyhd3eb1b0_0
wget 1.21.3 h6dfd666_0
wheel 0.37.1 pyhd3eb1b0_0
widgetsnbextension 3.5.2 py39hecd8cb5_0
wiimatch 0.3.1 pypi_0 pypi
wrapt 1.12.1 py39h9ed2024_1
wurlitzer 3.0.2 py39hecd8cb5_0
xarray 0.20.1 pyhd3eb1b0_1
xlrd 2.0.1 pyhd3eb1b0_0
xlsxwriter 3.0.3 pyhd3eb1b0_0
xlwings 0.24.9 py39hecd8cb5_0
xz 5.2.5 h1de35cc_0
yaml 0.2.5 haf1e3a3_0
yapf 0.31.0 pyhd3eb1b0_0
yarl 1.6.3 py39h9ed2024_0
zeromq 4.3.4 h23ab428_0
zfp 0.5.5 he9d5cce_6
zict 2.0.0 pyhd3eb1b0_0
zipp 3.7.0 pyhd3eb1b0_0
zlib 1.2.12 h4dc903c_2
zope 1.0 py39hecd8cb5_1
zope.interface 5.4.0 py39h9ed2024_0
zstd 1.4.9 h322a384_0
Code of Conduct
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