taylorbell57
commented
2 years ago I wanted to see if this was an issue with just this newest version of starry, so I went back and tried older versions of starry. Simply doing pip install starry==version with version spanning all the releases between 1.1.0 and 1.2.0 after doing the above installation, I get the same error messages with limb darkening.
I was unable to even import starry==1.0.0 after a fresh install:
silurian:notebooks tjbell1$ conda create -n starry2 python==3.9.7 mkl-service -y
silurian:notebooks tjbell1$ conda activate starry2
silurian:notebooks tjbell1$ pip install starry==1.0.0 'numpy<1.22'
silurian:notebooks tjbell1$ ipython
In [1]: import starry
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The installed Theano(-PyMC) version (1.0.5) does not match the PyMC3 requirements.
It was imported from ['/Users/tjbell1/miniconda3/envs/starry2/lib/python3.9/site-packages/theano']
For PyMC3 to work, a compatible Theano-PyMC backend version must be installed.
See https://github.com/pymc-devs/pymc3/wiki for installation instructions.
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---------------------------------------------------------------------------
AttributeError Traceback (most recent call last)
Input In [1], in <cell line: 1>()
----> 1 import starry
File ~/miniconda3/envs/starry2/lib/python3.9/site-packages/starry/__init__.py:19, in <module>
17 # Import the main interface
18 from ._config import config
---> 19 from . import kepler, linalg, maps
20 from .maps import Map
21 from .kepler import Primary, Secondary, System
File ~/miniconda3/envs/starry2/lib/python3.9/site-packages/starry/kepler.py:4, in <module>
2 from . import config
3 from ._constants import *
----> 4 from .maps import MapBase, RVBase, ReflectedBase
5 from ._core import OpsSystem, math, linalg
6 import numpy as np
File ~/miniconda3/envs/starry2/lib/python3.9/site-packages/starry/maps.py:4, in <module>
2 from . import config
3 from ._constants import *
----> 4 from ._core import OpsYlm, OpsLD, OpsReflected, OpsRV, linalg, math
5 from ._indices import integers, get_ylm_inds, get_ul_inds, get_ylmw_inds
6 from ._plotting import (
7 get_ortho_latitude_lines,
8 get_ortho_longitude_lines,
9 get_projection,
10 )
File ~/miniconda3/envs/starry2/lib/python3.9/site-packages/starry/_core/__init__.py:2, in <module>
1 # -*- coding: utf-8 -*-
----> 2 from . import core, ops, utils
4 from .core import *
5 from .math import math, linalg
File ~/miniconda3/envs/starry2/lib/python3.9/site-packages/starry/_core/core.py:33, in <module>
30 try: # pragma: no cover
31 # starry requires exoplanet >= v0.2.0
32 from packaging import version
---> 33 import exoplanet
35 if version.parse(exoplanet.__version__) < version.parse("0.2.0"):
36 exoplanet = None
File ~/miniconda3/envs/starry2/lib/python3.9/site-packages/exoplanet/__init__.py:5, in <module>
1 # -*- coding: utf-8 -*-
3 __all__ = ["__version__", "distributions", "orbits", "interp"]
----> 5 from . import distributions, interp, orbits
6 from .citations import CITATIONS
7 from .distributions import * # NOQA
File ~/miniconda3/envs/starry2/lib/python3.9/site-packages/exoplanet/distributions/__init__.py:5, in <module>
1 # -*- coding: utf-8 -*-
3 __all__ = ["QuadLimbDark", "ImpactParameter", "eccentricity"]
----> 5 from . import eccentricity
6 from .physical import ImpactParameter, QuadLimbDark
File ~/miniconda3/envs/starry2/lib/python3.9/site-packages/exoplanet/distributions/eccentricity.py:7, in <module>
5 import aesara_theano_fallback.tensor as tt
6 import numpy as np
----> 7 import pymc3 as pm
9 from ..citations import add_citations_to_model
12 def kipping13(
13 name, fixed=False, long=None, lower=None, upper=None, model=None, **kwargs
14 ):
File ~/miniconda3/envs/starry2/lib/python3.9/site-packages/pymc3/__init__.py:112, in <module>
108 pass
111 _check_backend_version()
--> 112 __set_compiler_flags()
113 _hotfix_theano_printing()
115 from pymc3 import gp, ode, sampling
File ~/miniconda3/envs/starry2/lib/python3.9/site-packages/pymc3/__init__.py:83, in __set_compiler_flags()
81 def __set_compiler_flags():
82 # Workarounds for Theano compiler problems on various platforms
---> 83 current = theano.config.gcc__cxxflags
84 augmented = f"{current} -Wno-c++11-narrowing"
86 # Work around compiler bug in GCC < 8.4 related to structured exception
87 # handling registers on Windows.
88 # See https://gcc.gnu.org/bugzilla/show_bug.cgi?id=65782 for details.
89 # First disable C++ exception handling altogether since it's not needed
90 # for the C extensions that we generate.
AttributeError: 'TheanoConfigParser' object has no attribute 'gcc__cxxflags'I know I was able to use limb darkening with some version of starry>0.3 before on my old Ubuntu laptop, but I can't now on macOS. I do have gcc and the other CommandLineTools packages installed FYI.
rodluger
dfm
eas342
Describe the bug Trying to compute the flux of any star or system with a star that includes non-uniform limb darkening (any udeg > 0) gives me a lengthy traceback that says "Elliptic integral CEL did not converge." along with "error: cannot use \'throw\' with exceptions disabled.".
To Reproduce Any time I try to compute the flux of a limb-darkened star or system with a limb-darkened star (such as the cell below the comment "The effect of limb darkening is clear! Let's plot a transit across this object:" in the Basics.ipynb notebook) I get the following traceback. I get a similar such error for any udeg > 0 regardless of what I set the limb darkening parameters to. I also get errors anytime ffmpeg is called in the notebook but I just didn't bother to install that and am not worried about those errors.
Expected behavior A clear and concise description of what you expected to happen.
Your setup (please complete the following information):
Additional context
I have also attached the theano_compilation_error_rlmejtd5 file mentioned in the traceback (as a .txt file so I can upload it)
theano_compilation_error_rlmejtd5.txt