New to Pyrolite and having trouble to make pyroplot .scatter work as per tutorials[FEATURE]

[mbastosf64]

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[mbastosf64]

error below 2024-01-31 16:02:27,503 [7796] WARNING py.warnings:109: [JupyterRequire] :228: RuntimeWarning: scipy._lib.messagestream.MessageStream size changed, may indicate binary incompatibility. Expected 56 from C header, got 64 from PyObject

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AttributeError Traceback (most recent call last) ~\AppData\Local\Temp/ipykernel_7796/3051707880.py in 5 import pandas as pd 6 import mpltern as mpl ----> 7 from pyrolite.util.synthetic import normal_frame

~\Anaconda3\lib\site-packages\pyrolite\util\synthetic.py in 6 7 from ..comp.codata import ILR, inverse_ILR ----> 8 from ..geochem.ind import REE, get_ionic_radii 9 from ..geochem.norm import get_reference_composition 10 from ..util.lambdas.eval import get_function_components

~\Anaconda3\lib\site-packages\pyrolite\geochem__init__.py in 8 from ..util.log import Handle 9 from ..util.meta import update_docstring_references ---> 10 from . import norm, parse, transform 11 from .ind import REE, REY, _common_elements, _common_oxides 12 from .ions import set_default_ionic_charges

~\Anaconda3\lib\site-packages\pyrolite\geochem\transform.py in 7 8 from ..comp.codata import close, renormalise ----> 9 from ..util import lambdas 10 from ..util.log import Handle 11 from ..util.meta import update_docstring_references

~\Anaconda3\lib\site-packages\pyrolite\util\lambdas__init__.py in 9 from .opt import lambdas_optimize 10 from .params import _get_params, orthogonal_polynomial_constants ---> 11 from .plot import plot_lambdas_components, plot_profiles 12 from .transform import REE_z_to_radii 13

~\Anaconda3\lib\site-packages\pyrolite\util\lambdas\plot.py in 6 import numpy as np 7 ----> 8 from ... import plot 9 from ...geochem.ind import REE, get_ionic_radii 10 from ..log import Handle

~\Anaconda3\lib\site-packages\pyrolite\plot__init__.py in 21 from ..util.plot.helpers import plot_cooccurence 22 from ..util.plot.style import _export_nonRCstyles, linekwargs, scatterkwargs ---> 23 from . import density, parallel, spider, stem 24 from .color import process_color 25

~\Anaconda3\lib\site-packages\pyrolite\plot\density__init__.py in 12 from ...util.meta import get_additional_params, subkwargs 13 from ...util.plot.axes import add_colorbar, init_axes ---> 14 from ...util.plot.density import ( 15 get_axis_density_methods, 16 percentile_contour_values_from_meshz,

~\Anaconda3\lib\site-packages\pyrolite\util\plot\density.py in 22 23 try: ---> 24 import statsmodels.api as sm 25 26 HAVE_SM = True

~\Anaconda3\lib\site-packages\statsmodels\api.py in 7 from . import tools 8 from .tools.tools import add_constant, categorical ----> 9 from . import regression 10 from .regression.linear_model import OLS, GLS, WLS, GLSAR 11 from .regression.recursive_ls import RecursiveLS

~\Anaconda3\lib\site-packages\statsmodels\regression__init__.py in ----> 1 from .linear_model import yule_walker 2 3 from statsmodels.tools._testing import PytestTester 4 5 all = ['yule_walker', 'test']

~\Anaconda3\lib\site-packages\statsmodels\regression\linear_model.py in 44 from statsmodels.tools.decorators import (cache_readonly, 45 cache_writable) ---> 46 import statsmodels.base.model as base 47 import statsmodels.base.wrapper as wrap 48 from statsmodels.emplike.elregress import _ELRegOpts

~\Anaconda3\lib\site-packages\statsmodels\base\model.py in 14 cached_value, cached_data) 15 import statsmodels.base.wrapper as wrap ---> 16 from statsmodels.tools.numdiff import approx_fprime 17 from statsmodels.tools.sm_exceptions import ValueWarning, \ 18 HessianInversionWarning

~\Anaconda3\lib\site-packages\statsmodels\tools\numdiff.py in 49 50 # NOTE: we only do double precision internally so far ---> 51 EPS = np.MachAr().eps 52 53 _hessian_docs = """

~\Anaconda3\lib\site-packages\numpy__init.py in getattr(attr) 360 raise RuntimeError("Tester was removed in NumPy 1.25.") 361 --> 362 raise AttributeError("module {!r} has no attribute " 363 "{!r}".format(name__, attr)) 364

AttributeError: module 'numpy' has no attribute 'MachAr'

[mbastosf64]

uisng the latest numpy version, tried to downgrade but still getting this error and the one below , any suggestions.

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AttributeError Traceback (most recent call last) ~\AppData\Local\Temp/ipykernel_20640/260713670.py in ----> 1 df[['MgO','Al2O3','CaO']].pyroplot.scatter(color='k', alpha=0.5)

~\Anaconda3\lib\site-packages\pandas\core\generic.py in getattr(self, name) 5573 ): 5574 return self[name] -> 5575 return object.getattribute(self, name) 5576 5577 def setattr(self, name: str, value) -> None:

AttributeError: 'DataFrame' object has no attribute 'pyroplot

[morganjwilliams]

Hey @mbastosf64! Apologies I didn't manage to get back to you last week, the first one I'm unsure about (it does seem to be a statsmodels-numpy version conflict or similar..), but the second one will hopefully be resolved with an added import:

import pyrolite.plot

[mbastosf64]

thank you for the reply my numpy is 1.26.3 which version shall i downgrade to make it work - pyrolite?

On Sun, Feb 4, 2024 at 3:31 PM Morgan Williams @.***> wrote:

Hey @mbastosf64 https://github.com/mbastosf64! Apologies I didn't manage to get back to you last week, the first one I'm unsure about (it does seem to be a statsmodels-numpy version conflict or similar..), but the second one will hopefully be resolved with an added import:

import pyrolite.plot

— Reply to this email directly, view it on GitHub https://github.com/morganjwilliams/pyrolite/issues/101#issuecomment-1925975561, or unsubscribe https://github.com/notifications/unsubscribe-auth/BFYKMAAZ2TS4GHOMUPWOU5DYSAK3JAVCNFSM6AAAAABCT6IBEKVHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMYTSMRVHE3TKNJWGE . You are receiving this because you were mentioned.Message ID: @.***>

[morganjwilliams]

@mbastosf64 it should work with 1.24, if you're still having issues. But it looks like the error relates to a numpy deprecation (since about numpy v1.22), which I think should have been fixed in statsmodels>=0.15.