PZFlow Informer and Estimator Demo
Author: Tianqing Zhang
Note: If you’re interested in running this in pipeline mode, see
09_PZFlow.ipynb
in the pipeline_examples/estimation_examples/ folder.
import matplotlib.pyplot as plt
import numpy as np
import pandas as pd
import qp
import rail.interactive as ri
import tables_io
from rail.utils.path_utils import find_rail_file
Install FSPS with the following commands:
pip uninstall fsps
git clone --recursive https://github.com/dfm/python-fsps.git
cd python-fsps
python -m pip install .
export SPS_HOME=$(pwd)/src/fsps/libfsps
LEPHAREDIR is being set to the default cache directory:
/home/runner/.cache/lephare/data
More than 1Gb may be written there.
LEPHAREWORK is being set to the default cache directory:
/home/runner/.cache/lephare/work
Default work cache is already linked.
This is linked to the run directory:
/home/runner/.cache/lephare/runs/20260504T123336
A module that was compiled using NumPy 1.x cannot be run in
NumPy 2.2.6 as it may crash. To support both 1.x and 2.x
versions of NumPy, modules must be compiled with NumPy 2.0.
Some module may need to rebuild instead e.g. with 'pybind11>=2.12'.
If you are a user of the module, the easiest solution will be to
downgrade to 'numpy<2' or try to upgrade the affected module.
We expect that some modules will need time to support NumPy 2.
Traceback (most recent call last): File "/opt/hostedtoolcache/Python/3.10.20/x64/lib/python3.10/runpy.py", line 196, in _run_module_as_main
return _run_code(code, main_globals, None,
File "/opt/hostedtoolcache/Python/3.10.20/x64/lib/python3.10/runpy.py", line 86, in _run_code
exec(code, run_globals)
File "/opt/hostedtoolcache/Python/3.10.20/x64/lib/python3.10/site-packages/ipykernel_launcher.py", line 18, in <module>
app.launch_new_instance()
File "/opt/hostedtoolcache/Python/3.10.20/x64/lib/python3.10/site-packages/traitlets/config/application.py", line 1075, in launch_instance
app.start()
File "/opt/hostedtoolcache/Python/3.10.20/x64/lib/python3.10/site-packages/ipykernel/kernelapp.py", line 758, in start
self.io_loop.start()
File "/opt/hostedtoolcache/Python/3.10.20/x64/lib/python3.10/site-packages/tornado/platform/asyncio.py", line 211, in start
self.asyncio_loop.run_forever()
File "/opt/hostedtoolcache/Python/3.10.20/x64/lib/python3.10/asyncio/base_events.py", line 603, in run_forever
self._run_once()
File "/opt/hostedtoolcache/Python/3.10.20/x64/lib/python3.10/asyncio/base_events.py", line 1909, in _run_once
handle._run()
File "/opt/hostedtoolcache/Python/3.10.20/x64/lib/python3.10/asyncio/events.py", line 80, in _run
self._context.run(self._callback, *self._args)
File "/opt/hostedtoolcache/Python/3.10.20/x64/lib/python3.10/site-packages/ipykernel/utils.py", line 71, in preserve_context
return await f(*args, **kwargs)
File "/opt/hostedtoolcache/Python/3.10.20/x64/lib/python3.10/site-packages/ipykernel/kernelbase.py", line 621, in shell_main
await self.dispatch_shell(msg, subshell_id=subshell_id)
File "/opt/hostedtoolcache/Python/3.10.20/x64/lib/python3.10/site-packages/ipykernel/kernelbase.py", line 478, in dispatch_shell
await result
File "/opt/hostedtoolcache/Python/3.10.20/x64/lib/python3.10/site-packages/ipykernel/ipkernel.py", line 372, in execute_request
await super().execute_request(stream, ident, parent)
File "/opt/hostedtoolcache/Python/3.10.20/x64/lib/python3.10/site-packages/ipykernel/kernelbase.py", line 834, in execute_request
reply_content = await reply_content
File "/opt/hostedtoolcache/Python/3.10.20/x64/lib/python3.10/site-packages/ipykernel/ipkernel.py", line 464, in do_execute
res = shell.run_cell(
File "/opt/hostedtoolcache/Python/3.10.20/x64/lib/python3.10/site-packages/ipykernel/zmqshell.py", line 663, in run_cell
return super().run_cell(*args, **kwargs)
File "/opt/hostedtoolcache/Python/3.10.20/x64/lib/python3.10/site-packages/IPython/core/interactiveshell.py", line 3077, in run_cell
result = self._run_cell(
File "/opt/hostedtoolcache/Python/3.10.20/x64/lib/python3.10/site-packages/IPython/core/interactiveshell.py", line 3132, in _run_cell
result = runner(coro)
File "/opt/hostedtoolcache/Python/3.10.20/x64/lib/python3.10/site-packages/IPython/core/async_helpers.py", line 128, in _pseudo_sync_runner
coro.send(None)
File "/opt/hostedtoolcache/Python/3.10.20/x64/lib/python3.10/site-packages/IPython/core/interactiveshell.py", line 3336, in run_cell_async
has_raised = await self.run_ast_nodes(code_ast.body, cell_name,
File "/opt/hostedtoolcache/Python/3.10.20/x64/lib/python3.10/site-packages/IPython/core/interactiveshell.py", line 3519, in run_ast_nodes
if await self.run_code(code, result, async_=asy):
File "/opt/hostedtoolcache/Python/3.10.20/x64/lib/python3.10/site-packages/IPython/core/interactiveshell.py", line 3579, in run_code
exec(code_obj, self.user_global_ns, self.user_ns)
File "/tmp/ipykernel_7415/1106421819.py", line 5, in <module>
import rail.interactive as ri
File "/opt/hostedtoolcache/Python/3.10.20/x64/lib/python3.10/site-packages/rail/interactive/__init__.py", line 3, in <module>
from . import calib, creation, estimation, evaluation, tools
File "/opt/hostedtoolcache/Python/3.10.20/x64/lib/python3.10/site-packages/rail/interactive/calib/__init__.py", line 3, in <module>
from rail.utils.interactive.initialize_utils import _initialize_interactive_module
File "/opt/hostedtoolcache/Python/3.10.20/x64/lib/python3.10/site-packages/rail/utils/interactive/initialize_utils.py", line 17, in <module>
from rail.utils.interactive.base_utils import (
File "/opt/hostedtoolcache/Python/3.10.20/x64/lib/python3.10/site-packages/rail/utils/interactive/base_utils.py", line 10, in <module>
rail.stages.import_and_attach_all(silent=True)
File "/opt/hostedtoolcache/Python/3.10.20/x64/lib/python3.10/site-packages/rail/stages/__init__.py", line 74, in import_and_attach_all
RailEnv.import_all_packages(silent=silent)
File "/opt/hostedtoolcache/Python/3.10.20/x64/lib/python3.10/site-packages/rail/core/introspection.py", line 541, in import_all_packages
_imported_module = importlib.import_module(pkg)
File "/opt/hostedtoolcache/Python/3.10.20/x64/lib/python3.10/importlib/__init__.py", line 126, in import_module
return _bootstrap._gcd_import(name[level:], package, level)
File "/opt/hostedtoolcache/Python/3.10.20/x64/lib/python3.10/site-packages/rail/som/__init__.py", line 1, in <module>
from rail.creation.degraders.specz_som import *
File "/opt/hostedtoolcache/Python/3.10.20/x64/lib/python3.10/site-packages/rail/creation/degraders/specz_som.py", line 15, in <module>
from somoclu import Somoclu
File "/opt/hostedtoolcache/Python/3.10.20/x64/lib/python3.10/site-packages/somoclu/__init__.py", line 11, in <module>
from .train import Somoclu
File "/opt/hostedtoolcache/Python/3.10.20/x64/lib/python3.10/site-packages/somoclu/train.py", line 25, in <module>
from .somoclu_wrap import train as wrap_train
File "/opt/hostedtoolcache/Python/3.10.20/x64/lib/python3.10/site-packages/somoclu/somoclu_wrap.py", line 11, in <module>
import _somoclu_wrap
---------------------------------------------------------------------------
ImportError Traceback (most recent call last)
File /opt/hostedtoolcache/Python/3.10.20/x64/lib/python3.10/site-packages/numpy/core/_multiarray_umath.py:44, in __getattr__(attr_name)
39 # Also print the message (with traceback). This is because old versions
40 # of NumPy unfortunately set up the import to replace (and hide) the
41 # error. The traceback shouldn't be needed, but e.g. pytest plugins
42 # seem to swallow it and we should be failing anyway...
43 sys.stderr.write(msg + tb_msg)
---> 44 raise ImportError(msg)
46 ret = getattr(_multiarray_umath, attr_name, None)
47 if ret is None:
ImportError:
A module that was compiled using NumPy 1.x cannot be run in
NumPy 2.2.6 as it may crash. To support both 1.x and 2.x
versions of NumPy, modules must be compiled with NumPy 2.0.
Some module may need to rebuild instead e.g. with 'pybind11>=2.12'.
If you are a user of the module, the easiest solution will be to
downgrade to 'numpy<2' or try to upgrade the affected module.
We expect that some modules will need time to support NumPy 2.
Warning: the binary library cannot be imported. You cannot train maps, but you can load and analyze ones that you have already saved.
The problem occurs because either compilation failed when you installed Somoclu or a path is missing from the dependencies when you are trying to import it. Please refer to the documentation to see your options.
trainFile = find_rail_file("examples_data/testdata/test_dc2_training_9816.hdf5")
testFile = find_rail_file("examples_data/testdata/test_dc2_validation_9816.hdf5")
training_data = tables_io.read(trainFile)
test_data = tables_io.read(testFile)
pzflow_dict = dict(hdf5_groupname="photometry")
# epoch = 200 gives a reasonable converged loss
pzflow_model = ri.estimation.algos.pzflow_nf.pz_flow_informer(
training_data=training_data, num_training_epochs=30, **pzflow_dict
)
Inserting handle into data store. input: None, PZFlowInformer
Training 50 epochs
Loss:
(0) 37.3273
(1) 9.1679
(3) 4.7060
(5) 3.0395
(7) 1.8210
(9) 1.2419
(11) 0.7195
(13) 0.4739
(15) 0.3899
(17) 0.1622
(19) 0.0236
(21) 0.5141
(23) 0.1235
(25) -0.2421
(27) -0.3631
(29) -0.4974
(31) -0.4768
(33) -0.7454
(35) -0.3239
(37) -0.6735
(39) -0.5815
(41) -0.7599
(43) -0.8674
(45) -0.9404
(47) -0.7904
(49) -0.7422
(50) -0.9549
Inserting handle into data store. model: inprogress_model.pkl, PZFlowInformer
pzflow_dict = dict(hdf5_groupname="photometry")
pzflow_estimator = ri.estimation.algos.pzflow_nf.pz_flow_estimator(
input_data=test_data, model=pzflow_model["model"], **pzflow_dict, chunk_size=20000
)
Inserting handle into data store. input: None, PZFlowEstimator
Inserting handle into data store. model: <pzflow.flow.Flow object at 0x7f6859a78c10>, PZFlowEstimator
Process 0 running estimator on chunk 0 - 20,449
/opt/hostedtoolcache/Python/3.10.20/x64/lib/python3.10/site-packages/qp/parameterizations/interp/interp.py:187: UserWarning: The distributions at indices = [ 6919 17601] have an integral of 0.
warnings.warn(
/opt/hostedtoolcache/Python/3.10.20/x64/lib/python3.10/site-packages/qp/parameterizations/interp/interp.py:207: RuntimeWarning: invalid value encountered in divide
new_yvals = (self._yvals.T / self._ycumul[:, -1]).T
/opt/hostedtoolcache/Python/3.10.20/x64/lib/python3.10/site-packages/qp/parameterizations/interp/interp.py:208: RuntimeWarning: invalid value encountered in divide
self._ycumul = (self._ycumul.T / self._ycumul[:, -1]).T
/opt/hostedtoolcache/Python/3.10.20/x64/lib/python3.10/site-packages/qp/parameterizations/interp/interp.py:140: RuntimeWarning: There are non-finite values in the yvals for the following distributions: (array([ 6919, 6919, 6919, 6919, 6919, 6919, 6919, 6919, 6919,
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warnings.warn(
Inserting handle into data store. output: inprogress_output.hdf5, PZFlowEstimator
mode = pzflow_estimator["output"].ancil["zmode"]
truth = np.array(test_data["photometry"]["redshift"])
# visualize the prediction.
plt.figure(figsize=(8, 8))
plt.scatter(truth, mode, s=0.5)
plt.xlabel("True Redshift")
plt.ylabel("Mode of Estimated Redshift")
Text(0, 0.5, 'Mode of Estimated Redshift')
