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generic-catalog-reader's Introduction

Generic Catalog Reader (GCR)

A common reader interface for accessing generic catalogs

by Yao-Yuan Mao

Installation

pip install GCR

generic-catalog-reader's People

Contributors

yymao avatar j-dr avatar eiffl avatar

Watchers

Phil Marshall avatar James Cloos avatar avatar Richard Dubois avatar avatar

Forkers

eiffl danielsf

generic-catalog-reader's Issues

Registering external catalogs with the GCR

In some cases the users may want to use the GCR API for their own catalogs but don't necessarily want to integrate with the official DESCQA ones. There should be a function to register a new galaxy catalog class defined outside of the GCR package.

Example use case:

>>> from GCR import register_reader, load_catalog
>>> register_reader(MyReaderClass)
>>> cat = load_catalog('my_catalog.yaml')

where MyReaderClass is my own non official reader.

Issue with writing HDF5 files

@yymao while you are it, just had the following problem

    catalog.get_quantities(required_quantities, return_hdf5=filename)
  File "/global/homes/f/flanusse/repo/WLMassMap/python/desc/wlmassmap/mocks/GCR/BaseGalaxyCatalog.py", line 340, in get_quantities
    f.create_dataset(q, data=self._concatenate_quantities(q, pre_filters, post_filters)[q], chunks=True, compression="gzip", shuffle=True, fletcher32=True)
  File "/global/homes/f/flanusse/repo/WLMassMap/python/desc/wlmassmap/mocks/GCR/BaseGalaxyCatalog.py", line 300, in _concatenate_quantities
    for data in self._get_quantities_iter(quantities, pre_filters, post_filters):
  File "/global/homes/f/flanusse/repo/WLMassMap/python/desc/wlmassmap/mocks/GCR/BaseGalaxyCatalog.py", line 283, in _get_quantities_iter
   rest_quantities = quantities.union(self._get_quantities_from_filters(post_filters))
AttributeError: 'str' object has no attribute 'union'

Add secondary modifiers which can be applied on the Schema quantities

As a user, it would be very convenient if I could add my own modifiers which can be applied on the standard fields defined in the DESC Schema, without any knowledge of the native format.
Simple example, I want to simulate some photometric redshifts using the following:

catalog.add_quantity_modifier('redshift_photometric', (lambda x: x + sigma * (1+x) *randn(len(x)), 'redshift'))

This fails with the following:

ValueError: Native quantity `redshift` does not exist (required by `redshift_photometric`)

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