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Merged
merged 19 commits into from
Apr 17, 2020
Merged

Sparse Matrix Extension #4

merged 19 commits into from
Apr 17, 2020

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keithdoggett
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Implemented sparse matrix C extension to help optimize calculations involving weights. Added it in every case where it was feasible to use it.

Modified WeightsMatrix to hold it under the #sparse method. Updated Lag module to use sparse calculations.

Integrated it into #stat and #mc methods for global and local stats.

Fixed naming of methods on WeightsMatrix and Numo::NArray classes.

@keithdoggett
changed keys on weights matrix to use :id instead of :j_id. Removed k…
2823d6b 
…eys parameter in constructor and extract it from weights hash
@keithdoggett
added initializer for csr matrix
8b54e12
@keithdoggett
Setup C Struct interface and created mulvec function
52d8b9b
@keithdoggett
fixed packaging of ext to follow rubygems guidelines. Require it in s…
5cbf63f 
…patial_stats library
@keithdoggett
changed travis to compile ext before db:create
6394402
@keithdoggett
changed travis to compile ext before db:create
ecc0bb0
@keithdoggett
Merge branch 'sparse-matrix-ext' of github.com:keithdoggett/spatial_s…
bfc0ec9 
…tats into sparse-matrix-ext
@keithdoggett
added tests and other methods to read internal values from csr matrix
0344df6
@keithdoggett
changed weights matrix API so that standardized/windowed return new w…
3b4a199 
…eight matrices with the proper DOK as the input weights. Dense and sparse return objects that computations can be done on
@keithdoggett
changed lag methods to use sparse matrices and added coordinates meth…
b8034a7 
…od to csr matrix to get hash with coordinates as keys
@keithdoggett
integrated sparse matrix into global stats and local moran
04d879a
@keithdoggett
integrated sparse matrix into local geary
972a0fb
@keithdoggett
modified weights queries so that all keys have an entry, even without…
63c2faa 
… neighbors
@keithdoggett
got basic functionality working again with sparse matrices integrated…
a946e9f 
… in most calculations
@keithdoggett
replaced neighbor_weights method and crand neighbor cardinality compu…
62afc01 
…tations with sparse implementations
@keithdoggett
added fix for case where an observation has 0 neighbors in monte carl…
d13cdcc 
…o testing
@keithdoggett
added type checking in csr matrix on functions where the user can inp…
3ce4f42 
…ut a vector or other data. Changed neighborless monte carlo default value from 1 to permutations so that the output p value will be 1.00
@keithdoggett
Replaced standardized and windowed methods with standardize and windo…
380e04d 
…w, respectively. Changed local moran variance method to use sparse matrix
@keithdoggett
added documentation for csr matrix extension
956a0b3
@keithdoggett keithdoggett merged commit 7b04a33 into master Apr 17, 2020
@keithdoggett keithdoggett deleted the sparse-matrix-ext branch April 17, 2020 18:38
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@keithdoggett