java.lang.Object
- gov.nih.mipav.model.algorithms.NonnegativeMatrixFactorization.opt

Enclosing class:: NonnegativeMatrixFactorization

class NonnegativeMatrixFactorization.opt
extends java.lang.Object

Field Summary

Fields
Modifier and Type	Field	Description
`(package private) boolean`	`accel`
`(package private) java.lang.String`	`alg`
`(package private) java.lang.String`	`alg_name`
`(package private) java.lang.String`	`algo`
`(package private) double`	`alpha`
`(package private) double`	`alpha0`
`(package private) boolean`	`ard`
`(package private) int`	`batch_size`
`(package private) double`	`beta`
`(package private) double`	`beta0`
`(package private) double`	`betaH`
`(package private) double`	`betaW`
`(package private) boolean`	`calc_clustering_acc`
`(package private) boolean`	`calc_symmetry`
`(package private) int`	`clustering_classnum`
`(package private) int`	`clustering_eval_num`
`(package private) int[]`	`clustering_gnd`
`(package private) int`	`Cnorm`
`(package private) boolean`	`colproj`
`(package private) java.lang.String`	`cost`
`(package private) int`	`d_alpha`
`(package private) double`	`d_beta`
`(package private) double`	`delta`
`(package private) double`	`delta_tol`
`(package private) int`	`disp_freq`
`(package private) long`	`eit2`
`(package private) long`	`eit3`
`(package private) double`	`eps`
`(package private) double`	`eps0`
`(package private) double`	`eta`
`(package private) double`	`f_opt`
`(package private) boolean`	`fast_calc`
`(package private) int`	`flag`
`(package private) boolean`	`FPGM`
`(package private) double`	`gamma1`
`(package private) double`	`gamma2`
`(package private) double`	`gammabeta`
`(package private) double`	`gammabetabar`
`(package private) int`	`h_repeat`
`(package private) java.lang.String`	`H_sub_mode`
`(package private) NonnegativeMatrixFactorization.hyperparams`	`hyper`
`(package private) Jama.Matrix`	`init`
`(package private) java.lang.String`	`init_alg`
`(package private) double`	`init_grad`
`(package private) int`	`inner_max_epoch`
`(package private) double`	`inner_max_epoch_parameter`
`(package private) java.lang.String`	`inner_nnls_alg`
`(package private) int`	`inneriter`
`(package private) double`	`lambda`
`(package private) double`	`linrat`
`(package private) boolean`	`ls`
`(package private) boolean`	`main_routine_mode`
`(package private) int`	`max_epoch`
`(package private) int`	`max_inner_iter`
`(package private) int`	`max_inneriter`
`(package private) int`	`metric_param`
`(package private) java.lang.String`	`metric_type`
`(package private) int`	`min_inner_iter`
`(package private) int`	`model`
`(package private) int`	`momentum_h`
`(package private) int`	`momentum_w`
`(package private) double`	`myeps`
`(package private) java.lang.String`	`nesterov_func_type`
`(package private) int`	`nesterov_maxit`
`(package private) boolean`	`noneg`
`(package private) int`	`norm_h`
`(package private) int`	`norm_w`
`(package private) boolean`	`normalize`
`(package private) boolean`	`not_store_infos`
`(package private) boolean`	`online`
`(package private) boolean`	`orth_h`
`(package private) boolean`	`orth_w`
`(package private) boolean`	`permute_on`
`(package private) double`	`precision`
`(package private) boolean`	`precon`
`(package private) int`	`proj`
`(package private) double`	`projnorm`
`(package private) int`	`r`
`(package private) double`	`relerr`
`(package private) java.lang.String`	`rep_mode`
`(package private) int`	`repeat_inneriter`
`(package private) double`	`rho`
`(package private) boolean`	`robust`
`(package private) double`	`s`
`(package private) boolean`	`scaling`
`(package private) double`	`sH`
`(package private) double`	`sigma`
`(package private) Jama.Matrix`	`sim_mat`
`(package private) boolean`	`special_nmf_cost`
`(package private) double`	`stepsize_ratio`
`(package private) double`	`stepsizeH`
`(package private) double`	`stepsizeW`
`(package private) int`	`stop_rule`
`(package private) boolean`	`store_sol`
`(package private) java.lang.String`	`sub_mode`
`(package private) double`	`sW`
`(package private) double`	`target`
`(package private) double`	`tol_grad_ratio`
`(package private) double`	`tol_optgap`
`(package private) double`	`tolcostdegrease`
`(package private) java.lang.String`	`type`
`(package private) Jama.Matrix`	`U`
`(package private) boolean`	`use_kuang_code`
`(package private) boolean`	`use_seminmf_init`
`(package private) Jama.Matrix`	`V`
`(package private) int`	`verbose`
`(package private) Jama.Matrix`	`w`
`(package private) Jama.Matrix`	`W`
`(package private) int`	`w_repeat`
`(package private) java.lang.String`	`W_sub_mode`
`(package private) boolean`	`warm_restart`
`(package private) double`	`wo`
`(package private) boolean`	`x_init_robust`

Constructor Summary

Constructors
Constructor Description

opt()

Method Summary
- Methods inherited from class java.lang.Object
  clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Field Detail

not_store_infos
```
boolean not_store_infos
```

metric_type
```
java.lang.String metric_type
```

max_epoch
```
int max_epoch
```

f_opt
```
double f_opt
```

tol_optgap
```
double tol_optgap
```

verbose
```
int verbose
```

store_sol
```
boolean store_sol
```

batch_size
```
int batch_size
```

permute_on
```
boolean permute_on
```

x_init_robust
```
boolean x_init_robust
```

calc_symmetry
```
boolean calc_symmetry
```

calc_clustering_acc
```
boolean calc_clustering_acc
```

clustering_gnd
```
int[] clustering_gnd
```

clustering_classnum
```
int clustering_classnum
```

clustering_eval_num
```
int clustering_eval_num
```

disp_freq
```
int disp_freq
```

special_nmf_cost
```
boolean special_nmf_cost
```

alg
```
java.lang.String alg
```

norm_h
```
int norm_h
```

norm_w
```
int norm_w
```

alpha
```
double alpha
```

delta
```
double delta
```

myeps
```
double myeps
```

d_alpha
```
int d_alpha
```

d_beta
```
double d_beta
```

sub_mode
```
java.lang.String sub_mode
```

inner_max_epoch
```
int inner_max_epoch
```

beta0
```
double beta0
```

eta
```
double eta
```

gammabeta
```
double gammabeta
```

gammabetabar
```
double gammabetabar
```

momentum_h
```
int momentum_h
```

momentum_w
```
int momentum_w
```

scaling
```
boolean scaling
```

warm_restart
```
boolean warm_restart
```

inneriter
```
int inneriter
```

init
```
Jama.Matrix init
```

proj
```
int proj
```

alpha0
```
double alpha0
```

rho
```
double rho
```

inner_max_epoch_parameter
```
double inner_max_epoch_parameter
```

eit2
```
long eit2
```

eit3
```
long eit3
```

eps
```
double eps
```

eps0
```
double eps0
```

tol_grad_ratio
```
double tol_grad_ratio
```

inner_nnls_alg
```
java.lang.String inner_nnls_alg
```

projnorm
```
double projnorm
```

init_grad
```
double init_grad
```

algo
```
java.lang.String algo
```

alg_name
```
java.lang.String alg_name
```

V
```
Jama.Matrix V
```

W
```
Jama.Matrix W
```

main_routine_mode
```
boolean main_routine_mode
```

metric_param
```
int metric_param
```

model
```
int model
```

lambda
```
double lambda
```

target
```
double target
```

type
```
java.lang.String type
```

max_inner_iter
```
int max_inner_iter
```

min_inner_iter
```
int min_inner_iter
```

delta_tol
```
double delta_tol
```

sim_mat
```
Jama.Matrix sim_mat
```

stop_rule
```
int stop_rule
```

normalize
```
boolean normalize
```

precision
```
double precision
```

r
```
int r
```

U
```
Jama.Matrix U
```

Cnorm
```
int Cnorm
```

rep_mode
```
java.lang.String rep_mode
```

w_repeat
```
int w_repeat
```

h_repeat
```
int h_repeat
```

max_inneriter
```
int max_inneriter
```

online
```
boolean online
```

tolcostdegrease
```
double tolcostdegrease
```

beta
```
double beta
```

fast_calc
```
boolean fast_calc
```

accel
```
boolean accel
```

ls
```
boolean ls
```

stepsize_ratio
```
double stepsize_ratio
```

robust
```
boolean robust
```

W_sub_mode
```
java.lang.String W_sub_mode
```

H_sub_mode
```
java.lang.String H_sub_mode
```

precon
```
boolean precon
```

nesterov_maxit
```
int nesterov_maxit
```

nesterov_func_type
```
java.lang.String nesterov_func_type
```

repeat_inneriter
```
int repeat_inneriter
```

orth_h
```
boolean orth_h
```

orth_w
```
boolean orth_w
```

wo
```
double wo
```

ard
```
boolean ard
```

init_alg
```
java.lang.String init_alg
```

hyper

NonnegativeMatrixFactorization.hyperparams hyper

use_seminmf_init
```
boolean use_seminmf_init
```

relerr
```
double relerr
```

betaW
```
double betaW
```

betaH
```
double betaH
```

gamma1
```
double gamma1
```

gamma2
```
double gamma2
```

FPGM
```
boolean FPGM
```

sW
```
double sW
```

sH
```
double sH
```

colproj
```
boolean colproj
```

w
```
Jama.Matrix w
```

linrat
```
double linrat
```

s
```
double s
```

stepsizeW
```
double stepsizeW
```

stepsizeH
```
double stepsizeH
```

cost
```
java.lang.String cost
```

use_kuang_code
```
boolean use_kuang_code
```

sigma
```
double sigma
```

noneg
```
boolean noneg
```

flag
```
int flag
```

Constructor Detail
- opt
```
public opt()
```

Class NonnegativeMatrixFactorization.opt

Field Summary

Constructor Summary

Method Summary

Methods inherited from class java.lang.Object

Field Detail

not_store_infos

metric_type

max_epoch

f_opt

tol_optgap

verbose

store_sol

batch_size

permute_on

x_init_robust

calc_symmetry

calc_clustering_acc

clustering_gnd

clustering_classnum

clustering_eval_num

disp_freq

special_nmf_cost

alg

norm_h

norm_w

alpha

delta

myeps

d_alpha

d_beta

sub_mode

inner_max_epoch

beta0

eta

gammabeta

gammabetabar

momentum_h

momentum_w

scaling

warm_restart

inneriter

init

proj

alpha0

rho

inner_max_epoch_parameter

eit2

eit3

eps

eps0

tol_grad_ratio

inner_nnls_alg

projnorm

init_grad

algo

alg_name

V

W

main_routine_mode

metric_param

model

lambda

target

type

max_inner_iter

min_inner_iter

delta_tol

sim_mat

stop_rule

normalize

precision

r

U

Cnorm

rep_mode

w_repeat

h_repeat

max_inneriter

online