https://github.com/whilo/cnc
Tip revision: 158ca24fdcd30d26ffe44afe7d360fd164203ccb authored by Christian Weilbach on 07 October 2015, 14:03:17 UTC
Bump replikativ.
Bump replikativ.
Tip revision: 158ca24
compare_stdp_burnin.clj
;; gorilla-repl.fileformat = 1
;; **
;;; # Compare STDP burnin
;;; on 3x3 bars
;; **
;; @@
(ns compare-stdp-burnin
(:require [gorilla-plot.core :as plot]
[gg4clj.core :as gg4clj]
[clojure.math.combinatorics :refer [cartesian-product]]
[cnc.analytics :as a]
[cnc.execute :as exe]
[clojure.pprint :refer [pprint]]
[hasch.core :refer [uuid]]
[boltzmann.matrix :refer [full-matrix]]
[clojure.java.shell :refer [sh]]
[cnc.core :refer [state]]
[cnc.execute :refer [slurp-bytes]]
[clojure.core.matrix :as mat]
[clj-hdf5.core :as hdf5]
[konserve.protocols :refer [-get-in -bget -exists?]]
[geschichte.platform :refer [<!?]]
[boltzmann.core :refer [train-cd sample-gibbs]]
[boltzmann.theoretical :refer [create-theoretical-rbm]]
[boltzmann.formulas :as f]
[boltzmann.protocols :refer [-weights -biases]]
[boltzmann.visualize :as v]
[clojure.core.matrix :refer [dot matrix]]
[datomic.api :as d]
[clojure.core.async :refer [chan] :as async]
[quil.core :as q]))
(def store (get-in @state [:repo :store]))
(def states (apply cartesian-product (repeat 9 [0 1])))
;; @@
;; =>
;;; {"type":"html","content":"<span class='clj-var'>#'compare-stdp-burnin/states</span>","value":"#'compare-stdp-burnin/states"}
;; <=
;; @@
(def exps [{:exp-params {:git-commit-id "2d96fc2983f748f8b327c7f2fd3fdaa4f23cd169", :training-params {:h_count 15, :dt 0.1, :epochs 30000, :burn_in_time 0.0, :learning_rate 5.0E-8, :phase_duration 100.0, :weight_recording_interval 100.0, :sim_setup_kwargs {:grng_seed 42, :rng_seeds_seed 42}, :stdp_burnin 25}, :calibration-id #uuid "22f685d0-ea7f-53b5-97d7-c6d6cadc67d3", :data-id #uuid "0b619370-6716-5ae8-89b6-9c38b4e11e94", :source-path "/wang/users/weilbach/cluster_home/model-nmsampling/code/ev_cd/train.py", :args ["srun-log" "python" "/wang/users/weilbach/cluster_home/model-nmsampling/code/ev_cd/train.py"]}, :base-directory "experiments/Sun Mar 15 20:46:37 CET 2015_9f8ca64e/", :output {:bias_theo_history.h5 #uuid "07ef4422-85e0-5267-a96f-c04ad5359751", :weight_theo_history.h5 #uuid "1ebb2f33-5fdc-5876-ab1e-09b126c10e70"}} {:exp-params {:git-commit-id "2d96fc2983f748f8b327c7f2fd3fdaa4f23cd169", :training-params {:h_count 15, :dt 0.1, :epochs 30000, :burn_in_time 0.0, :learning_rate 5.0E-8, :phase_duration 100.0, :weight_recording_interval 100.0, :sim_setup_kwargs {:grng_seed 42, :rng_seeds_seed 42}, :stdp_burnin 5}, :calibration-id #uuid "22f685d0-ea7f-53b5-97d7-c6d6cadc67d3", :data-id #uuid "0b619370-6716-5ae8-89b6-9c38b4e11e94", :source-path "/wang/users/weilbach/cluster_home/model-nmsampling/code/ev_cd/train.py", :args ["srun-log" "python" "/wang/users/weilbach/cluster_home/model-nmsampling/code/ev_cd/train.py"]}, :base-directory "experiments/Sun Mar 15 20:46:37 CET 2015_15603e6d/", :output {:bias_theo_history.h5 #uuid "3d4620fa-eb39-58d2-a17a-367fc185ca92", :weight_theo_history.h5 #uuid "260cc520-8467-564c-a6f9-ff6e2c12d358"}} {:exp-params {:git-commit-id "2d96fc2983f748f8b327c7f2fd3fdaa4f23cd169", :training-params {:h_count 15, :dt 0.1, :epochs 30000, :burn_in_time 0.0, :learning_rate 5.0E-8, :phase_duration 100.0, :weight_recording_interval 100.0, :sim_setup_kwargs {:grng_seed 42, :rng_seeds_seed 42}, :stdp_burnin 20}, :calibration-id #uuid "22f685d0-ea7f-53b5-97d7-c6d6cadc67d3", :data-id #uuid "0b619370-6716-5ae8-89b6-9c38b4e11e94", :source-path "/wang/users/weilbach/cluster_home/model-nmsampling/code/ev_cd/train.py", :args ["srun-log" "python" "/wang/users/weilbach/cluster_home/model-nmsampling/code/ev_cd/train.py"]}, :base-directory "experiments/Sun Mar 15 20:46:37 CET 2015_7089d643/", :output {:bias_theo_history.h5 #uuid "10b49890-3cdc-5c65-85ef-cc4a31d9b80d", :weight_theo_history.h5 #uuid "13ee77e5-600d-53ef-b5bd-8bbe608e3ea1"}} {:exp-params {:git-commit-id "2d96fc2983f748f8b327c7f2fd3fdaa4f23cd169", :training-params {:h_count 15, :dt 0.1, :epochs 30000, :burn_in_time 0.0, :learning_rate 5.0E-8, :phase_duration 100.0, :weight_recording_interval 100.0, :sim_setup_kwargs {:grng_seed 42, :rng_seeds_seed 42}, :stdp_burnin 15}, :calibration-id #uuid "22f685d0-ea7f-53b5-97d7-c6d6cadc67d3", :data-id #uuid "0b619370-6716-5ae8-89b6-9c38b4e11e94", :source-path "/wang/users/weilbach/cluster_home/model-nmsampling/code/ev_cd/train.py", :args ["srun-log" "python" "/wang/users/weilbach/cluster_home/model-nmsampling/code/ev_cd/train.py"]}, :base-directory "experiments/Sun Mar 15 20:46:37 CET 2015_1ccc309d/", :output {:bias_theo_history.h5 #uuid "3feeb64a-1d8d-5fde-a042-d19c12b6526e", :weight_theo_history.h5 #uuid "000f9f77-10b4-5284-9de6-7fbd9f91a8fd"}} {:exp-params {:git-commit-id "2d96fc2983f748f8b327c7f2fd3fdaa4f23cd169", :training-params {:h_count 15, :dt 0.1, :epochs 30000, :burn_in_time 0.0, :learning_rate 5.0E-8, :phase_duration 100.0, :weight_recording_interval 100.0, :sim_setup_kwargs {:grng_seed 42, :rng_seeds_seed 42}, :stdp_burnin 10}, :calibration-id #uuid "22f685d0-ea7f-53b5-97d7-c6d6cadc67d3", :data-id #uuid "0b619370-6716-5ae8-89b6-9c38b4e11e94", :source-path "/wang/users/weilbach/cluster_home/model-nmsampling/code/ev_cd/train.py", :args ["srun-log" "python" "/wang/users/weilbach/cluster_home/model-nmsampling/code/ev_cd/train.py"]}, :base-directory "experiments/Sun Mar 15 20:46:37 CET 2015_d85df423/", :output {:bias_theo_history.h5 #uuid "0c0855ac-e8e2-5706-a5e0-e3bd6b5909cc", :weight_theo_history.h5 #uuid "054dbd97-c328-51c7-87e1-de59e5385603"}}])
;; @@
;; =>
;;; {"type":"html","content":"<span class='clj-var'>#'compare-stdp-burnin/exps</span>","value":"#'compare-stdp-burnin/exps"}
;; <=
;; @@
(def bars (<!? (-bget store #uuid "0b619370-6716-5ae8-89b6-9c38b4e11e94"
#(-> % :input-stream slurp read-string))))
bars
;; @@
;; =>
;;; {"type":"list-like","open":"<span class='clj-vector'>[</span>","close":"<span class='clj-vector'>]</span>","separator":" ","items":[{"type":"list-like","open":"<span class='clj-vector'>[</span>","close":"<span class='clj-vector'>]</span>","separator":" ","items":[{"type":"html","content":"<span class='clj-long'>1</span>","value":"1"},{"type":"html","content":"<span class='clj-long'>0</span>","value":"0"},{"type":"html","content":"<span class='clj-long'>0</span>","value":"0"},{"type":"html","content":"<span class='clj-long'>1</span>","value":"1"},{"type":"html","content":"<span class='clj-long'>0</span>","value":"0"},{"type":"html","content":"<span class='clj-long'>0</span>","value":"0"},{"type":"html","content":"<span class='clj-long'>1</span>","value":"1"},{"type":"html","content":"<span class='clj-long'>0</span>","value":"0"},{"type":"html","content":"<span class='clj-long'>0</span>","value":"0"}],"value":"[1 0 0 1 0 0 1 0 0]"},{"type":"list-like","open":"<span class='clj-vector'>[</span>","close":"<span class='clj-vector'>]</span>","separator":" ","items":[{"type":"html","content":"<span class='clj-long'>0</span>","value":"0"},{"type":"html","content":"<span class='clj-long'>0</span>","value":"0"},{"type":"html","content":"<span class='clj-long'>1</span>","value":"1"},{"type":"html","content":"<span class='clj-long'>0</span>","value":"0"},{"type":"html","content":"<span class='clj-long'>0</span>","value":"0"},{"type":"html","content":"<span class='clj-long'>1</span>","value":"1"},{"type":"html","content":"<span class='clj-long'>0</span>","value":"0"},{"type":"html","content":"<span class='clj-long'>0</span>","value":"0"},{"type":"html","content":"<span class='clj-long'>1</span>","value":"1"}],"value":"[0 0 1 0 0 1 0 0 1]"},{"type":"list-like","open":"<span class='clj-vector'>[</span>","close":"<span class='clj-vector'>]</span>","separator":" ","items":[{"type":"html","content":"<span class='clj-long'>1</span>","value":"1"},{"type":"html","content":"<span class='clj-long'>1</span>","value":"1"},{"type":"html","content":"<span class='clj-long'>1</span>","value":"1"},{"type":"html","content":"<span class='clj-long'>0</span>","value":"0"},{"type":"html","content":"<span class='clj-long'>0</span>","value":"0"},{"type":"html","content":"<span class='clj-long'>0</span>","value":"0"},{"type":"html","content":"<span class='clj-long'>0</span>","value":"0"},{"type":"html","content":"<span class='clj-long'>0</span>","value":"0"},{"type":"html","content":"<span class='clj-long'>0</span>","value":"0"}],"value":"[1 1 1 0 0 0 0 0 0]"}],"value":"[[1 0 0 1 0 0 1 0 0] [0 0 1 0 0 1 0 0 1] [1 1 1 0 0 0 0 0 0]]"}
;; <=
;; @@
(def weight-blobs (map #(get-in % [:output :weight_theo_history.h5]) exps))
;; @@
;; =>
;;; {"type":"html","content":"<span class='clj-var'>#'compare-stdp-burnin/weight-blobs</span>","value":"#'compare-stdp-burnin/weight-blobs"}
;; <=
;; @@
(def weights (map #(->> (a/get-hdf5-tensor store % "/weight")
last
(drop 135)
(partition 9)
(mapv vec)
) weight-blobs))
;; @@
;; =>
;;; {"type":"html","content":"<span class='clj-var'>#'compare-stdp-burnin/weights</span>","value":"#'compare-stdp-burnin/weights"}
;; <=
;; @@
(def bias-blobs (map #(get-in % [:output :bias_theo_history.h5]) exps))
;; @@
;; =>
;;; {"type":"html","content":"<span class='clj-var'>#'compare-stdp-burnin/bias-blobs</span>","value":"#'compare-stdp-burnin/bias-blobs"}
;; <=
;; @@
(def biases (map #(-> (a/get-hdf5-tensor store % "/weight") last) bias-blobs))
;; @@
;; =>
;;; {"type":"html","content":"<span class='clj-var'>#'compare-stdp-burnin/biases</span>","value":"#'compare-stdp-burnin/biases"}
;; <=
;; @@
(def burnin-vs-probs
(let [vc 9]
(sort-by
first
(map (fn [e w b] [(get-in e [:exp-params :training-params :stdp_burnin])
(map #(f/prob-visi (create-theoretical-rbm w (vec (take vc b)) (vec (drop vc b))) %) bars)])
exps weights biases))))
;; @@
;; =>
;;; {"type":"html","content":"<span class='clj-var'>#'compare-stdp-burnin/burnin-vs-probs</span>","value":"#'compare-stdp-burnin/burnin-vs-probs"}
;; <=
;; @@
burnin-vs-probs
;; @@
;; =>
;;; {"type":"list-like","open":"<span class='clj-list'>(</span>","close":"<span class='clj-list'>)</span>","separator":" ","items":[{"type":"list-like","open":"<span class='clj-vector'>[</span>","close":"<span class='clj-vector'>]</span>","separator":" ","items":[{"type":"html","content":"<span class='clj-long'>5</span>","value":"5"},{"type":"list-like","open":"<span class='clj-lazy-seq'>(</span>","close":"<span class='clj-lazy-seq'>)</span>","separator":" ","items":[{"type":"html","content":"<span class='clj-double'>0.05516851489391908</span>","value":"0.05516851489391908"},{"type":"html","content":"<span class='clj-double'>0.056215792331943126</span>","value":"0.056215792331943126"},{"type":"html","content":"<span class='clj-double'>0.037849278852078824</span>","value":"0.037849278852078824"}],"value":"(0.05516851489391908 0.056215792331943126 0.037849278852078824)"}],"value":"[5 (0.05516851489391908 0.056215792331943126 0.037849278852078824)]"},{"type":"list-like","open":"<span class='clj-vector'>[</span>","close":"<span class='clj-vector'>]</span>","separator":" ","items":[{"type":"html","content":"<span class='clj-long'>10</span>","value":"10"},{"type":"list-like","open":"<span class='clj-lazy-seq'>(</span>","close":"<span class='clj-lazy-seq'>)</span>","separator":" ","items":[{"type":"html","content":"<span class='clj-double'>0.04542765078634867</span>","value":"0.04542765078634867"},{"type":"html","content":"<span class='clj-double'>0.048941718657084486</span>","value":"0.048941718657084486"},{"type":"html","content":"<span class='clj-double'>0.045076413477517674</span>","value":"0.045076413477517674"}],"value":"(0.04542765078634867 0.048941718657084486 0.045076413477517674)"}],"value":"[10 (0.04542765078634867 0.048941718657084486 0.045076413477517674)]"},{"type":"list-like","open":"<span class='clj-vector'>[</span>","close":"<span class='clj-vector'>]</span>","separator":" ","items":[{"type":"html","content":"<span class='clj-long'>15</span>","value":"15"},{"type":"list-like","open":"<span class='clj-lazy-seq'>(</span>","close":"<span class='clj-lazy-seq'>)</span>","separator":" ","items":[{"type":"html","content":"<span class='clj-double'>0.038265530617591144</span>","value":"0.038265530617591144"},{"type":"html","content":"<span class='clj-double'>0.04341918259678101</span>","value":"0.04341918259678101"},{"type":"html","content":"<span class='clj-double'>0.05171921329628492</span>","value":"0.05171921329628492"}],"value":"(0.038265530617591144 0.04341918259678101 0.05171921329628492)"}],"value":"[15 (0.038265530617591144 0.04341918259678101 0.05171921329628492)]"},{"type":"list-like","open":"<span class='clj-vector'>[</span>","close":"<span class='clj-vector'>]</span>","separator":" ","items":[{"type":"html","content":"<span class='clj-long'>20</span>","value":"20"},{"type":"list-like","open":"<span class='clj-lazy-seq'>(</span>","close":"<span class='clj-lazy-seq'>)</span>","separator":" ","items":[{"type":"html","content":"<span class='clj-double'>0.03814203500853439</span>","value":"0.03814203500853439"},{"type":"html","content":"<span class='clj-double'>0.0417769960127175</span>","value":"0.0417769960127175"},{"type":"html","content":"<span class='clj-double'>0.036818517253269664</span>","value":"0.036818517253269664"}],"value":"(0.03814203500853439 0.0417769960127175 0.036818517253269664)"}],"value":"[20 (0.03814203500853439 0.0417769960127175 0.036818517253269664)]"},{"type":"list-like","open":"<span class='clj-vector'>[</span>","close":"<span class='clj-vector'>]</span>","separator":" ","items":[{"type":"html","content":"<span class='clj-long'>25</span>","value":"25"},{"type":"list-like","open":"<span class='clj-lazy-seq'>(</span>","close":"<span class='clj-lazy-seq'>)</span>","separator":" ","items":[{"type":"html","content":"<span class='clj-double'>0.03783837442340431</span>","value":"0.03783837442340431"},{"type":"html","content":"<span class='clj-double'>0.026729319306543372</span>","value":"0.026729319306543372"},{"type":"html","content":"<span class='clj-double'>0.03521809805403415</span>","value":"0.03521809805403415"}],"value":"(0.03783837442340431 0.026729319306543372 0.03521809805403415)"}],"value":"[25 (0.03783837442340431 0.026729319306543372 0.03521809805403415)]"}],"value":"([5 (\"Elapsed time: 23.970636 msecs\"\n0.05516851489391908 0.056215792331943126 0.037849278852078824)] [10 (\"Elapsed time: 18.009156 msecs\"\n0.04542765078634867 0.048941718657084486 0.045076413477517674)] [15 (\"Elapsed time: 17.194852 msecs\"\n0.038265530617591144 0.04341918259678101 0.05171921329628492)] [20 (\"Elapsed time: 17.096679 msecs\"\n0.03814203500853439 0.0417769960127175 0.036818517253269664)] [25 (\"Elapsed time: 18.50585 msecs\"\n0.03783837442340431 0.026729319306543372 0.03521809805403415)])"}
;; <=
;; @@
(do (gg4clj/view
[[:<- :d (gg4clj/data-frame {:burnin_duration (map (comp first) burnin-vs-probs)
:sum (vec (map #(apply + (second %)) burnin-vs-probs))
:z (vec (concat (repeat (count burnin-vs-probs) "ev-cd")))})]
(gg4clj/r+ [:ggplot :d [:aes {:x (keyword "factor(burnin_duration)") :y :sum :fill :z}]]
[:geom_point {:stat "identity"}])]
{:width 10})
)
;; @@
;; =>
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;; <=
;; @@
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