if euc:
param_file = '/EuclideanEncoder/' + expinf + '_params.pt'
else:
param_file = '/GeodesicCoordinates/' + expinf + '_params.pt'
probe.load_state_dict(torch.load(SAVE_DIR + fold + param_file))
#%%
means = []
std = []
for line_idx in [2]:
############## load the sentence
line_idx_in_file = idx[line_idx]
if line_idx_in_file < 0:
continue
line = linecache.getline(SAVE_DIR + bracket_file, line_idx_in_file + 1)
sentence = BracketedSentence(line, dep_tree=dep)
# check that the sentence in swapped_data.pkl matches that in train.txt
# sameword = [sentence.words[i]==dist[line_idx][0][i] for i in range(sentence.ntok)]
# if ~np.all(sameword):
# print('Mismatch between lines!!')
# print('Line %d is '%line_idx)
# break
if sentence.ntok < 10:
print('Skipping line %d, too short!' % line_idx)
continue
try:
with bz2.BZ2File(LOAD_DIR + '/%d/original_vectors.pkl' % line_idx,
'rb') as vfile:
# phrase_type = 'unreal'
# phrase_type = 'blocks'
# phrase_type = 'all'
phrase_window = None
all_window = 4
sum_align = []
sum_attn = []
num_in_phrase = []
num_pairs = [] # number of pairs we compare, to take averages
dt_inphrase = [] # distance of words to other words in the same phrase
t0 = time()
for line_idx in tqdm(range(1000)):
line = linecache.getline(dfile, line_idx + 1)
sentence = BracketedSentence(line)
if sentence.ntok < 10:
continue
# orig = d[0]
orig = sentence.words
ntok = sentence.ntok
phrs = sentence.phrases(order=order, min_length=1)
all_window = np.ceil(max([len(p) for p in phrs]) / 2)
phrase_window = np.ceil(max([len(p) for p in phrs]) / 2)
# whether to use true phrases
if phrase_type == 'real':
const = np.array([[sentence.is_relative(i,j, order=order) \
for i in range(ntok)] \
for j in range(ntok)])
model = BertModel.from_pretrained('bert-base-cased', output_hidden_states=True, output_attentions=True)
tokenizer = BertTokenizer.from_pretrained('bert-base-cased')
dfile = SAVE_DIR+'train_bracketed.txt'
# with open(SAVE_DIR+'permuted_data.pkl', 'rb') as dfile:
# dist = pkl.load(dfile)
#%%
print('Computing mean and variance ...\n')
# foo = []
all_vecs = []
for line_idx in tqdm.tqdm(np.random.choice(5000,500,replace=False)):
line = linecache.getline(dfile, line_idx+1)
sentence = BracketedSentence(line)
orig = sentence.words
ntok = sentence.ntok
if ntok < 10:
continue
# orig = d[0]
orig_idx = np.array(range(ntok))
n = np.random.choice(range(1,6))
# n=1
swap_idx = ngram_shuffling(np.arange(ntok), n)
swapped = [orig[i] for i in swap_idx]
# assert(swapped == line[1+phrase_type][swap_type][2])
assert([swapped[i] for i in np.argsort(swap_idx)] == orig)
t0 = time()
for epoch in range(nepoch):
nbatch = 0 # we'll only take gradient steps every bsz datapoints
cumloss_pos = 0
cumloss_syn = 0
optimizer_pos.zero_grad()
optimizer_syn.zero_grad()
for line_idx in np.random.permutation(range(len(dist))): # range(13):
line_idx_in_file = idx[line_idx]
if line_idx_in_file < 0:
continue
line = linecache.getline(SAVE_DIR + '/data/' + bracket_file,
line_idx_in_file + 1)
sentence = BracketedSentence(line, dep_tree=dep)
# check that the sentence in swapped_data.pkl matches that in train.txt
sameword = [
sentence.words[i] == dist[line_idx][0][i]
for i in range(sentence.ntok)
]
if ~np.all(sameword):
if verbose:
print('Mismatch between lines!!')
print('Line %d is ' % line_idx)
break
if sentence.ntok < 10:
if verbose:
print('Skipping line %d, too short!' % line_idx)
# # swap_idx_all = [[] for _ in range(500)]
# for layer in range(13):
# num_pos = np.zeros(5)
# num_syn = np.zeros(5)
# with open(SAVE_DIR+fold+'pos_layer%d_init%d_params.pt'%(layer,init), 'rb') as f:
# glm_pos.load_state_dict(torch.load(f))
# with open(SAVE_DIR+fold+'syn_layer%d_init%d_params.pt'%(layer,init), 'rb') as f:
# glm_syn.load_state_dict(torch.load(f))
for line_idx in tqdm.tqdm(np.random.choice(5000, num_lines, replace=False)):
line = linecache.getline(dfile, line_idx + 1)
sentence = BracketedSentence(line)
if sentence.ntok < 10:
continue
# get the POS and Grandparent tag labels
labels_pos = np.array([
pos_tags.index(w) if w in pos_tags else np.nan
for w in sentence.pos_tags
])
valid_pos = ~np.isnan(labels_pos)
y_pos = torch.tensor(labels_pos[valid_pos]).long()
anc_tags = [sentence.ancestor_tags(i, 2) for i in range(sentence.ntok)]
labels_syn = np.array([
phrase_tags.index(w) if w in phrase_tags else np.nan for w in anc_tags
num_cond = np.zeros(len(these_bounds))
corrs = [[] for _ in these_bounds]
cca = [[] for _ in these_bounds]
# corrs = np.zeros((max_num, len(these_bounds)))
t0 = time()
pbar = tqdm.tqdm(total=max_num*len(these_bounds), desc='Tree dist 0/%d'%len(these_bounds))
for dt in these_bounds:
pbar.desc = 'Tree dist %d/%d'%(dt,len(these_bounds))
vecs = []
whichline = []
whichswap = []
for line_idx in np.random.permutation(range(5000)):
line = linecache.getline(dfile, line_idx+1)
sentence = BracketedSentence(line)
if sentence.ntok<10:
continue
# orig = d[0]
orig = sentence.words
ntok = sentence.ntok
crossings = np.diff(np.abs(sentence.brackets).cumsum()[sentence.term2brak])
these_pairs = np.isin(crossings,dt)
if not np.any(these_pairs):
continue
orig_idx = np.array(range(ntok))
i = np.random.choice(np.where(these_pairs)[0])
c = crossings[i]
expinf = 'layer%d_rank%d_init%d_%s_linear'%(layer, N, init, criterion.__class__.__name__)
num_pos = np.zeros(5)
num_syn = np.zeros(5)
with open(SAVE_DIR+fold+expinf+'_params.pt', 'rb') as f:
probe.load_state_dict(torch.load(f))
# dbs = [[] for _ in range(5)]
# dts = []
scorr = [[] for _ in range(5)]
# logli = [[] for _ in range(5)]
for line_idx in tqdm.tqdm(np.random.choice(5000,num_lines), desc='Layer %d, model %d'%(layer, init)):
line = linecache.getline(dfile, line_idx+1)
sentence = BracketedSentence(line, dep_tree=dep_tree)
if sentence.ntok<10:
continue
if sentence.ntok>110:
continue
toks = np.arange(sentence.ntok)
ntok = sentence.ntok
w1, w2 = np.nonzero(np.triu(np.ones((ntok,ntok)),k=1))
# tree distance
dT = np.array([sentence.tree_dist(w1[i],w2[i],term=(not dep_tree)) for i in range(len(w1))])
# num_pos[0] += 1
# num_syn[0] += 1
# full_sentence = False
encoder = nn.Linear(768, N, bias=False)
probe = EuclideanEncoder(encoder)
# criterion = nn.MSELoss(reduction='mean')
# criterion = nn.L1Loss(reduction='mean')
criterion = nn.PoissonNLLLoss(reduction='mean', log_input=False)
distortion = []
logli = [[] for _ in range(13)] # loglihood on training context
swp_logli = [[] for _ in range(13)] # cross-context
dtree = []
for line_idx in tqdm.tqdm(np.random.choice(5000, num_line)):
line = linecache.getline(dfile, line_idx + 1)
sentence = BracketedSentence(line, dep_tree=dep_tree)
if sentence.ntok < 10:
continue
if sentence.ntok > 110:
continue
toks = np.arange(sentence.ntok)
ntok = sentence.ntok
if full_sentence:
w1, w2 = np.nonzero(np.triu(np.ones((ntok, ntok)), k=1))
dT = np.array([
sentence.tree_dist(w1[i], w2[i], term=(not dep_tree))
for i in range(len(w1))
])
# tree_dists = pkl.load(open(SAVE_DIR+'data/line%d_treedist.pkl'%line_idx,'rb'))
# weights = list((-np.array(tree_dists)[:,0]))
# idx = np.array(list(np.array(tree_dists)[:,1]))
# og = pkl.load(open(SAVE_DIR+'extracted/bert-base-cased/'+str(line_idx)+'/original_vectors.pkl','rb'))
# X = og[layer,:,:].T.dot(og[layer,:,:])/la.norm(og[layer,:,:], axis=0)**2
# X = -la.norm(og[-1,:,:,None]-og[-1,:,None,:],axis=0)
# seq = dist[line_idx][0]'
with open(SAVE_DIR + 'data/train_bracketed.txt', 'r') as dfile:
for i in range(line_idx):
line = dfile.readline()
brak = BracketedSentence(line)
# weights = []
# idx = []
# for i in range(len(brak.terminals)):
# for j in range(i+1,len(brak.terminals)):
# weights.append(-brak.tree_dist(i,j))
# idx.append((i,j))
# idx = np.array(idx)
# seq = brak.words
weights = []
idx = []
for i in range(len(brak.nodes)):
for j in range(i + 1, len(brak.nodes)):
weights.append(-brak.tree_dist(i, j, False))
optimizer_swap_syn.zero_grad()
num_batch = int(5000 / bsz)
with tqdm.tqdm(range(num_batch),
total=num_batch,
desc='Epoch %d' % epoch,
postfix=[
dict(loss_orig_pos_=0,
loss_swap_pos_=0,
loss_orig_syn_=0,
loss_swap_syn_=0)
]) as pbar:
for line_idx in np.random.permutation(range(5000)):
line = linecache.getline(dfile, line_idx + 1)
sentence = BracketedSentence(line)
orig = sentence.words
ntok = sentence.ntok
orig_idx = np.array(range(ntok))
if len(swap_idx_all[line_idx]) == 0:
swap_idx_all[line_idx] = np.random.permutation(orig_idx)
swap_idx = swap_idx_all[line_idx]
orig_vecs = extract_tensor(orig, indices=orig_idx)
swap_vecs = extract_tensor([orig[s] for s in swap_idx],
indices=swap_idx)
labels_pos = np.array([
pos_tags.index(w) if w in pos_tags else np.nan
if not os.path.isdir(SAVE_DIR + svfolder):
os.makedirs(SAVE_DIR + svfolder)
#%%
dep = list(open(SAVE_DIR + '/dependency_train_bracketed.txt', 'r'))
# tok_num = dep[0].values
# line_num = np.cumsum(np.diff(tok_num, prepend=0)<0)
# tokens = dep[1].values
# sent_length = np.unique(line_num, return_counts=True)[1]
# sent_length = [BracketedSentence(d,True).ntok for d in dep]
sent_length = []
tokens = []
for d in dep:
bs = BracketedSentence(d, True)
sent_length.append(bs.ntok)
tokens.append(bs.words)
#%%
const = open(SAVE_DIR + '/train_bracketed.txt', 'r')
unmatched_lines = list(range(len(dep)))
idx_in_train = np.zeros(len(unmatched_lines)) * np.nan
for line_idx, line in enumerate(const):
if line_idx < start:
continue
if line_idx > stop:
break
words = BracketedSentence(line).words
from transformers import BertTokenizer, BertModel, BertConfig, AutoConfig, AutoModel, AutoTokenizer
import pickle as pkl
import numpy as np
import scipy.linalg as la
import linecache
from time import time
import matplotlib.pyplot as plt
#%%
jon_folder = 'C:/Users/mmall/Documents/github/bertembeddings/data/jonathans/'
lines = os.listdir(jon_folder+model)
dist = pkl.load(open(jon_folder+'/permuted_data.pkl','rb'))
dfile = SAVE_DIR+'train_bracketed.txt'
#%%
ptb_in_perm = []
for line_idx in range(2416):
line_ptb = linecache.getline(dfile, line_idx+1)
sent = BracketedSentence(line_ptb).words
found = False
for pd_line in np.random.permutation(range(len(dist))):
if sent == dist[pd_line][0]:
ptb_in_perm.append(pd_line)
print('Found one')
break
cumloss_swap_pos = 0
cumloss_orig_syn = 0
cumloss_swap_syn = 0
optimizer_orig_pos.zero_grad()
optimizer_swap_pos.zero_grad()
optimizer_orig_syn.zero_grad()
optimizer_swap_syn.zero_grad()
for line_idx in np.random.permutation(range(len(dist))): # range(13):
line_idx_in_file = idx[line_idx]
if line_idx_in_file < 0:
continue
line = linecache.getline(SAVE_DIR + '/data/' + bracket_file,
line_idx_in_file + 1)
sentence = BracketedSentence(line, dep_tree=dep)
# check that the sentence in swapped_data.pkl matches that in train.txt
sameword = [
sentence.words[i] == dist[line_idx][0][i]
for i in range(sentence.ntok)
]
if ~np.all(sameword):
if verbose:
print('Mismatch between lines!!')
print('Line %d is ' % line_idx)
break
if sentence.ntok < 10:
if verbose:
print('Skipping line %d, too short!' % line_idx)
# s_dist = [] # distance in sequence (i.e. number of words between)
which_line = [] # outside index of swapped_data
which_swap = [] # inside index of swapped_data
num = 0
num_vecs = 0
print('Beginning extraction ... ')
t0 = time()
for line_idx in np.random.permutation(range(len(dist))): # range(13):
line_idx_in_file = idx[line_idx]
if line_idx_in_file < 0:
continue
line = linecache.getline(SAVE_DIR + '/data/' + bracket_file,
line_idx_in_file + 1)
sentence = BracketedSentence(line, dep_tree=dep)
# check that the sentence in swapped_data.pkl matches that in train.txt
sameword = [
sentence.words[i] == dist[line_idx][0][i] for i in range(sentence.ntok)
]
if ~np.all(sameword):
if verbose:
print('Mismatch between lines!!')
print('Line %d is ' % line_idx)
break
if sentence.ntok < 10:
if verbose:
print('Skipping line %d, too short!' % line_idx)
continue
line_idx = 4
# tokenizer = BertTokenizer.from_pretrained('bert-base-cased')
# if random_model:
# model = BertModel(BertConfig(output_hidden_states=True))
# base_directory = 'vectors/permuted_depth/bert_untrained/'
# else:
# model = BertModel.from_pretrained('bert-base-cased', output_hidden_states=True)
# base_directory = 'extracted/bert-base-cased/'
with open(SAVE_DIR+'data/train_bracketed.txt', 'r') as dfile:
for i in range(line_idx+1):
line = dfile.readline()
brak = BracketedSentence(line)
cors = np.zeros((13,8,5,2,100)) # (layer, tree_dist, seq_dist, line)
print('Beginning extraction ... ')
with open(SAVE_DIR+'data/extracted/swapped_data.pkl', 'rb+') as dfile:
dist = pkl.load(dfile)
# with open(SAVE_DIR+'data/train_bracketed.txt', 'r') as dfile:
# dist = pkl.load(dfile)
# t0 = time()
for i in range(stop):
if i<start:
break
t0 = time()
# lines = os.listdir(jon_folder+'/ngram/bert-base-cased/')
#%%
order = 1
# num_phrases = None
num_phrases = None
# swap_type = 'within'
swap_type = 'among'
# print('Computing mean and variance ...')
all_vecs = []
for line in tqdm.tqdm(np.random.permutation(dist)[:500]):
line = linecache.getline(dfile, line_idx + 1)
sentence = BracketedSentence(line)
if sentence.ntok < 10:
continue
# orig = d[0]
orig = sentence.words
ntok = sentence.ntok
phrase_idx = sentence.phrases(order=order, strict=True)
if num_phrases is not None:
if len(phrase_idx) < num_phrases:
continue
else:
if len(phrase_idx) < 2 or (np.sum(
np.isin(range(ntok), np.concatenate(phrase_idx))) > ntok / 2):
continue
layer_att).squeeze()[:, :, 1:-1, 1:-1], np.array(split_word_idx)
#%%
model = BertModel.from_pretrained('bert-base-cased',
output_hidden_states=True,
output_attentions=True)
tokenizer = BertTokenizer.from_pretrained('bert-base-cased')
dfile = SAVE_DIR + 'train_bracketed.txt'
#%%
line_idx = 4
line = linecache.getline(dfile, line_idx + 1)
sentence = BracketedSentence(line)
orig = sentence.words
ntok = sentence.ntok
orig_idx = np.arange(ntok)
# output_att: layer, head, nTok, nTok
orig_vecs, orig_attn, word_idx = extract_tensor(orig,
indices=orig_idx,
all_attn=True)
#%%
phrase_order = 1
# layers = list(range(12))
layers = [9]
phr = sentence.phrases(phrase_order)
