In [1]:
import os
from os.path import join as opj
# from nipype.interfaces import afni
import nibabel as nib
import json
import numpy as np
import os
import params
from os.path import join as opj
# os.chdir('/home1/varunk/Autism-Connectome-Analysis-bids-related/')
In [2]:
# Paths
path_cwd = os.getcwd()
path_split_list = path_cwd.split('/')
s = path_split_list[0:-1] # for getting to the parent dir of pwd
s = opj('/',*s) # *s converts list to path, # very important to add '/' in the begining so it is read as directory later
In [3]:
# Params to be read from json file
# os.chdir('/home1/varunk/Autism-Connectome-Analysis-bids-related/')
# json_path = opj(data_directory,'task-rest_bold.json')
json_path = 'scripts/json/paths.json'
with open(json_path, 'rt') as fp:
task_info = json.load(fp)
In [4]:
base_directory = opj(s,task_info["base_directory_for_results"])
motion_correction_bet_directory = task_info["motion_correction_bet_directory"]
parent_wf_directory = task_info["parent_wf_directory"]
# functional_connectivity_directory = task_info["functional_connectivity_directory"]
functional_connectivity_directory = 'temp_fc'
coreg_reg_directory = task_info["coreg_reg_directory"]
atlas_resize_reg_directory = task_info["atlas_resize_reg_directory"]
data_directory = opj(s,task_info["data_directory"])
datasink_name = task_info["datasink_name"]
# fc_datasink_name = task_info["fc_datasink_name"]
fc_datasink_name = 'temp_dataSink'
atlasPath = opj(s,task_info["atlas_path"])
hypothesis_test_dir = opj(base_directory, task_info["hypothesis_test_dir"])
In [5]:
base_directory
Out[5]:
'/home1/varunk/results_again_again'
In [7]:
def count_voxel_stats(pvals_list, qvals_list, map_logp_list, map_logq_list):
# P_brain_voxel_list, Q_brain_voxel_list = Pval_Qval_tuple
map_logp_list = np.absolute(map_logp_list)
map_logq_list = np.absolute(map_logq_list)
# min p value
min_pval = np.min(pvals_list)
# min q value
min_qval = np.min(qvals_list)
# p value less than 0.1
p_lt_point_1 = np.shape(np.where(pvals_list < 0.1))[1]
# p value less than 0.01
p_lt_point_01 = np.shape(np.where(pvals_list < 0.01))[1]
# p value less than 0.05
p_lt_point_05 = np.shape(np.where(pvals_list < 0.05))[1]
# p value less than 0.1
q_lt_point_1 = np.shape(np.where(qvals_list < 0.1))[1]
# p value less than 0.01
q_lt_point_01 = np.shape(np.where(qvals_list < 0.01))[1]
# p value less than 0.05
q_lt_point_05 = np.shape(np.where(qvals_list < 0.05))[1]
# Voxels with abs(sign(C1MinusC2)(-1*log10(Q)))) >1.3 (t 0.5)
logq_gt_1point3 = np.shape(np.where(map_logq_list > 1.3))[1]
# Voxels with abs(sign(C1MinusC2)(-1*log10(Q)))) >1 (t 0.1)
logq_gt_1 = np.shape(np.where(map_logq_list > 1))[1]
# Voxels with abs(sign(C1MinusC2)(-1*log10(Q)))) >2 (t 0.01)
logq_gt_2 = np.shape(np.where(map_logq_list > 2))[1]
# Voxels with abs(sign(C1MinusC2)(-1*log10(P)))) >1.3 (t 0.5)
logp_gt_1point3 = np.shape(np.where(map_logp_list > 1.3))[1]
# Voxels with abs(sign(C1MinusC2)(-1*log10(P)))) >1 (t 0.1)
logp_gt_1 = np.shape(np.where(map_logp_list > 1))[1]
# Voxels with abs(sign(C1MinusC2)(-1*log10(P)))) >2 (t 0.01)
logp_gt_2 = np.shape(np.where(map_logp_list > 2))[1]
return min_pval,min_qval,p_lt_point_1,p_lt_point_01,p_lt_point_05,q_lt_point_1,\
q_lt_point_01,q_lt_point_05, logq_gt_1point3, logq_gt_1 ,logq_gt_2 ,logp_gt_1point3, logp_gt_1, logp_gt_2
In [8]:
def fdr_correction_and_viz(Pvals_path, Tvals_path, C1_path, C2_path, mask_path, save_destination, affine, header, combination):
alpha = 0.05
Pvals = np.load(Pvals_path)
Tvals= np.load(Tvals_path)
C1 = np.load(C1_path)
C2 = np.load(C2_path)
mask = nib.load(mask_path).get_data()
brain_indices = np.where(mask == 1 )
from statsmodels.sandbox.stats.multicomp import fdrcorrection0
Pvals_shape = Pvals.shape
Qvals = np.zeros(Pvals_shape)
map_C1MinusC2 = C1 - C2
# sign(c1-c2) * -1 * log10(p)
map_logp = np.multiply(np.sign(map_C1MinusC2),(-1*np.log10(Pvals)))
roi_voxel_stats_matrix = np.zeros((Pvals_shape[3], 14)) # cozthere are 14 statistical attributes
for roi in range(Pvals_shape[3]):
print('Computing Stats for ROI: ',roi)
# pvals = ma.masked_array(Pvals[0], mask = mask, fill_value = 0)
pvals = Pvals[:,:,:,roi]
pvals_shape = pvals.shape
# inp = pvals[~pvals.mask]
# Flatten inp and check if you get back the original matrix after
# inp = inp.ravel()
pvals_list = pvals[brain_indices]
_, qvals_list = fdrcorrection0(pvals_list,alpha)
# from IPython.core.debugger import Tracer; Tracer()()
# map_logq_list = map_logq[brain_indices]
map_logp_list = map_logp[:,:,:,roi][brain_indices]
print("Size of map_logp_list ",map_logp_list.shape)
# print("Brain Indices: ", brain_indices)
map_C1MinusC2_list = map_C1MinusC2[:,:,:,roi][brain_indices]
# Calculate voxel stats using the below function
Qvals[:,:,:,roi][brain_indices] = qvals_list
map_logq_list = np.multiply(np.sign(map_C1MinusC2_list),(-1*np.log10(qvals_list)))
print("Size of map_logq_list ",map_logq_list.shape)
roi_voxel_stats_matrix[roi,:] = count_voxel_stats(pvals_list, qvals_list, \
map_logp_list, map_logq_list)
print('Stats Computed for ROI: ',roi)
# Save the CSV file and the Additional Brain file to visualize
# sign(c1-c2) * -1 * log10(q)
map_logq = np.multiply(np.sign(map_C1MinusC2),(-1*np.log10(Qvals)))
save_destination_new = opj(save_destination,combination)
if not os.path.exists(save_destination_new):
os.mkdir(save_destination_new)
print('Saving Files in directory: ', save_destination_new)
print('Saving Stats CSV : ',)
csv_name = 'roi_voxel_stats_' + combination + '.csv'
np.savetxt(csv_name,roi_voxel_stats_matrix,delimiter=',',\
header='min_pval,min_qval,p_lt_point_1,p_lt_point_01, p_lt_point_05, q_lt_point_1, q_lt_point_01,q_lt_point_05, logq_gt_1point3, logq_gt_1 ,logq_gt_2 ,logp_gt_1point3, logp_gt_1, logp_gt_2'
)
print('Saving Pvals.nii.gz')
Pvals_name = opj(save_destination_new,'Pvals.nii.gz')
Pvals_brain_with_header = nib.Nifti1Image(Pvals, affine= affine,header = header)
nib.save(Pvals_brain_with_header,Pvals_name)
print('Saving Tvals.nii.gz')
Tvals_name = opj(save_destination_new,'Tvals.nii.gz')
Tvals_brain_with_header = nib.Nifti1Image(Tvals, affine= affine,header = header)
nib.save(Tvals_brain_with_header,Tvals_name)
print('Saving Qvals.nii.gz')
Qvals_name = opj(save_destination_new,'Qvals.nii.gz')
Qvals_brain_with_header = nib.Nifti1Image(Qvals, affine= affine,header = header)
nib.save(Qvals_brain_with_header,Qvals_name)
print('Saving C1MinusC2.nii.gz')
C1MinusC2_name = opj(save_destination_new,'C1MinusC2.nii.gz')
C1MinusC2_brain_with_header = nib.Nifti1Image(map_C1MinusC2, affine= affine,header = header)
nib.save(C1MinusC2_brain_with_header,C1MinusC2_name)
print('Saving map_logp.nii.gz')
map_logp_name = opj(save_destination_new,'map_logp.nii.gz')
map_logp_brain_with_header = nib.Nifti1Image(map_logp, affine= affine,header = header)
nib.save(map_logp_brain_with_header,map_logp_name)
print('Saving map_logq.nii.gz')
map_logq_name = opj(save_destination_new,'map_logq.nii.gz')
map_logq_brain_with_header = nib.Nifti1Image(map_logq, affine= affine,header = header)
nib.save(map_logq_brain_with_header,map_logq_name)
In [9]:
base_directory
Out[9]:
'/home1/varunk/results_again_again'
In [10]:
import itertools
import numpy as np
import nibabel as nib
from multiprocessing import Pool
import os
mask_path = opj(base_directory,parent_wf_directory,motion_correction_bet_directory,coreg_reg_directory,'resample_mni/MNI152_T1_2mm_brain_resample_mask.nii.gz')
save_destination = opj(base_directory,'fdr_and_results')
if not os.path.exists(save_destination):
os.mkdir(save_destination)
os.chdir(save_destination)
def _main(params):
motion_param_regression, band_pass_filtering, global_signal_regression = params
combination = 'pearcoff_motionRegress' + str(int(motion_param_regression)) + 'filt' + str(int(band_pass_filtering)) + 'global' + str(int(global_signal_regression))
print("Combination: ",combination)
print(motion_param_regression, band_pass_filtering, global_signal_regression)
Pvals_path = opj(hypothesis_test_dir,'hypothesis_test_'+combination,'Pvals.npy')
Tvals_path = opj(hypothesis_test_dir,'hypothesis_test_'+combination,'Tvals.npy')
C1_path = opj(hypothesis_test_dir,'hypothesis_test_'+combination,'meanC1.npy')
C2_path = opj(hypothesis_test_dir,'hypothesis_test_'+combination,'meanC2.npy')
brain_path = '/home1/varunk/results_again_again/fc_motionRegress1filt1global0/_subject_id_0050002/func2std_xform/0050002_fc_map_flirt.nii.gz'
brain_data = nib.load(brain_path)
affine=brain_data.affine
header = brain_data.header
fdr_correction_and_viz(Pvals_path, Tvals_path, C1_path, C2_path, mask_path, save_destination, affine, header, combination )
# print(C2_path)
pool = Pool(4)
# itr = (list(itertools.product([0, 1], repeat=3)))
itr = [(1,1,1),(1,1,0)]
data_outputs = pool.map(_main, itr)
Combination: pearcoff_motionRegress1filt1global0
Combination: pearcoff_motionRegress1filt1global1
1 1 1
1 1 0
/root/anaconda3/lib/python3.6/site-packages/ipykernel_launcher.py:25: RuntimeWarning: divide by zero encountered in log10
/root/anaconda3/lib/python3.6/site-packages/ipykernel_launcher.py:25: RuntimeWarning: invalid value encountered in multiply
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Computing Stats for ROI: 88
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 88
Computing Stats for ROI: 89
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 89
Computing Stats for ROI: 90
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 90
Computing Stats for ROI: 91
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 91
Computing Stats for ROI: 92
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 92
Computing Stats for ROI: 93
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 93
Computing Stats for ROI: 94
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 94
Computing Stats for ROI: 95
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 95
Computing Stats for ROI: 96
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 96
Computing Stats for ROI: 97
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 97
Computing Stats for ROI: 98
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 98
Computing Stats for ROI: 99
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 99
Computing Stats for ROI: 100
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 100
Computing Stats for ROI: 101
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 101
Computing Stats for ROI: 102
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 102
Computing Stats for ROI: 103
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 103
Computing Stats for ROI: 104
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 104
Computing Stats for ROI: 105
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 105
Computing Stats for ROI: 106
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 106
Computing Stats for ROI: 107
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 107
Computing Stats for ROI: 108
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 108
Computing Stats for ROI: 109
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 109
Computing Stats for ROI: 110
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 110
Computing Stats for ROI: 111
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 111
Computing Stats for ROI: 112
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 112
Computing Stats for ROI: 113
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 113
Computing Stats for ROI: 114
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 114
Computing Stats for ROI: 115
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 115
Computing Stats for ROI: 116
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 116
Computing Stats for ROI: 117
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 117
Computing Stats for ROI: 118
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 118
Computing Stats for ROI: 119
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 119
Computing Stats for ROI: 120
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 120
Computing Stats for ROI: 121
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 121
Computing Stats for ROI: 122
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 122
Computing Stats for ROI: 123
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 123
Computing Stats for ROI: 124
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 124
Computing Stats for ROI: 125
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 125
Computing Stats for ROI: 126
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 126
Computing Stats for ROI: 127
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 127
Computing Stats for ROI: 128
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 128
Computing Stats for ROI: 129
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 129
Computing Stats for ROI: 130
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 130
Computing Stats for ROI: 131
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 131
Computing Stats for ROI: 132
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 132
Computing Stats for ROI: 133
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 133
Computing Stats for ROI: 134
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 134
Computing Stats for ROI: 135
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 135
Computing Stats for ROI: 136
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 136
Computing Stats for ROI: 137
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 137
Computing Stats for ROI: 138
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 138
Computing Stats for ROI: 139
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 139
Computing Stats for ROI: 140
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 140
Computing Stats for ROI: 141
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 141
Computing Stats for ROI: 142
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 142
Computing Stats for ROI: 143
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 143
Computing Stats for ROI: 144
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 144
Computing Stats for ROI: 145
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 145
Computing Stats for ROI: 146
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 146
Computing Stats for ROI: 147
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 147
Computing Stats for ROI: 148
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 148
Computing Stats for ROI: 149
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 149
Computing Stats for ROI: 150
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 150
Computing Stats for ROI: 151
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 151
Computing Stats for ROI: 152
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 152
Computing Stats for ROI: 153
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 153
Computing Stats for ROI: 154
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 154
Computing Stats for ROI: 155
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 155
Computing Stats for ROI: 156
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 156
Computing Stats for ROI: 157
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 157
Computing Stats for ROI: 158
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 158
Computing Stats for ROI: 159
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 159
Computing Stats for ROI: 160
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 160
Computing Stats for ROI: 161
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 161
Computing Stats for ROI: 162
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 162
Computing Stats for ROI: 163
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 163
Computing Stats for ROI: 164
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 164
Computing Stats for ROI: 165
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 165
Computing Stats for ROI: 166
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 166
Computing Stats for ROI: 167
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 167
Computing Stats for ROI: 168
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 168
Computing Stats for ROI: 169
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 169
Computing Stats for ROI: 170
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 170
Computing Stats for ROI: 171
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 171
Computing Stats for ROI: 172
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 172
Computing Stats for ROI: 173
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 173
Computing Stats for ROI: 174
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 174
Computing Stats for ROI: 175
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 175
Computing Stats for ROI: 176
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 176
Computing Stats for ROI: 177
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 177
Computing Stats for ROI: 178
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 178
Computing Stats for ROI: 179
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 179
Computing Stats for ROI: 180
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 180
Computing Stats for ROI: 181
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 181
Computing Stats for ROI: 182
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 182
Computing Stats for ROI: 183
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 183
Computing Stats for ROI: 184
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 184
Computing Stats for ROI: 185
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 185
Computing Stats for ROI: 186
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 186
Computing Stats for ROI: 187
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 187
Computing Stats for ROI: 188
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 188
Computing Stats for ROI: 189
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 189
Computing Stats for ROI: 190
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 190
Computing Stats for ROI: 191
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 191
Computing Stats for ROI: 192
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 192
Computing Stats for ROI: 193
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 193
Computing Stats for ROI: 194
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 194
Computing Stats for ROI: 195
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 195
Computing Stats for ROI: 196
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 196
Computing Stats for ROI: 197
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 197
Computing Stats for ROI: 198
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 198
Computing Stats for ROI: 199
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 199
Computing Stats for ROI: 200
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 200
Computing Stats for ROI: 201
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 201
Computing Stats for ROI: 202
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 202
Computing Stats for ROI: 203
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 203
Computing Stats for ROI: 204
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 204
Computing Stats for ROI: 205
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 205
Computing Stats for ROI: 206
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 206
Computing Stats for ROI: 207
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 207
Computing Stats for ROI: 208
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 208
Computing Stats for ROI: 209
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 209
Computing Stats for ROI: 210
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 210
Computing Stats for ROI: 211
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 211
Computing Stats for ROI: 212
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 212
Computing Stats for ROI: 213
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 213
Computing Stats for ROI: 214
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 214
Computing Stats for ROI: 215
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 215
Computing Stats for ROI: 216
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 216
Computing Stats for ROI: 217
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 217
Computing Stats for ROI: 218
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 218
Computing Stats for ROI: 219
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 219
Computing Stats for ROI: 220
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 220
Computing Stats for ROI: 221
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 221
Computing Stats for ROI: 222
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 222
Computing Stats for ROI: 223
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 223
Computing Stats for ROI: 224
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 224
Computing Stats for ROI: 225
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 225
Computing Stats for ROI: 226
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 226
Computing Stats for ROI: 227
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 227
Computing Stats for ROI: 228
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 228
Computing Stats for ROI: 229
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 229
Computing Stats for ROI: 230
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 230
Computing Stats for ROI: 231
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 231
Computing Stats for ROI: 232
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 232
Computing Stats for ROI: 233
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 233
Computing Stats for ROI: 234
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 234
Computing Stats for ROI: 235
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 235
Computing Stats for ROI: 236
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 236
Computing Stats for ROI: 237
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 237
Computing Stats for ROI: 238
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 238
Computing Stats for ROI: 239
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 239
Computing Stats for ROI: 240
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 240
Computing Stats for ROI: 241
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 241
Computing Stats for ROI: 242
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 242
Computing Stats for ROI: 243
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 243
Computing Stats for ROI: 244
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 244
Computing Stats for ROI: 245
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 245
Computing Stats for ROI: 246
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 246
Computing Stats for ROI: 247
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 247
Computing Stats for ROI: 248
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 248
Computing Stats for ROI: 249
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 249
Computing Stats for ROI: 250
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 250
Computing Stats for ROI: 251
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 251
Computing Stats for ROI: 252
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 252
Computing Stats for ROI: 253
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 253
Computing Stats for ROI: 254
Size of map_logp_list (74728,)
/root/anaconda3/lib/python3.6/site-packages/ipykernel_launcher.py:67: RuntimeWarning: divide by zero encountered in log10
/root/anaconda3/lib/python3.6/site-packages/ipykernel_launcher.py:67: RuntimeWarning: invalid value encountered in multiply
Size of map_logq_list (74728,)
/root/anaconda3/lib/python3.6/site-packages/ipykernel_launcher.py:34: RuntimeWarning: invalid value encountered in greater
/root/anaconda3/lib/python3.6/site-packages/ipykernel_launcher.py:37: RuntimeWarning: invalid value encountered in greater
/root/anaconda3/lib/python3.6/site-packages/ipykernel_launcher.py:40: RuntimeWarning: invalid value encountered in greater
/root/anaconda3/lib/python3.6/site-packages/ipykernel_launcher.py:43: RuntimeWarning: invalid value encountered in greater
/root/anaconda3/lib/python3.6/site-packages/ipykernel_launcher.py:46: RuntimeWarning: invalid value encountered in greater
/root/anaconda3/lib/python3.6/site-packages/ipykernel_launcher.py:49: RuntimeWarning: invalid value encountered in greater
Stats Computed for ROI: 254
Computing Stats for ROI: 255
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
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Computing Stats for ROI: 256
Size of map_logp_list (74728,)
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Computing Stats for ROI: 257
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Computing Stats for ROI: 258
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Computing Stats for ROI: 259
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Computing Stats for ROI: 260
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Computing Stats for ROI: 261
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Computing Stats for ROI: 262
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Computing Stats for ROI: 263
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Computing Stats for ROI: 264
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Computing Stats for ROI: 265
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Computing Stats for ROI: 266
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Computing Stats for ROI: 267
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Computing Stats for ROI: 268
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Computing Stats for ROI: 269
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Computing Stats for ROI: 271
Size of map_logp_list (74728,)
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Computing Stats for ROI: 272
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Computing Stats for ROI: 273
Size of map_logp_list (74728,)
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Stats Computed for ROI: 273
/root/anaconda3/lib/python3.6/site-packages/ipykernel_launcher.py:80: RuntimeWarning: divide by zero encountered in log10
/root/anaconda3/lib/python3.6/site-packages/ipykernel_launcher.py:25: RuntimeWarning: divide by zero encountered in log10
/root/anaconda3/lib/python3.6/site-packages/ipykernel_launcher.py:80: RuntimeWarning: invalid value encountered in multiply
Saving Files in directory: /home1/varunk/results_again_again/fdr_and_results/pearcoff_motionRegress1filt1global1
Saving Stats CSV :
Saving Pvals.nii.gz
/root/anaconda3/lib/python3.6/site-packages/ipykernel_launcher.py:25: RuntimeWarning: invalid value encountered in multiply
Computing Stats for ROI: 0
Size of map_logp_list (74728,)
Size of map_logq_list (74728,)
Stats Computed for ROI: 0
Computing Stats for ROI: 1
Size of map_logp_list (74728,)
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Computing Stats for ROI: 2
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Computing Stats for ROI: 3
Size of map_logp_list (74728,)
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Stats Computed for ROI: 3
Computing Stats for ROI: 4
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Computing Stats for ROI: 5
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Computing Stats for ROI: 6
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Computing Stats for ROI: 7
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Computing Stats for ROI: 8
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Computing Stats for ROI: 9
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Computing Stats for ROI: 10
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Computing Stats for ROI: 11
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Computing Stats for ROI: 12
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Computing Stats for ROI: 13
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Computing Stats for ROI: 14
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Computing Stats for ROI: 15
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Computing Stats for ROI: 16
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Computing Stats for ROI: 17
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Computing Stats for ROI: 19
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Computing Stats for ROI: 20
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Computing Stats for ROI: 21
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Computing Stats for ROI: 22
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Computing Stats for ROI: 23
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Computing Stats for ROI: 24
Size of map_logp_list (74728,)
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Computing Stats for ROI: 25
Size of map_logp_list (74728,)
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Computing Stats for ROI: 26
Size of map_logp_list (74728,)
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Stats Computed for ROI: 26
Computing Stats for ROI: 27
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Computing Stats for ROI: 28
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Computing Stats for ROI: 29
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Computing Stats for ROI: 30
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Computing Stats for ROI: 31
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Computing Stats for ROI: 32
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Computing Stats for ROI: 33
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Computing Stats for ROI: 34
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Computing Stats for ROI: 35
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Computing Stats for ROI: 36
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Computing Stats for ROI: 37
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Computing Stats for ROI: 39
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Computing Stats for ROI: 46
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Computing Stats for ROI: 47
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Computing Stats for ROI: 48
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Computing Stats for ROI: 50
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Stats Computed for ROI: 50
Computing Stats for ROI: 51
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Computing Stats for ROI: 52
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Computing Stats for ROI: 53
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Computing Stats for ROI: 54
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Computing Stats for ROI: 55
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Computing Stats for ROI: 56
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Stats Computed for ROI: 56
Computing Stats for ROI: 57
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Computing Stats for ROI: 58
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Computing Stats for ROI: 59
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Computing Stats for ROI: 60
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Computing Stats for ROI: 61
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Computing Stats for ROI: 62
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Computing Stats for ROI: 63
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Computing Stats for ROI: 66
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Computing Stats for ROI: 67
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Computing Stats for ROI: 68
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Computing Stats for ROI: 69
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Computing Stats for ROI: 70
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Computing Stats for ROI: 71
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Computing Stats for ROI: 72
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Computing Stats for ROI: 73
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Computing Stats for ROI: 74
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Computing Stats for ROI: 75
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Computing Stats for ROI: 78
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Computing Stats for ROI: 84
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Computing Stats for ROI: 85
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Computing Stats for ROI: 86
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Computing Stats for ROI: 88
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Computing Stats for ROI: 90
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Computing Stats for ROI: 119
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Computing Stats for ROI: 124
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Computing Stats for ROI: 125
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Computing Stats for ROI: 126
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Computing Stats for ROI: 127
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Computing Stats for ROI: 128
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Stats Computed for ROI: 128
Computing Stats for ROI: 129
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Computing Stats for ROI: 130
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Stats Computed for ROI: 130
Computing Stats for ROI: 131
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Stats Computed for ROI: 131
Computing Stats for ROI: 132
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Stats Computed for ROI: 132
Computing Stats for ROI: 133
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Stats Computed for ROI: 133
Computing Stats for ROI: 134
Size of map_logp_list (74728,)
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Stats Computed for ROI: 134
Computing Stats for ROI: 135
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Stats Computed for ROI: 135
Computing Stats for ROI: 136
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Stats Computed for ROI: 136
Computing Stats for ROI: 137
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Stats Computed for ROI: 137
Computing Stats for ROI: 138
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Stats Computed for ROI: 138
Computing Stats for ROI: 139
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Stats Computed for ROI: 139
Computing Stats for ROI: 140
Size of map_logp_list (74728,)
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Saving Tvals.nii.gz
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Size of map_logp_list (74728,)
/root/anaconda3/lib/python3.6/site-packages/ipykernel_launcher.py:67: RuntimeWarning: divide by zero encountered in log10
/root/anaconda3/lib/python3.6/site-packages/ipykernel_launcher.py:67: RuntimeWarning: invalid value encountered in multiply
Size of map_logq_list (74728,)
/root/anaconda3/lib/python3.6/site-packages/ipykernel_launcher.py:34: RuntimeWarning: invalid value encountered in greater
/root/anaconda3/lib/python3.6/site-packages/ipykernel_launcher.py:37: RuntimeWarning: invalid value encountered in greater
/root/anaconda3/lib/python3.6/site-packages/ipykernel_launcher.py:40: RuntimeWarning: invalid value encountered in greater
/root/anaconda3/lib/python3.6/site-packages/ipykernel_launcher.py:43: RuntimeWarning: invalid value encountered in greater
/root/anaconda3/lib/python3.6/site-packages/ipykernel_launcher.py:46: RuntimeWarning: invalid value encountered in greater
/root/anaconda3/lib/python3.6/site-packages/ipykernel_launcher.py:49: RuntimeWarning: invalid value encountered in greater
Stats Computed for ROI: 254
Computing Stats for ROI: 255
Size of map_logp_list (74728,)
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Stats Computed for ROI: 273
/root/anaconda3/lib/python3.6/site-packages/ipykernel_launcher.py:80: RuntimeWarning: divide by zero encountered in log10
Saving Qvals.nii.gz
/root/anaconda3/lib/python3.6/site-packages/ipykernel_launcher.py:80: RuntimeWarning: invalid value encountered in multiply
Saving Files in directory: /home1/varunk/results_again_again/fdr_and_results/pearcoff_motionRegress1filt1global0
Saving Stats CSV :
Saving Pvals.nii.gz
Saving C1MinusC2.nii.gz
Saving Tvals.nii.gz
Saving map_logp.nii.gz
Saving Qvals.nii.gz
Saving map_logq.nii.gz
Saving C1MinusC2.nii.gz
Saving map_logp.nii.gz
Saving map_logq.nii.gz
Content source: varun-invent/Autism-Connectome-Analysis
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