In this IPython Notebook I will demonstrate a large number of Python packages which are relevant for research in cognitive neuroscience.
Python variables are somewhere in between dynamically and static typed variables: you don't have to give a type in advance:
a = 2
b = '3'
a, b, type(a), type(b)
(2, '3', int, str)
But there is no implicit typecasting if it would be unclear what is the 'right' conversion. Here the code is ambivalent: do you want to cast a to a string to get '23' or do you want to cast b to an integer and get 5? Python does not know and gives an error...
a+b
--------------------------------------------------------------------------- TypeError Traceback (most recent call last) <ipython-input-22-f1d53b280433> in <module>() ----> 1 a+b TypeError: unsupported operand type(s) for +: 'int' and 'str'
Explicit casting does work
b = int(b)
print b
a + b
3
5
a + b
5
Standard division in Python is integer division: if you divide two integers, you get the floor of the division. E.g. 3/5 = 0, 5/5 = 1, etc.. This can be handy e.g. in subplots where you want to go from an index i to a row number.
# integer division
a / b
0
Modulus operator % gives the rest after division.
for i in np.arange(6):
print 'row: %s, column: %s' % (i/3, i % 3)
row: 0, column: 0 row: 0, column: 1 row: 0, column: 2 row: 1, column: 0 row: 1, column: 1 row: 1, column: 2
If at least one of the variables in the division is a float, you get float division.
b = 5.
a / b
0.4
l = [a, b]
l
[2, 5.0]
d = {'a':a, 'b':b}
print d
{'a': 2, 'b': 5.0}
print d['a']
2
Zip is a very nice function to iterate over lists. In many languages you need a lot of overhead to iterate through a list, e..g. a counter:
list_subjects = [1, 2, 3, 4, 5]
list_rts = [514, 550, 831, 600, 200]
correct = [.8, .7, .65, .4, .9]
for i in range(len(list_subjects)):
print list_subjects[i], list_rts[i], correct[i]
1 514 0.8 2 550 0.7 3 831 0.65 4 600 0.4 5 200 0.9
With zipping you can make a list of lists:
print zip(list_subjects, list_rts)
print zip(list_subjects, list_rts, correct)
[(1, 514), (2, 550), (3, 831), (4, 600), (5, 200)] [(1, 514, 0.8), (2, 550, 0.7), (3, 831, 0.65), (4, 600, 0.4), (5, 200, 0.9)]
for subj, rt, c in zip(list_subjects, list_rts, correct):
print subj, rt, c
1 514 0.8 2 550 0.7 3 831 0.65 4 600 0.4 5 200 0.9
Numpy and maplotlib are two very important workhorses in scientific computing with Python. You could describe them as the 'Matlab in Python'.
Here we make a Numpy array, very comparable to arrays in Matlab. It's made up of lists. The shape-property of a numpy array shows you its size
X = [[1, 0, 0], [0,1,0], [0,1,1]]
X = np.array(X)
print X
print X.shape
[[1 0 0] [0 1 0] [0 1 1]] (3, 3)
With matplotlib we can plot the resulting array as an image
plt.imshow(X.T, interpolation='nearest')
<matplotlib.image.AxesImage at 0x75681d0>
Let's set up a General Linear Model using Matrix Algebra:
$y = \beta_1 x_1 + \beta_2 x_2$
$Y = X\beta + \eta$
$$\begin{bmatrix} 0.3\\ 0.4\\ 1.2\\ \end{bmatrix} = \begin{bmatrix} 1 & 0\\ 0 & 1\\ 1 & 1\\ \end{bmatrix} \begin{bmatrix} \beta_1 \beta_2 \end{bmatrix} $$Y = np.array([[0.3, 0.4, 0.7]]).T
print Y
X = np.array([[1, 0],
[0, 1],
[1, 1]])
print X
[[ 0.3] [ 0.4] [ 0.7]] [[1 0] [0 1] [1 1]]
This can be solved using $\hat{\beta} = (X^T X)^{-1}X^TY$
beta = np.linalg.pinv(X.T.dot(X)).dot(X.T).dot(Y)
beta
array([[ 0.3], [ 0.4]])
Now let's set up an ANOVA-like GLM, where two variables do either occur or do not occur at random. We have a design matrix $X$ of size $\text{n_observations} \times \text{n_variables}$
X = np.array([np.random.random(15) < .5, np.random.random(15) < .5]).T.astype(int)
X
array([[1, 1], [0, 0], [1, 0], [1, 0], [1, 0], [1, 0], [1, 0], [1, 0], [1, 1], [0, 0], [1, 0], [0, 0], [1, 1], [0, 1], [1, 1]])
Now set up the laten variables, we draw them from a standard normal distribution and make the mean of the first variable 1, that of the second variable 3
Y = np.random.randn(15, 2)
Y[:, 0] += 1
Y[:, 1] += 3
Y
array([[ 0.13690094, 3.15445424], [-1.23456025, 2.16547678], [ 3.95299347, 3.28154208], [-0.29761438, 1.70945387], [-0.30799664, 1.92316424], [ 0.46978728, 3.53511541], [ 1.44381006, 4.20100229], [ 1.70937268, 5.04859716], [ 1.37540351, 4.02951691], [ 2.46133296, 1.58895603], [ 0.48321896, 3.95785619], [ 0.78920216, 2.25337544], [ 0.6497828 , 2.82203775], [-0.11051303, 4.45488919], [ 1.3138075 , 2.16161622]])
Now we multiply the latent variables with the design matrix, and sum over the columns so we get a 1D observation vector
Y = np.sum(X * Y, 1)
beta = np.linalg.pinv(X.T.dot(X)).dot(X.T).dot(Y)
beta
array([ 0.89979026, 3.2998496 ])
The original parameters $\beta_1 = 1$ and $\beta_2$ = 3 are reconstructed with some precision...
Let's see what happens if we simulate data a 1000 times, so we get an idea of the sampling distribution of this 'experiment'. We add the found parameters to a list params. Note that the second parameter is very unlikely to occur (only 10% of observations).
params = []
for i in np.arange(1000):
Y = np.random.randn(15, 2)
Y[:, 0] += 1
Y[:, 1] += 3
X = np.array([np.random.random(15) < .5, np.random.random(15) < .1]).T.astype(int)
Y = np.sum(X * Y, 1)
beta = np.linalg.pinv(X.T.dot(X)).dot(X.T).dot(Y)
params.append(beta)
# cast list of numpy arrays to a 2D numpy array
params = np.array(params)
plt.hist(params, bins=15, label=['a', 'b'])
plt.legend()
plt.axvline(1, color='k', lw=2)
plt.axvline(3, c='k', lw=2)
<matplotlib.lines.Line2D at 0x79257d0>
The sampling distribution of variable b is much wider, because it occurs so rarely. Sometimes its even estimated zero, because it did not occur at all...
Now let's have a look at SciPy, a very powerful extension of numpy, containg state-of-the-art numerical algorithms.
A very nice one is the 'optimize'-module, which includes many standard optimizing algorithms
from scipy import optimize
It is also a nice illustration of Python being a functional programming language: we can actually feed functions as objects to other functions. In the case of optimization this is really elegant: we can write a function to be optimized, and feed that to the optimizer. Here we have a function that returns the sum of squared errors of the variable $X$, fitted with $\beta$, where param1 is $\beta_1$ and param2 is $\beta_2$
def obj_func(param1, param2):
params = np.array([param1, param2])
return np.sum((Y - X.dot(np.array(params)))**2)
#Recall that param1 should be 1 and param 2 should be 3.
print obj_func(3, 3)
print obj_func(3, 10)
print obj_func(1, 3)
20.0883304674 100.676566839 5.43508779288
Now let's first do a grid search: we just try out lots of different parameter values and see what the objective function returns
# Create simulated ata
X = np.array([np.random.random(15) < .5, np.random.random(15) < .5]).T.astype(int)
Y = np.random.randn(15, 2)
Y[:, 0] += 5
Y[:, 1] -= 2
Y = np.sum(X * Y, 1)
# Find OLS solution
beta = np.linalg.pinv(X.T.dot(X)).dot(X.T).dot(Y)
print beta
# Vectorize is a way of applying a function (in this case obj_func),
# to every element in a matrix
obj_func_vec = np.vectorize(obj_func)
# Set up the grid
x_lim = (-25, 25)
y_lim = (-25, 25)
# very IMPORTANT function. Can you see what it does?
x, y = np.meshgrid(np.arange(*x_lim), np.arange(*y_lim))
print x
print y
# Plot the result of the grid search
plt.figure(figsize=(12, 9))
plt.imshow(obj_func_vec(x, y), extent=(x_lim + y_lim), cmap=plt.cm.jet_r, origin='lower')
plt.grid(color='k')
plt.colorbar()
plt.xlabel('\beta_1')
# Put a point on the OLS-solution
plt.scatter(beta[0], beta[1], color='white')
[ 4.33100319 -3.02599482] [[-25 -24 -23 ..., 22 23 24] [-25 -24 -23 ..., 22 23 24] [-25 -24 -23 ..., 22 23 24] ..., [-25 -24 -23 ..., 22 23 24] [-25 -24 -23 ..., 22 23 24] [-25 -24 -23 ..., 22 23 24]] [[-25 -25 -25 ..., -25 -25 -25] [-24 -24 -24 ..., -24 -24 -24] [-23 -23 -23 ..., -23 -23 -23] ..., [ 22 22 22 ..., 22 22 22] [ 23 23 23 ..., 23 23 23] [ 24 24 24 ..., 24 24 24]]
<matplotlib.collections.PathCollection at 0x7cde0d0>
As the OLS solution showed, the lowest values of the objective function are around the real values, $\beta_1 = 5$ and $\beta_2 = -2$.
import scipy as sp
from scipy import optimize
Here we use a naive optimization algorithm, Nelder-Mead or Simplex. Note that many alternatives are available out-of-the-box.
result = sp.optimize.minimize(lambda x: obj_func(*x), [0, 0], method='Nelder-Mead')
result
status: 0 nfev: 151 success: True fun: 18.217758186100077 x: array([ 4.33100973, -3.02601255]) message: 'Optimization terminated successfully.' nit: 77
(The found parameters, 5.18 and -1.33 are very close to the real values, 5 and -2). Simplex found these in 75 iterations.
print 'param 1: %.2f' % (result.x[0]) # %.2f: Make a string of the variable x[0] with 2-point precision
print 'param 2: %.2f' % (result.x[1])
print 'in %d iterations' % (result.nit) # %d: Make an integer-like string of result.nit
param 1: 4.33 param 2: -3.03 in 77 iterations
In analyzing real data one rarely wants to set up a design matrix using the plain linear algebra yourself. You want something like the R lm- and formula-functionality. Python can do this (almost) as well. For this one can use the statsmodels-library:
import statsmodels.api as sm
This library can do a lot of the linear modeling one would usually do in R. It comes from econometrics and has a lot of models that are robust against autocorrelationa and heteroskedasticity. Unfortunately, support for hiearchial modeling is not that good yet (but we'll see a solution for that soon...)
So, let's fit the design matrix we just had:
model = sm.OLS(Y, X)
fit = model.fit()
fit.summary()
/usr/local/lib/python2.7/dist-packages/scipy/stats/stats.py:1293: UserWarning: kurtosistest only valid for n>=20 ... continuing anyway, n=15 int(n))
Dep. Variable: | y | R-squared: | 0.781 |
---|---|---|---|
Model: | OLS | Adj. R-squared: | 0.765 |
Method: | Least Squares | F-statistic: | 46.48 |
Date: | Mon, 03 Mar 2014 | Prob (F-statistic): | 1.23e-05 |
Time: | 17:38:04 | Log-Likelihood: | -22.742 |
No. Observations: | 15 | AIC: | 49.48 |
Df Residuals: | 13 | BIC: | 50.90 |
Df Model: | 1 |
coef | std err | t | P>|t| | [95.0% Conf. Int.] | |
---|---|---|---|---|---|
x1 | 4.3310 | 0.492 | 8.811 | 0.000 | 3.269 5.393 |
x2 | -3.0260 | 0.659 | -4.588 | 0.001 | -4.451 -1.601 |
Omnibus: | 2.594 | Durbin-Watson: | 1.223 |
---|---|---|---|
Prob(Omnibus): | 0.273 | Jarque-Bera (JB): | 0.894 |
Skew: | -0.541 | Prob(JB): | 0.640 |
Kurtosis: | 3.510 | Cond. No. | 2.13 |
In real scenario's you usually a dataset in a csv-like format. You could use Python to do the parsing of this yourself:
f = open('behavior_jasper.csv')
for line in f.readlines()[:10]: # Show first 10 lines of the file
print line
"id","trnr","stim","resp","resp2","resp3","resp4","RT","RT1","RT2","RT3","RT4","correct","movement","cue","jittertime1","jittertime2","cueonset","stimonset","subj","day","event","blockid","drug","prevcorr","NA","formercorrect" "1",1,1,1,0,0,0,489.3,489.299999999999,0,0,0,1,-1,"SN",0,1500,10217.7,16468.7,"01","1",14,"S01D1B1",0,0,1,NA "2",2,1,1,0,0,0,306.1,306.100000000002,0,0,0,1,-1,"SN",0,1500,20227.2,26478.2,"01","1",1,"S01D1B1",0,0,2,1 "3",3,1,1,0,0,0,360.2,360.200000000004,0,0,0,1,-1,"SN",1000,500,31223.1,36474.4,"01","1",1,"S01D1B1",0,0,3,1 "4",4,1,1,0,0,0,563.4,563.399999999994,0,0,0,1,-1,"AC",1500,0,41725.8,46470.6,"01","1",7,"S01D1B1",0,0,4,1 "5",5,1,1,0,0,0,395.6,395.599999999999,0,0,0,1,-1,"SN",500,1000,50722.4,56480.2,"01","1",3,"S01D1B1",0,0,5,1 "6",6,2,2,0,0,0,470.2,470.199999999997,0,0,0,1,1,"AC",1500,0,61718.2,66476.4,"01","1",7,"S01D1B1",0,0,6,1 "7",7,2,2,0,0,0,509,509,0,0,0,1,1,"AC",500,1000,70728.1,76472.6,"01","1",9,"S01D1B1",0,0,7,1 "8",8,1,1,0,0,0,549.4,549.400000000009,0,0,0,1,-1,"AC",1500,0,81724,86468.8,"01","1",9,"S01D1B1",0,0,8,1 "9",9,1,1,0,0,0,380,380,0,0,0,1,-1,"SN",500,1000,90720.6,96478.4,"01","1",3,"S01D1B1",0,0,9,1
You would probably use something like the split()-attribute of string objects
'Ik,ben,Gilles'.split(',')
['Ik', 'ben', 'Gilles']
f = open('/home/gdholla1/notebooks_demo/behavior_jasper.csv')
d = {}
keys = f.readline()
for line in f.readlines():
line = line.split(',')
#print line[6]
print keys
"id","trnr","stim","resp","resp2","resp3","resp4","RT","RT1","RT2","RT3","RT4","correct","movement","cue","jittertime1","jittertime2","cueonset","stimonset","subj","day","event","blockid","drug","prevcorr","NA","formercorrect"
But let me tell you: if you find yourself writing this kind of 'boiler plate code', you're doing something wrong: someone already wrote this, and probably did a better job than you can do. Especially as he usually did it in the whole open source-github-model, making rigorous testing and code reviewing possible.
Pandas is an excellent choice as a library to read and prepare data for analysis. It implements a DataFrame-object, which is very similar to the dataframe-object in R.
import pandas
# Read in a csv
data = pandas.read_csv('/home/gdholla1/notebooks_demo/behavior_jasper.csv')
data
<class 'pandas.core.frame.DataFrame'> Int64Index: 8399 entries, 0 to 8398 Data columns (total 27 columns): id 8399 non-null values trnr 8399 non-null values stim 8399 non-null values resp 8399 non-null values resp2 8399 non-null values resp3 8399 non-null values resp4 8399 non-null values RT 8399 non-null values RT1 8399 non-null values RT2 8399 non-null values RT3 8399 non-null values RT4 8399 non-null values correct 8399 non-null values movement 8393 non-null values cue 8399 non-null values jittertime1 8399 non-null values jittertime2 8399 non-null values cueonset 8020 non-null values stimonset 8000 non-null values subj 8399 non-null values day 8399 non-null values event 8006 non-null values blockid 8399 non-null values drug 8399 non-null values prevcorr 8399 non-null values NA 8399 non-null values formercorrect 8319 non-null values dtypes: float64(8), int64(17), object(2)
data.subj.unique()
array([ 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20])
###Groupby()
A very handy function of the DataFrame-class is groupby(): it fits very well in the split-apply-combine (see everywehere) line of thought. Here we get the mean RT of every individual subject, in one line of code:
data.groupby('subj').mean()['RT']
subj 1 424.617143 2 395.185476 3 437.465952 4 418.970238 5 442.447143 6 533.706190 7 609.438663 8 435.460000 9 548.614286 10 349.241429 11 466.269048 12 427.157381 13 376.915238 14 450.543333 15 512.585952 16 584.598571 17 406.131667 18 577.838095 19 385.023571 20 444.374762 Name: RT, dtype: float64
And we plot a histogram of the per-subject-mean-RTs...
data.groupby('subj').mean()['RT'].hist()
<matplotlib.axes.AxesSubplot at 0x830ca10>
data.groupby(['drug', 'correct']).mean().RT
drug correct 0 0 466.732226 1 498.216629 99 0.000000 1 0 442.085297 1 488.707662 99 0.000000 Name: RT, dtype: float64
Here we see the functional programming again: we can create a very simple standard-error function using the `lambda'-operator:
se = lambda x: np.std(x) / np.sqrt(len(x)) # Take the standard deviation of the dataframe and divide it
# by the squareroot of the number of elements in the dataframe
Now apply this to every group in the groupby-object.
data.groupby(['drug', 'correct']).RT.agg({'m':np.mean, 'se':se})
m | se | ||
---|---|---|---|
drug | correct | ||
0 | 0 | 466.732226 | 9.590618 |
1 | 498.216629 | 3.591182 | |
99 | 0.000000 | 0.000000 | |
1 | 0 | 442.085297 | 8.577553 |
1 | 488.707662 | 3.440124 | |
99 | 0.000000 | 0.000000 |
The 'groupby' function actually return an object (of the class DataFrameGroupBy) with some very nice properties.
data.groupby('subj')
<pandas.core.groupby.DataFrameGroupBy object at 0x8519a90>
For example, we can iterate through it, at every iteration we then have a grouping key/label (g) of this group, as well as a dataframe of all rows belonging to this grouping.
for g, d in data.groupby('subj'):
print g, d.RT.mean()
1 424.617142857 2 395.18547619 3 437.465952381 4 418.970238095 5 442.447142857 6 533.706190476 7 609.438663484 8 435.46 9 548.614285714 10 349.241428571 11 466.269047619 12 427.157380952 13 376.915238095 14 450.543333333 15 512.585952381 16 584.598571429 17 406.131666667 18 577.838095238 19 385.023571429 20 444.374761905
Using groupby, it's really easy to plot RT distributions for every single subject
plt.figure(figsize=(16, 20))
for g, d in data.groupby('subj'): # Iterate over all groupings, g contains the group label, d the dataframe.
plt.subplot(5,4,g) # Make a subplot of 5 rows and 4 columns, and plot the next thing in plot number g
plt.hist(d.RT) # Plot histogram of RTs
plt.xlim(0, 2000) # limit x-axis from 0 to 2000 miliseconds
We can also combine groupby's. For example, in this dataset, we have a 'speed' and 'accurate'-condition. Let's group the first grouping again on this 'cue'-variable within the same plot:
plt.figure(figsize=(20, 35))
for g, d in data.groupby('subj'): # First group on subject...
plt.subplot(7,3,g)
for drug, d2 in d.groupby('cue'): # Then on cue...
plt.hist(d2.RT, label=str(drug), bins=np.arange(0, 2000, 50), alpha=0.6) # All these histogram are all in the same subplot
# The alpha-parameter makes the histograms
# slightly transparent
plt.xlim(0, 2000)
plt.title('Subjec %s' % g)
plt.legend()
plt.savefig('RT_histograms.pdf')
# If we want to do traditional psychology-like ANOVA's, we often want to average
# over all subject-condition combinations. Here we create a new dataframe 'd',
# that contains such a dataset
d = data.groupby(['subj', 'cue', 'day'], as_index=False).mean()
d[['subj', 'RT', 'correct', 'day', 'cue']].head(25) # Here we say that we only want to see a limited
# number of columns, namely subj, RT, correct, day
# and cue.
subj | RT | correct | day | cue | |
---|---|---|---|---|---|
0 | 1 | 553.242 | 0.85 | 1 | AC |
1 | 1 | 488.837 | 0.73 | 2 | AC |
2 | 1 | 382.056 | 0.88 | 1 | SN |
3 | 1 | 359.257 | 0.82 | 2 | SN |
4 | 1 | 0.000 | 99.00 | 1 | null |
5 | 1 | 0.000 | 99.00 | 2 | null |
6 | 2 | 511.382 | 0.41 | 1 | AC |
7 | 2 | 490.547 | 0.47 | 2 | AC |
8 | 2 | 334.079 | 0.54 | 1 | SN |
9 | 2 | 323.771 | 0.44 | 2 | SN |
10 | 2 | 0.000 | 99.00 | 1 | null |
11 | 2 | 0.000 | 99.00 | 2 | null |
12 | 3 | 612.855 | 0.85 | 1 | AC |
13 | 3 | 521.103 | 0.78 | 2 | AC |
14 | 3 | 371.893 | 0.72 | 1 | SN |
15 | 3 | 331.506 | 0.58 | 2 | SN |
16 | 3 | 0.000 | 99.00 | 1 | null |
17 | 3 | 0.000 | 99.00 | 2 | null |
18 | 4 | 467.012 | 0.96 | 1 | AC |
19 | 4 | 525.962 | 0.94 | 2 | AC |
20 | 4 | 377.138 | 0.87 | 1 | SN |
21 | 4 | 389.563 | 0.86 | 2 | SN |
22 | 4 | 0.000 | 99.00 | 1 | null |
23 | 4 | 0.000 | 99.00 | 2 | null |
24 | 5 | 549.325 | 0.97 | 1 | AC |
# Now we can have statistics on these averaged-over data
d.groupby(['cue', 'drug']).agg([np.mean, lambda x: x.std() / np.sqrt(len(x))]).RT
mean | <lambda> | ||
---|---|---|---|
cue | drug | ||
AC | 0 | 561.68780 | 28.496958 |
1 | 556.17440 | 22.868897 | |
SN | 0 | 420.53025 | 19.540533 |
1 | 398.88550 | 12.372063 | |
null | 0 | 0.00000 | 0.000000 |
1 | 0.00000 | 0.000000 |
Statsmodels has very nice 'formula'-api, where we can set up GLMs using to easy-to-read formula's, as in R:
import statsmodels.formula.api as smf
model = smf.ols('RT ~ subj + C(cue)*C(drug)', d[d.cue != 'null'])
r = model.fit()
r.summary()
Dep. Variable: | RT | R-squared: | 0.083 |
---|---|---|---|
Model: | OLS | Adj. R-squared: | 0.076 |
Method: | Least Squares | F-statistic: | 11.95 |
Date: | Mon, 03 Mar 2014 | Prob (F-statistic): | 1.66e-07 |
Time: | 17:48:23 | Log-Likelihood: | -2566.4 |
No. Observations: | 400 | AIC: | 5141. |
Df Residuals: | 396 | BIC: | 5157. |
Df Model: | 3 |
coef | std err | t | P>|t| | [95.0% Conf. Int.] | |
---|---|---|---|---|---|
Intercept | 1.2334 | 0.037 | 33.259 | 0.000 | 1.160 1.306 |
C(cue)[T.SN] | -99.5550 | 21.031 | -4.734 | 0.000 | -140.901 -58.209 |
C(drug)[T.1] | 16.9590 | 21.031 | 0.806 | 0.420 | -24.387 58.305 |
C(cue)[T.SN]:C(drug)[T.1] | 53.2100 | 29.742 | 1.789 | 0.074 | -5.262 111.682 |
subj | 24.6678 | 0.742 | 33.259 | 0.000 | 23.210 26.126 |
Omnibus: | 122.776 | Durbin-Watson: | 2.094 |
---|---|---|---|
Prob(Omnibus): | 0.000 | Jarque-Bera (JB): | 792.509 |
Skew: | 1.136 | Prob(JB): | 8.11e-173 |
Kurtosis: | 9.511 | Cond. No. | nan |
Using anova_lm, we can transform the GLM/OLS-interpretation to a (more familiar) ANOVA-table:
from statsmodels.stats.anova import anova_lm
anova_lm(r)
df | sum_sq | mean_sq | F | PR(>F) | |
---|---|---|---|---|---|
C(cue) | 1 | 532170.250000 | 532170.250000 | 24.064494 | 0.000001 |
C(drug) | 1 | 189782.209600 | 189782.209600 | 8.581864 | 0.003592 |
C(cue):C(drug) | 1 | 70782.602500 | 70782.602500 | 3.200757 | 0.074368 |
subj | 1 | 9922.212445 | 9922.212445 | 0.448678 | 0.503354 |
Residual | 396 | 8757276.201000 | 22114.333841 | NaN | NaN |
### Integration with R
Still, to be honest, the statistical libraries of R, especially in the domains of clustering and random mixed effects models, are still better than in Python. Still, getting data from one environment to the other and back can be a bit of a hassle. No worries: the rmagic plugin of IPython does a great job in running R wihtin your IPython notebook.
%load_ext rmagic
Let's fit a linear mixed effects models with levels for subjects and days. First we remove the trials with a null 'cue':
d = data[data.cue != 'null']
Note that we can easily insert the Python DataFrame-variable d into R using the %%R -i INPUT_VARIABLE and export some stuff again using the %%R -o OUTPUT_VARIABLE trick:
%%R -i d -o model
library(lmerTest)
model = lmer('RT ~ cue*drug + (1|subj) + (1|day)', d)
print(summary(model))
print('*************')
print(anova(model))
library(languageR)
#plotLMER.fnc(model)
plotLMER.fnc(model)
Linear mixed model fit by REML ['merModLmerTest'] Formula: RT ~ cue * drug + (1 | subj) + (1 | day) Data: d REML criterion at convergence: 106688.3 Random effects: Groups Name Variance Std.Dev. subj (Intercept) 6005 77.49 day (Intercept) 0 0.00 Residual 35991 189.71 Number of obs: 8000, groups: subj, 20; day, 2 Fixed effects: Estimate Std. Error df t value Pr(>|t|) (Intercept) 561.688 17.839 21.000 31.487 <2e-16 *** cueSN -141.158 5.999 7977.000 -23.529 <2e-16 *** drug -5.513 5.999 7977.000 -0.919 0.3581 cueSN:drug -16.131 8.484 7977.000 -1.901 0.0573 . --- Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1 Correlation of Fixed Effects: (Intr) cueSN drug cueSN -0.168 drug -0.168 0.500 cueSN:drug 0.119 -0.707 -0.707 [1] "*************" Analysis of Variance Table of type 3 with Satterthwaite approximation for degrees of freedom Sum Sq Mean Sq NumDF DenDF F.value Pr(>F) cue 44535142 44535142 1 7977 553.63 < 2.2e-16 *** drug 368783 368783 1 7977 10.25 0.001375 ** cue:drug 130110 130110 1 7977 3.62 0.057293 . --- Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1 effect size (range) for cue is 141.1576 effect size (range) for drug is 5.5134
One very nice Python library for cognitive neuroscientists is the Hiearchial Drift Diffusion Model of Thomas Wiecki and Imre Sofer. It fits the Drift Diffusion Model in a Bayesian framework, using Markov Chain Monte Carlo-sampling, as implemented by the also-really-great-library pymc.
We can fit our data in only a few lines of code:
import hddm
Note that you can get documentation of a library/function/object using a question mark:
hddm.HDDM?
# Set up some extra variables
data['rt'] = data.RT / 1000. # RTs in miliseconds
data['response'] = data.correct # We model responses as correct vs incorrect
data['subj_idx'] = data['subj'] # For hiearchial modeling the subjects have to be indicated with a subj_idx-column
d = data[(data.resp != 0) & (data.resp != 99)].copy() # Remove null-events and misses
Let's try out a model where the threshold depends on which cue the subject got and the drift rate can differ over different sessions (first versus second session...)
model = hddm.HDDM(d[['rt', 'subj_idx', 'response', 'cue', 'day']], depends_on={'a':'cue', 'v':'day'}, include=('p_outlier'))
model.sample(1000, 20)
[-----------------100%-----------------] 1000 of 1000 complete in 221.0 sec
<pymc.MCMC.MCMC at 0x10ee2410>
Now we can show some basic stats, plot posteriors to chec for convergence, etc:
model.print_stats()
mean std 2.5q 25q 50q 75q 97.5q mc err a(AC) 1.463675 0.077425 1.339998 1.413952 1.458223 1.501251 1.651733 0.005227 a(SN) 0.947748 0.072160 0.842701 0.904862 0.937567 0.980855 1.113020 0.005039 a_std 0.263406 0.073476 0.195297 0.227958 0.249199 0.275773 0.483889 0.006813 a_subj(AC).1 1.994009 0.168938 1.760144 1.894681 1.972304 2.061612 2.353467 0.014013 a_subj(AC).2 1.211353 0.034994 1.149247 1.186546 1.210194 1.236210 1.284121 0.001308 a_subj(AC).3 1.412392 0.050743 1.313467 1.376233 1.412840 1.448187 1.515622 0.001921 a_subj(AC).4 1.446388 0.061193 1.328372 1.405283 1.444160 1.488635 1.568823 0.002801 a_subj(AC).5 1.834938 0.441802 1.607680 1.700015 1.751451 1.806938 3.718390 0.045056 a_subj(AC).6 1.527825 0.054995 1.423842 1.488719 1.524494 1.566683 1.642083 0.001997 a_subj(AC).7 1.715825 0.053029 1.608993 1.682150 1.717570 1.751977 1.814966 0.001791 a_subj(AC).8 1.672402 0.073494 1.536535 1.624128 1.672269 1.723643 1.812753 0.003889 a_subj(AC).9 1.777783 0.061424 1.655669 1.734781 1.778510 1.822878 1.896954 0.002224 a_subj(AC).10 1.066542 0.232128 0.930838 0.985618 1.015337 1.052520 2.097272 0.023698 a_subj(AC).11 1.424235 0.045006 1.341975 1.391336 1.422399 1.457579 1.510049 0.001557 a_subj(AC).12 1.648754 0.296319 1.473685 1.558639 1.604593 1.649093 3.001803 0.030020 a_subj(AC).13 1.020951 0.032094 0.957238 1.000315 1.020469 1.041186 1.084331 0.001102 a_subj(AC).14 1.176035 0.037139 1.106591 1.149601 1.174742 1.203191 1.249022 0.001305 a_subj(AC).15 2.024677 0.092389 1.854176 1.962860 2.022468 2.087399 2.226256 0.004681 a_subj(AC).16 1.382529 0.049836 1.281250 1.349247 1.381970 1.415308 1.483671 0.001872 a_subj(AC).17 1.135750 0.043870 1.057191 1.104089 1.136151 1.163248 1.226909 0.001711 a_subj(AC).18 1.719998 0.058868 1.603240 1.681157 1.719370 1.759297 1.837382 0.002480 a_subj(AC).19 1.118235 0.043427 1.037311 1.091107 1.114866 1.146646 1.209332 0.002153 a_subj(AC).20 1.456656 0.075539 1.321757 1.403450 1.451706 1.503893 1.622788 0.004725 a_subj(SN).1 0.808141 0.047368 0.732026 0.778084 0.803931 0.832635 0.907761 0.003121 a_subj(SN).2 0.740186 0.024007 0.694647 0.724350 0.738706 0.755647 0.790493 0.001134 a_subj(SN).3 0.750961 0.026365 0.701369 0.732738 0.751085 0.768030 0.804197 0.001288 a_subj(SN).4 0.815342 0.033238 0.753557 0.792089 0.814606 0.838713 0.876802 0.001728 a_subj(SN).5 0.992253 0.339406 0.855282 0.901876 0.928628 0.956385 2.470501 0.035029 a_subj(SN).6 0.945481 0.031728 0.887602 0.924079 0.944643 0.966488 1.010432 0.001307 a_subj(SN).7 1.212280 0.037989 1.138787 1.186440 1.213327 1.238712 1.283199 0.001555 a_subj(SN).8 0.754748 0.025344 0.709914 0.737195 0.753541 0.770882 0.804546 0.001038 a_subj(SN).9 0.959737 0.031234 0.901623 0.939174 0.958364 0.980815 1.022157 0.001442 a_subj(SN).10 0.905864 0.215236 0.778363 0.833113 0.860566 0.892471 1.872019 0.022031 a_subj(SN).11 0.750864 0.026466 0.700679 0.732439 0.748804 0.768758 0.804120 0.001306 a_subj(SN).12 0.976545 0.223242 0.880004 0.915999 0.940152 0.963757 1.980672 0.022835 a_subj(SN).13 0.883309 0.029405 0.829996 0.863299 0.881837 0.901539 0.948233 0.001242 a_subj(SN).14 0.900580 0.030431 0.845246 0.879060 0.900113 0.921373 0.960084 0.001350 a_subj(SN).15 0.771097 0.029933 0.718279 0.749553 0.770854 0.789449 0.834980 0.001339 a_subj(SN).16 1.171650 0.040283 1.097070 1.143970 1.170431 1.198708 1.254567 0.001789 a_subj(SN).17 0.805598 0.034908 0.741697 0.781147 0.804175 0.827507 0.879179 0.002014 a_subj(SN).18 1.107053 0.036847 1.038261 1.080884 1.106275 1.131478 1.179768 0.001712 a_subj(SN).19 0.847983 0.036043 0.782036 0.822863 0.846012 0.871522 0.923186 0.001825 a_subj(SN).20 0.949983 0.050376 0.862748 0.914477 0.945636 0.980855 1.058617 0.003320 v(1) 1.806330 0.272549 1.303230 1.625199 1.798791 1.977760 2.358636 0.010485 v(2) 1.610263 0.284228 1.086057 1.422166 1.595899 1.786295 2.231234 0.012380 v_std 1.190262 0.210165 0.921162 1.060066 1.149684 1.268614 1.775905 0.016348 v_subj(1).1 2.765472 0.271765 2.297778 2.592676 2.744274 2.905645 3.274687 0.020058 v_subj(1).2 -0.095202 0.153541 -0.400847 -0.195830 -0.095392 0.000771 0.204325 0.004990 v_subj(1).3 1.248227 0.147489 0.964059 1.145837 1.247517 1.354058 1.521810 0.004898 v_subj(1).4 3.068625 0.208558 2.637131 2.932705 3.060667 3.221674 3.479382 0.009585 v_subj(1).5 2.587316 0.609315 2.127705 2.357664 2.476594 2.603347 5.334478 0.060838 v_subj(1).6 1.307968 0.143521 1.029825 1.205817 1.314188 1.411205 1.583063 0.005207 v_subj(1).7 -0.036447 0.096151 -0.226175 -0.101412 -0.030596 0.027753 0.151806 0.003242 v_subj(1).8 2.230392 0.174022 1.893507 2.114408 2.226958 2.341649 2.577380 0.007765 v_subj(1).9 0.573117 0.108341 0.366484 0.500267 0.573308 0.652115 0.783110 0.003882 v_subj(1).10 3.851311 0.570754 3.291743 3.585972 3.741271 3.923708 6.189390 0.054915 v_subj(1).11 0.843076 0.126353 0.594319 0.760946 0.848113 0.931066 1.088890 0.003835 v_subj(1).12 2.264837 0.441672 1.879092 2.080445 2.195397 2.321148 4.287334 0.042589 v_subj(1).13 0.220017 0.147810 -0.054477 0.127604 0.213033 0.317841 0.529931 0.004811 v_subj(1).14 1.166737 0.159107 0.856253 1.059974 1.171513 1.271863 1.485750 0.005855 v_subj(1).15 2.988814 0.182953 2.645796 2.860447 2.983818 3.114185 3.359821 0.008800 v_subj(1).16 1.302350 0.129645 1.038658 1.214928 1.304691 1.382603 1.564615 0.005003 v_subj(1).17 2.348589 0.194195 1.969944 2.219121 2.341064 2.475918 2.745961 0.006200 v_subj(1).18 1.148917 0.124792 0.911924 1.067964 1.139330 1.233830 1.402614 0.004536 v_subj(1).19 2.978042 0.210027 2.544833 2.840526 2.987470 3.123830 3.369391 0.008560 v_subj(1).20 3.056704 0.230889 2.606082 2.898574 3.048550 3.208592 3.527064 0.011127 v_subj(2).1 2.763453 0.328124 2.267005 2.556600 2.728920 2.928726 3.486977 0.025564 v_subj(2).2 -0.136849 0.147012 -0.438952 -0.234061 -0.135150 -0.034025 0.147735 0.004887 v_subj(2).3 1.167631 0.157340 0.861351 1.061099 1.164332 1.265655 1.486939 0.006437 v_subj(2).4 2.457412 0.191531 2.066620 2.315692 2.468671 2.583196 2.833930 0.007433 v_subj(2).5 2.900152 0.651827 2.418691 2.645358 2.787679 2.920662 5.784336 0.064853 v_subj(2).6 1.298229 0.118369 1.065487 1.217369 1.300176 1.380751 1.525682 0.003905 v_subj(2).7 -0.056072 0.108432 -0.271093 -0.127178 -0.055098 0.016340 0.151681 0.003786 v_subj(2).8 2.210578 0.174702 1.879052 2.094989 2.208694 2.326719 2.558938 0.007837 v_subj(2).9 0.601789 0.113290 0.377548 0.524422 0.600700 0.678088 0.817635 0.003632 v_subj(2).10 4.023343 0.708608 3.358051 3.712290 3.888125 4.080516 6.963064 0.069079 v_subj(2).11 0.612790 0.150734 0.341421 0.500934 0.616212 0.719122 0.910660 0.004984 v_subj(2).12 2.735828 0.510868 2.301992 2.523191 2.666135 2.783133 5.185865 0.050186 v_subj(2).13 0.358551 0.161650 0.036945 0.251750 0.355812 0.461888 0.679638 0.005243 v_subj(2).14 0.659922 0.142605 0.387744 0.560090 0.664367 0.756284 0.930886 0.004707 v_subj(2).15 2.009412 0.156588 1.695465 1.904082 2.004381 2.114354 2.318553 0.006331 v_subj(2).16 0.959517 0.127753 0.709275 0.870224 0.954486 1.042783 1.209519 0.004339 v_subj(2).17 1.890387 0.169918 1.557287 1.773781 1.891568 2.013283 2.222556 0.006479 v_subj(2).18 1.000125 0.109785 0.781323 0.923528 1.003185 1.077723 1.202660 0.003815 v_subj(2).19 2.268007 0.176778 1.921648 2.150749 2.275983 2.393385 2.599028 0.006741 v_subj(2).20 2.261345 0.177685 1.908375 2.145089 2.259054 2.382962 2.610736 0.007505 t 0.240808 0.009497 0.221680 0.234661 0.240512 0.247337 0.259937 0.000359 t_std 0.040044 0.007303 0.028361 0.034916 0.039190 0.044387 0.057002 0.000289 t_subj.1 0.271061 0.004233 0.260984 0.269753 0.272025 0.273815 0.276128 0.000249 t_subj.2 0.192391 0.002675 0.187583 0.190516 0.192136 0.193984 0.198228 0.000131 t_subj.3 0.225428 0.003315 0.217998 0.223947 0.225880 0.227517 0.231343 0.000162 t_subj.4 0.265190 0.002428 0.259493 0.263784 0.265458 0.266901 0.269199 0.000138 t_subj.5 0.243259 0.014049 0.184591 0.244067 0.245824 0.247568 0.250575 0.001436 t_subj.6 0.272572 0.003075 0.265986 0.270789 0.272762 0.274690 0.277926 0.000137 t_subj.7 0.178758 0.005335 0.167849 0.175211 0.179254 0.182481 0.188522 0.000202 t_subj.8 0.247189 0.001817 0.243439 0.246010 0.247241 0.248439 0.250638 0.000086 t_subj.9 0.170972 0.003927 0.162142 0.168729 0.171343 0.173546 0.178183 0.000156 t_subj.10 0.255891 0.008719 0.218606 0.256126 0.257774 0.259135 0.262009 0.000881 t_subj.11 0.216166 0.003259 0.209426 0.214808 0.216415 0.217970 0.221973 0.000172 t_subj.12 0.232627 0.009264 0.193638 0.232174 0.233936 0.235630 0.240821 0.000913 t_subj.13 0.188558 0.003480 0.181853 0.185868 0.188815 0.191243 0.194636 0.000153 t_subj.14 0.233505 0.002563 0.228331 0.231711 0.233678 0.235312 0.238370 0.000116 t_subj.15 0.284809 0.002378 0.279646 0.283387 0.285103 0.286472 0.288735 0.000114 t_subj.16 0.291847 0.005478 0.279729 0.288749 0.292651 0.295618 0.300916 0.000239 t_subj.17 0.269264 0.004870 0.256832 0.267518 0.269920 0.271833 0.277640 0.000280 t_subj.18 0.226887 0.005541 0.209822 0.224741 0.227969 0.230424 0.234596 0.000280 t_subj.19 0.248362 0.003090 0.241501 0.246573 0.248721 0.250471 0.253360 0.000156 t_subj.20 0.276832 0.009876 0.256914 0.273111 0.279997 0.283793 0.289554 0.000799 p_outlier 0.010414 0.003500 0.007207 0.008795 0.009800 0.010898 0.024310 0.000335 DIC: -2980.763592 deviance: -3093.684019 pD: 112.920427
model.plot_posteriors()
Plotting a(AC) Plotting a(SN) Plotting a_std Plotting v(1) Plotting v(2) Plotting v_std Plotting t Plotting t_std Plotting p_outlier
If you're doing neuroimaing, both structural and functional, nibabel is essential: it's a way of loading in MR data from nifti-, but also other files.
import nibabel as nb
Here we import some QSM-data
image = nb.load('/home/gdholla1/ERC_data/QSM_data/Young/AD2T_QSM.nii')
Note that the image-variable only contains some pointers to the file, header and affine info:
print image
<class 'nibabel.nifti1.Nifti1Image'> data shape (312, 56, 384) affine: [[ 4.99999315e-01 -9.46268789e-04 2.76133796e-04 -7.82130051e+01] [ -8.35519459e-04 -5.66280544e-01 1.65233091e-01 1.62180691e+01] [ -2.38080169e-08 1.98276758e-01 4.71908838e-01 -6.86508713e+01] [ 0.00000000e+00 0.00000000e+00 0.00000000e+00 1.00000000e+00]] metadata: <class 'nibabel.nifti1.Nifti1Header'> object, endian='<' sizeof_hdr : 348 data_type : db_name : extents : 0 session_error : 0 regular : r dim_info : 57 dim : [ 3 312 56 384 1 1 1 1] intent_p1 : 0.0 intent_p2 : 0.0 intent_p3 : 0.0 intent_code : none datatype : float32 bitpix : 32 slice_start : 0 pixdim : [-1. 0.5 0.59999019 0.5 0.043 0. 0. 0. ] vox_offset : 352.0 scl_slope : 1.0 scl_inter : 0.0 slice_end : 0 slice_code : unknown xyzt_units : 10 cal_max : 0.687585234642 cal_min : -0.535814523697 slice_duration : 0.0 toffset : 0.0 glmax : 0 glmin : 0 descrip : FSL4.1 aux_file : qform_code : scanner sform_code : scanner quatern_b : 0.985854029655 quatern_c : -0.000823696784209 quatern_d : -0.000140060074045 qoffset_x : -78.2130050659 qoffset_y : 16.2180690765 qoffset_z : -68.6508712769 srow_x : [ 4.99999315e-01 -9.46268789e-04 2.76133796e-04 -7.82130051e+01] srow_y : [ -8.35519459e-04 -5.66280544e-01 1.65233091e-01 1.62180691e+01] srow_z : [ -2.38080169e-08 1.98276758e-01 4.71908838e-01 -6.86508713e+01] intent_name : Unknown magic : n+1
print image.shape # Shape of the image
(312, 56, 384)
This is really nice: what is the orientation of the data? Here we see that as X (first dimension) goes up, we go to the right, as y goes up, we go to the back (posterior) and as Z goes up, we go up (superior).
nb.orientations.aff2axcodes(image.get_affine())
('R', 'P', 'S')
We can get the actual data in the nifti-file using get_data():
data = image.get_data()
type(data), data.shape
(numpy.core.memmap.memmap, (312, 56, 384))
Now we can also use imshow to show the data:
plt.figure(figsize=(14, 10))
plt.imshow(data[:, 27, 100:325].T, cmap=plt.cm.gray, origin='lower') # T transforms the data, so that the rows of the matrix
# correspond to the y-axis and the columns to the x-axis
# origin='lower' makes sure both axis go 'up'.
<matplotlib.image.AxesImage at 0xce5afd0>
Using subplot we can show multiple slices:
plt.figure(figsize=(24, 18))
for i, idx in enumerate(np.arange(30, 47,2)):
plt.subplot(3, 3, i + 1)
plt.imshow(data[:, idx, 100:325].T, origin='lower', cmap=plt.cm.copper)
plt.title('y = %s' % idx)
plt.savefig('ad2t.pdf')
Let's load in corresponding masks
mask_image_l = nb.load('/home/gdholla1/ERC_data/STN_masks/QSM/Young/AD2T_QSM_L_GH.nii.gz')
mask_l = mask_image_l.get_data()
mask_image_r = nb.load('/home/gdholla1/ERC_data/STN_masks/QSM/Young/AD2T_QSM_R_GH.nii.gz')
mask_r = mask_image_r.get_data()
Here we use the masks to plot the data again, but in a masked way: only the data within the mask should be plotted, in a more salient colormap ('hot').
plt.figure(figsize=(24, 30))
mask_l = np.ma.masked_array(mask_l, mask= mask_l == 0) # Create masked array of original data, where
mask_r = np.ma.masked_array(mask_r, mask= mask_r == 0) # where every voxel where the mask is zero is masked.
for i, idx in enumerate(np.linspace(17, 30, 6)): # Enumerate returns a tuple of (index_of_element_in_list, element)
# linspace returns a list-like object of integers between 17 and 30 in
# 6 steps
plt.subplot(3, 2, i + 1)
plt.imshow(data[:, idx, 100:325].T, origin='lower', cmap=plt.cm.gray)
masked_data_l = np.ma.masked_array(data, mask=mask_l == 0)
masked_data_r = np.ma.masked_array(data, mask=mask_r == 0)
plt.imshow(masked_data_l[:, idx, 100:325].T, origin='lower', cmap=plt.cm.hot) # Show masked
plt.imshow(masked_data_r[:, idx, 100:325].T, origin='lower', cmap=plt.cm.hot)
plt.title('y = %s' % idx)
/usr/local/lib/python2.7/dist-packages/numpy/ma/core.py:3847: UserWarning: Warning: converting a masked element to nan. warnings.warn("Warning: converting a masked element to nan.") /usr/local/lib/python2.7/dist-packages/numpy/ma/core.py:3847: UserWarning: Warning: converting a masked element to nan. warnings.warn("Warning: converting a masked element to nan.") /usr/local/lib/python2.7/dist-packages/numpy/ma/core.py:3847: UserWarning: Warning: converting a masked element to nan. warnings.warn("Warning: converting a masked element to nan.") /usr/local/lib/python2.7/dist-packages/numpy/ma/core.py:3847: UserWarning: Warning: converting a masked element to nan. warnings.warn("Warning: converting a masked element to nan.")
We can also look at the distribution of QSM-values within the two masks
plt.hist(data[mask_l != 0], bins=np.arange(-.1, .3, .01), alpha=0.6) # Select all values within data where mask_l
# is not equal to 0 and make a histogram
plt.hist(data[mask_r != 0], bins=np.arange(-.1, .3, .01), alpha=0.6) # Same for mask_r, within same plot
(array([ 0., 4., 2., 1., 5., 8., 16., 26., 24., 32., 30., 31., 45., 29., 38., 41., 44., 30., 27., 28., 22., 28., 27., 15., 20., 15., 6., 0., 1., 1., 0., 0., 0., 0., 0., 0., 0., 0., 0.]), array([ -1.00000000e-01, -9.00000000e-02, -8.00000000e-02, -7.00000000e-02, -6.00000000e-02, -5.00000000e-02, -4.00000000e-02, -3.00000000e-02, -2.00000000e-02, -1.00000000e-02, -5.55111512e-17, 1.00000000e-02, 2.00000000e-02, 3.00000000e-02, 4.00000000e-02, 5.00000000e-02, 6.00000000e-02, 7.00000000e-02, 8.00000000e-02, 9.00000000e-02, 1.00000000e-01, 1.10000000e-01, 1.20000000e-01, 1.30000000e-01, 1.40000000e-01, 1.50000000e-01, 1.60000000e-01, 1.70000000e-01, 1.80000000e-01, 1.90000000e-01, 2.00000000e-01, 2.10000000e-01, 2.20000000e-01, 2.30000000e-01, 2.40000000e-01, 2.50000000e-01, 2.60000000e-01, 2.70000000e-01, 2.80000000e-01, 2.90000000e-01]), <a list of 39 Patch objects>)
The glob-library gives an extremely easy way to search folders for filename-patterns.
import glob
fns = glob.glob('/home/gdholla1/ERC_data/QSM_data/Young/*')
fns
['/home/gdholla1/ERC_data/QSM_data/Young/WC9T_QSM.nii', '/home/gdholla1/ERC_data/QSM_data/Young/HT5T_QSM.nii', '/home/gdholla1/ERC_data/QSM_data/Young/SF3T_QSM.nii', '/home/gdholla1/ERC_data/QSM_data/Young/RT5T_QSM.nii', '/home/gdholla1/ERC_data/QSM_data/Young/NM3T_QSM.nii', '/home/gdholla1/ERC_data/QSM_data/Young/HN3T_QSM.nii', '/home/gdholla1/ERC_data/QSM_data/Young/TA5T_QSM.nii', '/home/gdholla1/ERC_data/QSM_data/Young/AD2T_QSM.nii', '/home/gdholla1/ERC_data/QSM_data/Young/HSLT_QSM.nii', '/home/gdholla1/ERC_data/QSM_data/Young/STAT_QSM.nii', '/home/gdholla1/ERC_data/QSM_data/Young/HSNT_QSM.nii', '/home/gdholla1/ERC_data/QSM_data/Young/KKCT_QSM.nii', '/home/gdholla1/ERC_data/QSM_data/Young/KK6T_QSM.nii']
Regular expressions give a nice way of extracting information from strings:
import re
reg = re.compile('.*/([A-Z0-9]{4})_QSM.nii') # Because ([A-Z0-9]{4}) is between parentheses
# it becomes a group that can be extracted
print reg # reg is a 'regular expression' or SRE_Pattern-object which can
print reg.match(fns[0]).group(1) # be applied to strings using its .match()-function
for fn in fns:
print fn, reg.match(fn).group(1)
<_sre.SRE_Pattern object at 0x29a2d50> WC9T /home/gdholla1/ERC_data/QSM_data/Young/WC9T_QSM.nii WC9T /home/gdholla1/ERC_data/QSM_data/Young/HT5T_QSM.nii HT5T /home/gdholla1/ERC_data/QSM_data/Young/SF3T_QSM.nii SF3T /home/gdholla1/ERC_data/QSM_data/Young/RT5T_QSM.nii RT5T /home/gdholla1/ERC_data/QSM_data/Young/NM3T_QSM.nii NM3T /home/gdholla1/ERC_data/QSM_data/Young/HN3T_QSM.nii HN3T /home/gdholla1/ERC_data/QSM_data/Young/TA5T_QSM.nii TA5T /home/gdholla1/ERC_data/QSM_data/Young/AD2T_QSM.nii AD2T /home/gdholla1/ERC_data/QSM_data/Young/HSLT_QSM.nii HSLT /home/gdholla1/ERC_data/QSM_data/Young/STAT_QSM.nii STAT /home/gdholla1/ERC_data/QSM_data/Young/HSNT_QSM.nii HSNT /home/gdholla1/ERC_data/QSM_data/Young/KKCT_QSM.nii KKCT /home/gdholla1/ERC_data/QSM_data/Young/KK6T_QSM.nii KK6T
Now we can make a list of subjects using a for-loop
subj_idxs = []
for fn in fns:
subj_idxs.append(reg.match(fn).group(1))
print subj_idxs
['WC9T', 'HT5T', 'SF3T', 'RT5T', 'NM3T', 'HN3T', 'TA5T', 'AD2T', 'HSLT', 'STAT', 'HSNT', 'KKCT', 'KK6T']
An equivalent list can be created using list comprehension: a way of doing for-loops with less code: (Note that this is a class of for loops that you use a lot! Take some effor learning these list comprehensions, they're awesome!)
print [reg.match(fn).group(1) for fn in fns]
['WC9T', 'HT5T', 'SF3T', 'RT5T', 'NM3T', 'HN3T', 'TA5T', 'AD2T', 'HSLT', 'STAT', 'HSNT', 'KKCT', 'KK6T']
Scipy has a nice package called 'ndimage', which can do stuff like smoothing, but also calculating the center of mass:
import scipy.ndimage
sp.ndimage.center_of_mass(mask_l)
(134.11320754716982, 22.370497427101199, 166.86277873070327)
This is an easy way to find the slices in a MR image you want to visualize
data[:, com[1]-offset:com[1]+offset, :].squeeze().shape
(312, 30, 384)
data[:, com[1]-os:com[1]+os, :]
memmap([], shape=(312, 0, 384), dtype=float32)
offset = 15
plt.imshow(data[:, com[1], :].squeeze().T, origin='lower')
<matplotlib.image.AxesImage at 0xcb4fa50>
A problem with raw MR data is that the orienation of different images can be differnt. FSL offers a nice tool, 'fslreorient2std' that can make the orientation of the main axis 'standard' (x from right to left, y from back to front, z from bottom to up)
Ipython executes anythign that starts with an exclamation mark (!) as a bash command, making it easy to do 'a fslreorient2std':
!fslreorient2std /home/gdholla1/ERC_data/QSM_data/Young/AD2T_QSM.nii /home/gdholla1/notebooks_demo/data/AD2T_QSM.nii
Nipype offers a nice way to interface to neuroimaging tools such as SPM, Freesurfer, FSL and NiPy.
For example, it has a Reorient2Std-interface, which we can use to 'steer' FSL:
import nipype
from nipype.interfaces import fsl
reorienter = fsl.Reorient2Std()
reorienter.inputs.in_file = '/home/gdholla1/ERC_data/QSM_data/Young/AD2T_QSM.nii'
r = reorienter.run()
print r.outputs, reorienter.cmdline # r contains a 'result'-object, cmdline shows the bash command that has been executed...
out_file = /home/gdholla1/notebooks_demo/AD2T_QSM_reoriented.nii.gz fslreorient2std /home/gdholla1/ERC_data/QSM_data/Young/AD2T_QSM.nii /home/gdholla1/notebooks_demo/AD2T_QSM_reoriented.nii.gz
import nipype.pipeline as pe
import nipype.interfaces.io as nio
Of course, if one wants to do this for a single file, using a command line command is easier. One of the big advantages of using NiPype is that we can connect differnt interfaces together into a workflow. This makes it possible to e.g. cache intermediate steps, efficiently run the workflow on multiple cores and easily replicate other people's workflows/run them on other data.
Here we set up a medium-sized workflow that collects raw dat images, reorients them to standard orientation and then writes them away in a data-folderm.
# Set up the workflow-object, which has a name and a base_dir where all intermediate files are stored.
workflow = pe.Workflow(name='reorient_QSM', base_dir='/home/gdholla1/workflow_folders/')
# Set up a datagrabber: an interface to grab data and feed it to analysis-nodes upstram in
# the workflow.
# Input is a subject_id, then it outputs a QSM-file
dg = pe.Node(nio.DataGrabber(infields=['subject_id'], outfields=['QSM']), name='datagrabber')
# Base directory to search for stuff
dg.inputs.base_directory = '/home/gdholla1/ERC_data/QSM_data/Young/'
# Standard glob-template: just everything
dg.inputs.template = '*'
# Sort output
dg.inputs.sort_filelist = True
# Specific template for QSM-file. we are looking of a file that looks lik
# <SUBJECT_ID>_QSM.nii, wehere
dg.inputs.field_template = {'QSM' : '%s_QSM.nii'}
dg.inputs.template_args = {'QSM' : [['subject_id']]}
# We set a list of subject indices as input, by inputting htem as
# 'iterables' we set up N parallel workflows, where N is the number of subjects
dg.iterables = [('subject_id', subj_idxs)]
# We need only one line to set up a standard reorienter
reorient = pe.Node(fsl.Reorient2Std(), name='reorient')
# Now we can connect the datagrabber to the reorienter
workflow.connect(dg, 'QSM', reorient, 'in_file')
# Datasink is an interface that can write away to some directory
ds = pe.Node(nio.DataSink(), name='datasink')
ds.inputs.base_directory = '/home/gdholla1/notebooks_demo/data'
workflow.connect(reorient, 'out_file', ds, 'reoriented_qsm')
# Write a picture of the workflow
workflow.write_graph()
# Use IPython to get the picture-filename and show it in the notebook
import os
from IPython.display import Image
Image(os.path.join(workflow.base_dir, workflow.name, 'graph.dot.png'))
INFO:workflow:Converting dotfile: /home/gdholla1/workflow_folders/reorient_QSM/graph.dot to png format
# Run the workflow
workflow.run()
INFO:workflow:['check', 'execution', 'logging'] INFO:workflow:Running serially. INFO:workflow:Executing node datagrabber.aI.a06 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_subject_id_TA5T/datagrabber INFO:workflow:Executing node reorient.a06 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_subject_id_TA5T/reorient INFO:workflow:Collecting precomputed outputs INFO:workflow:Executing node datasink.a06 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_subject_id_TA5T/datasink INFO:workflow:Executing node datagrabber.aI.a10 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_subject_id_HSNT/datagrabber INFO:workflow:Executing node reorient.a10 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_subject_id_HSNT/reorient INFO:workflow:Collecting precomputed outputs INFO:workflow:Executing node datasink.a10 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_subject_id_HSNT/datasink INFO:workflow:Executing node datagrabber.aI.a05 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_subject_id_HN3T/datagrabber INFO:workflow:Executing node reorient.a05 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_subject_id_HN3T/reorient INFO:workflow:Collecting precomputed outputs INFO:workflow:Executing node datasink.a05 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_subject_id_HN3T/datasink INFO:workflow:Executing node datagrabber.aI.a01 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_subject_id_HT5T/datagrabber INFO:workflow:Executing node reorient.a01 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_subject_id_HT5T/reorient INFO:workflow:Collecting precomputed outputs INFO:workflow:Executing node datasink.a01 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_subject_id_HT5T/datasink INFO:workflow:Executing node datagrabber.aI.a00 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_subject_id_WC9T/datagrabber INFO:workflow:Executing node reorient.a00 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_subject_id_WC9T/reorient INFO:workflow:Collecting precomputed outputs INFO:workflow:Executing node datasink.a00 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_subject_id_WC9T/datasink INFO:workflow:Executing node datagrabber.aI.a07 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_subject_id_AD2T/datagrabber INFO:workflow:Executing node reorient.a07 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_subject_id_AD2T/reorient INFO:workflow:Collecting precomputed outputs INFO:workflow:Executing node datasink.a07 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_subject_id_AD2T/datasink INFO:workflow:Executing node datagrabber.aI.a12 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_subject_id_KK6T/datagrabber INFO:workflow:Executing node reorient.a12 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_subject_id_KK6T/reorient INFO:workflow:Collecting precomputed outputs INFO:workflow:Executing node datasink.a12 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_subject_id_KK6T/datasink INFO:workflow:Executing node datagrabber.aI.a09 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_subject_id_STAT/datagrabber INFO:workflow:Executing node reorient.a09 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_subject_id_STAT/reorient INFO:workflow:Collecting precomputed outputs INFO:workflow:Executing node datasink.a09 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_subject_id_STAT/datasink INFO:workflow:Executing node datagrabber.aI.a11 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_subject_id_KKCT/datagrabber INFO:workflow:Executing node reorient.a11 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_subject_id_KKCT/reorient INFO:workflow:Collecting precomputed outputs INFO:workflow:Executing node datasink.a11 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_subject_id_KKCT/datasink INFO:workflow:Executing node datagrabber.aI.a08 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_subject_id_HSLT/datagrabber INFO:workflow:Executing node reorient.a08 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_subject_id_HSLT/reorient INFO:workflow:Collecting precomputed outputs INFO:workflow:Executing node datasink.a08 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_subject_id_HSLT/datasink INFO:workflow:Executing node datagrabber.aI.a02 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_subject_id_SF3T/datagrabber INFO:workflow:Executing node reorient.a02 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_subject_id_SF3T/reorient INFO:workflow:Collecting precomputed outputs INFO:workflow:Executing node datasink.a02 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_subject_id_SF3T/datasink INFO:workflow:Executing node datagrabber.aI.a03 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_subject_id_RT5T/datagrabber INFO:workflow:Executing node reorient.a03 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_subject_id_RT5T/reorient INFO:workflow:Collecting precomputed outputs INFO:workflow:Executing node datasink.a03 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_subject_id_RT5T/datasink INFO:workflow:Executing node datagrabber.aI.a04 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_subject_id_NM3T/datagrabber INFO:workflow:Executing node reorient.a04 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_subject_id_NM3T/reorient INFO:workflow:Collecting precomputed outputs INFO:workflow:Executing node datasink.a04 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_subject_id_NM3T/datasink
<networkx.classes.digraph.DiGraph at 0x5c93a50>
Here a slightly more complicated workflow that also reorients corresponding masks and uses a regular expression in the datasink to prettify the resulting filenames.
workflow = pe.Workflow(name='reorient_QSM', base_dir='/home/gdholla1/workflow_folders/')
dg = pe.Node(nio.DataGrabber(infields=['subject_id', 'rater', 'hemisphere'], outfields=['QSM', 'mask']), name='datagrabber')
dg.inputs.template = '*'
dg.inputs.base_directory = '/home/gdholla1/ERC_data/'
dg.inputs.field_template = {'QSM' : 'QSM_data/Young/%s_QSM.nii',
'mask': 'STN_masks/QSM/Young/%s_QSM_%s_%s.nii.gz'}
dg.inputs.template_args = {'QSM' : [['subject_id']],
'mask': [['subject_id', 'hemisphere', 'rater']]}
dg.inputs.subject_id = 'AD2T'
dg.iterables = [('subject_id', subj_idxs),
('rater', ['GH', 'AA', 'CMA']),
('hemisphere', ['L', 'R'])]
dg.inputs.sort_filelist = True
reorient = pe.Node(fsl.Reorient2Std(), name='reorient')
workflow.connect(dg, 'QSM', reorient, 'in_file')
reorient_mask = pe.Node(fsl.Reorient2Std(), name='reorient_mask')
workflow.connect(dg, 'mask', reorient_mask, 'in_file')
ds = pe.Node(nio.DataSink(), name='datasink')
ds.inputs.base_directory = '/home/gdholla1/notebooks_demo/data'
ds.inputs.regexp_substitutions = [('reoriented_qsm/_hemisphere_([A-Z])_rater_([A-Z]{2,3})_subject_id_([A-Z0-9]{4})/(.*).nii.gz',
'reoriented_qsm/\\3/\\4.nii.gz'),
('reoriented_qsm_masks/_hemisphere_([A-Z])_rater_([A-Z]{2,3})_subject_id_([A-Z0-9]{4})/(.*).nii.gz',
'reoriented_qsm_masks/\\3/\\4_\\1_\\2.nii.gz')]
workflow.connect(reorient, 'out_file', ds, 'reoriented_qsm')
workflow.connect(reorient, 'out_file', ds, 'reoriented_qsm_masks')
workflow.write_graph()
import os
Image(os.path.join(workflow.base_dir, workflow.name, 'graph.dot.png'))
INFO:workflow:Converting dotfile: /home/gdholla1/workflow_folders/reorient_QSM/graph.dot to png format
Note that NiPype has plugins such as the 'MultiProc', which makes it easy to run the workflow at multiple processors, where NiPype takes care of the planning.
workflow.run(plugin='MultiProc', plugin_args={'n_procs' : 8})
INFO:workflow:['check', 'execution', 'logging'] INFO:workflow:Running in parallel. INFO:workflow:Submitting 78 jobs INFO:workflow:Executing: datagrabber.aI.a26 ID: 0 INFO:workflow:Executing: datagrabber.aI.a37 ID: 4 INFO:workflow:Executing: datagrabber.aI.a00 ID: 8 INFO:workflow:Executing: datagrabber.aI.a07 ID: 12 INFO:workflow:Executing node datagrabber.aI.a26 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_NM3T/datagrabber INFO:workflow:Executing: datagrabber.aI.a15 ID: 16 INFO:workflow:Executing node datagrabber.aI.a37 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_TA5T/datagrabber INFO:workflow:Executing: datagrabber.aI.a20 ID: 20 INFO:workflow:Executing node datagrabber.aI.a00 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_WC9T/datagrabber INFO:workflow:Executing: datagrabber.aI.a76 ID: 24 INFO:workflow:Executing node datagrabber.aI.a07 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_HT5T/datagrabber INFO:workflow:Executing: datagrabber.aI.a01 ID: 28 INFO:workflow:Executing: datagrabber.aI.a16 ID: 32 INFO:workflow:Executing node datagrabber.aI.a15 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_SF3T/datagrabber INFO:workflow:Executing node datagrabber.aI.a20 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_RT5T/datagrabber INFO:workflow:Executing: datagrabber.aI.a32 ID: 36 INFO:workflow:Executing node datagrabber.aI.a76 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_KK6T/datagrabber INFO:workflow:Executing: datagrabber.aI.a73 ID: 40 INFO:workflow:Executing node datagrabber.aI.a01 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_WC9T/datagrabber INFO:workflow:Executing node datagrabber.aI.a16 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_SF3T/datagrabber INFO:workflow:Executing: datagrabber.aI.a70 ID: 44 INFO:workflow:Executing node datagrabber.aI.a32 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_HN3T/datagrabber INFO:workflow:Executing: datagrabber.aI.a09 ID: 48 INFO:workflow:Executing node datagrabber.aI.a73 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_KK6T/datagrabber INFO:workflow:Executing: datagrabber.aI.a61 ID: 52 INFO:workflow:Executing node datagrabber.aI.a70 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_KKCT/datagrabber INFO:workflow:Executing: datagrabber.aI.a10 ID: 56 INFO:workflow:Executing: datagrabber.aI.a21 ID: 60 INFO:workflow:Executing node datagrabber.aI.a09 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_HT5T/datagrabber INFO:workflow:Executing: datagrabber.aI.a23 ID: 64 INFO:workflow:Executing node datagrabber.aI.a61 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_HSNT/datagrabber INFO:workflow:Executing node datagrabber.aI.a10 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_HT5T/datagrabber INFO:workflow:Executing: datagrabber.aI.a59 ID: 68 INFO:workflow:Executing node datagrabber.aI.a21 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_RT5T/datagrabber INFO:workflow:Executing: datagrabber.aI.a19 ID: 72 INFO:workflow:Executing node datagrabber.aI.a23 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_RT5T/datagrabber INFO:workflow:Executing: datagrabber.aI.a12 ID: 76 INFO:workflow:Executing node datagrabber.aI.a59 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_STAT/datagrabber INFO:workflow:Executing: datagrabber.aI.a06 ID: 80 INFO:workflow:Executing node datagrabber.aI.a19 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_RT5T/datagrabber INFO:workflow:Executing: datagrabber.aI.a24 ID: 84 INFO:workflow:Executing node datagrabber.aI.a12 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_SF3T/datagrabber INFO:workflow:Executing: datagrabber.aI.a35 ID: 88 INFO:workflow:Executing node datagrabber.aI.a06 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_HT5T/datagrabber INFO:workflow:Executing: datagrabber.aI.a25 ID: 92 INFO:workflow:Executing node datagrabber.aI.a24 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_NM3T/datagrabber INFO:workflow:Executing: datagrabber.aI.a55 ID: 96 INFO:workflow:Executing node datagrabber.aI.a35 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_HN3T/datagrabber INFO:workflow:Executing: datagrabber.aI.a52 ID: 100 INFO:workflow:Executing node datagrabber.aI.a25 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_NM3T/datagrabber INFO:workflow:Executing: datagrabber.aI.a13 ID: 104 INFO:workflow:Executing node datagrabber.aI.a55 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_STAT/datagrabber INFO:workflow:Executing: datagrabber.aI.a44 ID: 108 INFO:workflow:Executing node datagrabber.aI.a52 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_HSLT/datagrabber INFO:workflow:Executing: datagrabber.aI.a34 ID: 112 INFO:workflow:Executing node datagrabber.aI.a13 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_SF3T/datagrabber INFO:workflow:Executing: datagrabber.aI.a18 ID: 116 INFO:workflow:Executing node datagrabber.aI.a44 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_AD2T/datagrabber INFO:workflow:Executing: datagrabber.aI.a17 ID: 120 INFO:workflow:Executing node datagrabber.aI.a34 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_HN3T/datagrabber INFO:workflow:Executing: datagrabber.aI.a27 ID: 124 INFO:workflow:Executing node datagrabber.aI.a18 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_RT5T/datagrabber INFO:workflow:Executing: datagrabber.aI.a08 ID: 128 INFO:workflow:Executing node datagrabber.aI.a17 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_SF3T/datagrabber INFO:workflow:Executing: datagrabber.aI.a49 ID: 132 INFO:workflow:Executing node datagrabber.aI.a27 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_NM3T/datagrabber INFO:workflow:Executing: datagrabber.aI.a22 ID: 136 INFO:workflow:Executing node datagrabber.aI.a08 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_HT5T/datagrabber INFO:workflow:Executing: datagrabber.aI.a11 ID: 140 INFO:workflow:Executing node datagrabber.aI.a49 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_HSLT/datagrabber INFO:workflow:Executing: datagrabber.aI.a53 ID: 144 INFO:workflow:Executing node datagrabber.aI.a22 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_RT5T/datagrabber INFO:workflow:Executing: datagrabber.aI.a43 ID: 148 INFO:workflow:Executing node datagrabber.aI.a11 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_HT5T/datagrabber INFO:workflow:Executing: datagrabber.aI.a02 ID: 152 INFO:workflow:Executing node datagrabber.aI.a53 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_HSLT/datagrabber INFO:workflow:Executing: datagrabber.aI.a60 ID: 156 INFO:workflow:Executing node datagrabber.aI.a43 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_AD2T/datagrabber INFO:workflow:Executing: datagrabber.aI.a14 ID: 160 INFO:workflow:Executing node datagrabber.aI.a02 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_WC9T/datagrabber INFO:workflow:Executing: datagrabber.aI.a71 ID: 164 INFO:workflow:Executing node datagrabber.aI.a60 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_HSNT/datagrabber INFO:workflow:Executing: datagrabber.aI.a28 ID: 168 INFO:workflow:Executing node datagrabber.aI.a14 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_SF3T/datagrabber INFO:workflow:Executing: datagrabber.aI.a30 ID: 172 INFO:workflow:Executing node datagrabber.aI.a71 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_KKCT/datagrabber INFO:workflow:Executing: datagrabber.aI.a05 ID: 176 INFO:workflow:Executing node datagrabber.aI.a28 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_NM3T/datagrabber INFO:workflow:Executing: datagrabber.aI.a68 ID: 180 INFO:workflow:Executing node datagrabber.aI.a30 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_HN3T/datagrabber INFO:workflow:Executing: datagrabber.aI.a58 ID: 184 INFO:workflow:Executing node datagrabber.aI.a05 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_WC9T/datagrabber INFO:workflow:Executing: datagrabber.aI.a36 ID: 188 INFO:workflow:Executing node datagrabber.aI.a68 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_KKCT/datagrabber INFO:workflow:Executing: datagrabber.aI.a03 ID: 192 INFO:workflow:Executing node datagrabber.aI.a58 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_STAT/datagrabber INFO:workflow:Executing: datagrabber.aI.a75 ID: 196 INFO:workflow:Executing node datagrabber.aI.a36 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_TA5T/datagrabber INFO:workflow:Executing: datagrabber.aI.a57 ID: 200 INFO:workflow:Executing node datagrabber.aI.a03 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_WC9T/datagrabber INFO:workflow:Executing: datagrabber.aI.a56 ID: 204 INFO:workflow:Executing node datagrabber.aI.a75 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_KK6T/datagrabber INFO:workflow:Executing: datagrabber.aI.a50 ID: 208 INFO:workflow:Executing node datagrabber.aI.a57 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_STAT/datagrabber INFO:workflow:Executing: datagrabber.aI.a54 ID: 212 INFO:workflow:Executing node datagrabber.aI.a56 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_STAT/datagrabber INFO:workflow:Executing: datagrabber.aI.a45 ID: 216 INFO:workflow:Executing node datagrabber.aI.a50 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_HSLT/datagrabber INFO:workflow:Executing: datagrabber.aI.a04 ID: 220 INFO:workflow:Executing node datagrabber.aI.a54 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_STAT/datagrabber INFO:workflow:Executing: datagrabber.aI.a39 ID: 224 INFO:workflow:Executing node datagrabber.aI.a45 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_AD2T/datagrabber INFO:workflow:Executing: datagrabber.aI.a74 ID: 228 INFO:workflow:Executing node datagrabber.aI.a04 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_WC9T/datagrabber INFO:workflow:Executing: datagrabber.aI.a42 ID: 232 INFO:workflow:Executing node datagrabber.aI.a39 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_TA5T/datagrabber INFO:workflow:Executing: datagrabber.aI.a38 ID: 236 INFO:workflow:Executing node datagrabber.aI.a74 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_KK6T/datagrabber INFO:workflow:Executing: datagrabber.aI.a62 ID: 240 INFO:workflow:Executing node datagrabber.aI.a42 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_AD2T/datagrabber INFO:workflow:Executing: datagrabber.aI.a63 ID: 244 INFO:workflow:Executing node datagrabber.aI.a38 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_TA5T/datagrabber INFO:workflow:Executing: datagrabber.aI.a29 ID: 248 INFO:workflow:Executing node datagrabber.aI.a62 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_HSNT/datagrabber INFO:workflow:Executing: datagrabber.aI.a72 ID: 252 INFO:workflow:Executing node datagrabber.aI.a63 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_HSNT/datagrabber INFO:workflow:Executing: datagrabber.aI.a48 ID: 256 INFO:workflow:Executing node datagrabber.aI.a29 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_NM3T/datagrabber INFO:workflow:Executing: datagrabber.aI.a47 ID: 260 INFO:workflow:Executing node datagrabber.aI.a72 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_KK6T/datagrabber INFO:workflow:Executing: datagrabber.aI.a31 ID: 264 INFO:workflow:Executing node datagrabber.aI.a48 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_HSLT/datagrabber INFO:workflow:Executing: datagrabber.aI.a77 ID: 268 INFO:workflow:Executing node datagrabber.aI.a47 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_AD2T/datagrabber INFO:workflow:Executing: datagrabber.aI.a46 ID: 272 INFO:workflow:Executing node datagrabber.aI.a31 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_HN3T/datagrabber INFO:workflow:Executing: datagrabber.aI.a40 ID: 276 INFO:workflow:Executing node datagrabber.aI.a77 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_KK6T/datagrabber INFO:workflow:Executing: datagrabber.aI.a65 ID: 280 INFO:workflow:Executing node datagrabber.aI.a46 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_AD2T/datagrabber INFO:workflow:Executing: datagrabber.aI.a33 ID: 284 INFO:workflow:Executing node datagrabber.aI.a40 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_TA5T/datagrabber INFO:workflow:Executing: datagrabber.aI.a41 ID: 288 INFO:workflow:Executing node datagrabber.aI.a65 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_HSNT/datagrabber INFO:workflow:Executing: datagrabber.aI.a69 ID: 292 INFO:workflow:Executing node datagrabber.aI.a33 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_HN3T/datagrabber INFO:workflow:Executing: datagrabber.aI.a66 ID: 296 INFO:workflow:Executing node datagrabber.aI.a41 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_TA5T/datagrabber INFO:workflow:Executing: datagrabber.aI.a64 ID: 300 INFO:workflow:Executing node datagrabber.aI.a69 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_KKCT/datagrabber INFO:workflow:Executing: datagrabber.aI.a67 ID: 304 INFO:workflow:Executing node datagrabber.aI.a66 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_KKCT/datagrabber INFO:workflow:Executing: datagrabber.aI.a51 ID: 308 INFO:workflow:Executing node datagrabber.aI.a64 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_HSNT/datagrabber INFO:workflow:[Job finished] jobname: datagrabber.aI.a26 jobid: 0 INFO:workflow:Executing node datagrabber.aI.a67 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_KKCT/datagrabber INFO:workflow:Executing node datagrabber.aI.a51 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_HSLT/datagrabber INFO:workflow:[Job finished] jobname: datagrabber.aI.a37 jobid: 4 INFO:workflow:[Job finished] jobname: datagrabber.aI.a00 jobid: 8 INFO:workflow:[Job finished] jobname: datagrabber.aI.a07 jobid: 12 INFO:workflow:[Job finished] jobname: datagrabber.aI.a15 jobid: 16 INFO:workflow:[Job finished] jobname: datagrabber.aI.a20 jobid: 20 INFO:workflow:[Job finished] jobname: datagrabber.aI.a76 jobid: 24 INFO:workflow:[Job finished] jobname: datagrabber.aI.a01 jobid: 28 INFO:workflow:[Job finished] jobname: datagrabber.aI.a16 jobid: 32 INFO:workflow:[Job finished] jobname: datagrabber.aI.a32 jobid: 36 INFO:workflow:[Job finished] jobname: datagrabber.aI.a73 jobid: 40 INFO:workflow:[Job finished] jobname: datagrabber.aI.a70 jobid: 44 INFO:workflow:[Job finished] jobname: datagrabber.aI.a09 jobid: 48 INFO:workflow:[Job finished] jobname: datagrabber.aI.a61 jobid: 52 INFO:workflow:[Job finished] jobname: datagrabber.aI.a10 jobid: 56 INFO:workflow:[Job finished] jobname: datagrabber.aI.a21 jobid: 60 INFO:workflow:[Job finished] jobname: datagrabber.aI.a23 jobid: 64 INFO:workflow:[Job finished] jobname: datagrabber.aI.a59 jobid: 68 INFO:workflow:[Job finished] jobname: datagrabber.aI.a19 jobid: 72 INFO:workflow:[Job finished] jobname: datagrabber.aI.a12 jobid: 76 INFO:workflow:[Job finished] jobname: datagrabber.aI.a06 jobid: 80 INFO:workflow:[Job finished] jobname: datagrabber.aI.a24 jobid: 84 INFO:workflow:[Job finished] jobname: datagrabber.aI.a35 jobid: 88 INFO:workflow:[Job finished] jobname: datagrabber.aI.a25 jobid: 92 INFO:workflow:[Job finished] jobname: datagrabber.aI.a55 jobid: 96 INFO:workflow:[Job finished] jobname: datagrabber.aI.a52 jobid: 100 INFO:workflow:[Job finished] jobname: datagrabber.aI.a13 jobid: 104 INFO:workflow:[Job finished] jobname: datagrabber.aI.a44 jobid: 108 INFO:workflow:[Job finished] jobname: datagrabber.aI.a34 jobid: 112 INFO:workflow:[Job finished] jobname: datagrabber.aI.a18 jobid: 116 INFO:workflow:[Job finished] jobname: datagrabber.aI.a17 jobid: 120 INFO:workflow:[Job finished] jobname: datagrabber.aI.a27 jobid: 124 INFO:workflow:[Job finished] jobname: datagrabber.aI.a08 jobid: 128 INFO:workflow:[Job finished] jobname: datagrabber.aI.a49 jobid: 132 INFO:workflow:[Job finished] jobname: datagrabber.aI.a22 jobid: 136 INFO:workflow:[Job finished] jobname: datagrabber.aI.a11 jobid: 140 INFO:workflow:[Job finished] jobname: datagrabber.aI.a53 jobid: 144 INFO:workflow:[Job finished] jobname: datagrabber.aI.a43 jobid: 148 INFO:workflow:[Job finished] jobname: datagrabber.aI.a02 jobid: 152 INFO:workflow:[Job finished] jobname: datagrabber.aI.a60 jobid: 156 INFO:workflow:[Job finished] jobname: datagrabber.aI.a14 jobid: 160 INFO:workflow:[Job finished] jobname: datagrabber.aI.a71 jobid: 164 INFO:workflow:[Job finished] jobname: datagrabber.aI.a28 jobid: 168 INFO:workflow:[Job finished] jobname: datagrabber.aI.a30 jobid: 172 INFO:workflow:[Job finished] jobname: datagrabber.aI.a05 jobid: 176 INFO:workflow:[Job finished] jobname: datagrabber.aI.a68 jobid: 180 INFO:workflow:[Job finished] jobname: datagrabber.aI.a58 jobid: 184 INFO:workflow:[Job finished] jobname: datagrabber.aI.a36 jobid: 188 INFO:workflow:[Job finished] jobname: datagrabber.aI.a03 jobid: 192 INFO:workflow:[Job finished] jobname: datagrabber.aI.a75 jobid: 196 INFO:workflow:[Job finished] jobname: datagrabber.aI.a57 jobid: 200 INFO:workflow:[Job finished] jobname: datagrabber.aI.a56 jobid: 204 INFO:workflow:[Job finished] jobname: datagrabber.aI.a50 jobid: 208 INFO:workflow:[Job finished] jobname: datagrabber.aI.a54 jobid: 212 INFO:workflow:[Job finished] jobname: datagrabber.aI.a45 jobid: 216 INFO:workflow:[Job finished] jobname: datagrabber.aI.a04 jobid: 220 INFO:workflow:[Job finished] jobname: datagrabber.aI.a39 jobid: 224 INFO:workflow:[Job finished] jobname: datagrabber.aI.a74 jobid: 228 INFO:workflow:[Job finished] jobname: datagrabber.aI.a42 jobid: 232 INFO:workflow:[Job finished] jobname: datagrabber.aI.a38 jobid: 236 INFO:workflow:[Job finished] jobname: datagrabber.aI.a62 jobid: 240 INFO:workflow:[Job finished] jobname: datagrabber.aI.a63 jobid: 244 INFO:workflow:[Job finished] jobname: datagrabber.aI.a29 jobid: 248 INFO:workflow:[Job finished] jobname: datagrabber.aI.a72 jobid: 252 INFO:workflow:[Job finished] jobname: datagrabber.aI.a48 jobid: 256 INFO:workflow:[Job finished] jobname: datagrabber.aI.a47 jobid: 260 INFO:workflow:[Job finished] jobname: datagrabber.aI.a31 jobid: 264 INFO:workflow:[Job finished] jobname: datagrabber.aI.a77 jobid: 268 INFO:workflow:[Job finished] jobname: datagrabber.aI.a46 jobid: 272 INFO:workflow:[Job finished] jobname: datagrabber.aI.a40 jobid: 276 INFO:workflow:[Job finished] jobname: datagrabber.aI.a65 jobid: 280 INFO:workflow:[Job finished] jobname: datagrabber.aI.a33 jobid: 284 INFO:workflow:[Job finished] jobname: datagrabber.aI.a41 jobid: 288 INFO:workflow:[Job finished] jobname: datagrabber.aI.a69 jobid: 292 INFO:workflow:[Job finished] jobname: datagrabber.aI.a66 jobid: 296 INFO:workflow:[Job finished] jobname: datagrabber.aI.a64 jobid: 300 INFO:workflow:[Job finished] jobname: datagrabber.aI.a67 jobid: 304 INFO:workflow:[Job finished] jobname: datagrabber.aI.a51 jobid: 308 INFO:workflow:Submitting 156 jobs INFO:workflow:Executing: reorient_mask.a26 ID: 1 INFO:workflow:[Job finished] jobname: reorient_mask.a26 jobid: 1 INFO:workflow:Executing: reorient.a26 ID: 2 INFO:workflow:[Job finished] jobname: reorient.a26 jobid: 2 INFO:workflow:Executing: reorient.a37 ID: 5 INFO:workflow:[Job finished] jobname: reorient.a37 jobid: 5 INFO:workflow:Executing: reorient_mask.a37 ID: 7 INFO:workflow:[Job finished] jobname: 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INFO:workflow:Executing: reorient.a51 ID: 309 INFO:workflow:[Job finished] jobname: reorient.a51 jobid: 309 INFO:workflow:Executing: reorient_mask.a51 ID: 310 INFO:workflow:[Job finished] jobname: reorient_mask.a51 jobid: 310 INFO:workflow:Submitting 78 jobs INFO:workflow:Executing: datasink.a26 ID: 3 INFO:workflow:Executing: datasink.a37 ID: 6 INFO:workflow:Executing: datasink.a00 ID: 11 INFO:workflow:Executing node datasink.a26 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_NM3T/datasink INFO:workflow:Executing: datasink.a07 ID: 15 INFO:workflow:Executing node datasink.a37 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_TA5T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_CMA_subject_id_NM3T/NM3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/NM3T/NM3T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a15 ID: 18 INFO:workflow:Executing node datasink.a00 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_WC9T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_AA_subject_id_TA5T/TA5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/TA5T/TA5T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a20 ID: 22 INFO:workflow:Executing node datasink.a07 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_HT5T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_GH_subject_id_WC9T/WC9T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/WC9T/WC9T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a76 ID: 26 INFO:workflow:Executing node datasink.a15 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_SF3T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_AA_subject_id_HT5T/HT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HT5T/HT5T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a01 ID: 30 INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_CMA_subject_id_NM3T/NM3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/NM3T/NM3T_QSM_reoriented_L_CMA.nii.gz INFO:workflow:Executing node datasink.a20 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_RT5T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_GH_subject_id_SF3T/SF3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/SF3T/SF3T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a16 ID: 34 INFO:workflow:Executing node datasink.a76 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_KK6T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_AA_subject_id_TA5T/TA5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/TA5T/TA5T_QSM_reoriented_L_AA.nii.gz INFO:workflow:Executing: datasink.a32 ID: 38 INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_CMA_subject_id_RT5T/RT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/RT5T/RT5T_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_GH_subject_id_WC9T/WC9T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/WC9T/WC9T_QSM_reoriented_L_GH.nii.gz INFO:workflow:Executing node datasink.a01 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_WC9T/datasink INFO:workflow:Executing: datasink.a73 ID: 43 INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_AA_subject_id_KK6T/KK6T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/KK6T/KK6T_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_AA_subject_id_HT5T/HT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HT5T/HT5T_QSM_reoriented_L_AA.nii.gz INFO:workflow:Executing: datasink.a70 ID: 47 INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_AA_subject_id_WC9T/WC9T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/WC9T/WC9T_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_GH_subject_id_SF3T/SF3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/SF3T/SF3T_QSM_reoriented_R_GH.nii.gz INFO:workflow:Executing node datasink.a16 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_SF3T/datasink INFO:workflow:Executing: datasink.a09 ID: 50 INFO:workflow:Executing node datasink.a32 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_HN3T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_AA_subject_id_SF3T/SF3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/SF3T/SF3T_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_CMA_subject_id_RT5T/RT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/RT5T/RT5T_QSM_reoriented_L_CMA.nii.gz INFO:workflow:Executing: datasink.a61 ID: 54 INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_AA_subject_id_KK6T/KK6T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/KK6T/KK6T_QSM_reoriented_R_AA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_CMA_subject_id_HN3T/HN3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HN3T/HN3T_QSM_reoriented.nii.gz INFO:workflow:Executing node datasink.a73 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_KK6T/datasink INFO:workflow:Executing node datasink.a70 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_KKCT/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_AA_subject_id_WC9T/WC9T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/WC9T/WC9T_QSM_reoriented_L_AA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_AA_subject_id_KK6T/KK6T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/KK6T/KK6T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a10 ID: 59 INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_AA_subject_id_KKCT/KKCT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/KKCT/KKCT_QSM_reoriented.nii.gz INFO:workflow:Executing node datasink.a09 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_HT5T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_GH_subject_id_HT5T/HT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HT5T/HT5T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a21 ID: 63 INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_AA_subject_id_SF3T/SF3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/SF3T/SF3T_QSM_reoriented_R_AA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_CMA_subject_id_HN3T/HN3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HN3T/HN3T_QSM_reoriented_L_CMA.nii.gz INFO:workflow:Executing node datasink.a61 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_HSNT/datasink INFO:workflow:Executing: datasink.a23 ID: 67 INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_AA_subject_id_KKCT/KKCT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/KKCT/KKCT_QSM_reoriented_R_AA.nii.gz INFO:workflow:Executing node datasink.a10 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_HT5T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_AA_subject_id_HSNT/HSNT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HSNT/HSNT_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_AA_subject_id_KK6T/KK6T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/KK6T/KK6T_QSM_reoriented_L_AA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_AA_subject_id_HT5T/HT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HT5T/HT5T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a59 ID: 71 INFO:workflow:Executing node datasink.a21 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_RT5T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_GH_subject_id_HT5T/HT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HT5T/HT5T_QSM_reoriented_R_GH.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_GH_subject_id_RT5T/RT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/RT5T/RT5T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a19 ID: 74 INFO:workflow:Executing node datasink.a23 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_RT5T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_AA_subject_id_HSNT/HSNT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HSNT/HSNT_QSM_reoriented_L_AA.nii.gz INFO:workflow:Executing: datasink.a12 ID: 79 INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_CMA_subject_id_RT5T/RT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/RT5T/RT5T_QSM_reoriented.nii.gz INFO:workflow:Executing node datasink.a59 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_STAT/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_AA_subject_id_HT5T/HT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HT5T/HT5T_QSM_reoriented_R_AA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_CMA_subject_id_STAT/STAT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/STAT/STAT_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a06 ID: 82 INFO:workflow:Executing node datasink.a19 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_RT5T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_GH_subject_id_RT5T/RT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/RT5T/RT5T_QSM_reoriented_R_GH.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_AA_subject_id_RT5T/RT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/RT5T/RT5T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a24 ID: 87 INFO:workflow:Executing node datasink.a12 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_SF3T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_CMA_subject_id_RT5T/RT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/RT5T/RT5T_QSM_reoriented_R_CMA.nii.gz INFO:workflow:Executing: datasink.a35 ID: 91 INFO:workflow:Executing node datasink.a06 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_HT5T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_GH_subject_id_SF3T/SF3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/SF3T/SF3T_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_CMA_subject_id_STAT/STAT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/STAT/STAT_QSM_reoriented_R_CMA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_GH_subject_id_HT5T/HT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HT5T/HT5T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a25 ID: 95 INFO:workflow:Executing node datasink.a24 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_NM3T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_GH_subject_id_NM3T/NM3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/NM3T/NM3T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a55 ID: 99 INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_AA_subject_id_RT5T/RT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/RT5T/RT5T_QSM_reoriented_L_AA.nii.gz INFO:workflow:Executing node datasink.a35 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_HN3T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_GH_subject_id_HT5T/HT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HT5T/HT5T_QSM_reoriented_L_GH.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_CMA_subject_id_HN3T/HN3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HN3T/HN3T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a52 ID: 102 INFO:workflow:Executing node datasink.a25 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_NM3T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_GH_subject_id_SF3T/SF3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/SF3T/SF3T_QSM_reoriented_L_GH.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_GH_subject_id_NM3T/NM3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/NM3T/NM3T_QSM_reoriented_L_GH.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_AA_subject_id_NM3T/NM3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/NM3T/NM3T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a13 ID: 106 INFO:workflow:Executing node datasink.a55 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_STAT/datasink INFO:workflow:Executing: datasink.a44 ID: 111 INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_AA_subject_id_STAT/STAT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/STAT/STAT_QSM_reoriented.nii.gz INFO:workflow:Executing node datasink.a52 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_HSLT/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_CMA_subject_id_HN3T/HN3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HN3T/HN3T_QSM_reoriented_R_CMA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_AA_subject_id_HSLT/HSLT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HSLT/HSLT_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a34 ID: 115 INFO:workflow:Executing node datasink.a13 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_SF3T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_AA_subject_id_NM3T/NM3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/NM3T/NM3T_QSM_reoriented_L_AA.nii.gz INFO:workflow:Executing: datasink.a18 ID: 119 INFO:workflow:Executing node datasink.a44 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_AD2T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_AA_subject_id_SF3T/SF3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/SF3T/SF3T_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_AA_subject_id_STAT/STAT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/STAT/STAT_QSM_reoriented_L_AA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_CMA_subject_id_AD2T/AD2T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/AD2T/AD2T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a17 ID: 123 INFO:workflow:Executing node datasink.a34 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_HN3T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_AA_subject_id_HSLT/HSLT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HSLT/HSLT_QSM_reoriented_R_AA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_AA_subject_id_HN3T/HN3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HN3T/HN3T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a27 ID: 127 INFO:workflow:Executing node datasink.a18 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_RT5T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_AA_subject_id_SF3T/SF3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/SF3T/SF3T_QSM_reoriented_L_AA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_GH_subject_id_RT5T/RT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/RT5T/RT5T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a08 ID: 131 INFO:workflow:Executing node datasink.a17 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_SF3T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_CMA_subject_id_AD2T/AD2T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/AD2T/AD2T_QSM_reoriented_L_CMA.nii.gz INFO:workflow:Executing: datasink.a49 ID: 134 INFO:workflow:Executing node datasink.a27 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_NM3T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_AA_subject_id_HN3T/HN3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HN3T/HN3T_QSM_reoriented_R_AA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_CMA_subject_id_SF3T/SF3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/SF3T/SF3T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a22 ID: 138 INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_GH_subject_id_NM3T/NM3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/NM3T/NM3T_QSM_reoriented.nii.gz INFO:workflow:Executing node datasink.a08 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_HT5T/datasink INFO:workflow:Executing: datasink.a11 ID: 142 INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_GH_subject_id_RT5T/RT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/RT5T/RT5T_QSM_reoriented_L_GH.nii.gz INFO:workflow:Executing node datasink.a49 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_HSLT/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_CMA_subject_id_HT5T/HT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HT5T/HT5T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a53 ID: 146 INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_AA_subject_id_HSLT/HSLT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HSLT/HSLT_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a43 ID: 150 INFO:workflow:Executing node datasink.a22 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_RT5T/datasink INFO:workflow:Executing node datasink.a11 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_HT5T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_GH_subject_id_NM3T/NM3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/NM3T/NM3T_QSM_reoriented_R_GH.nii.gz INFO:workflow:Executing: datasink.a02 ID: 154 INFO:workflow:Executing node datasink.a53 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_HSLT/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_CMA_subject_id_SF3T/SF3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/SF3T/SF3T_QSM_reoriented_R_CMA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_CMA_subject_id_HT5T/HT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HT5T/HT5T_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_AA_subject_id_RT5T/RT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/RT5T/RT5T_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_CMA_subject_id_HSLT/HSLT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HSLT/HSLT_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a60 ID: 159 INFO:workflow:Executing node datasink.a43 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_AD2T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_CMA_subject_id_HT5T/HT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HT5T/HT5T_QSM_reoriented_L_CMA.nii.gz INFO:workflow:Executing: datasink.a14 ID: 162 INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_AA_subject_id_AD2T/AD2T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/AD2T/AD2T_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_AA_subject_id_HSLT/HSLT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HSLT/HSLT_QSM_reoriented_L_AA.nii.gz INFO:workflow:Executing: datasink.a71 ID: 166 INFO:workflow:Executing node datasink.a02 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_WC9T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_CMA_subject_id_HT5T/HT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HT5T/HT5T_QSM_reoriented_R_CMA.nii.gz INFO:workflow:Executing: datasink.a28 ID: 171 INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_CMA_subject_id_HSLT/HSLT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HSLT/HSLT_QSM_reoriented_R_CMA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_CMA_subject_id_WC9T/WC9T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/WC9T/WC9T_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_AA_subject_id_RT5T/RT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/RT5T/RT5T_QSM_reoriented_R_AA.nii.gz INFO:workflow:Executing node datasink.a60 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_HSNT/datasink INFO:workflow:Executing: datasink.a30 ID: 175 INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_AA_subject_id_AD2T/AD2T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/AD2T/AD2T_QSM_reoriented_L_AA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_GH_subject_id_HSNT/HSNT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HSNT/HSNT_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a05 ID: 179 INFO:workflow:Executing node datasink.a14 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_SF3T/datasink INFO:workflow:Executing: datasink.a68 ID: 183 INFO:workflow:Executing node datasink.a71 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_KKCT/datasink INFO:workflow:Executing node datasink.a28 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_NM3T/datasink INFO:workflow:Executing node datasink.a30 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_HN3T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_CMA_subject_id_WC9T/WC9T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/WC9T/WC9T_QSM_reoriented_L_CMA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_CMA_subject_id_SF3T/SF3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/SF3T/SF3T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a58 ID: 187 INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_AA_subject_id_NM3T/NM3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/NM3T/NM3T_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_GH_subject_id_HN3T/HN3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HN3T/HN3T_QSM_reoriented.nii.gz INFO:workflow:Executing node datasink.a05 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_WC9T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_CMA_subject_id_KKCT/KKCT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/KKCT/KKCT_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a36 ID: 190 INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_GH_subject_id_HSNT/HSNT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HSNT/HSNT_QSM_reoriented_L_GH.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_CMA_subject_id_WC9T/WC9T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/WC9T/WC9T_QSM_reoriented.nii.gz INFO:workflow:Executing node datasink.a68 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_KKCT/datasink INFO:workflow:Executing: datasink.a03 ID: 195 INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_CMA_subject_id_KKCT/KKCT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/KKCT/KKCT_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a75 ID: 199 INFO:workflow:Executing: datasink.a57 ID: 202 INFO:workflow:Executing node datasink.a58 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_STAT/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_AA_subject_id_NM3T/NM3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/NM3T/NM3T_QSM_reoriented_R_AA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_GH_subject_id_HN3T/HN3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HN3T/HN3T_QSM_reoriented_L_GH.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_CMA_subject_id_SF3T/SF3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/SF3T/SF3T_QSM_reoriented_L_CMA.nii.gz INFO:workflow:Executing: datasink.a56 ID: 207 INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_AA_subject_id_STAT/STAT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/STAT/STAT_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_CMA_subject_id_WC9T/WC9T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/WC9T/WC9T_QSM_reoriented_R_CMA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_CMA_subject_id_KKCT/KKCT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/KKCT/KKCT_QSM_reoriented_R_CMA.nii.gz INFO:workflow:Executing: datasink.a50 ID: 211 INFO:workflow:Executing node datasink.a36 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_TA5T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_CMA_subject_id_KKCT/KKCT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/KKCT/KKCT_QSM_reoriented_L_CMA.nii.gz INFO:workflow:Executing: datasink.a54 ID: 215 INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_GH_subject_id_TA5T/TA5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/TA5T/TA5T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a45 ID: 219 INFO:workflow:Executing node datasink.a03 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_WC9T/datasink INFO:workflow:Executing node datasink.a75 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_KK6T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_AA_subject_id_STAT/STAT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/STAT/STAT_QSM_reoriented_R_AA.nii.gz INFO:workflow:Executing: datasink.a04 ID: 222 INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_GH_subject_id_WC9T/WC9T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/WC9T/WC9T_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_GH_subject_id_KK6T/KK6T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/KK6T/KK6T_QSM_reoriented.nii.gz INFO:workflow:Executing node datasink.a57 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_STAT/datasink INFO:workflow:Executing: datasink.a39 ID: 226 INFO:workflow:Executing node datasink.a56 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_STAT/datasink INFO:workflow:Executing node datasink.a50 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_HSLT/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_GH_subject_id_STAT/STAT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/STAT/STAT_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_GH_subject_id_TA5T/TA5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/TA5T/TA5T_QSM_reoriented_L_GH.nii.gz INFO:workflow:Executing: datasink.a74 ID: 231 INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_CMA_subject_id_HSLT/HSLT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HSLT/HSLT_QSM_reoriented.nii.gz INFO:workflow:Executing node datasink.a54 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_STAT/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_CMA_subject_id_STAT/STAT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/STAT/STAT_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a42 ID: 235 INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_GH_subject_id_STAT/STAT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/STAT/STAT_QSM_reoriented.nii.gz INFO:workflow:Executing node datasink.a45 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_AD2T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_GH_subject_id_WC9T/WC9T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/WC9T/WC9T_QSM_reoriented_R_GH.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_GH_subject_id_KK6T/KK6T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/KK6T/KK6T_QSM_reoriented_R_GH.nii.gz INFO:workflow:Executing: datasink.a38 ID: 238 INFO:workflow:Executing: datasink.a62 ID: 243 INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_GH_subject_id_AD2T/AD2T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/AD2T/AD2T_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_GH_subject_id_STAT/STAT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/STAT/STAT_QSM_reoriented_R_GH.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_CMA_subject_id_HSLT/HSLT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HSLT/HSLT_QSM_reoriented_L_CMA.nii.gz INFO:workflow:Executing node datasink.a04 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_WC9T/datasink INFO:workflow:Executing: datasink.a63 ID: 247 INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_AA_subject_id_WC9T/WC9T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/WC9T/WC9T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a29 ID: 250 INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_CMA_subject_id_STAT/STAT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/STAT/STAT_QSM_reoriented_L_CMA.nii.gz INFO:workflow:Executing node datasink.a39 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_TA5T/datasink INFO:workflow:Executing: datasink.a72 ID: 254 INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_GH_subject_id_STAT/STAT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/STAT/STAT_QSM_reoriented_L_GH.nii.gz INFO:workflow:Executing node datasink.a74 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_KK6T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_GH_subject_id_TA5T/TA5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/TA5T/TA5T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a48 ID: 259 INFO:workflow:Executing node datasink.a42 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_AD2T/datasink INFO:workflow:Executing node datasink.a38 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_TA5T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_GH_subject_id_AD2T/AD2T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/AD2T/AD2T_QSM_reoriented_R_GH.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_CMA_subject_id_KK6T/KK6T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/KK6T/KK6T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a47 ID: 263 INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_GH_subject_id_AD2T/AD2T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/AD2T/AD2T_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_CMA_subject_id_TA5T/TA5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/TA5T/TA5T_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_AA_subject_id_WC9T/WC9T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/WC9T/WC9T_QSM_reoriented_R_AA.nii.gz INFO:workflow:Executing: datasink.a31 ID: 266 INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_GH_subject_id_TA5T/TA5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/TA5T/TA5T_QSM_reoriented_R_GH.nii.gz INFO:workflow:Executing node datasink.a62 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_HSNT/datasink INFO:workflow:Executing: datasink.a77 ID: 270 INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_CMA_subject_id_KK6T/KK6T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/KK6T/KK6T_QSM_reoriented_L_CMA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_CMA_subject_id_TA5T/TA5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/TA5T/TA5T_QSM_reoriented_L_CMA.nii.gz INFO:workflow:Executing node datasink.a63 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_HSNT/datasink INFO:workflow:Executing node datasink.a29 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_NM3T/datasink INFO:workflow:Executing: datasink.a46 ID: 275 INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_CMA_subject_id_HSNT/HSNT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HSNT/HSNT_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_GH_subject_id_AD2T/AD2T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/AD2T/AD2T_QSM_reoriented_L_GH.nii.gz INFO:workflow:Executing node datasink.a72 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_KK6T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_GH_subject_id_HSNT/HSNT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HSNT/HSNT_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a40 ID: 279 INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_CMA_subject_id_NM3T/NM3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/NM3T/NM3T_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_GH_subject_id_KK6T/KK6T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/KK6T/KK6T_QSM_reoriented.nii.gz INFO:workflow:Executing node datasink.a48 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_HSLT/datasink INFO:workflow:Executing: datasink.a65 ID: 283 INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_GH_subject_id_HSLT/HSLT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HSLT/HSLT_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a33 ID: 286 INFO:workflow:Executing node datasink.a47 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_AD2T/datasink INFO:workflow:Executing node datasink.a31 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_HN3T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_GH_subject_id_HSNT/HSNT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HSNT/HSNT_QSM_reoriented_R_GH.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_CMA_subject_id_AD2T/AD2T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/AD2T/AD2T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a41 ID: 291 INFO:workflow:Executing node datasink.a77 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_KK6T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_AA_subject_id_HN3T/HN3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HN3T/HN3T_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_CMA_subject_id_HSNT/HSNT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HSNT/HSNT_QSM_reoriented_L_CMA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_GH_subject_id_KK6T/KK6T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/KK6T/KK6T_QSM_reoriented_L_GH.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_CMA_subject_id_NM3T/NM3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/NM3T/NM3T_QSM_reoriented_R_CMA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_GH_subject_id_HSLT/HSLT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HSLT/HSLT_QSM_reoriented_L_GH.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_CMA_subject_id_KK6T/KK6T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/KK6T/KK6T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a69 ID: 295 INFO:workflow:Executing: datasink.a66 ID: 299 INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_CMA_subject_id_AD2T/AD2T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/AD2T/AD2T_QSM_reoriented_R_CMA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_AA_subject_id_HN3T/HN3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HN3T/HN3T_QSM_reoriented_L_AA.nii.gz INFO:workflow:Executing: datasink.a64 ID: 303 INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_CMA_subject_id_KK6T/KK6T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/KK6T/KK6T_QSM_reoriented_R_CMA.nii.gz INFO:workflow:Executing node datasink.a46 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_AD2T/datasink INFO:workflow:Executing node datasink.a40 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_TA5T/datasink INFO:workflow:Executing node datasink.a65 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_HSNT/datasink INFO:workflow:Executing node datasink.a33 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_HN3T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_AA_subject_id_AD2T/AD2T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/AD2T/AD2T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a67 ID: 306 INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_AA_subject_id_TA5T/TA5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/TA5T/TA5T_QSM_reoriented.nii.gz INFO:workflow:Executing node datasink.a41 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_TA5T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_CMA_subject_id_HSNT/HSNT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HSNT/HSNT_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_GH_subject_id_HN3T/HN3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HN3T/HN3T_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_CMA_subject_id_TA5T/TA5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/TA5T/TA5T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a51 ID: 311 INFO:workflow:Executing node datasink.a69 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_KKCT/datasink INFO:workflow:Executing node datasink.a66 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_KKCT/datasink INFO:workflow:[Job finished] jobname: datasink.a26 jobid: 3 INFO:workflow:Executing node datasink.a64 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_HSNT/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_GH_subject_id_KKCT/KKCT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/KKCT/KKCT_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_AA_subject_id_AD2T/AD2T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/AD2T/AD2T_QSM_reoriented_R_AA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_CMA_subject_id_HSNT/HSNT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HSNT/HSNT_QSM_reoriented_R_CMA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_GH_subject_id_HN3T/HN3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HN3T/HN3T_QSM_reoriented_R_GH.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_AA_subject_id_TA5T/TA5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/TA5T/TA5T_QSM_reoriented_R_AA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_CMA_subject_id_TA5T/TA5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/TA5T/TA5T_QSM_reoriented_R_CMA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_GH_subject_id_KKCT/KKCT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/KKCT/KKCT_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_AA_subject_id_HSNT/HSNT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HSNT/HSNT_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_GH_subject_id_KKCT/KKCT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/KKCT/KKCT_QSM_reoriented_R_GH.nii.gz INFO:workflow:Executing node datasink.a67 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_KKCT/datasink INFO:workflow:Executing node datasink.a51 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_HSLT/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_GH_subject_id_KKCT/KKCT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/KKCT/KKCT_QSM_reoriented_L_GH.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_AA_subject_id_HSNT/HSNT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HSNT/HSNT_QSM_reoriented_R_AA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_GH_subject_id_HSLT/HSLT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HSLT/HSLT_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_AA_subject_id_KKCT/KKCT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/KKCT/KKCT_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_AA_subject_id_KKCT/KKCT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/KKCT/KKCT_QSM_reoriented_L_AA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_GH_subject_id_HSLT/HSLT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HSLT/HSLT_QSM_reoriented_R_GH.nii.gz INFO:workflow:[Job finished] jobname: datasink.a37 jobid: 6 INFO:workflow:[Job finished] jobname: datasink.a00 jobid: 11 INFO:workflow:[Job finished] jobname: datasink.a07 jobid: 15 INFO:workflow:[Job finished] jobname: datasink.a15 jobid: 18 INFO:workflow:[Job finished] jobname: datasink.a20 jobid: 22 INFO:workflow:[Job finished] jobname: datasink.a76 jobid: 26 INFO:workflow:[Job finished] jobname: datasink.a01 jobid: 30 INFO:workflow:[Job finished] jobname: datasink.a16 jobid: 34 INFO:workflow:[Job finished] jobname: datasink.a32 jobid: 38 INFO:workflow:[Job finished] jobname: datasink.a73 jobid: 43 INFO:workflow:[Job finished] jobname: datasink.a70 jobid: 47 INFO:workflow:[Job finished] jobname: datasink.a09 jobid: 50 INFO:workflow:[Job finished] jobname: datasink.a61 jobid: 54 INFO:workflow:[Job finished] jobname: datasink.a10 jobid: 59 INFO:workflow:[Job finished] jobname: datasink.a21 jobid: 63 INFO:workflow:[Job finished] jobname: datasink.a23 jobid: 67 INFO:workflow:[Job finished] jobname: datasink.a59 jobid: 71 INFO:workflow:[Job finished] jobname: datasink.a19 jobid: 74 INFO:workflow:[Job finished] jobname: datasink.a12 jobid: 79 INFO:workflow:[Job finished] jobname: datasink.a06 jobid: 82 INFO:workflow:[Job finished] jobname: datasink.a24 jobid: 87 INFO:workflow:[Job finished] jobname: datasink.a35 jobid: 91 INFO:workflow:[Job finished] jobname: datasink.a25 jobid: 95 INFO:workflow:[Job finished] jobname: datasink.a55 jobid: 99 INFO:workflow:[Job finished] jobname: datasink.a52 jobid: 102 INFO:workflow:[Job finished] jobname: datasink.a13 jobid: 106 INFO:workflow:[Job finished] jobname: datasink.a44 jobid: 111 INFO:workflow:[Job finished] jobname: datasink.a34 jobid: 115 INFO:workflow:[Job finished] jobname: datasink.a18 jobid: 119 INFO:workflow:[Job finished] jobname: datasink.a17 jobid: 123 INFO:workflow:[Job finished] jobname: datasink.a27 jobid: 127 INFO:workflow:[Job finished] jobname: datasink.a08 jobid: 131 INFO:workflow:[Job finished] jobname: datasink.a49 jobid: 134 INFO:workflow:[Job finished] jobname: datasink.a22 jobid: 138 INFO:workflow:[Job finished] jobname: datasink.a11 jobid: 142 INFO:workflow:[Job finished] jobname: datasink.a53 jobid: 146 INFO:workflow:[Job finished] jobname: datasink.a43 jobid: 150 INFO:workflow:[Job finished] jobname: datasink.a02 jobid: 154 INFO:workflow:[Job finished] jobname: datasink.a60 jobid: 159 INFO:workflow:[Job finished] jobname: datasink.a14 jobid: 162 INFO:workflow:[Job finished] jobname: datasink.a71 jobid: 166 INFO:workflow:[Job finished] jobname: datasink.a28 jobid: 171 INFO:workflow:[Job finished] jobname: datasink.a30 jobid: 175 INFO:workflow:[Job finished] jobname: datasink.a05 jobid: 179 INFO:workflow:[Job finished] jobname: datasink.a68 jobid: 183 INFO:workflow:[Job finished] jobname: datasink.a58 jobid: 187 INFO:workflow:[Job finished] jobname: datasink.a36 jobid: 190 INFO:workflow:[Job finished] jobname: datasink.a03 jobid: 195 INFO:workflow:[Job finished] jobname: datasink.a75 jobid: 199 INFO:workflow:[Job finished] jobname: datasink.a57 jobid: 202 INFO:workflow:[Job finished] jobname: datasink.a56 jobid: 207 INFO:workflow:[Job finished] jobname: datasink.a50 jobid: 211 INFO:workflow:[Job finished] jobname: datasink.a54 jobid: 215 INFO:workflow:[Job finished] jobname: datasink.a45 jobid: 219 INFO:workflow:[Job finished] jobname: datasink.a04 jobid: 222 INFO:workflow:[Job finished] jobname: datasink.a39 jobid: 226 INFO:workflow:[Job finished] jobname: datasink.a74 jobid: 231 INFO:workflow:[Job finished] jobname: datasink.a42 jobid: 235 INFO:workflow:[Job finished] jobname: datasink.a38 jobid: 238 INFO:workflow:[Job finished] jobname: datasink.a62 jobid: 243 INFO:workflow:[Job finished] jobname: datasink.a63 jobid: 247 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<networkx.classes.digraph.DiGraph at 0x602cc50>
Let's write a short fucntion that reads in a mask- and a data-file and extracts the mean QSM-value within the mask
def get_iron_content(data_fn, mask_fn):
import nibabel as nb
import os
import numpy as np
data = nb.load(data_fn).get_data()
mask = nb.load(mask_fn).get_data()
f = open(os.path.join(os.getcwd(), 'mean_qsm_value.txt'), 'w')
qsm_value = np.mean(data[mask != 0])
f.write(str(qsm_value))
f.close()
return os.path.join(os.getcwd(), 'mean_qsm_value.txt')
fn =get_iron_content('/home/gdholla1/notebooks_demo/data/reoriented_qsm/AD2T/AD2T_QSM_reoriented.nii.gz',
'/home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/AD2T/AD2T_QSM_reoriented_L_AA.nii.gz')
print fn
print open(fn).read()
/home/gdholla1/notebooks_demo/mean_qsm_value.txt 0.000223208
It works.
We can now integrate this function into our larger workflow. Note that all earlier steps are cached, so the new analysis runs pretty fast.
First we test the individual interface that translates the Python function to a NiPype-interface
import nipype.interfaces.utility as util # Submodule required to
iron_node = pe.Node(util.Function(function=get_iron_content,
input_names=['data_fn', 'mask_fn'],
output_names=['iron_content']),
name='iron')
iron_node.inputs.data_fn = '/home/gdholla1/notebooks_demo/data/reoriented_qsm/AD2T/AD2T_QSM_reoriented.nii.gz'
iron_node.inputs.mask_fn = '/home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/AD2T/AD2T_QSM_reoriented_L_AA.nii.gz'
r = iron_node.run()
print r.outputs
print open(r.outputs.iron_content).read()
INFO:workflow:Executing node iron in dir: /tmp/tmpUonZxz/iron INFO:workflow:Collecting precomputed outputs
iron_content = /tmp/tmpUonZxz/iron/mean_qsm_value.txt 0.000223208
Here the complete workflow
workflow = pe.Workflow(name='reorient_QSM', base_dir='/home/gdholla1/workflow_folders/')
dg = pe.Node(nio.DataGrabber(infields=['subject_id', 'rater', 'hemisphere'], outfields=['QSM', 'mask']), name='datagrabber')
dg.inputs.template = '*'
dg.inputs.base_directory = '/home/gdholla1/ERC_data/'
dg.inputs.field_template = {'QSM' : 'QSM_data/Young/%s_QSM.nii',
'mask': 'STN_masks/QSM/Young/%s_QSM_%s_%s.nii.gz'}
dg.inputs.template_args = {'QSM' : [['subject_id']],
'mask': [['subject_id', 'hemisphere', 'rater']]}
dg.iterables = [('subject_id', subj_idxs),
('rater', ['GH', 'AA', 'CMA']),
('hemisphere', ['L', 'R'])]
dg.inputs.sort_filelist = True
reorient = pe.Node(fsl.Reorient2Std(), name='reorient')
workflow.connect(dg, 'QSM', reorient, 'in_file')
reorient_mask = pe.Node(fsl.Reorient2Std(), name='reorient_mask')
workflow.connect(dg, 'mask', reorient_mask, 'in_file')
iron_node = pe.Node(util.Function(function=get_iron_content, input_names=['data_fn', 'mask_fn'], output_names=['iron_content']), name='iron')
workflow.connect(reorient, 'out_file', iron_node, 'data_fn')
workflow.connect(reorient_mask, 'out_file', iron_node, 'mask_fn')
ds = pe.Node(nio.DataSink(), name='datasink')
ds.inputs.base_directory = '/home/gdholla1/notebooks_demo/data'
ds.inputs.regexp_substitutions = [('reoriented_qsm/_hemisphere_([A-Z])_rater_([A-Z]{2,3})_subject_id_([A-Z0-9]{4})/(.*).nii.gz',
'reoriented_qsm/\\3/\\4.nii.gz'),
('reoriented_qsm_masks/_hemisphere_([A-Z])_rater_([A-Z]{2,3})_subject_id_([A-Z0-9]{4})/(.*).nii.gz',
'reoriented_qsm_masks/\\3/\\4_\\1_\\2.nii.gz')]
workflow.connect(reorient, 'out_file', ds, 'reoriented_qsm')
workflow.connect(reorient, 'out_file', ds, 'reoriented_qsm_masks')
workflow.connect(iron_node, 'iron_content', ds, 'iron_values')
workflow.write_graph()
import os
Image(os.path.join(workflow.base_dir, workflow.name, 'graph.dot.png'))
INFO:workflow:Converting dotfile: /home/gdholla1/workflow_folders/reorient_QSM/graph.dot to png format
workflow.run(plugin='MultiProc', plugin_args={'n_procs' : 8})
INFO:workflow:['check', 'execution', 'logging'] INFO:workflow:Running in parallel. INFO:workflow:Submitting 78 jobs INFO:workflow:Executing: datagrabber.aI.a56 ID: 0 INFO:workflow:Executing: datagrabber.aI.a64 ID: 5 INFO:workflow:Executing: datagrabber.aI.a15 ID: 10 INFO:workflow:Executing: datagrabber.aI.a58 ID: 15 INFO:workflow:Executing node datagrabber.aI.a56 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_STAT/datagrabber INFO:workflow:Executing: datagrabber.aI.a14 ID: 20 INFO:workflow:Executing node datagrabber.aI.a64 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_HSNT/datagrabber INFO:workflow:Executing: datagrabber.aI.a11 ID: 25 INFO:workflow:Executing node datagrabber.aI.a15 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_SF3T/datagrabber INFO:workflow:Executing: datagrabber.aI.a76 ID: 30 INFO:workflow:Executing node datagrabber.aI.a58 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_STAT/datagrabber 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datagrabber.aI.a62 ID: 295 INFO:workflow:Executing node datagrabber.aI.a22 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_RT5T/datagrabber INFO:workflow:Executing: datagrabber.aI.a20 ID: 300 INFO:workflow:Executing node datagrabber.aI.a49 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_HSLT/datagrabber INFO:workflow:Executing: datagrabber.aI.a40 ID: 305 INFO:workflow:Executing node datagrabber.aI.a62 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_HSNT/datagrabber INFO:workflow:Executing: datagrabber.aI.a25 ID: 310 INFO:workflow:Executing node datagrabber.aI.a20 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_RT5T/datagrabber INFO:workflow:Executing: datagrabber.aI.a21 ID: 315 INFO:workflow:Executing node datagrabber.aI.a40 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_TA5T/datagrabber INFO:workflow:Executing: datagrabber.aI.a28 ID: 320 INFO:workflow:Executing node datagrabber.aI.a25 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_NM3T/datagrabber INFO:workflow:Executing: datagrabber.aI.a30 ID: 325 INFO:workflow:Executing node datagrabber.aI.a21 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_RT5T/datagrabber INFO:workflow:Executing: datagrabber.aI.a63 ID: 330 INFO:workflow:Executing node datagrabber.aI.a28 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_NM3T/datagrabber INFO:workflow:Executing: datagrabber.aI.a31 ID: 335 INFO:workflow:Executing node datagrabber.aI.a30 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_HN3T/datagrabber INFO:workflow:Executing: datagrabber.aI.a29 ID: 340 INFO:workflow:Executing node datagrabber.aI.a63 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_HSNT/datagrabber INFO:workflow:Executing: datagrabber.aI.a48 ID: 345 INFO:workflow:Executing node datagrabber.aI.a31 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_HN3T/datagrabber INFO:workflow:Executing: datagrabber.aI.a33 ID: 350 INFO:workflow:Executing node datagrabber.aI.a29 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_NM3T/datagrabber INFO:workflow:Executing: datagrabber.aI.a34 ID: 355 INFO:workflow:Executing node datagrabber.aI.a48 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_HSLT/datagrabber INFO:workflow:Executing: datagrabber.aI.a35 ID: 360 INFO:workflow:Executing node datagrabber.aI.a33 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_HN3T/datagrabber INFO:workflow:Executing: datagrabber.aI.a36 ID: 365 INFO:workflow:Executing node datagrabber.aI.a34 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_HN3T/datagrabber INFO:workflow:Executing: datagrabber.aI.a37 ID: 370 INFO:workflow:Executing node datagrabber.aI.a35 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_HN3T/datagrabber INFO:workflow:Executing: datagrabber.aI.a47 ID: 375 INFO:workflow:Executing node datagrabber.aI.a36 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_TA5T/datagrabber INFO:workflow:Executing: datagrabber.aI.a27 ID: 380 INFO:workflow:Executing node datagrabber.aI.a37 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_TA5T/datagrabber INFO:workflow:Executing: datagrabber.aI.a50 ID: 385 INFO:workflow:Executing node datagrabber.aI.a47 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_AD2T/datagrabber INFO:workflow:[Job finished] jobname: datagrabber.aI.a56 jobid: 0 INFO:workflow:Executing node datagrabber.aI.a27 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_NM3T/datagrabber INFO:workflow:Executing node datagrabber.aI.a50 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_HSLT/datagrabber INFO:workflow:[Job finished] jobname: datagrabber.aI.a64 jobid: 5 INFO:workflow:[Job finished] jobname: datagrabber.aI.a15 jobid: 10 INFO:workflow:[Job finished] jobname: datagrabber.aI.a58 jobid: 15 INFO:workflow:[Job finished] jobname: datagrabber.aI.a14 jobid: 20 INFO:workflow:[Job finished] jobname: datagrabber.aI.a11 jobid: 25 INFO:workflow:[Job finished] jobname: datagrabber.aI.a76 jobid: 30 INFO:workflow:[Job finished] jobname: datagrabber.aI.a72 jobid: 35 INFO:workflow:[Job finished] jobname: datagrabber.aI.a66 jobid: 40 INFO:workflow:[Job finished] jobname: datagrabber.aI.a55 jobid: 45 INFO:workflow:[Job finished] jobname: datagrabber.aI.a59 jobid: 50 INFO:workflow:[Job finished] jobname: datagrabber.aI.a44 jobid: 55 INFO:workflow:[Job finished] jobname: datagrabber.aI.a74 jobid: 60 INFO:workflow:[Job finished] jobname: datagrabber.aI.a57 jobid: 65 INFO:workflow:[Job finished] jobname: datagrabber.aI.a38 jobid: 70 INFO:workflow:[Job finished] jobname: datagrabber.aI.a52 jobid: 75 INFO:workflow:[Job finished] jobname: datagrabber.aI.a26 jobid: 80 INFO:workflow:[Job finished] jobname: datagrabber.aI.a53 jobid: 85 INFO:workflow:[Job finished] jobname: datagrabber.aI.a65 jobid: 90 INFO:workflow:[Job finished] jobname: datagrabber.aI.a75 jobid: 95 INFO:workflow:[Job finished] jobname: datagrabber.aI.a16 jobid: 100 INFO:workflow:[Job finished] jobname: datagrabber.aI.a46 jobid: 105 INFO:workflow:[Job finished] jobname: datagrabber.aI.a43 jobid: 110 INFO:workflow:[Job finished] jobname: datagrabber.aI.a73 jobid: 115 INFO:workflow:[Job finished] jobname: datagrabber.aI.a61 jobid: 120 INFO:workflow:[Job finished] jobname: datagrabber.aI.a60 jobid: 125 INFO:workflow:[Job finished] jobname: datagrabber.aI.a67 jobid: 130 INFO:workflow:[Job finished] jobname: datagrabber.aI.a01 jobid: 135 INFO:workflow:[Job finished] jobname: datagrabber.aI.a39 jobid: 140 INFO:workflow:[Job finished] jobname: datagrabber.aI.a51 jobid: 145 INFO:workflow:[Job finished] jobname: datagrabber.aI.a70 jobid: 150 INFO:workflow:[Job finished] jobname: datagrabber.aI.a68 jobid: 155 INFO:workflow:[Job finished] jobname: datagrabber.aI.a42 jobid: 160 INFO:workflow:[Job finished] jobname: datagrabber.aI.a69 jobid: 165 INFO:workflow:[Job finished] jobname: datagrabber.aI.a77 jobid: 170 INFO:workflow:[Job finished] jobname: datagrabber.aI.a03 jobid: 175 INFO:workflow:[Job finished] jobname: datagrabber.aI.a32 jobid: 180 INFO:workflow:[Job finished] jobname: datagrabber.aI.a54 jobid: 185 INFO:workflow:[Job finished] jobname: datagrabber.aI.a41 jobid: 190 INFO:workflow:[Job finished] jobname: datagrabber.aI.a71 jobid: 195 INFO:workflow:[Job finished] jobname: datagrabber.aI.a19 jobid: 200 INFO:workflow:[Job finished] jobname: datagrabber.aI.a45 jobid: 205 INFO:workflow:[Job finished] jobname: datagrabber.aI.a10 jobid: 210 INFO:workflow:[Job finished] jobname: datagrabber.aI.a18 jobid: 215 INFO:workflow:[Job finished] jobname: datagrabber.aI.a23 jobid: 220 INFO:workflow:[Job finished] jobname: datagrabber.aI.a13 jobid: 225 INFO:workflow:[Job finished] jobname: datagrabber.aI.a12 jobid: 230 INFO:workflow:[Job finished] jobname: datagrabber.aI.a00 jobid: 235 INFO:workflow:[Job finished] jobname: datagrabber.aI.a08 jobid: 240 INFO:workflow:[Job finished] jobname: datagrabber.aI.a06 jobid: 245 INFO:workflow:[Job finished] jobname: datagrabber.aI.a09 jobid: 250 INFO:workflow:[Job finished] jobname: datagrabber.aI.a05 jobid: 255 INFO:workflow:[Job finished] jobname: datagrabber.aI.a07 jobid: 260 INFO:workflow:[Job finished] jobname: datagrabber.aI.a17 jobid: 265 INFO:workflow:[Job finished] jobname: datagrabber.aI.a24 jobid: 270 INFO:workflow:[Job finished] jobname: datagrabber.aI.a02 jobid: 275 INFO:workflow:[Job finished] jobname: datagrabber.aI.a04 jobid: 280 INFO:workflow:[Job finished] jobname: datagrabber.aI.a22 jobid: 285 INFO:workflow:[Job finished] jobname: datagrabber.aI.a49 jobid: 290 INFO:workflow:[Job finished] jobname: datagrabber.aI.a62 jobid: 295 INFO:workflow:[Job finished] jobname: datagrabber.aI.a20 jobid: 300 INFO:workflow:[Job finished] jobname: datagrabber.aI.a40 jobid: 305 INFO:workflow:[Job finished] jobname: datagrabber.aI.a25 jobid: 310 INFO:workflow:[Job finished] jobname: datagrabber.aI.a21 jobid: 315 INFO:workflow:[Job finished] jobname: datagrabber.aI.a28 jobid: 320 INFO:workflow:[Job finished] jobname: datagrabber.aI.a30 jobid: 325 INFO:workflow:[Job finished] jobname: datagrabber.aI.a63 jobid: 330 INFO:workflow:[Job finished] jobname: datagrabber.aI.a31 jobid: 335 INFO:workflow:[Job finished] jobname: datagrabber.aI.a29 jobid: 340 INFO:workflow:[Job finished] jobname: datagrabber.aI.a48 jobid: 345 INFO:workflow:[Job finished] jobname: datagrabber.aI.a33 jobid: 350 INFO:workflow:[Job finished] jobname: datagrabber.aI.a34 jobid: 355 INFO:workflow:[Job finished] jobname: datagrabber.aI.a35 jobid: 360 INFO:workflow:[Job finished] jobname: datagrabber.aI.a36 jobid: 365 INFO:workflow:[Job finished] jobname: datagrabber.aI.a37 jobid: 370 INFO:workflow:[Job finished] jobname: datagrabber.aI.a47 jobid: 375 INFO:workflow:[Job finished] jobname: datagrabber.aI.a27 jobid: 380 INFO:workflow:[Job finished] jobname: datagrabber.aI.a50 jobid: 385 INFO:workflow:Submitting 156 jobs INFO:workflow:Executing: reorient.a56 ID: 1 INFO:workflow:[Job finished] jobname: reorient.a56 jobid: 1 INFO:workflow:Executing: reorient_mask.a56 ID: 2 INFO:workflow:Executing: reorient_mask.a64 ID: 6 INFO:workflow:Executing: reorient.a64 ID: 7 INFO:workflow:Executing node reorient_mask.a56 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_STAT/reorient_mask INFO:workflow:[Job finished] jobname: reorient.a64 jobid: 7 INFO:workflow:Executing node reorient_mask.a64 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_HSNT/reorient_mask INFO:workflow:Executing: reorient.a15 ID: 11 INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/STAT_QSM_L_CMA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_STAT/reorient_mask/STAT_QSM_L_CMA_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/HSNT_QSM_R_AA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_HSNT/reorient_mask/HSNT_QSM_R_AA_reoriented.nii.gz INFO:workflow:[Job finished] jobname: reorient.a15 jobid: 11 INFO:workflow:Executing: reorient_mask.a15 ID: 12 INFO:workflow:Executing: reorient.a58 ID: 16 INFO:workflow:[Job finished] jobname: reorient.a58 jobid: 16 INFO:workflow:Executing node reorient_mask.a15 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_SF3T/reorient_mask INFO:workflow:Executing: reorient_mask.a58 ID: 17 INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/SF3T_QSM_R_GH.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_SF3T/reorient_mask/SF3T_QSM_R_GH_reoriented.nii.gz INFO:workflow:Executing: reorient_mask.a14 ID: 21 INFO:workflow:Executing: reorient.a14 ID: 22 INFO:workflow:Executing node reorient_mask.a58 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_STAT/reorient_mask INFO:workflow:[Job finished] jobname: reorient.a14 jobid: 22 INFO:workflow:Executing node reorient_mask.a14 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_SF3T/reorient_mask INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/STAT_QSM_R_AA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_STAT/reorient_mask/STAT_QSM_R_AA_reoriented.nii.gz INFO:workflow:Executing: reorient.a11 ID: 26 INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/SF3T_QSM_L_CMA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_SF3T/reorient_mask/SF3T_QSM_L_CMA_reoriented.nii.gz INFO:workflow:[Job finished] jobname: reorient.a11 jobid: 26 INFO:workflow:Executing: reorient_mask.a11 ID: 27 INFO:workflow:Executing: reorient.a76 ID: 31 INFO:workflow:[Job finished] jobname: reorient.a76 jobid: 31 INFO:workflow:Executing node reorient_mask.a11 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_HT5T/reorient_mask INFO:workflow:Executing: reorient_mask.a76 ID: 32 INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/HT5T_QSM_R_CMA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_HT5T/reorient_mask/HT5T_QSM_R_CMA_reoriented.nii.gz INFO:workflow:Executing: reorient.a72 ID: 36 INFO:workflow:[Job finished] jobname: reorient.a72 jobid: 36 INFO:workflow:Executing node reorient_mask.a76 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_KK6T/reorient_mask INFO:workflow:Executing: reorient_mask.a72 ID: 37 INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/KK6T_QSM_R_AA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_KK6T/reorient_mask/KK6T_QSM_R_AA_reoriented.nii.gz INFO:workflow:Executing: reorient.a66 ID: 41 INFO:workflow:[Job finished] jobname: reorient.a66 jobid: 41 INFO:workflow:Executing node reorient_mask.a72 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_KK6T/reorient_mask INFO:workflow:Executing: reorient_mask.a66 ID: 42 INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/KK6T_QSM_L_GH.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_KK6T/reorient_mask/KK6T_QSM_L_GH_reoriented.nii.gz INFO:workflow:Executing: reorient_mask.a55 ID: 46 INFO:workflow:Executing: reorient.a55 ID: 47 INFO:workflow:[Job finished] jobname: reorient.a55 jobid: 47 INFO:workflow:Executing: reorient.a59 ID: 51 INFO:workflow:[Job finished] jobname: reorient.a59 jobid: 51 INFO:workflow:Executing: reorient_mask.a59 ID: 52 INFO:workflow:Executing: reorient_mask.a44 ID: 56 INFO:workflow:Executing: reorient.a44 ID: 57 INFO:workflow:[Job finished] jobname: reorient.a44 jobid: 57 INFO:workflow:Executing: reorient.a74 ID: 61 INFO:workflow:[Job finished] jobname: reorient.a74 jobid: 61 INFO:workflow:Executing: reorient_mask.a74 ID: 62 INFO:workflow:Executing: reorient_mask.a57 ID: 66 INFO:workflow:Executing: reorient.a57 ID: 67 INFO:workflow:[Job finished] jobname: reorient.a57 jobid: 67 INFO:workflow:Executing: reorient_mask.a38 ID: 71 INFO:workflow:Executing: reorient.a38 ID: 72 INFO:workflow:[Job finished] jobname: reorient.a38 jobid: 72 INFO:workflow:Executing: reorient_mask.a52 ID: 76 INFO:workflow:Executing: reorient.a52 ID: 77 INFO:workflow:[Job finished] jobname: reorient.a52 jobid: 77 INFO:workflow:Executing: reorient.a26 ID: 81 INFO:workflow:[Job finished] jobname: reorient.a26 jobid: 81 INFO:workflow:Executing: reorient_mask.a26 ID: 82 INFO:workflow:Executing: reorient_mask.a53 ID: 86 INFO:workflow:Executing: reorient.a53 ID: 87 INFO:workflow:[Job finished] jobname: reorient.a53 jobid: 87 INFO:workflow:Executing: reorient.a65 ID: 91 INFO:workflow:[Job finished] jobname: reorient.a65 jobid: 91 INFO:workflow:Executing: reorient_mask.a65 ID: 92 INFO:workflow:Executing: reorient.a75 ID: 96 INFO:workflow:[Job finished] jobname: reorient.a75 jobid: 96 INFO:workflow:Executing: reorient_mask.a75 ID: 97 INFO:workflow:Executing: reorient.a16 ID: 101 INFO:workflow:[Job finished] jobname: reorient.a16 jobid: 101 INFO:workflow:Executing: reorient_mask.a16 ID: 102 INFO:workflow:Executing: reorient.a46 ID: 106 INFO:workflow:[Job finished] jobname: reorient.a46 jobid: 106 INFO:workflow:Executing: reorient_mask.a46 ID: 107 INFO:workflow:Executing: reorient.a43 ID: 111 INFO:workflow:[Job finished] jobname: reorient.a43 jobid: 111 INFO:workflow:Executing: reorient_mask.a43 ID: 112 INFO:workflow:Executing: reorient_mask.a73 ID: 116 INFO:workflow:Executing: reorient.a73 ID: 117 INFO:workflow:[Job finished] jobname: reorient.a73 jobid: 117 INFO:workflow:Executing: reorient.a61 ID: 121 INFO:workflow:[Job finished] jobname: reorient.a61 jobid: 121 INFO:workflow:Executing: reorient_mask.a61 ID: 122 INFO:workflow:Executing: reorient_mask.a60 ID: 126 INFO:workflow:Executing: reorient.a60 ID: 127 INFO:workflow:[Job finished] jobname: reorient.a60 jobid: 127 INFO:workflow:Executing: reorient.a67 ID: 131 INFO:workflow:[Job finished] jobname: reorient.a67 jobid: 131 INFO:workflow:Executing: reorient_mask.a67 ID: 132 INFO:workflow:Executing: reorient_mask.a01 ID: 136 INFO:workflow:Executing: reorient.a01 ID: 137 INFO:workflow:[Job finished] jobname: reorient.a01 jobid: 137 INFO:workflow:Executing: reorient_mask.a39 ID: 141 INFO:workflow:Executing: reorient.a39 ID: 142 INFO:workflow:[Job finished] jobname: reorient.a39 jobid: 142 INFO:workflow:Executing: reorient.a51 ID: 146 INFO:workflow:[Job finished] jobname: reorient.a51 jobid: 146 INFO:workflow:Executing: reorient_mask.a51 ID: 147 INFO:workflow:Executing: reorient.a70 ID: 151 INFO:workflow:[Job finished] jobname: reorient.a70 jobid: 151 INFO:workflow:Executing: reorient_mask.a70 ID: 152 INFO:workflow:Executing node reorient_mask.a55 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_STAT/reorient_mask INFO:workflow:Executing node reorient_mask.a66 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_KKCT/reorient_mask INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/STAT_QSM_L_AA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_STAT/reorient_mask/STAT_QSM_L_AA_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/KKCT_QSM_L_GH.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_KKCT/reorient_mask/KKCT_QSM_L_GH_reoriented.nii.gz INFO:workflow:Executing: reorient_mask.a68 ID: 156 INFO:workflow:Executing node reorient_mask.a59 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_STAT/reorient_mask INFO:workflow:Executing: reorient.a68 ID: 157 INFO:workflow:[Job finished] jobname: reorient.a68 jobid: 157 INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/STAT_QSM_R_CMA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_STAT/reorient_mask/STAT_QSM_R_CMA_reoriented.nii.gz INFO:workflow:Executing node reorient_mask.a44 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_AD2T/reorient_mask INFO:workflow:Executing node reorient_mask.a74 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_KK6T/reorient_mask INFO:workflow:Executing: reorient.a42 ID: 161 INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/AD2T_QSM_L_CMA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_AD2T/reorient_mask/AD2T_QSM_L_CMA_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/KK6T_QSM_L_CMA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_KK6T/reorient_mask/KK6T_QSM_L_CMA_reoriented.nii.gz INFO:workflow:[Job finished] jobname: reorient.a42 jobid: 161 INFO:workflow:Executing: reorient_mask.a42 ID: 162 INFO:workflow:Executing: reorient.a69 ID: 166 INFO:workflow:[Job finished] jobname: reorient.a69 jobid: 166 INFO:workflow:Executing: reorient_mask.a69 ID: 167 INFO:workflow:Executing node reorient_mask.a57 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_STAT/reorient_mask INFO:workflow:Executing: reorient.a77 ID: 171 INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/STAT_QSM_R_GH.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_STAT/reorient_mask/STAT_QSM_R_GH_reoriented.nii.gz INFO:workflow:[Job finished] jobname: reorient.a77 jobid: 171 INFO:workflow:Executing: reorient_mask.a77 ID: 172 INFO:workflow:Executing node reorient_mask.a38 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_TA5T/reorient_mask INFO:workflow:Executing: reorient.a03 ID: 176 INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/TA5T_QSM_L_CMA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_TA5T/reorient_mask/TA5T_QSM_L_CMA_reoriented.nii.gz INFO:workflow:[Job finished] jobname: reorient.a03 jobid: 176 INFO:workflow:Executing: reorient_mask.a03 ID: 177 INFO:workflow:Executing node reorient_mask.a52 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_HSLT/reorient_mask INFO:workflow:Executing: reorient.a32 ID: 181 INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/HSLT_QSM_R_AA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_HSLT/reorient_mask/HSLT_QSM_R_AA_reoriented.nii.gz INFO:workflow:[Job finished] jobname: reorient.a32 jobid: 181 INFO:workflow:Executing: reorient_mask.a32 ID: 182 INFO:workflow:Executing: reorient_mask.a54 ID: 186 INFO:workflow:Executing: reorient.a54 ID: 187 INFO:workflow:[Job finished] jobname: reorient.a54 jobid: 187 INFO:workflow:Executing: reorient.a41 ID: 191 INFO:workflow:[Job finished] jobname: reorient.a41 jobid: 191 INFO:workflow:Executing: reorient_mask.a41 ID: 192 INFO:workflow:Executing: reorient.a71 ID: 196 INFO:workflow:[Job finished] jobname: reorient.a71 jobid: 196 INFO:workflow:Executing: reorient_mask.a71 ID: 197 INFO:workflow:Executing: reorient.a19 ID: 201 INFO:workflow:[Job finished] jobname: reorient.a19 jobid: 201 INFO:workflow:Executing: reorient_mask.a19 ID: 202 INFO:workflow:Executing: reorient.a45 ID: 206 INFO:workflow:[Job finished] jobname: reorient.a45 jobid: 206 INFO:workflow:Executing: reorient_mask.a45 ID: 207 INFO:workflow:Executing: reorient_mask.a10 ID: 211 INFO:workflow:Executing: reorient.a10 ID: 212 INFO:workflow:[Job finished] jobname: reorient.a10 jobid: 212 INFO:workflow:Executing: reorient.a18 ID: 216 INFO:workflow:[Job finished] jobname: reorient.a18 jobid: 216 INFO:workflow:Executing: reorient_mask.a18 ID: 217 INFO:workflow:Executing: reorient.a23 ID: 221 INFO:workflow:[Job finished] jobname: reorient.a23 jobid: 221 INFO:workflow:Executing: reorient_mask.a23 ID: 222 INFO:workflow:Executing: reorient.a13 ID: 226 INFO:workflow:[Job finished] jobname: reorient.a13 jobid: 226 INFO:workflow:Executing: reorient_mask.a13 ID: 227 INFO:workflow:Executing: reorient_mask.a12 ID: 231 INFO:workflow:Executing: reorient.a12 ID: 232 INFO:workflow:[Job finished] jobname: reorient.a12 jobid: 232 INFO:workflow:Executing: reorient.a00 ID: 236 INFO:workflow:[Job finished] jobname: reorient.a00 jobid: 236 INFO:workflow:Executing: reorient_mask.a00 ID: 237 INFO:workflow:Executing: reorient.a08 ID: 241 INFO:workflow:[Job finished] jobname: reorient.a08 jobid: 241 INFO:workflow:Executing: reorient_mask.a08 ID: 242 INFO:workflow:Executing: reorient_mask.a06 ID: 246 INFO:workflow:Executing: reorient.a06 ID: 247 INFO:workflow:[Job finished] jobname: reorient.a06 jobid: 247 INFO:workflow:Executing: reorient.a09 ID: 251 INFO:workflow:[Job finished] jobname: reorient.a09 jobid: 251 INFO:workflow:Executing: reorient_mask.a09 ID: 252 INFO:workflow:Executing: reorient.a05 ID: 256 INFO:workflow:[Job finished] jobname: reorient.a05 jobid: 256 INFO:workflow:Executing: reorient_mask.a05 ID: 257 INFO:workflow:Executing: reorient.a07 ID: 261 INFO:workflow:[Job finished] jobname: reorient.a07 jobid: 261 INFO:workflow:Executing: reorient_mask.a07 ID: 262 INFO:workflow:Executing: reorient_mask.a17 ID: 266 INFO:workflow:Executing: reorient.a17 ID: 267 INFO:workflow:[Job finished] jobname: reorient.a17 jobid: 267 INFO:workflow:Executing: reorient.a24 ID: 271 INFO:workflow:[Job finished] jobname: reorient.a24 jobid: 271 INFO:workflow:Executing: reorient_mask.a24 ID: 272 INFO:workflow:Executing: reorient_mask.a02 ID: 276 INFO:workflow:Executing: reorient.a02 ID: 277 INFO:workflow:[Job finished] jobname: reorient.a02 jobid: 277 INFO:workflow:Executing: reorient_mask.a04 ID: 281 INFO:workflow:Executing: reorient.a04 ID: 282 INFO:workflow:[Job finished] jobname: reorient.a04 jobid: 282 INFO:workflow:Executing: reorient.a22 ID: 286 INFO:workflow:[Job finished] jobname: reorient.a22 jobid: 286 INFO:workflow:Executing: reorient_mask.a22 ID: 287 INFO:workflow:Executing: reorient.a49 ID: 291 INFO:workflow:[Job finished] jobname: reorient.a49 jobid: 291 INFO:workflow:Executing: reorient_mask.a49 ID: 292 INFO:workflow:Executing: reorient.a62 ID: 296 INFO:workflow:[Job finished] jobname: reorient.a62 jobid: 296 INFO:workflow:Executing: reorient_mask.a62 ID: 297 INFO:workflow:Executing: reorient.a20 ID: 301 INFO:workflow:[Job finished] jobname: reorient.a20 jobid: 301 INFO:workflow:Executing: reorient_mask.a20 ID: 302 INFO:workflow:Executing: reorient_mask.a40 ID: 306 INFO:workflow:Executing: reorient.a40 ID: 307 INFO:workflow:[Job finished] jobname: reorient.a40 jobid: 307 INFO:workflow:Executing: reorient.a25 ID: 311 INFO:workflow:[Job finished] jobname: reorient.a25 jobid: 311 INFO:workflow:Executing: reorient_mask.a25 ID: 312 INFO:workflow:Executing: reorient_mask.a21 ID: 316 INFO:workflow:Executing: reorient.a21 ID: 317 INFO:workflow:[Job finished] jobname: reorient.a21 jobid: 317 INFO:workflow:Executing: reorient_mask.a28 ID: 321 INFO:workflow:Executing: reorient.a28 ID: 322 INFO:workflow:[Job finished] jobname: reorient.a28 jobid: 322 INFO:workflow:Executing: reorient.a30 ID: 326 INFO:workflow:[Job finished] jobname: reorient.a30 jobid: 326 INFO:workflow:Executing: reorient_mask.a30 ID: 327 INFO:workflow:Executing: reorient.a63 ID: 331 INFO:workflow:[Job finished] jobname: reorient.a63 jobid: 331 INFO:workflow:Executing node reorient_mask.a26 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_NM3T/reorient_mask INFO:workflow:Executing: reorient_mask.a63 ID: 332 INFO:workflow:Executing node reorient_mask.a53 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_HSLT/reorient_mask INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/NM3T_QSM_L_CMA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_NM3T/reorient_mask/NM3T_QSM_L_CMA_reoriented.nii.gz INFO:workflow:Executing: reorient.a31 ID: 336 INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/HSLT_QSM_R_CMA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_HSLT/reorient_mask/HSLT_QSM_R_CMA_reoriented.nii.gz INFO:workflow:[Job finished] jobname: reorient.a31 jobid: 336 INFO:workflow:Executing: reorient_mask.a31 ID: 337 INFO:workflow:Executing: reorient_mask.a29 ID: 341 INFO:workflow:Executing: reorient.a29 ID: 342 INFO:workflow:Executing node reorient_mask.a65 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_HSNT/reorient_mask INFO:workflow:[Job finished] jobname: reorient.a29 jobid: 342 INFO:workflow:Executing node reorient_mask.a75 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_KK6T/reorient_mask INFO:workflow:Executing: reorient.a48 ID: 346 INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/HSNT_QSM_R_CMA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_HSNT/reorient_mask/HSNT_QSM_R_CMA_reoriented.nii.gz INFO:workflow:Executing node reorient_mask.a16 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_SF3T/reorient_mask INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/KK6T_QSM_R_GH.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_KK6T/reorient_mask/KK6T_QSM_R_GH_reoriented.nii.gz INFO:workflow:[Job finished] jobname: reorient.a48 jobid: 346 INFO:workflow:Executing: reorient_mask.a48 ID: 347 INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/SF3T_QSM_R_AA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_SF3T/reorient_mask/SF3T_QSM_R_AA_reoriented.nii.gz INFO:workflow:Executing: reorient.a33 ID: 351 INFO:workflow:[Job finished] jobname: reorient.a33 jobid: 351 INFO:workflow:Executing: reorient_mask.a33 ID: 352 INFO:workflow:Executing: reorient_mask.a34 ID: 356 INFO:workflow:Executing: reorient.a34 ID: 357 INFO:workflow:[Job finished] jobname: reorient.a34 jobid: 357 INFO:workflow:Executing: reorient.a35 ID: 361 INFO:workflow:Executing node reorient_mask.a46 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_AD2T/reorient_mask INFO:workflow:Executing node reorient_mask.a43 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_AD2T/reorient_mask INFO:workflow:[Job finished] jobname: reorient.a35 jobid: 361 INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/AD2T_QSM_R_AA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_AD2T/reorient_mask/AD2T_QSM_R_AA_reoriented.nii.gz INFO:workflow:Executing node reorient_mask.a73 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_KK6T/reorient_mask INFO:workflow:Executing: reorient_mask.a35 ID: 362 INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/AD2T_QSM_L_AA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_AD2T/reorient_mask/AD2T_QSM_L_AA_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/KK6T_QSM_L_AA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_KK6T/reorient_mask/KK6T_QSM_L_AA_reoriented.nii.gz INFO:workflow:Executing: reorient.a36 ID: 366 INFO:workflow:[Job finished] jobname: reorient.a36 jobid: 366 INFO:workflow:Executing: reorient_mask.a36 ID: 367 INFO:workflow:Executing: reorient.a37 ID: 371 INFO:workflow:[Job finished] jobname: reorient.a37 jobid: 371 INFO:workflow:Executing: reorient_mask.a37 ID: 372 INFO:workflow:Executing: reorient.a47 ID: 376 INFO:workflow:[Job finished] jobname: reorient.a47 jobid: 376 INFO:workflow:Executing: reorient_mask.a47 ID: 377 INFO:workflow:Executing: reorient.a27 ID: 381 INFO:workflow:[Job finished] jobname: reorient.a27 jobid: 381 INFO:workflow:Executing: reorient_mask.a27 ID: 382 INFO:workflow:Executing: reorient.a50 ID: 386 INFO:workflow:[Job finished] jobname: reorient.a50 jobid: 386 INFO:workflow:Executing: reorient_mask.a50 ID: 387 INFO:workflow:[Job finished] jobname: reorient_mask.a56 jobid: 2 INFO:workflow:Executing node reorient_mask.a61 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_HSNT/reorient_mask INFO:workflow:Executing node reorient_mask.a60 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_HSNT/reorient_mask INFO:workflow:Executing node reorient_mask.a67 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_KKCT/reorient_mask INFO:workflow:Executing node reorient_mask.a01 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_WC9T/reorient_mask INFO:workflow:Executing node reorient_mask.a39 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_TA5T/reorient_mask INFO:workflow:Executing node reorient_mask.a51 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_HSLT/reorient_mask INFO:workflow:Executing node reorient_mask.a70 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_KKCT/reorient_mask INFO:workflow:Executing node reorient_mask.a68 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_KKCT/reorient_mask INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/HSNT_QSM_L_AA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_HSNT/reorient_mask/HSNT_QSM_L_AA_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/HSNT_QSM_L_GH.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_HSNT/reorient_mask/HSNT_QSM_L_GH_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/KKCT_QSM_L_AA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_KKCT/reorient_mask/KKCT_QSM_L_AA_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/WC9T_QSM_L_AA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_WC9T/reorient_mask/WC9T_QSM_L_AA_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/TA5T_QSM_R_GH.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_TA5T/reorient_mask/TA5T_QSM_R_GH_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/HSLT_QSM_R_GH.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_HSLT/reorient_mask/HSLT_QSM_R_GH_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/KKCT_QSM_R_AA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_KKCT/reorient_mask/KKCT_QSM_R_AA_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/KKCT_QSM_L_CMA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_KKCT/reorient_mask/KKCT_QSM_L_CMA_reoriented.nii.gz INFO:workflow:Executing node reorient_mask.a69 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_KKCT/reorient_mask INFO:workflow:Executing node reorient_mask.a42 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_AD2T/reorient_mask INFO:workflow:Executing node reorient_mask.a77 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_KK6T/reorient_mask INFO:workflow:Executing node reorient_mask.a32 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_HN3T/reorient_mask INFO:workflow:Executing node reorient_mask.a03 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_WC9T/reorient_mask INFO:workflow:Executing node reorient_mask.a71 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_KKCT/reorient_mask INFO:workflow:Executing node reorient_mask.a41 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_TA5T/reorient_mask INFO:workflow:Executing node reorient_mask.a54 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_STAT/reorient_mask INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/KKCT_QSM_R_GH.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_KKCT/reorient_mask/KKCT_QSM_R_GH_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/AD2T_QSM_L_GH.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_AD2T/reorient_mask/AD2T_QSM_L_GH_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/KK6T_QSM_R_CMA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_KK6T/reorient_mask/KK6T_QSM_R_CMA_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/HN3T_QSM_L_CMA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_HN3T/reorient_mask/HN3T_QSM_L_CMA_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/WC9T_QSM_R_GH.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_WC9T/reorient_mask/WC9T_QSM_R_GH_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/KKCT_QSM_R_CMA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_KKCT/reorient_mask/KKCT_QSM_R_CMA_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/TA5T_QSM_R_CMA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_TA5T/reorient_mask/TA5T_QSM_R_CMA_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/STAT_QSM_L_GH.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_STAT/reorient_mask/STAT_QSM_L_GH_reoriented.nii.gz INFO:workflow:Executing node reorient_mask.a19 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_RT5T/reorient_mask INFO:workflow:Executing node reorient_mask.a45 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_AD2T/reorient_mask INFO:workflow:Executing node reorient_mask.a00 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_WC9T/reorient_mask INFO:workflow:Executing node reorient_mask.a10 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_HT5T/reorient_mask INFO:workflow:Executing node reorient_mask.a12 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_SF3T/reorient_mask INFO:workflow:Executing node reorient_mask.a23 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_RT5T/reorient_mask INFO:workflow:Executing node reorient_mask.a18 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_RT5T/reorient_mask INFO:workflow:Executing node reorient_mask.a13 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_SF3T/reorient_mask INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/RT5T_QSM_L_AA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_RT5T/reorient_mask/RT5T_QSM_L_AA_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/AD2T_QSM_R_GH.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_AD2T/reorient_mask/AD2T_QSM_R_GH_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/WC9T_QSM_L_GH.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_WC9T/reorient_mask/WC9T_QSM_L_GH_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/HT5T_QSM_R_AA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_HT5T/reorient_mask/HT5T_QSM_R_AA_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/SF3T_QSM_L_GH.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_SF3T/reorient_mask/SF3T_QSM_L_GH_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/RT5T_QSM_R_CMA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_RT5T/reorient_mask/RT5T_QSM_R_CMA_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/RT5T_QSM_L_GH.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_RT5T/reorient_mask/RT5T_QSM_L_GH_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/SF3T_QSM_L_AA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_SF3T/reorient_mask/SF3T_QSM_L_AA_reoriented.nii.gz INFO:workflow:Executing node reorient_mask.a06 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_HT5T/reorient_mask INFO:workflow:Executing node reorient_mask.a08 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_HT5T/reorient_mask INFO:workflow:Executing node reorient_mask.a05 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_WC9T/reorient_mask INFO:workflow:Executing node reorient_mask.a09 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_HT5T/reorient_mask INFO:workflow:Executing node reorient_mask.a02 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_WC9T/reorient_mask INFO:workflow:Executing node reorient_mask.a07 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_HT5T/reorient_mask INFO:workflow:Executing node reorient_mask.a17 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_SF3T/reorient_mask INFO:workflow:Executing node reorient_mask.a24 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_NM3T/reorient_mask INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/HT5T_QSM_L_GH.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_HT5T/reorient_mask/HT5T_QSM_L_GH_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/HT5T_QSM_L_CMA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_HT5T/reorient_mask/HT5T_QSM_L_CMA_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/WC9T_QSM_R_CMA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_WC9T/reorient_mask/WC9T_QSM_R_CMA_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/HT5T_QSM_R_GH.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_HT5T/reorient_mask/HT5T_QSM_R_GH_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/WC9T_QSM_L_CMA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_WC9T/reorient_mask/WC9T_QSM_L_CMA_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/HT5T_QSM_L_AA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_HT5T/reorient_mask/HT5T_QSM_L_AA_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/SF3T_QSM_R_CMA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_SF3T/reorient_mask/SF3T_QSM_R_CMA_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/NM3T_QSM_L_GH.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_NM3T/reorient_mask/NM3T_QSM_L_GH_reoriented.nii.gz INFO:workflow:[Job finished] jobname: reorient_mask.a64 jobid: 6 INFO:workflow:[Job finished] jobname: reorient_mask.a15 jobid: 12 INFO:workflow:[Job finished] jobname: reorient_mask.a58 jobid: 17 INFO:workflow:[Job finished] jobname: reorient_mask.a14 jobid: 21 INFO:workflow:[Job finished] jobname: reorient_mask.a11 jobid: 27 INFO:workflow:[Job finished] jobname: reorient_mask.a76 jobid: 32 INFO:workflow:[Job finished] jobname: reorient_mask.a72 jobid: 37 INFO:workflow:[Job finished] jobname: reorient_mask.a66 jobid: 42 INFO:workflow:[Job finished] jobname: reorient_mask.a55 jobid: 46 INFO:workflow:[Job finished] jobname: reorient_mask.a59 jobid: 52 INFO:workflow:[Job finished] jobname: reorient_mask.a44 jobid: 56 INFO:workflow:[Job finished] jobname: reorient_mask.a74 jobid: 62 INFO:workflow:[Job finished] jobname: reorient_mask.a57 jobid: 66 INFO:workflow:[Job finished] jobname: reorient_mask.a38 jobid: 71 INFO:workflow:[Job finished] jobname: reorient_mask.a52 jobid: 76 INFO:workflow:[Job finished] jobname: reorient_mask.a26 jobid: 82 INFO:workflow:[Job finished] jobname: reorient_mask.a53 jobid: 86 INFO:workflow:[Job finished] jobname: reorient_mask.a65 jobid: 92 INFO:workflow:[Job finished] jobname: reorient_mask.a75 jobid: 97 INFO:workflow:[Job finished] jobname: reorient_mask.a16 jobid: 102 INFO:workflow:[Job finished] jobname: reorient_mask.a46 jobid: 107 INFO:workflow:[Job finished] jobname: reorient_mask.a43 jobid: 112 INFO:workflow:[Job finished] jobname: reorient_mask.a73 jobid: 116 INFO:workflow:[Job finished] jobname: reorient_mask.a61 jobid: 122 INFO:workflow:[Job finished] jobname: reorient_mask.a60 jobid: 126 INFO:workflow:[Job finished] jobname: reorient_mask.a67 jobid: 132 INFO:workflow:[Job finished] jobname: reorient_mask.a01 jobid: 136 INFO:workflow:[Job finished] jobname: reorient_mask.a39 jobid: 141 INFO:workflow:[Job finished] jobname: reorient_mask.a51 jobid: 147 INFO:workflow:[Job finished] jobname: reorient_mask.a70 jobid: 152 INFO:workflow:[Job finished] jobname: reorient_mask.a68 jobid: 156 INFO:workflow:Executing node reorient_mask.a04 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_WC9T/reorient_mask INFO:workflow:[Job finished] jobname: reorient_mask.a42 jobid: 162 INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/WC9T_QSM_R_AA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_WC9T/reorient_mask/WC9T_QSM_R_AA_reoriented.nii.gz INFO:workflow:Executing node reorient_mask.a22 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_RT5T/reorient_mask INFO:workflow:[Job finished] jobname: reorient_mask.a69 jobid: 167 INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/RT5T_QSM_R_AA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_RT5T/reorient_mask/RT5T_QSM_R_AA_reoriented.nii.gz INFO:workflow:[Job finished] jobname: reorient_mask.a77 jobid: 172 INFO:workflow:[Job finished] jobname: reorient_mask.a03 jobid: 177 INFO:workflow:[Job finished] jobname: reorient_mask.a32 jobid: 182 INFO:workflow:[Job finished] jobname: reorient_mask.a54 jobid: 186 INFO:workflow:[Job finished] jobname: reorient_mask.a41 jobid: 192 INFO:workflow:[Job finished] jobname: reorient_mask.a71 jobid: 197 INFO:workflow:[Job finished] jobname: reorient_mask.a19 jobid: 202 INFO:workflow:[Job finished] jobname: reorient_mask.a45 jobid: 207 INFO:workflow:[Job finished] jobname: reorient_mask.a10 jobid: 211 INFO:workflow:[Job finished] jobname: reorient_mask.a18 jobid: 217 INFO:workflow:[Job finished] jobname: reorient_mask.a23 jobid: 222 INFO:workflow:[Job finished] jobname: reorient_mask.a13 jobid: 227 INFO:workflow:[Job finished] jobname: reorient_mask.a12 jobid: 231 INFO:workflow:[Job finished] jobname: reorient_mask.a00 jobid: 237 INFO:workflow:[Job finished] jobname: reorient_mask.a08 jobid: 242 INFO:workflow:[Job finished] jobname: reorient_mask.a06 jobid: 246 INFO:workflow:Submitting 50 jobs INFO:workflow:Executing: iron.a56 ID: 3 INFO:workflow:Executing: iron.a64 ID: 8 INFO:workflow:Executing: iron.a15 ID: 13 INFO:workflow:Executing node reorient_mask.a49 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_HSLT/reorient_mask INFO:workflow:Executing node reorient_mask.a62 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_HSNT/reorient_mask INFO:workflow:Executing node reorient_mask.a20 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_RT5T/reorient_mask INFO:workflow:Executing: iron.a58 ID: 18 INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/HSLT_QSM_L_AA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_HSLT/reorient_mask/HSLT_QSM_L_AA_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/HSNT_QSM_L_CMA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_HSNT/reorient_mask/HSNT_QSM_L_CMA_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/RT5T_QSM_L_CMA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_RT5T/reorient_mask/RT5T_QSM_L_CMA_reoriented.nii.gz INFO:workflow:Executing: iron.a14 ID: 23 INFO:workflow:Executing node reorient_mask.a40 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_TA5T/reorient_mask INFO:workflow:Executing: iron.a11 ID: 28 INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/TA5T_QSM_R_AA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_TA5T/reorient_mask/TA5T_QSM_R_AA_reoriented.nii.gz INFO:workflow:Executing node reorient_mask.a25 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_NM3T/reorient_mask INFO:workflow:Executing node reorient_mask.a21 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_RT5T/reorient_mask INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/NM3T_QSM_L_AA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_NM3T/reorient_mask/NM3T_QSM_L_AA_reoriented.nii.gz INFO:workflow:Executing: iron.a76 ID: 33 INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/RT5T_QSM_R_GH.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_RT5T/reorient_mask/RT5T_QSM_R_GH_reoriented.nii.gz INFO:workflow:Executing: iron.a72 ID: 38 INFO:workflow:Executing: iron.a66 ID: 43 INFO:workflow:Executing: iron.a55 ID: 48 INFO:workflow:Executing: iron.a59 ID: 53 INFO:workflow:Executing: iron.a44 ID: 58 INFO:workflow:Executing: iron.a74 ID: 63 INFO:workflow:Executing: iron.a57 ID: 68 INFO:workflow:Executing: iron.a38 ID: 73 INFO:workflow:Executing: iron.a52 ID: 78 INFO:workflow:Executing: iron.a26 ID: 83 INFO:workflow:Executing: iron.a53 ID: 88 INFO:workflow:Executing: iron.a65 ID: 93 INFO:workflow:Executing: iron.a75 ID: 98 INFO:workflow:Executing: iron.a16 ID: 103 INFO:workflow:Executing: iron.a46 ID: 108 INFO:workflow:Executing: iron.a43 ID: 113 INFO:workflow:Executing: iron.a73 ID: 118 INFO:workflow:Executing: iron.a61 ID: 123 INFO:workflow:Executing: iron.a60 ID: 128 INFO:workflow:Executing: iron.a67 ID: 133 INFO:workflow:Executing: iron.a01 ID: 138 INFO:workflow:Executing: iron.a39 ID: 143 INFO:workflow:Executing: iron.a51 ID: 148 INFO:workflow:Executing: iron.a70 ID: 153 INFO:workflow:Executing: iron.a68 ID: 158 INFO:workflow:Executing: iron.a42 ID: 163 INFO:workflow:Executing: iron.a69 ID: 168 INFO:workflow:Executing: iron.a77 ID: 173 INFO:workflow:Executing: iron.a03 ID: 178 INFO:workflow:Executing: iron.a32 ID: 183 INFO:workflow:Executing: iron.a54 ID: 188 INFO:workflow:Executing: iron.a41 ID: 193 INFO:workflow:Executing: iron.a71 ID: 198 INFO:workflow:Executing: iron.a19 ID: 203 INFO:workflow:Executing: iron.a45 ID: 208 INFO:workflow:Executing: iron.a10 ID: 213 INFO:workflow:Executing: iron.a18 ID: 218 INFO:workflow:Executing: iron.a23 ID: 223 INFO:workflow:Executing: iron.a13 ID: 228 INFO:workflow:Executing: iron.a12 ID: 233 INFO:workflow:Executing: iron.a00 ID: 238 INFO:workflow:Executing: iron.a08 ID: 243 INFO:workflow:Executing: iron.a06 ID: 248 INFO:workflow:[Job finished] jobname: reorient_mask.a09 jobid: 252 INFO:workflow:Executing node reorient_mask.a28 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_NM3T/reorient_mask INFO:workflow:Executing node reorient_mask.a30 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_HN3T/reorient_mask INFO:workflow:Executing node reorient_mask.a63 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_HSNT/reorient_mask INFO:workflow:Executing node reorient_mask.a31 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_HN3T/reorient_mask INFO:workflow:Executing node reorient_mask.a29 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_NM3T/reorient_mask INFO:workflow:Executing node reorient_mask.a48 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_HSLT/reorient_mask INFO:workflow:Executing node reorient_mask.a33 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_HN3T/reorient_mask INFO:workflow:Executing node reorient_mask.a34 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_HN3T/reorient_mask INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/NM3T_QSM_R_AA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_NM3T/reorient_mask/NM3T_QSM_R_AA_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/HN3T_QSM_L_GH.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_HN3T/reorient_mask/HN3T_QSM_L_GH_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/HSNT_QSM_R_GH.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_HSNT/reorient_mask/HSNT_QSM_R_GH_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/HN3T_QSM_L_AA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_HN3T/reorient_mask/HN3T_QSM_L_AA_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/NM3T_QSM_R_CMA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_NM3T/reorient_mask/NM3T_QSM_R_CMA_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/HSLT_QSM_L_GH.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_HSLT/reorient_mask/HSLT_QSM_L_GH_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/HN3T_QSM_R_GH.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_HN3T/reorient_mask/HN3T_QSM_R_GH_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/HN3T_QSM_R_AA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_HN3T/reorient_mask/HN3T_QSM_R_AA_reoriented.nii.gz INFO:workflow:Executing node reorient_mask.a35 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_HN3T/reorient_mask INFO:workflow:Executing node reorient_mask.a36 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_TA5T/reorient_mask INFO:workflow:Executing node reorient_mask.a47 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_AD2T/reorient_mask INFO:workflow:Executing node reorient_mask.a37 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_TA5T/reorient_mask INFO:workflow:Executing node reorient_mask.a27 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_NM3T/reorient_mask INFO:workflow:Executing node reorient_mask.a50 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_HSLT/reorient_mask INFO:workflow:Executing node iron.a56 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_STAT/iron INFO:workflow:Executing node iron.a64 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_HSNT/iron INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/HN3T_QSM_R_CMA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_HN3T/reorient_mask/HN3T_QSM_R_CMA_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/TA5T_QSM_L_GH.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_TA5T/reorient_mask/TA5T_QSM_L_GH_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/AD2T_QSM_R_CMA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_AD2T/reorient_mask/AD2T_QSM_R_CMA_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/TA5T_QSM_L_AA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_TA5T/reorient_mask/TA5T_QSM_L_AA_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/NM3T_QSM_R_GH.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_NM3T/reorient_mask/NM3T_QSM_R_GH_reoriented.nii.gz INFO:workflow:Running: fslreorient2std /home/gdholla1/ERC_data/STN_masks/QSM/Young/HSLT_QSM_L_CMA.nii.gz /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_HSLT/reorient_mask/HSLT_QSM_L_CMA_reoriented.nii.gz INFO:workflow:Executing node iron.a11 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_HT5T/iron INFO:workflow:Executing node iron.a14 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_SF3T/iron INFO:workflow:Executing node iron.a15 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_SF3T/iron INFO:workflow:Executing node iron.a58 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_STAT/iron INFO:workflow:Executing node iron.a66 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_KKCT/iron INFO:workflow:Executing node iron.a76 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_KK6T/iron INFO:workflow:Executing node iron.a72 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_KK6T/iron INFO:workflow:Executing node iron.a55 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_STAT/iron INFO:workflow:Executing node iron.a74 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_KK6T/iron INFO:workflow:Executing node iron.a57 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_STAT/iron INFO:workflow:Executing node iron.a59 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_STAT/iron INFO:workflow:Executing node iron.a44 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_AD2T/iron INFO:workflow:Executing node iron.a26 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_NM3T/iron INFO:workflow:Executing node iron.a38 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_TA5T/iron INFO:workflow:Executing node iron.a52 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_HSLT/iron INFO:workflow:Executing node iron.a53 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_HSLT/iron INFO:workflow:Executing node iron.a16 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_SF3T/iron INFO:workflow:Executing node iron.a46 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_AD2T/iron INFO:workflow:Executing node iron.a65 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_HSNT/iron INFO:workflow:Executing node iron.a75 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_KK6T/iron INFO:workflow:Executing node iron.a60 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_HSNT/iron INFO:workflow:Executing node iron.a73 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_KK6T/iron INFO:workflow:Executing node iron.a43 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_AD2T/iron INFO:workflow:Executing node iron.a61 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_HSNT/iron INFO:workflow:Executing node iron.a67 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_KKCT/iron INFO:workflow:Executing node iron.a01 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_WC9T/iron INFO:workflow:[Job finished] jobname: reorient_mask.a05 jobid: 257 INFO:workflow:[Job finished] jobname: reorient_mask.a07 jobid: 262 INFO:workflow:[Job finished] jobname: reorient_mask.a17 jobid: 266 INFO:workflow:[Job finished] jobname: reorient_mask.a24 jobid: 272 INFO:workflow:[Job finished] jobname: reorient_mask.a02 jobid: 276 INFO:workflow:[Job finished] jobname: reorient_mask.a04 jobid: 281 INFO:workflow:[Job finished] jobname: reorient_mask.a22 jobid: 287 INFO:workflow:[Job finished] jobname: reorient_mask.a49 jobid: 292 INFO:workflow:[Job finished] jobname: reorient_mask.a62 jobid: 297 INFO:workflow:[Job finished] jobname: reorient_mask.a20 jobid: 302 INFO:workflow:[Job finished] jobname: reorient_mask.a40 jobid: 306 INFO:workflow:Executing node iron.a39 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_TA5T/iron INFO:workflow:Executing node iron.a51 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_HSLT/iron INFO:workflow:[Job finished] jobname: reorient_mask.a25 jobid: 312 INFO:workflow:[Job finished] jobname: reorient_mask.a21 jobid: 316 INFO:workflow:[Job finished] jobname: reorient_mask.a28 jobid: 321 INFO:workflow:[Job finished] jobname: reorient_mask.a30 jobid: 327 INFO:workflow:[Job finished] jobname: reorient_mask.a63 jobid: 332 INFO:workflow:[Job finished] jobname: reorient_mask.a31 jobid: 337 INFO:workflow:Executing node iron.a70 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_KKCT/iron INFO:workflow:Executing node iron.a68 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_KKCT/iron INFO:workflow:[Job finished] jobname: reorient_mask.a29 jobid: 341 INFO:workflow:[Job finished] jobname: reorient_mask.a48 jobid: 347 INFO:workflow:[Job finished] jobname: reorient_mask.a33 jobid: 352 INFO:workflow:[Job finished] jobname: reorient_mask.a34 jobid: 356 INFO:workflow:[Job finished] jobname: reorient_mask.a35 jobid: 362 INFO:workflow:[Job finished] jobname: reorient_mask.a36 jobid: 367 INFO:workflow:[Job finished] jobname: reorient_mask.a37 jobid: 372 INFO:workflow:[Job finished] jobname: reorient_mask.a47 jobid: 377 INFO:workflow:[Job finished] jobname: reorient_mask.a27 jobid: 382 INFO:workflow:[Job finished] jobname: reorient_mask.a50 jobid: 387 INFO:workflow:Executing node iron.a42 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_AD2T/iron INFO:workflow:[Job finished] jobname: iron.a56 jobid: 3 INFO:workflow:[Job finished] jobname: iron.a64 jobid: 8 INFO:workflow:[Job finished] jobname: iron.a15 jobid: 13 INFO:workflow:Executing node iron.a69 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_KKCT/iron INFO:workflow:[Job finished] jobname: iron.a58 jobid: 18 INFO:workflow:[Job finished] jobname: iron.a14 jobid: 23 INFO:workflow:[Job finished] jobname: iron.a11 jobid: 28 INFO:workflow:[Job finished] jobname: iron.a76 jobid: 33 INFO:workflow:[Job finished] jobname: iron.a72 jobid: 38 INFO:workflow:[Job finished] jobname: iron.a66 jobid: 43 INFO:workflow:[Job finished] jobname: iron.a55 jobid: 48 INFO:workflow:[Job finished] jobname: iron.a59 jobid: 53 INFO:workflow:[Job finished] jobname: iron.a44 jobid: 58 INFO:workflow:[Job finished] jobname: iron.a74 jobid: 63 INFO:workflow:[Job finished] jobname: iron.a57 jobid: 68 INFO:workflow:[Job finished] jobname: iron.a38 jobid: 73 INFO:workflow:[Job finished] jobname: iron.a52 jobid: 78 INFO:workflow:[Job finished] jobname: iron.a26 jobid: 83 INFO:workflow:[Job finished] jobname: iron.a53 jobid: 88 INFO:workflow:[Job finished] jobname: iron.a65 jobid: 93 INFO:workflow:[Job finished] jobname: iron.a75 jobid: 98 INFO:workflow:[Job finished] jobname: iron.a16 jobid: 103 INFO:workflow:[Job finished] jobname: iron.a46 jobid: 108 INFO:workflow:[Job finished] jobname: iron.a43 jobid: 113 INFO:workflow:[Job finished] jobname: iron.a73 jobid: 118 INFO:workflow:[Job finished] jobname: iron.a61 jobid: 123 INFO:workflow:[Job finished] jobname: iron.a60 jobid: 128 INFO:workflow:Submitting 54 jobs INFO:workflow:Executing: datasink.a56 ID: 4 INFO:workflow:Executing: datasink.a64 ID: 9 INFO:workflow:Executing: datasink.a15 ID: 14 INFO:workflow:Executing: datasink.a58 ID: 19 INFO:workflow:Executing: datasink.a14 ID: 24 INFO:workflow:Executing: datasink.a11 ID: 29 INFO:workflow:Executing node iron.a77 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_KK6T/iron INFO:workflow:Executing node iron.a03 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_WC9T/iron INFO:workflow:Executing: datasink.a76 ID: 34 INFO:workflow:Executing: datasink.a72 ID: 39 INFO:workflow:Executing: datasink.a66 ID: 44 INFO:workflow:Executing: datasink.a55 ID: 49 INFO:workflow:Executing: datasink.a59 ID: 54 INFO:workflow:Executing: datasink.a44 ID: 59 INFO:workflow:Executing: datasink.a74 ID: 64 INFO:workflow:Executing node iron.a32 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_HN3T/iron INFO:workflow:Executing node iron.a54 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_STAT/iron INFO:workflow:Executing: datasink.a57 ID: 69 INFO:workflow:Executing: datasink.a38 ID: 74 INFO:workflow:Executing node iron.a41 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_TA5T/iron INFO:workflow:Executing node iron.a71 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_KKCT/iron INFO:workflow:Executing: datasink.a52 ID: 79 INFO:workflow:Executing: datasink.a26 ID: 84 INFO:workflow:Executing: datasink.a53 ID: 89 INFO:workflow:Executing: datasink.a65 ID: 94 INFO:workflow:Executing: datasink.a75 ID: 99 INFO:workflow:Executing: datasink.a16 ID: 104 INFO:workflow:Executing node iron.a19 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_RT5T/iron INFO:workflow:Executing: datasink.a46 ID: 109 INFO:workflow:Executing: datasink.a43 ID: 114 INFO:workflow:Executing node iron.a45 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_AD2T/iron INFO:workflow:Executing: datasink.a73 ID: 119 INFO:workflow:Executing: datasink.a61 ID: 124 INFO:workflow:Executing: datasink.a60 ID: 129 INFO:workflow:Executing: iron.a09 ID: 253 INFO:workflow:Executing: iron.a05 ID: 258 INFO:workflow:Executing: iron.a07 ID: 263 INFO:workflow:Executing: iron.a17 ID: 268 INFO:workflow:Executing: iron.a24 ID: 273 INFO:workflow:Executing: iron.a02 ID: 278 INFO:workflow:Executing: iron.a04 ID: 283 INFO:workflow:Executing: iron.a22 ID: 288 INFO:workflow:Executing: iron.a49 ID: 293 INFO:workflow:Executing: iron.a62 ID: 298 INFO:workflow:Executing: iron.a20 ID: 303 INFO:workflow:Executing: iron.a40 ID: 308 INFO:workflow:Executing: iron.a25 ID: 313 INFO:workflow:Executing: iron.a21 ID: 318 INFO:workflow:Executing: iron.a28 ID: 323 INFO:workflow:Executing: iron.a30 ID: 328 INFO:workflow:Executing: iron.a63 ID: 333 INFO:workflow:Executing: iron.a31 ID: 338 INFO:workflow:Executing: iron.a29 ID: 343 INFO:workflow:Executing: iron.a48 ID: 348 INFO:workflow:Executing: iron.a33 ID: 353 INFO:workflow:Executing node iron.a10 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_HT5T/iron INFO:workflow:Executing node iron.a18 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_RT5T/iron INFO:workflow:Executing: iron.a34 ID: 358 INFO:workflow:Executing: iron.a35 ID: 363 INFO:workflow:Executing: iron.a36 ID: 368 INFO:workflow:Executing: iron.a37 ID: 373 INFO:workflow:Executing: iron.a47 ID: 378 INFO:workflow:Executing: iron.a27 ID: 383 INFO:workflow:Executing: iron.a50 ID: 388 INFO:workflow:[Job finished] jobname: iron.a67 jobid: 133 INFO:workflow:Executing node iron.a23 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_RT5T/iron INFO:workflow:Executing node iron.a13 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_SF3T/iron INFO:workflow:Executing node iron.a12 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_SF3T/iron INFO:workflow:Executing node iron.a00 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_WC9T/iron INFO:workflow:Executing node iron.a08 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_HT5T/iron INFO:workflow:Executing node iron.a06 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_HT5T/iron INFO:workflow:Executing node datasink.a56 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_STAT/datasink INFO:workflow:Executing node datasink.a64 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_HSNT/datasink INFO:workflow:Executing node datasink.a14 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_SF3T/datasink INFO:workflow:Executing node datasink.a11 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_HT5T/datasink INFO:workflow:Executing node datasink.a72 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_KK6T/datasink INFO:workflow:Executing node datasink.a76 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_KK6T/datasink INFO:workflow:Executing node datasink.a74 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_KK6T/datasink INFO:workflow:Executing node datasink.a52 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_HSLT/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_CMA_subject_id_STAT/STAT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/STAT/STAT_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_AA_subject_id_HSNT/HSNT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HSNT/HSNT_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_CMA_subject_id_SF3T/SF3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/SF3T/SF3T_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_CMA_subject_id_HT5T/HT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HT5T/HT5T_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_GH_subject_id_KK6T/KK6T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/KK6T/KK6T_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_AA_subject_id_KK6T/KK6T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/KK6T/KK6T_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_CMA_subject_id_KK6T/KK6T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/KK6T/KK6T_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_AA_subject_id_HSLT/HSLT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HSLT/HSLT_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_CMA_subject_id_STAT/STAT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/STAT/STAT_QSM_reoriented_L_CMA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_AA_subject_id_HSNT/HSNT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HSNT/HSNT_QSM_reoriented_R_AA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_CMA_subject_id_SF3T/SF3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/SF3T/SF3T_QSM_reoriented_L_CMA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_CMA_subject_id_HT5T/HT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HT5T/HT5T_QSM_reoriented_R_CMA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_GH_subject_id_KK6T/KK6T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/KK6T/KK6T_QSM_reoriented_L_GH.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_AA_subject_id_KK6T/KK6T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/KK6T/KK6T_QSM_reoriented_R_AA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_CMA_subject_id_KK6T/KK6T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/KK6T/KK6T_QSM_reoriented_L_CMA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_AA_subject_id_HSLT/HSLT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HSLT/HSLT_QSM_reoriented_R_AA.nii.gz INFO:workflow:Executing node datasink.a15 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_SF3T/datasink INFO:workflow:Executing node datasink.a58 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_STAT/datasink INFO:workflow:Executing node datasink.a59 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_STAT/datasink INFO:workflow:Executing node datasink.a44 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_AD2T/datasink INFO:workflow:Executing node datasink.a38 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_TA5T/datasink INFO:workflow:Executing node datasink.a57 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_STAT/datasink INFO:workflow:Executing node datasink.a75 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_KK6T/datasink INFO:workflow:Executing node datasink.a73 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_KK6T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_GH_subject_id_SF3T/SF3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/SF3T/SF3T_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_AA_subject_id_STAT/STAT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/STAT/STAT_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_CMA_subject_id_STAT/STAT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/STAT/STAT_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_CMA_subject_id_AD2T/AD2T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/AD2T/AD2T_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_CMA_subject_id_TA5T/TA5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/TA5T/TA5T_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_GH_subject_id_STAT/STAT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/STAT/STAT_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_GH_subject_id_KK6T/KK6T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/KK6T/KK6T_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_AA_subject_id_KK6T/KK6T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/KK6T/KK6T_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_GH_subject_id_SF3T/SF3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/SF3T/SF3T_QSM_reoriented_R_GH.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_AA_subject_id_STAT/STAT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/STAT/STAT_QSM_reoriented_R_AA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_CMA_subject_id_STAT/STAT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/STAT/STAT_QSM_reoriented_R_CMA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_CMA_subject_id_AD2T/AD2T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/AD2T/AD2T_QSM_reoriented_L_CMA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_CMA_subject_id_TA5T/TA5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/TA5T/TA5T_QSM_reoriented_L_CMA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_GH_subject_id_STAT/STAT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/STAT/STAT_QSM_reoriented_R_GH.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_GH_subject_id_KK6T/KK6T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/KK6T/KK6T_QSM_reoriented_R_GH.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_AA_subject_id_KK6T/KK6T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/KK6T/KK6T_QSM_reoriented_L_AA.nii.gz INFO:workflow:Executing node datasink.a66 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_KKCT/datasink INFO:workflow:Executing node datasink.a55 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_STAT/datasink INFO:workflow:Executing node datasink.a65 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_HSNT/datasink INFO:workflow:Executing node datasink.a46 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_AD2T/datasink INFO:workflow:Executing node datasink.a16 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_SF3T/datasink INFO:workflow:Executing node datasink.a43 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_AD2T/datasink INFO:workflow:Executing node iron.a05 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_WC9T/iron INFO:workflow:Executing node iron.a02 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_WC9T/iron INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_GH_subject_id_KKCT/KKCT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/KKCT/KKCT_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_AA_subject_id_STAT/STAT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/STAT/STAT_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_CMA_subject_id_HSNT/HSNT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HSNT/HSNT_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_AA_subject_id_AD2T/AD2T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/AD2T/AD2T_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_AA_subject_id_SF3T/SF3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/SF3T/SF3T_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_AA_subject_id_AD2T/AD2T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/AD2T/AD2T_QSM_reoriented.nii.gz INFO:workflow:Executing node iron.a21 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_RT5T/iron INFO:workflow:Executing node iron.a62 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_HSNT/iron INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_GH_subject_id_KKCT/KKCT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/KKCT/KKCT_QSM_reoriented_L_GH.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_AA_subject_id_STAT/STAT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/STAT/STAT_QSM_reoriented_L_AA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_CMA_subject_id_HSNT/HSNT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HSNT/HSNT_QSM_reoriented_R_CMA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_AA_subject_id_AD2T/AD2T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/AD2T/AD2T_QSM_reoriented_R_AA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_AA_subject_id_SF3T/SF3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/SF3T/SF3T_QSM_reoriented_R_AA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_AA_subject_id_AD2T/AD2T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/AD2T/AD2T_QSM_reoriented_L_AA.nii.gz INFO:workflow:Executing node iron.a33 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_HN3T/iron INFO:workflow:Executing node iron.a34 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_HN3T/iron INFO:workflow:Executing node datasink.a26 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_NM3T/datasink INFO:workflow:Executing node datasink.a53 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_HSLT/datasink INFO:workflow:Executing node iron.a09 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_HT5T/iron INFO:workflow:Executing node iron.a17 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_SF3T/iron INFO:workflow:Executing node iron.a07 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_HT5T/iron INFO:workflow:Executing node iron.a24 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_NM3T/iron INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_CMA_subject_id_HSLT/HSLT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HSLT/HSLT_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_CMA_subject_id_NM3T/NM3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/NM3T/NM3T_QSM_reoriented.nii.gz INFO:workflow:Executing node iron.a49 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_HSLT/iron INFO:workflow:Executing node iron.a30 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_HN3T/iron INFO:workflow:Executing node iron.a20 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_RT5T/iron INFO:workflow:Executing node iron.a28 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_NM3T/iron INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_CMA_subject_id_HSLT/HSLT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HSLT/HSLT_QSM_reoriented_R_CMA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_CMA_subject_id_NM3T/NM3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/NM3T/NM3T_QSM_reoriented_L_CMA.nii.gz INFO:workflow:Executing node iron.a63 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_HSNT/iron INFO:workflow:Executing node iron.a29 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_NM3T/iron INFO:workflow:Executing node iron.a48 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_HSLT/iron INFO:workflow:Executing node iron.a36 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_TA5T/iron INFO:workflow:Executing node datasink.a61 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_HSNT/datasink INFO:workflow:Executing node datasink.a60 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_HSNT/datasink INFO:workflow:Executing node iron.a37 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_TA5T/iron INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_GH_subject_id_HSNT/HSNT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HSNT/HSNT_QSM_reoriented.nii.gz INFO:workflow:Executing node iron.a50 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_HSLT/iron INFO:workflow:Executing node iron.a27 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_NM3T/iron INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_AA_subject_id_HSNT/HSNT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HSNT/HSNT_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_AA_subject_id_HSNT/HSNT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HSNT/HSNT_QSM_reoriented_L_AA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_GH_subject_id_HSNT/HSNT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HSNT/HSNT_QSM_reoriented_L_GH.nii.gz INFO:workflow:Executing node iron.a04 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_WC9T/iron INFO:workflow:Executing node iron.a22 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_RT5T/iron INFO:workflow:Executing node iron.a25 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_NM3T/iron INFO:workflow:Executing node iron.a40 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_TA5T/iron INFO:workflow:Executing node iron.a35 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_HN3T/iron INFO:workflow:Executing node iron.a31 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_HN3T/iron INFO:workflow:Executing node iron.a47 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_AD2T/iron INFO:workflow:[Job finished] jobname: iron.a01 jobid: 138 INFO:workflow:[Job finished] jobname: iron.a39 jobid: 143 INFO:workflow:[Job finished] jobname: iron.a51 jobid: 148 INFO:workflow:[Job finished] jobname: iron.a70 jobid: 153 INFO:workflow:[Job finished] jobname: iron.a68 jobid: 158 INFO:workflow:[Job finished] jobname: iron.a42 jobid: 163 INFO:workflow:[Job finished] jobname: iron.a69 jobid: 168 INFO:workflow:[Job finished] jobname: iron.a77 jobid: 173 INFO:workflow:[Job finished] jobname: iron.a03 jobid: 178 INFO:workflow:[Job finished] jobname: iron.a32 jobid: 183 INFO:workflow:[Job finished] jobname: iron.a54 jobid: 188 INFO:workflow:[Job finished] jobname: iron.a41 jobid: 193 INFO:workflow:[Job finished] jobname: iron.a71 jobid: 198 INFO:workflow:[Job finished] jobname: iron.a19 jobid: 203 INFO:workflow:[Job finished] jobname: iron.a45 jobid: 208 INFO:workflow:[Job finished] jobname: iron.a10 jobid: 213 INFO:workflow:[Job finished] jobname: iron.a18 jobid: 218 INFO:workflow:[Job finished] jobname: iron.a23 jobid: 223 INFO:workflow:[Job finished] jobname: iron.a13 jobid: 228 INFO:workflow:[Job finished] jobname: iron.a12 jobid: 233 INFO:workflow:[Job finished] jobname: iron.a00 jobid: 238 INFO:workflow:[Job finished] jobname: iron.a08 jobid: 243 INFO:workflow:[Job finished] jobname: iron.a06 jobid: 248 INFO:workflow:[Job finished] jobname: datasink.a56 jobid: 4 INFO:workflow:[Job finished] jobname: datasink.a64 jobid: 9 INFO:workflow:[Job finished] jobname: datasink.a15 jobid: 14 INFO:workflow:[Job finished] jobname: datasink.a58 jobid: 19 INFO:workflow:[Job finished] jobname: datasink.a14 jobid: 24 INFO:workflow:[Job finished] jobname: datasink.a11 jobid: 29 INFO:workflow:[Job finished] jobname: datasink.a76 jobid: 34 INFO:workflow:[Job finished] jobname: datasink.a72 jobid: 39 INFO:workflow:[Job finished] jobname: datasink.a66 jobid: 44 INFO:workflow:[Job finished] jobname: datasink.a55 jobid: 49 INFO:workflow:[Job finished] jobname: datasink.a59 jobid: 54 INFO:workflow:[Job finished] jobname: datasink.a44 jobid: 59 INFO:workflow:[Job finished] jobname: datasink.a74 jobid: 64 INFO:workflow:[Job finished] jobname: datasink.a57 jobid: 69 INFO:workflow:[Job finished] jobname: datasink.a38 jobid: 74 INFO:workflow:[Job finished] jobname: datasink.a52 jobid: 79 INFO:workflow:[Job finished] jobname: datasink.a26 jobid: 84 INFO:workflow:[Job finished] jobname: datasink.a53 jobid: 89 INFO:workflow:[Job finished] jobname: datasink.a65 jobid: 94 INFO:workflow:[Job finished] jobname: datasink.a75 jobid: 99 INFO:workflow:[Job finished] jobname: datasink.a16 jobid: 104 INFO:workflow:[Job finished] jobname: datasink.a46 jobid: 109 INFO:workflow:[Job finished] jobname: datasink.a43 jobid: 114 INFO:workflow:[Job finished] jobname: datasink.a73 jobid: 119 INFO:workflow:[Job finished] jobname: datasink.a61 jobid: 124 INFO:workflow:[Job finished] jobname: datasink.a60 jobid: 129 INFO:workflow:[Job finished] jobname: iron.a09 jobid: 253 INFO:workflow:[Job finished] jobname: iron.a05 jobid: 258 INFO:workflow:[Job finished] jobname: iron.a07 jobid: 263 INFO:workflow:[Job finished] jobname: iron.a17 jobid: 268 INFO:workflow:[Job finished] jobname: iron.a24 jobid: 273 INFO:workflow:[Job finished] jobname: iron.a02 jobid: 278 INFO:workflow:[Job finished] jobname: iron.a04 jobid: 283 INFO:workflow:[Job finished] jobname: iron.a22 jobid: 288 INFO:workflow:[Job finished] jobname: iron.a49 jobid: 293 INFO:workflow:[Job finished] jobname: iron.a62 jobid: 298 INFO:workflow:[Job finished] jobname: iron.a20 jobid: 303 INFO:workflow:[Job finished] jobname: iron.a40 jobid: 308 INFO:workflow:[Job finished] jobname: iron.a25 jobid: 313 INFO:workflow:[Job finished] jobname: iron.a21 jobid: 318 INFO:workflow:[Job finished] jobname: iron.a28 jobid: 323 INFO:workflow:[Job finished] jobname: iron.a30 jobid: 328 INFO:workflow:[Job finished] jobname: iron.a63 jobid: 333 INFO:workflow:[Job finished] jobname: iron.a31 jobid: 338 INFO:workflow:[Job finished] jobname: iron.a29 jobid: 343 INFO:workflow:[Job finished] jobname: iron.a48 jobid: 348 INFO:workflow:[Job finished] jobname: iron.a33 jobid: 353 INFO:workflow:[Job finished] jobname: iron.a34 jobid: 358 INFO:workflow:[Job finished] jobname: iron.a35 jobid: 363 INFO:workflow:[Job finished] jobname: iron.a36 jobid: 368 INFO:workflow:[Job finished] jobname: iron.a37 jobid: 373 INFO:workflow:[Job finished] jobname: iron.a47 jobid: 378 INFO:workflow:[Job finished] jobname: iron.a27 jobid: 383 INFO:workflow:[Job finished] jobname: iron.a50 jobid: 388 INFO:workflow:Submitting 52 jobs INFO:workflow:Executing: datasink.a67 ID: 134 INFO:workflow:Executing: datasink.a01 ID: 139 INFO:workflow:Executing: datasink.a39 ID: 144 INFO:workflow:Executing node datasink.a67 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_KKCT/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_AA_subject_id_KKCT/KKCT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/KKCT/KKCT_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a51 ID: 149 INFO:workflow:Executing node datasink.a01 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_WC9T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_AA_subject_id_WC9T/WC9T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/WC9T/WC9T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a70 ID: 154 INFO:workflow:Executing node datasink.a39 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_TA5T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_GH_subject_id_TA5T/TA5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/TA5T/TA5T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a68 ID: 159 INFO:workflow:Executing node datasink.a51 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_HSLT/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_GH_subject_id_HSLT/HSLT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HSLT/HSLT_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a42 ID: 164 INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_AA_subject_id_KKCT/KKCT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/KKCT/KKCT_QSM_reoriented_L_AA.nii.gz INFO:workflow:Executing node datasink.a70 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_KKCT/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_AA_subject_id_WC9T/WC9T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/WC9T/WC9T_QSM_reoriented_L_AA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_AA_subject_id_KKCT/KKCT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/KKCT/KKCT_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a69 ID: 169 INFO:workflow:Executing node datasink.a68 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_KKCT/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_GH_subject_id_TA5T/TA5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/TA5T/TA5T_QSM_reoriented_R_GH.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_CMA_subject_id_KKCT/KKCT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/KKCT/KKCT_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a77 ID: 174 INFO:workflow:Executing node datasink.a42 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_AD2T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_GH_subject_id_HSLT/HSLT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HSLT/HSLT_QSM_reoriented_R_GH.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_GH_subject_id_AD2T/AD2T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/AD2T/AD2T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a03 ID: 179 INFO:workflow:Executing node datasink.a69 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_KKCT/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_AA_subject_id_KKCT/KKCT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/KKCT/KKCT_QSM_reoriented_R_AA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_GH_subject_id_KKCT/KKCT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/KKCT/KKCT_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a32 ID: 184 INFO:workflow:Executing node datasink.a77 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_KK6T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_CMA_subject_id_KKCT/KKCT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/KKCT/KKCT_QSM_reoriented_L_CMA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_CMA_subject_id_KK6T/KK6T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/KK6T/KK6T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a54 ID: 189 INFO:workflow:Executing node datasink.a03 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_WC9T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_GH_subject_id_AD2T/AD2T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/AD2T/AD2T_QSM_reoriented_L_GH.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_GH_subject_id_WC9T/WC9T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/WC9T/WC9T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a41 ID: 194 INFO:workflow:Executing node datasink.a32 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_HN3T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_GH_subject_id_KKCT/KKCT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/KKCT/KKCT_QSM_reoriented_R_GH.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_CMA_subject_id_HN3T/HN3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HN3T/HN3T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a71 ID: 199 INFO:workflow:Executing node datasink.a54 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_STAT/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_CMA_subject_id_KK6T/KK6T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/KK6T/KK6T_QSM_reoriented_R_CMA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_GH_subject_id_STAT/STAT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/STAT/STAT_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a19 ID: 204 INFO:workflow:Executing node datasink.a41 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_TA5T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_GH_subject_id_WC9T/WC9T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/WC9T/WC9T_QSM_reoriented_R_GH.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_CMA_subject_id_TA5T/TA5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/TA5T/TA5T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a45 ID: 209 INFO:workflow:Executing node datasink.a71 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_KKCT/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_CMA_subject_id_HN3T/HN3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HN3T/HN3T_QSM_reoriented_L_CMA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_CMA_subject_id_KKCT/KKCT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/KKCT/KKCT_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a10 ID: 214 INFO:workflow:Executing node datasink.a19 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_RT5T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_GH_subject_id_STAT/STAT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/STAT/STAT_QSM_reoriented_L_GH.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_AA_subject_id_RT5T/RT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/RT5T/RT5T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a18 ID: 219 INFO:workflow:Executing node datasink.a45 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_AD2T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_CMA_subject_id_TA5T/TA5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/TA5T/TA5T_QSM_reoriented_R_CMA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_GH_subject_id_AD2T/AD2T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/AD2T/AD2T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a23 ID: 224 INFO:workflow:Executing node datasink.a10 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_HT5T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_CMA_subject_id_KKCT/KKCT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/KKCT/KKCT_QSM_reoriented_R_CMA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_AA_subject_id_HT5T/HT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HT5T/HT5T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a13 ID: 229 INFO:workflow:Executing node datasink.a18 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_RT5T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_AA_subject_id_RT5T/RT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/RT5T/RT5T_QSM_reoriented_L_AA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_GH_subject_id_RT5T/RT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/RT5T/RT5T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a12 ID: 234 INFO:workflow:Executing node datasink.a23 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_RT5T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_GH_subject_id_AD2T/AD2T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/AD2T/AD2T_QSM_reoriented_R_GH.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_CMA_subject_id_RT5T/RT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/RT5T/RT5T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a00 ID: 239 INFO:workflow:Executing node datasink.a13 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_SF3T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_AA_subject_id_HT5T/HT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HT5T/HT5T_QSM_reoriented_R_AA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_AA_subject_id_SF3T/SF3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/SF3T/SF3T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a08 ID: 244 INFO:workflow:Executing node datasink.a12 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_SF3T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_GH_subject_id_RT5T/RT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/RT5T/RT5T_QSM_reoriented_L_GH.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_GH_subject_id_SF3T/SF3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/SF3T/SF3T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a06 ID: 249 INFO:workflow:Executing node datasink.a00 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_WC9T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_CMA_subject_id_RT5T/RT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/RT5T/RT5T_QSM_reoriented_R_CMA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_GH_subject_id_WC9T/WC9T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/WC9T/WC9T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a09 ID: 254 INFO:workflow:Executing node datasink.a08 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_HT5T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_AA_subject_id_SF3T/SF3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/SF3T/SF3T_QSM_reoriented_L_AA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_CMA_subject_id_HT5T/HT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HT5T/HT5T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a05 ID: 259 INFO:workflow:Executing node datasink.a06 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_HT5T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_GH_subject_id_SF3T/SF3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/SF3T/SF3T_QSM_reoriented_L_GH.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_GH_subject_id_HT5T/HT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HT5T/HT5T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a07 ID: 264 INFO:workflow:Executing node datasink.a09 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_HT5T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_GH_subject_id_WC9T/WC9T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/WC9T/WC9T_QSM_reoriented_L_GH.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_GH_subject_id_HT5T/HT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HT5T/HT5T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a17 ID: 269 INFO:workflow:Executing node datasink.a05 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_WC9T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_CMA_subject_id_HT5T/HT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HT5T/HT5T_QSM_reoriented_L_CMA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_CMA_subject_id_WC9T/WC9T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/WC9T/WC9T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a24 ID: 274 INFO:workflow:Executing node datasink.a07 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_HT5T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_GH_subject_id_HT5T/HT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HT5T/HT5T_QSM_reoriented_L_GH.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_AA_subject_id_HT5T/HT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HT5T/HT5T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a02 ID: 279 INFO:workflow:Executing node datasink.a17 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_SF3T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_GH_subject_id_HT5T/HT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HT5T/HT5T_QSM_reoriented_R_GH.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_CMA_subject_id_SF3T/SF3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/SF3T/SF3T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a04 ID: 284 INFO:workflow:Executing node datasink.a24 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_NM3T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_CMA_subject_id_WC9T/WC9T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/WC9T/WC9T_QSM_reoriented_R_CMA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_GH_subject_id_NM3T/NM3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/NM3T/NM3T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a22 ID: 289 INFO:workflow:Executing node datasink.a02 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_WC9T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_AA_subject_id_HT5T/HT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HT5T/HT5T_QSM_reoriented_L_AA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_CMA_subject_id_WC9T/WC9T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/WC9T/WC9T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a49 ID: 294 INFO:workflow:Executing node datasink.a04 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_WC9T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_CMA_subject_id_SF3T/SF3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/SF3T/SF3T_QSM_reoriented_R_CMA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_AA_subject_id_WC9T/WC9T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/WC9T/WC9T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a62 ID: 299 INFO:workflow:Executing node datasink.a22 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_RT5T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_GH_subject_id_NM3T/NM3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/NM3T/NM3T_QSM_reoriented_L_GH.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_AA_subject_id_RT5T/RT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/RT5T/RT5T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a20 ID: 304 INFO:workflow:Executing node datasink.a49 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_HSLT/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_CMA_subject_id_WC9T/WC9T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/WC9T/WC9T_QSM_reoriented_L_CMA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_AA_subject_id_HSLT/HSLT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HSLT/HSLT_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a40 ID: 309 INFO:workflow:Executing node datasink.a62 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_HSNT/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_AA_subject_id_WC9T/WC9T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/WC9T/WC9T_QSM_reoriented_R_AA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_CMA_subject_id_HSNT/HSNT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HSNT/HSNT_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a25 ID: 314 INFO:workflow:Executing node datasink.a20 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_RT5T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_AA_subject_id_RT5T/RT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/RT5T/RT5T_QSM_reoriented_R_AA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_CMA_subject_id_RT5T/RT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/RT5T/RT5T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a21 ID: 319 INFO:workflow:Executing node datasink.a40 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_TA5T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_AA_subject_id_HSLT/HSLT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HSLT/HSLT_QSM_reoriented_L_AA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_AA_subject_id_TA5T/TA5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/TA5T/TA5T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a28 ID: 324 INFO:workflow:Executing node datasink.a25 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_NM3T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_CMA_subject_id_HSNT/HSNT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HSNT/HSNT_QSM_reoriented_L_CMA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_AA_subject_id_NM3T/NM3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/NM3T/NM3T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a30 ID: 329 INFO:workflow:Executing node datasink.a21 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_RT5T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_CMA_subject_id_RT5T/RT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/RT5T/RT5T_QSM_reoriented_L_CMA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_AA_subject_id_TA5T/TA5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/TA5T/TA5T_QSM_reoriented_R_AA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_GH_subject_id_RT5T/RT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/RT5T/RT5T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a63 ID: 334 INFO:workflow:Executing node datasink.a28 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_NM3T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_AA_subject_id_NM3T/NM3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/NM3T/NM3T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a31 ID: 339 INFO:workflow:Executing node datasink.a30 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_HN3T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_AA_subject_id_NM3T/NM3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/NM3T/NM3T_QSM_reoriented_L_AA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_GH_subject_id_RT5T/RT5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/RT5T/RT5T_QSM_reoriented_R_GH.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_GH_subject_id_HN3T/HN3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HN3T/HN3T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a29 ID: 344 INFO:workflow:Executing node datasink.a63 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_HSNT/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_GH_subject_id_HSNT/HSNT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HSNT/HSNT_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a48 ID: 349 INFO:workflow:Executing node datasink.a31 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_HN3T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_AA_subject_id_NM3T/NM3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/NM3T/NM3T_QSM_reoriented_R_AA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_AA_subject_id_HN3T/HN3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HN3T/HN3T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a33 ID: 354 INFO:workflow:Executing node datasink.a29 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_NM3T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_GH_subject_id_HN3T/HN3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HN3T/HN3T_QSM_reoriented_L_GH.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_CMA_subject_id_NM3T/NM3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/NM3T/NM3T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a34 ID: 359 INFO:workflow:Executing node datasink.a48 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_HSLT/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_GH_subject_id_HSNT/HSNT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HSNT/HSNT_QSM_reoriented_R_GH.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_GH_subject_id_HSLT/HSLT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HSLT/HSLT_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a35 ID: 364 INFO:workflow:Executing node datasink.a33 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_HN3T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_AA_subject_id_HN3T/HN3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HN3T/HN3T_QSM_reoriented_L_AA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_GH_subject_id_HN3T/HN3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HN3T/HN3T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a36 ID: 369 INFO:workflow:Executing node datasink.a34 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_AA_subject_id_HN3T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_CMA_subject_id_NM3T/NM3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/NM3T/NM3T_QSM_reoriented_R_CMA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_GH_subject_id_HSLT/HSLT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HSLT/HSLT_QSM_reoriented_L_GH.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_AA_subject_id_HN3T/HN3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HN3T/HN3T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a37 ID: 374 INFO:workflow:Executing node datasink.a35 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_HN3T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_CMA_subject_id_HN3T/HN3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HN3T/HN3T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a47 ID: 379 INFO:workflow:Executing node datasink.a36 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_GH_subject_id_TA5T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_GH_subject_id_HN3T/HN3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HN3T/HN3T_QSM_reoriented_R_GH.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_GH_subject_id_TA5T/TA5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/TA5T/TA5T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a27 ID: 384 INFO:workflow:Executing node datasink.a37 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_AA_subject_id_TA5T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_AA_subject_id_HN3T/HN3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HN3T/HN3T_QSM_reoriented_R_AA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_AA_subject_id_TA5T/TA5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/TA5T/TA5T_QSM_reoriented.nii.gz INFO:workflow:Executing: datasink.a50 ID: 389 INFO:workflow:Executing node datasink.a47 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_CMA_subject_id_AD2T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_CMA_subject_id_HN3T/HN3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HN3T/HN3T_QSM_reoriented_R_CMA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_CMA_subject_id_AD2T/AD2T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/AD2T/AD2T_QSM_reoriented.nii.gz INFO:workflow:[Job finished] jobname: datasink.a67 jobid: 134 INFO:workflow:Executing node datasink.a27 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_R_rater_GH_subject_id_NM3T/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_GH_subject_id_TA5T/TA5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/TA5T/TA5T_QSM_reoriented_L_GH.nii.gz INFO:workflow:Executing node datasink.a50 in dir: /home/gdholla1/workflow_folders/reorient_QSM/_hemisphere_L_rater_CMA_subject_id_HSLT/datasink INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_AA_subject_id_TA5T/TA5T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/TA5T/TA5T_QSM_reoriented_L_AA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_CMA_subject_id_AD2T/AD2T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/AD2T/AD2T_QSM_reoriented_R_CMA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_R_rater_GH_subject_id_NM3T/NM3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/NM3T/NM3T_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm/_hemisphere_L_rater_CMA_subject_id_HSLT/HSLT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm/HSLT/HSLT_QSM_reoriented.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_L_rater_CMA_subject_id_HSLT/HSLT_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/HSLT/HSLT_QSM_reoriented_L_CMA.nii.gz INFO:interface:sub: /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/_hemisphere_R_rater_GH_subject_id_NM3T/NM3T_QSM_reoriented.nii.gz -> /home/gdholla1/notebooks_demo/data/reoriented_qsm_masks/NM3T/NM3T_QSM_reoriented_R_GH.nii.gz INFO:workflow:[Job finished] jobname: datasink.a01 jobid: 139 INFO:workflow:[Job finished] jobname: datasink.a39 jobid: 144 INFO:workflow:[Job finished] jobname: datasink.a51 jobid: 149 INFO:workflow:[Job finished] jobname: datasink.a70 jobid: 154 INFO:workflow:[Job finished] jobname: datasink.a68 jobid: 159 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<networkx.classes.digraph.DiGraph at 0x620f650>
##Analyze output of NiPype-workflow.
Now we can use the glob- regular-expression and statsmodels-power of Python to analyse the output of this workflow
# EXTRACT INFO FROM FILENAMES
import glob
fns = glob.glob('/home/gdholla1/notebooks_demo/data/iron_values/_hemisphere_*_rater_*_subject_id_*/mean_qsm_value.txt')
reg = re.compile('.*/_hemisphere_([A-Z])_rater_([A-Z]+)_subject_id_([A-Z0-9]+)/mean_qsm_value.txt')
# zip(*l) is inverse of zip(l)
hemispheres, raters, subject_ids = zip(*[reg.match(fn).groups() for fn in fns])
print hemispheres
print raters
print subject_ids
('R', 'R', 'L', 'R', 'R', 'R', 'L', 'L', 'L', 'L', 'R', 'L', 'L', 'R', 'R', 'R', 'L', 'L', 'R', 'L', 'R', 'R', 'R', 'L', 'R', 'R', 'L', 'L', 'R', 'R', 'L', 'R', 'L', 'L', 'L', 'R', 'R', 'R', 'L', 'L', 'R', 'R', 'L', 'L', 'L', 'R', 'R', 'R', 'R', 'R', 'L', 'L', 'L', 'L', 'L', 'L', 'R', 'R', 'R', 'R', 'L', 'R', 'L', 'L', 'L', 'R', 'L', 'L', 'R', 'R', 'R', 'L', 'L', 'R', 'R', 'L', 'L', 'L') ('GH', 'GH', 'AA', 'CMA', 'AA', 'AA', 'GH', 'AA', 'GH', 'GH', 'CMA', 'AA', 'CMA', 'CMA', 'AA', 'CMA', 'CMA', 'GH', 'GH', 'CMA', 'CMA', 'CMA', 'AA', 'GH', 'GH', 'CMA', 'CMA', 'AA', 'AA', 'GH', 'AA', 'GH', 'CMA', 'GH', 'CMA', 'CMA', 'CMA', 'GH', 'GH', 'AA', 'AA', 'AA', 'CMA', 'GH', 'CMA', 'GH', 'CMA', 'GH', 'CMA', 'AA', 'GH', 'AA', 'GH', 'AA', 'AA', 'AA', 'GH', 'GH', 'AA', 'AA', 'CMA', 'CMA', 'GH', 'GH', 'GH', 'GH', 'AA', 'CMA', 'CMA', 'AA', 'AA', 'AA', 'CMA', 'GH', 'AA', 'AA', 'CMA', 'CMA') ('AD2T', 'HT5T', 'HN3T', 'RT5T', 'HSNT', 'SF3T', 'HSNT', 'SF3T', 'AD2T', 'NM3T', 'WC9T', 'TA5T', 'KK6T', 'HSLT', 'NM3T', 'SF3T', 'HN3T', 'SF3T', 'HSNT', 'AD2T', 'STAT', 'HT5T', 'AD2T', 'STAT', 'WC9T', 'TA5T', 'KKCT', 'WC9T', 'WC9T', 'STAT', 'HT5T', 'KKCT', 'WC9T', 'HT5T', 'HT5T', 'NM3T', 'AD2T', 'HN3T', 'HSLT', 'STAT', 'HSLT', 'RT5T', 'HSNT', 'WC9T', 'RT5T', 'RT5T', 'HN3T', 'NM3T', 'HSNT', 'STAT', 'TA5T', 'HSLT', 'KK6T', 'HSNT', 'NM3T', 'KK6T', 'HSLT', 'SF3T', 'HT5T', 'KK6T', 'TA5T', 'KK6T', 'KKCT', 'HN3T', 'RT5T', 'TA5T', 'KKCT', 'STAT', 'KKCT', 'KKCT', 'TA5T', 'AD2T', 'NM3T', 'KK6T', 'HN3T', 'RT5T', 'SF3T', 'HSLT')
iron_values = [float(open(fn).read()) for fn in fns]
print iron_values
[0.052753, 0.0723901, 0.111995, 0.0825954, 0.0630693, 0.0654182, 0.0382894, 0.0735949, 0.125365, 0.0845273, 0.0689349, 0.0650931, 0.0654273, 0.056109, 0.0672192, 0.0749204, 0.129138, 0.0716351, 0.0937458, 0.108261, 0.0740535, 0.0609364, 0.0574445, 0.0700087, 0.0708384, 0.0556811, 0.0645641, 0.0606168, 0.0648597, 0.0597548, 0.0356857, 0.0550886, 0.065491, 0.033464, 0.0474625, 0.0777804, 0.060077, 0.108079, 0.0874986, 0.0702392, 0.0538609, 0.0522386, 0.0614383, 0.0572607, 0.0937508, 0.0632925, 0.103096, 0.0845727, 0.0833295, 0.0640081, 0.0684414, 0.0836633, 0.0573501, 0.0446895, 0.0795978, 0.0616445, 0.0658712, 0.0696484, 0.0695189, 0.0501853, 0.0686736, 0.0655762, 0.0619675, 0.0868583, 0.074936, 0.0565601, 0.0490438, 0.0708445, 0.0602827, 0.0522817, 0.0540834, 0.11911, 0.0837159, 0.0562088, 0.102965, 0.0809204, 0.0741594, 0.0797635]
# set up dataframe
qsm_data = pandas.DataFrame({'hemisphere':hemispheres,
'rater':raters,
'subject_id':subject_ids,
'qsm_values' : iron_values})
import scipy as sp
from scipy import stats
qsm_data.groupby(['hemisphere']).agg([np.mean, sp.stats.sem]) # stats.sem = standard error
qsm_values | ||
---|---|---|
mean | sem | |
hemisphere | ||
L | 0.073492 | 0.003642 |
R | 0.067932 | 0.002362 |
model = smf.ols(formula='qsm_values ~ subject_id*rater + hemisphere', df=qsm_data)
f = model.fit()
f.summary()
Dep. Variable: | qsm_values | R-squared: | 0.607 |
---|---|---|---|
Model: | OLS | Adj. R-squared: | 0.204 |
Method: | Least Squares | F-statistic: | 1.507 |
Date: | Mon, 03 Mar 2014 | Prob (F-statistic): | 0.104 |
Time: | 17:38:15 | Log-Likelihood: | 234.41 |
No. Observations: | 78 | AIC: | -388.8 |
Df Residuals: | 38 | BIC: | -294.6 |
Df Model: | 39 |
coef | std err | t | P>|t| | [95.0% Conf. Int.] | |
---|---|---|---|---|---|
Intercept | 0.0911 | 0.012 | 7.406 | 0.000 | 0.066 0.116 |
subject_id[T.HN3T] | 0.0192 | 0.017 | 1.118 | 0.270 | -0.016 0.054 |
subject_id[T.HSLT] | -0.0195 | 0.017 | -1.137 | 0.263 | -0.054 0.015 |
subject_id[T.HSNT] | -0.0344 | 0.017 | -2.004 | 0.052 | -0.069 0.000 |
subject_id[T.HT5T] | -0.0357 | 0.017 | -2.078 | 0.045 | -0.070 -0.001 |
subject_id[T.KK6T] | -0.0324 | 0.017 | -1.885 | 0.067 | -0.067 0.002 |
subject_id[T.KKCT] | -0.0376 | 0.017 | -2.191 | 0.035 | -0.072 -0.003 |
subject_id[T.NM3T] | -0.0149 | 0.017 | -0.866 | 0.392 | -0.050 0.020 |
subject_id[T.RT5T] | -0.0217 | 0.017 | -1.264 | 0.214 | -0.056 0.013 |
subject_id[T.SF3T] | -0.0188 | 0.017 | -1.093 | 0.281 | -0.054 0.016 |
subject_id[T.STAT] | -0.0212 | 0.017 | -1.232 | 0.225 | -0.056 0.014 |
subject_id[T.TA5T] | -0.0287 | 0.017 | -1.671 | 0.103 | -0.063 0.006 |
subject_id[T.WC9T] | -0.0255 | 0.017 | -1.488 | 0.145 | -0.060 0.009 |
rater[T.CMA] | -0.0041 | 0.017 | -0.239 | 0.812 | -0.039 0.031 |
rater[T.GH] | 0.0008 | 0.017 | 0.046 | 0.964 | -0.034 0.036 |
hemisphere[T.R] | -0.0056 | 0.004 | -1.430 | 0.161 | -0.013 0.002 |
subject_id[T.HN3T]:rater[T.CMA] | 0.0127 | 0.024 | 0.525 | 0.603 | -0.036 0.062 |
subject_id[T.HSLT]:rater[T.CMA] | 0.0033 | 0.024 | 0.135 | 0.893 | -0.046 0.052 |
subject_id[T.HSNT]:rater[T.CMA] | 0.0226 | 0.024 | 0.931 | 0.358 | -0.027 0.072 |
subject_id[T.HT5T]:rater[T.CMA] | 0.0057 | 0.024 | 0.235 | 0.815 | -0.043 0.055 |
subject_id[T.KK6T]:rater[T.CMA] | 0.0137 | 0.024 | 0.564 | 0.576 | -0.035 0.063 |
subject_id[T.KKCT]:rater[T.CMA] | 0.0159 | 0.024 | 0.654 | 0.517 | -0.033 0.065 |
subject_id[T.NM3T]:rater[T.CMA] | 0.0114 | 0.024 | 0.471 | 0.640 | -0.038 0.061 |
subject_id[T.RT5T]:rater[T.CMA] | 0.0257 | 0.024 | 1.059 | 0.296 | -0.023 0.075 |
subject_id[T.SF3T]:rater[T.CMA] | 0.0091 | 0.024 | 0.377 | 0.709 | -0.040 0.058 |
subject_id[T.STAT]:rater[T.CMA] | 0.0094 | 0.024 | 0.389 | 0.700 | -0.040 0.059 |
subject_id[T.TA5T]:rater[T.CMA] | 0.0067 | 0.024 | 0.276 | 0.784 | -0.042 0.056 |
subject_id[T.WC9T]:rater[T.CMA] | 0.0086 | 0.024 | 0.354 | 0.726 | -0.041 0.058 |
subject_id[T.HN3T]:rater[T.GH] | -0.0108 | 0.024 | -0.445 | 0.659 | -0.060 0.038 |
subject_id[T.HSLT]:rater[T.GH] | 0.0071 | 0.024 | 0.294 | 0.770 | -0.042 0.056 |
subject_id[T.HSNT]:rater[T.GH] | 0.0114 | 0.024 | 0.468 | 0.643 | -0.038 0.061 |
subject_id[T.HT5T]:rater[T.GH] | -0.0005 | 0.024 | -0.019 | 0.985 | -0.050 0.049 |
subject_id[T.KK6T]:rater[T.GH] | 8.28e-05 | 0.024 | 0.003 | 0.997 | -0.049 0.049 |
subject_id[T.KKCT]:rater[T.GH] | 0.0071 | 0.024 | 0.292 | 0.772 | -0.042 0.056 |
subject_id[T.NM3T]:rater[T.GH] | 0.0104 | 0.024 | 0.427 | 0.672 | -0.039 0.060 |
subject_id[T.RT5T]:rater[T.GH] | 0.0018 | 0.024 | 0.072 | 0.943 | -0.047 0.051 |
subject_id[T.SF3T]:rater[T.GH] | 0.0004 | 0.024 | 0.015 | 0.988 | -0.049 0.050 |
subject_id[T.STAT]:rater[T.GH] | -0.0030 | 0.024 | -0.125 | 0.902 | -0.052 0.046 |
subject_id[T.TA5T]:rater[T.GH] | 0.0021 | 0.024 | 0.088 | 0.931 | -0.047 0.051 |
subject_id[T.WC9T]:rater[T.GH] | 0.0005 | 0.024 | 0.022 | 0.983 | -0.049 0.050 |
Omnibus: | 4.676 | Durbin-Watson: | 1.897 |
---|---|---|---|
Prob(Omnibus): | 0.097 | Jarque-Bera (JB): | 6.155 |
Skew: | 0.000 | Prob(JB): | 0.0461 |
Kurtosis: | 4.376 | Cond. No. | 57.4 |
anova_lm(f)
df | sum_sq | mean_sq | F | PR(>F) | |
---|---|---|---|---|---|
subject_id | 12 | 0.014836 | 0.001236 | 4.194434 | 0.000341 |
rater | 2 | 0.000653 | 0.000326 | 1.106978 | 0.340980 |
hemisphere | 1 | 0.000603 | 0.000603 | 2.045465 | 0.160832 |
subject_id:rater | 24 | 0.001234 | 0.000051 | 0.174502 | 0.999986 |
Residual | 38 | 0.011201 | 0.000295 | NaN | NaN |
Setting up custom nipype workflows is not completely trivial, especially for the untrained programmer. It's good to know that epsecially in the domain of fMRI-analysis, a lot of out-of-the-box workflows are included with NiPype. For example, the standard 'FEAT-preprocessing' of FSL is implemented as a NiPype-workflow. Consider how big this is, but how little code you need to import it!
import nipype
from nipype.workflows.fmri.fsl import create_featreg_preproc
workflow = create_featreg_preproc()
workflow.write_graph()
from IPython.display import Image
import os
Image('graph.dot.png')
INFO:workflow:Converting dotfile: /home/gdholla1/notebooks_demo/graph.dot to png format
It has a 'inputspec'-node where you can give a list of functional scans, smoothing- and highpass-parameters.
workflow.inputs.inputspec
func = <undefined> fwhm = <undefined> highpass = <undefined>
That's it folks! I hope you will try out some of IPython's magic. Please also have a look at these libraries: