crash-20151003-165858-brain-b0_avg.pklz

File: crash-20151003-165858-brain-b0_avg.pklz
Node: hmc_sdc_ecc.eddy_correct.b0_avg
Working directory: /tmp/tmpyq3yMf/hmc_sdc_ecc/eddy_correct/b0_avg


Node inputs:

function_str = S'def b0_average(in_dwi, in_bval, max_b=10.0, out_file=None):\n    """\n    A function that averages the *b0* volumes from a DWI dataset.\n    As current dMRI data are being acquired with all b-values > 0.0,\n    the *lowb* volumes are selected by specifying the parameter max_b.\n\n    .. warning:: *b0* should be already registered (head motion artifact should\n      be corrected).\n\n    """\n    import numpy as np\n    import nibabel as nb\n    import os.path as op\n\n    if out_file is None:\n        fname, ext = op.splitext(op.basename(in_dwi))\n        if ext == ".gz":\n            fname, ext2 = op.splitext(fname)\n            ext = ext2 + ext\n        out_file = op.abspath("%s_avg_b0%s" % (fname, ext))\n\n    imgs = np.array(nb.four_to_three(nb.load(in_dwi)))\n    index = b0_indices(in_bval, max_b=max_b)\n    b0s = [im.get_data().astype(np.float32)\n           for im in imgs[index]]\n    b0 = np.average(np.array(b0s), axis=0)\n\n    hdr = imgs[0].get_header().copy()\n    hdr.set_data_shape(b0.shape)\n    hdr.set_xyzt_units(\'mm\')\n    hdr.set_data_dtype(np.float32)\n    nb.Nifti1Image(b0, imgs[0].get_affine(), hdr).to_filename(out_file)\n    return out_file\n'
.
ignore_exception = False
in_bval = /home/brain/nipypetest/Pres2.bval
in_dwi = /home/brain/nipypetest/Pres2.nii.gz



Traceback: 
Traceback (most recent call last):
  File "/usr/lib/python2.7/dist-packages/nipype/pipeline/plugins/linear.py", line 38, in run
    node.run(updatehash=updatehash)
  File "/usr/lib/python2.7/dist-packages/nipype/pipeline/engine.py", line 1428, in run
    self._run_interface()
  File "/usr/lib/python2.7/dist-packages/nipype/pipeline/engine.py", line 1538, in _run_interface
    self._result = self._run_command(execute)
  File "/usr/lib/python2.7/dist-packages/nipype/pipeline/engine.py", line 1664, in _run_command
    result = self._interface.run()
  File "/usr/lib/python2.7/dist-packages/nipype/interfaces/base.py", line 1033, in run
    runtime = self._run_wrapper(runtime)
  File "/usr/lib/python2.7/dist-packages/nipype/interfaces/base.py", line 983, in _run_wrapper
    runtime = self._run_interface(runtime)
  File "/usr/lib/python2.7/dist-packages/nipype/interfaces/utility.py", line 445, in _run_interface
    out = function_handle(**args)
  File "<string>", line 23, in b0_average
NameError: global name 'b0_indices' is not defined
Interface Function failed to run.