You signed in with another tab or window. Reload to refresh your session.You signed out in another tab or window. Reload to refresh your session.You switched accounts on another tab or window. Reload to refresh your session.Dismiss alert
I'm having issues with running qap_measures_pipeline.py. I get the message below, similar to what was brought up in #120 and #125:
/usr/lib/python2.7/site-packages/qap-1.0.8b-py2.7.egg/qap/script_utils.py:29: YAMLLoadWarning: calling yaml.load() without Loader=... is deprecated, as the default Loader is unsafe. Please read https://msg.pyyaml.org/load for full details.
config = yaml.load(f)
Traceback (most recent call last):
File "/bin/qap_measures_pipeline.py", line 5, in
pkg_resources.run_script('qap==1.0.8b', 'qap_measures_pipeline.py')
File "/usr/lib/python2.7/site-packages/pkg_resources.py", line 540, in run_script
self.require(requires)[0].run_script(script_name, ns)
File "/usr/lib/python2.7/site-packages/pkg_resources.py", line 1455, in run_script
execfile(script_filename, namespace, namespace)
File "/usr/lib/python2.7/site-packages/qap-1.0.8b-py2.7.egg/EGG-INFO/scripts/qap_measures_pipeline.py", line 10, in
obj.run()
File "/usr/lib/python2.7/site-packages/qap-1.0.8b-py2.7.egg/qap/cli.py", line 552, in run
from nipype.pipeline.plugins.callback_log import log_nodes_cb
ImportError: No module named callback_log
I tried downgrading nipype to 0.13.1, as suggested by anibalsolon and subsequently got the error message below:
Traceback (most recent call last):
File "/home/bbiekman/.local/bin/qap_anatomical_spatial.py", line 10, in
obj.run()
File "/home/bbiekman/.local/lib/python2.7/site-packages/qap/cli.py", line 611, in run
results.append(self.run_one_bundle(idx))
File "/home/bbiekman/.local/lib/python2.7/site-packages/qap/cli.py", line 446, in run_one_bundle
rt = run_workflow(wfargs)
File "/home/bbiekman/.local/lib/python2.7/site-packages/qap/cli.py", line 879, in run_workflow
config, name)
File "/home/bbiekman/.local/lib/python2.7/site-packages/qap/qap_workflows.py", line 407, in qap_anatomical_spatial_workflow
qap_mask_workflow(workflow, resource_pool, config, name)
File "/home/bbiekman/.local/lib/python2.7/site-packages/qap/qap_workflows.py", line 74, in qap_mask_workflow
config, name)
File "/home/bbiekman/.local/lib/python2.7/site-packages/qap/anatomical_preproc.py", line 371, in afni_anatomical_linear_registration
config, name)
File "/home/bbiekman/.local/lib/python2.7/site-packages/qap/anatomical_preproc.py", line 58, in anatomical_reorient_workflow
anat_deoblique = pe.Node(interface=preprocess.Refit(),
AttributeError: 'module' object has no attribute 'Refit'
What should I do to ensure that I can use qap?
The text was updated successfully, but these errors were encountered:
I'm having issues with running qap_measures_pipeline.py. I get the message below, similar to what was brought up in #120 and #125:
/usr/lib/python2.7/site-packages/qap-1.0.8b-py2.7.egg/qap/script_utils.py:29: YAMLLoadWarning: calling yaml.load() without Loader=... is deprecated, as the default Loader is unsafe. Please read https://msg.pyyaml.org/load for full details.
config = yaml.load(f)
Traceback (most recent call last):
File "/bin/qap_measures_pipeline.py", line 5, in
pkg_resources.run_script('qap==1.0.8b', 'qap_measures_pipeline.py')
File "/usr/lib/python2.7/site-packages/pkg_resources.py", line 540, in run_script
self.require(requires)[0].run_script(script_name, ns)
File "/usr/lib/python2.7/site-packages/pkg_resources.py", line 1455, in run_script
execfile(script_filename, namespace, namespace)
File "/usr/lib/python2.7/site-packages/qap-1.0.8b-py2.7.egg/EGG-INFO/scripts/qap_measures_pipeline.py", line 10, in
obj.run()
File "/usr/lib/python2.7/site-packages/qap-1.0.8b-py2.7.egg/qap/cli.py", line 552, in run
from nipype.pipeline.plugins.callback_log import log_nodes_cb
ImportError: No module named callback_log
I tried downgrading nipype to 0.13.1, as suggested by anibalsolon and subsequently got the error message below:
Traceback (most recent call last):
File "/home/bbiekman/.local/bin/qap_anatomical_spatial.py", line 10, in
obj.run()
File "/home/bbiekman/.local/lib/python2.7/site-packages/qap/cli.py", line 611, in run
results.append(self.run_one_bundle(idx))
File "/home/bbiekman/.local/lib/python2.7/site-packages/qap/cli.py", line 446, in run_one_bundle
rt = run_workflow(wfargs)
File "/home/bbiekman/.local/lib/python2.7/site-packages/qap/cli.py", line 879, in run_workflow
config, name)
File "/home/bbiekman/.local/lib/python2.7/site-packages/qap/qap_workflows.py", line 407, in qap_anatomical_spatial_workflow
qap_mask_workflow(workflow, resource_pool, config, name)
File "/home/bbiekman/.local/lib/python2.7/site-packages/qap/qap_workflows.py", line 74, in qap_mask_workflow
config, name)
File "/home/bbiekman/.local/lib/python2.7/site-packages/qap/anatomical_preproc.py", line 371, in afni_anatomical_linear_registration
config, name)
File "/home/bbiekman/.local/lib/python2.7/site-packages/qap/anatomical_preproc.py", line 58, in anatomical_reorient_workflow
anat_deoblique = pe.Node(interface=preprocess.Refit(),
AttributeError: 'module' object has no attribute 'Refit'
What should I do to ensure that I can use qap?
The text was updated successfully, but these errors were encountered: