Comments (5)
cbedetti
commented on September 13, 2024
I don't have access to a Mac, so I can't test it directly.
It should be fixed in the last version.
$ pip freeze | grep dcm2bids
dcm2bids==1.1.8
Do you have the last version ?
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dlevitas
commented on September 13, 2024
I actually gave up with the Mac version, and switched to a Linux cluster environment. I tried the installation again, but received the following permissions error:
Exception:
Traceback (most recent call last):
File "/N/soft/rhel6/python/2.7.3/lib/python2.7/site-packages/pip-9.0.1-py2.7.egg/pip/basecommand.py", line 215, in main
status = self.run(options, args)
File "/N/soft/rhel6/python/2.7.3/lib/python2.7/site-packages/pip-9.0.1-py2.7.egg/pip/commands/install.py", line 342, in run
prefix=options.prefix_path,
File "/N/soft/rhel6/python/2.7.3/lib/python2.7/site-packages/pip-9.0.1-py2.7.egg/pip/req/req_set.py", line 784, in install
**kwargs
File "/N/soft/rhel6/python/2.7.3/lib/python2.7/site-packages/pip-9.0.1-py2.7.egg/pip/req/req_install.py", line 851, in install
self.move_wheel_files(self.source_dir, root=root, prefix=prefix)
File "/N/soft/rhel6/python/2.7.3/lib/python2.7/site-packages/pip-9.0.1-py2.7.egg/pip/req/req_install.py", line 1064, in move_wheel_files
isolated=self.isolated,
File "/N/soft/rhel6/python/2.7.3/lib/python2.7/site-packages/pip-9.0.1-py2.7.egg/pip/wheel.py", line 345, in move_wheel_files
clobber(source, lib_dir, True)
File "/N/soft/rhel6/python/2.7.3/lib/python2.7/site-packages/pip-9.0.1-py2.7.egg/pip/wheel.py", line 316, in clobber
ensure_dir(destdir)
File "/N/soft/rhel6/python/2.7.3/lib/python2.7/site-packages/pip-9.0.1-py2.7.egg/pip/utils/__init__.py", line 83, in ensure_dir
os.makedirs(path)
File "/N/soft/rhel6/python/2.7.3/lib/python2.7/os.py", line 157, in makedirs
mkdir(name, mode)
OSError: [Errno 13] Permission denied: '/N/soft/rhel6/python/2.7.3/lib/python2.7/site-packages/winreg'
Since I don't have admin privileges, is there a work-around I can use in this case?
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cbedetti
commented on September 13, 2024
Without admin privileges, you can use -e, --user or --prefix.
pip install --help to see what's the best fit for your need.
One example: pip install --user dcm2bids
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dlevitas
commented on September 13, 2024
Okay, I installed dcm2bid with
pip install --prefix $HOME/Dcm2Bids dcm2bids
I then tried running the dcm2bids_helper file using this command:
$HOME/Dcm2Bids/bin/dcm2bids_helper -d DICOMdir -o $HOME
but got this error:
Traceback (most recent call last):
File "/N/u/dlevitas/Karst/Dcm2Bids/bin/dcm2bids_helper", line 8, in <module>
from dcm2bids.dcm2niix import Dcm2niix
Do I need to update the python path to include the dcm2bids modules?
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dlevitas
commented on September 13, 2024
Actually, nevermind about that. I added it to my PATH, and now it's running.
Thanks again.
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Related Issues (20)
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