Python type error

[mlueckel]

Hi,

I’m trying to run the HCPPipelines BIDS app on some of my data using a singularity image that I built from the docker container (version 4.1.3-1).

There is no problem when running it with the “legacy” option. However, when running it with the “hcp” option to include the T2 image, fieldmaps, etc., I immediately get the following error message:

Traceback (most recent call last):
File “/run.py”, line 326, in
fieldmap_set[“magnitude1”],
TypeError: list indices must be integers or slices, not str

Is there a way to solve this problem?

Any help is much appreciated!

Thank you,
Max

[rhancockn]

Does your dataset have phase/magnitude fieldmaps? That should work, but hasn’t been tested as thoroughly as the HCP style of collecting spin echo images with opposing PE direction. Would you be able to share a small test dataset?

…

On Jan 1, 2021, at 12:06 PM, mlueckel ***@***.***> wrote:  Hi, I’m trying to run the HCPPipelines BIDS app on some of my data using a singularity image that I built from the docker container (version 4.1.3-1). There is no problem when running it with the “legacy” option. However, when running it with the “hcp” option to include the T2 image, fieldmaps, etc., I immediately get the following error message: Traceback (most recent call last): File “/run.py”, line 326, in fieldmap_set[“magnitude1”], TypeError: list indices must be integers or slices, not str Is there a way to solve this problem? Any help is much appreciated! Thank you, Max — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub, or unsubscribe.