Issues

• Save hash of input dataset and PUMI source code in the dataset_description.json

  pni-lab/PUMI#212 · by Filter by author khoffschlag was closed on Mar 15, 2026
  4

  

• Make ants and ants_hardcoded available in anat2mni

  pni-lab/PUMI#207 · by Filter by author khoffschlag was closed on Apr 26, 2025
  

• Automatically overwrite cloned settings.ini with user’s local file when running the cluster script

  pni-lab/PUMI#206 · by Filter by author khoffschlag was closed on Mar 1, 2025
  

• Rework Fieldmap Correction Workflow

  enhancement
  pni-lab/PUMI#198 · by Filter by author khoffschlag was closed on Jan 17, 2025
  

• Change Default Registration Template

  enhancement
  pni-lab/PUMI#197 · by Filter by author khoffschlag was closed on Jan 17, 2025
  2

  

• Create Tutorial for Usage of PUMI on SLURM Cluster

  documentation
  pni-lab/PUMI#196 · by Filter by author khoffschlag was closed on Jan 17, 2025
  

• CLI / BidsPipeline Argument for Fieldmap Correction

  enhancement
  pni-lab/PUMI#195 · by Filter by author khoffschlag was closed on Mar 15, 2026
  1

  

• Automate Fieldmap Correction Parameter Retrieval from JSON Metadata / Header of Image

  enhancement
  pni-lab/PUMI#194 · by Filter by author khoffschlag was closed on Nov 25, 2024
  1

  

• Introduce func2func Workflow for Functional-to-sbref Registration

  enhancement
  pni-lab/PUMI#192 · by Filter by author khoffschlag was closed on Jan 17, 2025
  1

  

• Make 'software_versions.txt' more BIDS-compliant

  pni-lab/PUMI#185 · by Filter by author khoffschlag was closed on Mar 7, 2024
  

• Missing scripts in pyproject.toml

  pni-lab/PUMI#182 · by Filter by author khoffschlag was closed on Dec 12, 2023
  

• versioneer is not able to fetch PUMI version

  pni-lab/PUMI#181 · by Filter by author khoffschlag was closed on Dec 12, 2023
  

• Bug in add_argument statement for bbr (bbr will always be False)

  pni-lab/PUMI#180 · by Filter by author khoffschlag was closed on Dec 12, 2023
  

• Check if the results of the fieldmap_correction workflow are correct

  pni-lab/PUMI#179 · by Filter by author khoffschlag was closed on Nov 5, 2024
  1

  

• Sink used PUMI version in derivatives

  pni-lab/PUMI#178 · by Filter by author khoffschlag was closed on Dec 12, 2023
  1

  

• Deepbet requirement missing in requirements.txt

  pni-lab/PUMI#177 · by Filter by author khoffschlag was closed on Dec 12, 2023
  

• Adapt PUMI for newer python versions

  pni-lab/PUMI#176 · by Filter by author khoffschlag was closed on Dec 12, 2023
  

• deepbet does not work in pumi docker container anymore

  pni-lab/PUMI#175 · by Filter by author khoffschlag was closed on Dec 12, 2023
  

• Dockerfile_v0.6 - GLIBCXX_3.4.30 not found

  pni-lab/PUMI#172 · by Filter by author khoffschlag was closed on Dec 1, 2023
  1

• Can not build Dockerfile

  pni-lab/PUMI#170 · by Filter by author khoffschlag was closed on Dec 12, 2023
  2

  

• Integrate "deepbet" brain extraction tool

  pni-lab/PUMI#169 · by Filter by author khoffschlag was closed on Nov 27, 2023
  

• Delete problem-causing file

  pni-lab/PUMI#167 · by Filter by author khoffschlag was closed on Dec 1, 2023
  

• BidsApp does not work with --help

  pni-lab/PUMI#156 · by Filter by author khoffschlag was closed on Dec 12, 2023

• add MRtrix3 to Dockerfile

  pni-lab/PUMI#153 · by Filter by author khoffschlag was closed on Mar 28, 2023

• get_ref_locally has no fallback value for 'ventricle_mask'

  pni-lab/PUMI#152 · by Filter by author khoffschlag was closed on Nov 13, 2024