SebastianoF/bruker2nifti issues and pull requests

#71 - match bvals and bvecs messages with correct files

Pull Request - State: closed - Opened by Hierakonpolis about 1 year ago - 2 comments

#70 - replace deprecated nibabel get_data() method with get_fdata()

Pull Request - State: closed - Opened by Hierakonpolis about 1 year ago - 1 comment

#69 - Installation issue on Macbook with apple M1 chip

Issue - State: closed - Opened by javier-allende over 2 years ago - 4 comments

#68 - fsl doesn't work anymore on DTI bruker2nifti stacks with more than 1 repetition

Issue - State: closed - Opened by emicotti almost 4 years ago - 5 comments

#67 - Passing over the bruker2nifti torch

Issue - State: open - Opened by SebastianoF about 4 years ago - 3 comments
Labels: help wanted

#66 - Have you ever tried to convert CSI data to Nifti?

Issue - State: closed - Opened by amirshamaei over 4 years ago - 9 comments

#65 - I Can not run bruker2nifti on mac

Issue - State: closed - Opened by mpompilus almost 5 years ago - 5 comments

#64 - Do not install test module

Pull Request - State: open - Opened by TheChymera almost 5 years ago - 2 comments

#63 - Default qform/sform combination not according to NIFTI spec

Issue - State: open - Opened by gdevenyi about 5 years ago - 1 comment

#62 - black and quote bug fixed

Pull Request - State: closed - Opened by SebastianoF about 5 years ago

#61 - Gdevenyi issues and black formatting

Pull Request - State: closed - Opened by SebastianoF about 5 years ago

#60 - Fix default command line arguments and uniformize across CLI

Pull Request - State: closed - Opened by gdevenyi about 5 years ago - 4 comments

#59 - Leftover debug statements in v1.0.3

Issue - State: closed - Opened by gdevenyi about 5 years ago - 2 comments

#58 - v1.0.3 "Sample upside down" and "Frame body as frame head" both default to true for command-line

Issue - State: closed - Opened by gdevenyi about 5 years ago - 10 comments

#57 - Current tests master fails for Python 2.7

Issue - State: closed - Opened by SebastianoF about 5 years ago - 2 comments

#56 - List scans within a study

Pull Request - State: closed - Opened by jathpala about 5 years ago - 3 comments

#55 - Converter to nifti officially released in latest Paravision patch - update Readme

Issue - State: closed - Opened by SebastianoF over 5 years ago - 1 comment

#54 - Update travis to use pytest instead of nosetest

Issue - State: closed - Opened by SebastianoF over 5 years ago - 1 comment
Labels: help wanted

#53 - Extend coverage percentage with mock - tests not involving the datasets.

Issue - State: open - Opened by SebastianoF over 5 years ago
Labels: help wanted, for non experts

#52 - Build failing due to backward compatibility problems...

Issue - State: closed - Opened by SebastianoF over 5 years ago

#51 - Add pipenv support and improve handling of whitespace in paths

Pull Request - State: closed - Opened by jathpala over 5 years ago - 2 comments

#50 - Refactor GUI with PySimpleGUI to allow for web deployment

Issue - State: closed - Opened by SebastianoF almost 6 years ago - 1 comment

#49 - Refactor testing distinguishing unittest and integration test, based on downloading external dataset from bruker2nifti_qa

Issue - State: open - Opened by SebastianoF almost 6 years ago
Labels: help wanted

#48 - Allow spaces in directory paths

Pull Request - State: closed - Opened by jathpala almost 6 years ago - 4 comments

#47 - DTI Tensor Reconstruction Support

Issue - State: closed - Opened by hookeba almost 6 years ago - 3 comments

#46 - GUI installation

Issue - State: closed - Opened by neurolabusc almost 6 years ago - 3 comments

#45 - Handling "Warning, VisuCoreSize in VisuPars parameter file animal2/39/pdata/1 is not a list or a vector in. The study cannot be converted."

Issue - State: closed - Opened by demianw about 6 years ago - 1 comment

#44 - qform/sform defaults?

Issue - State: closed - Opened by gdevenyi over 6 years ago - 1 comment

#43 - numpy 1.12.0 rejects floats as reshape arguments

Issue - State: closed - Opened by gdevenyi over 6 years ago - 8 comments

#42 - Consider adding a "Citing" section to README

Issue - State: closed - Opened by dzhoshkun over 6 years ago

#41 - Python 3 installation working in development mode, not working if installed with pip

Issue - State: closed - Opened by SebastianoF almost 7 years ago - 1 comment

#40 - Produce mrtrix (grad) and FSL (bval/bvec) style output files for DWI data

Issue - State: closed - Opened by gdevenyi almost 7 years ago - 4 comments

#39 - Slope correction disabled for DTI?

Issue - State: closed - Opened by gdevenyi almost 7 years ago - 5 comments

#38 - slope saving as human readable dies if data is stored as floating point

Issue - State: closed - Opened by gdevenyi almost 7 years ago - 7 comments

#37 - Provide a way to use subject ID

Issue - State: closed - Opened by gdevenyi almost 7 years ago - 9 comments

#36 - Offset should be implemented in case of quantitative scan types

Issue - State: closed - Opened by gdevenyi about 7 years ago - 1 comment

#35 - Folders not made in Windows

Issue - State: closed - Opened by mediumspiny about 7 years ago - 1 comment

#34 - Conversion fails for specra sequences

Issue - State: closed - Opened by mediumspiny about 7 years ago - 2 comments

#33 - Inconsistent Affine Matrix Among Different Way of Converting

Issue - State: open - Opened by cecilyen about 7 years ago - 17 comments
Labels: question, wontfix

#32 - Fix Coveralls build failure

Issue - State: closed - Opened by dzhoshkun over 7 years ago - 4 comments

#31 - Enable Coveralls

Issue - State: closed - Opened by dzhoshkun over 7 years ago - 1 comment

#30 - Master

Pull Request - State: closed - Opened by r03ert0 over 7 years ago - 2 comments

#29 - Should the Bruker `reco_map_slope` parameter be multiplied or divided?

Issue - State: closed - Opened by r03ert0 over 7 years ago - 9 comments

#28 - -correct-slope does not have any effect

Issue - State: closed - Opened by r03ert0 over 7 years ago - 5 comments

#27 - Converted MRI is oriented incorrectly: how to fix the orientation of the MRI and bvecs/bvals?

Issue - State: closed - Opened by r03ert0 over 7 years ago - 6 comments

#26 - Automatic version string generation fails on Travis

Issue - State: closed - Opened by dzhoshkun over 7 years ago - 6 comments

#25 - Error reading DWI data: "IndexError: list index out of range"

Issue - State: closed - Opened by r03ert0 over 7 years ago - 7 comments

#24 - How to contribute

Issue - State: closed - Opened by rougier over 7 years ago - 1 comment

#23 - Paper

Issue - State: closed - Opened by rougier over 7 years ago - 4 comments

#22 - Documentation

Issue - State: closed - Opened by rougier over 7 years ago - 5 comments

#21 - GUI

Issue - State: closed - Opened by rougier over 7 years ago - 1 comment

#20 - Instructions in the README

Issue - State: closed - Opened by rougier over 7 years ago - 6 comments

#19 - Releasing a new patch-version after JOSS submission

Issue - State: closed - Opened by SebastianoF over 7 years ago

#18 - Wiki page

Issue - State: closed - Opened by rougier over 7 years ago - 1 comment

#17 - Dead links in the README

Issue - State: closed - Opened by rougier over 7 years ago - 6 comments

#16 - MRG: add travis-ci testing

Pull Request - State: closed - Opened by matthew-brett over 7 years ago - 1 comment

#15 - Add Nifti-1 Nifti-2 option in the GUI output

Issue - State: closed - Opened by SebastianoF over 7 years ago

#14 - Update versioning that keeps track of git commit after release

Issue - State: closed - Opened by SebastianoF over 7 years ago

#13 - Consider removing all from package declaration

Issue - State: closed - Opened by dzhoshkun over 7 years ago - 3 comments

#12 - Git-tag current version

Issue - State: closed - Opened by dzhoshkun over 7 years ago - 1 comment

#11 - VisuCoreTransposition not corresponding to RECO_transposition in version 5.1

Issue - State: open - Opened by SebastianoF over 7 years ago - 17 comments
Labels: question, wontfix

GitHub / SebastianoF/bruker2nifti issues and pull requests