Ecosyste.ms: Issues

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GitHub / datalad/datalad-neuroimaging issues and pull requests

#132 - Fixup intersphinx_mapping for python

Pull Request - State: closed - Opened by yarikoptic 7 months ago - 1 comment
Labels: semver-documentation

#131 - Add codespell config and workflow, and use it to typos found throughout the codebase

Pull Request - State: closed - Opened by yarikoptic 7 months ago - 3 comments
Labels: semver-patch, release

#130 - Set up releasing workflows

Pull Request - State: closed - Opened by jwodder 7 months ago - 3 comments
Labels: semver-internal

#129 - Drop Python 3.7 support -- EOLed

Pull Request - State: closed - Opened by yarikoptic 11 months ago - 2 comments

#128 - make participants.tsv optional

Issue - State: open - Opened by yarikoptic 12 months ago

#127 - Automate releasing process

Issue - State: closed - Opened by yarikoptic about 1 year ago - 4 comments

#125 - NF: replace `pybids` dependency with `ancp-bids`

Issue - State: open - Opened by jsheunis over 1 year ago

#124 - ENH: improvements for using `bids_dataset` extractor in workflows

Pull Request - State: closed - Opened by jsheunis over 1 year ago - 1 comment

#123 - BUG: metadata extraction for superdataset reports results for subdataset

Issue - State: closed - Opened by jsheunis over 1 year ago - 7 comments

#121 - `participants.tsv` should not be required for `bids_dataset` extractor

Issue - State: closed - Opened by jsheunis over 1 year ago - 1 comment

#119 - Add extra requirements to RtD config

Pull Request - State: closed - Opened by mslw over 1 year ago - 2 comments

#118 - Update docs and CI build configuration

Pull Request - State: closed - Opened by mslw over 1 year ago - 3 comments

#117 - Read the Docs builds failing

Issue - State: closed - Opened by mslw over 1 year ago - 3 comments

#116 - Appveyor tests stall on MacOS

Issue - State: closed - Opened by mslw over 1 year ago

#115 - [ENH] do not annex typical top files in BIDS datasets

Pull Request - State: closed - Opened by Remi-Gau over 1 year ago - 3 comments

#114 - ENH: run-procedure for BIDS dataset configuration

Issue - State: open - Opened by jsheunis almost 2 years ago - 9 comments

#113 - Raise dependency on datalad-deprecated

Pull Request - State: closed - Opened by bpoldrack almost 2 years ago - 1 comment

#112 - Prepare 0.3.2 release

Pull Request - State: closed - Opened by bpoldrack almost 2 years ago - 1 comment

#111 - Adapt to the move of metadata-code from `datalad` to `datalad-deprecated`

Pull Request - State: closed - Opened by christian-monch almost 2 years ago - 4 comments

#110 - RF: use pytest, remove restriction on datalad version

Pull Request - State: closed - Opened by yarikoptic almost 2 years ago - 5 comments

#109 - Replace `simplejson` with `json`.

Pull Request - State: closed - Opened by christian-monch about 2 years ago

#108 - Update extractors

Pull Request - State: closed - Opened by christian-monch about 2 years ago - 2 comments

#107 - Replace `simplejson` with `json`

Issue - State: closed - Opened by christian-monch about 2 years ago

#106 - Crippled file system test failure

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

#105 - DOC: Set language in Sphinx config to en

Pull Request - State: closed - Opened by adswa over 2 years ago - 1 comment

#104 - NF: Create updated dataset-level extractor for BIDS datasets

Pull Request - State: closed - Opened by jsheunis over 2 years ago - 9 comments

#103 - Extracting JSON encodable text data from reStructuredText documents

Issue - State: open - Opened by jsheunis over 2 years ago - 3 comments

#102 - Pandas FutureWarning: frame.append deprecated, use pandas.concat instead

Issue - State: closed - Opened by mslw over 2 years ago - 2 comments

#101 - Bring the extension up to date with datalad-extension-template

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

#100 - Use python 3.8 for building docs

Pull Request - State: closed - Opened by mslw over 2 years ago - 3 comments

#99 - Bring up to speed with `datalad-extension-template`

Issue - State: closed - Opened by jsheunis over 2 years ago - 3 comments

#98 - Docs failing "no module named `numpy`"

Issue - State: closed - Opened by jsheunis over 2 years ago - 8 comments

#97 - Enable new codecov uploader in Appveyor CI

Pull Request - State: closed - Opened by mslw over 2 years ago

#95 - crash while running on a datalad-fuse'd dataset

Issue - State: open - Opened by yarikoptic over 2 years ago

#94 - Upgrade `bids.py` metadata extractor

Issue - State: open - Opened by jsheunis over 2 years ago - 9 comments

#93 - need to call datalad installer with sudo ok

Pull Request - State: closed - Opened by yarikoptic over 2 years ago

#92 - BF: nifti1 - decode "bytes" in the metadata record

Pull Request - State: closed - Opened by yarikoptic almost 3 years ago - 1 comment

#91 - Update Appveyor config to use new codecov uploader

Issue - State: closed - Opened by jwodder almost 3 years ago

#90 - BF:Docs: replace incorrect dashes with spaces in command names

Pull Request - State: closed - Opened by loj over 3 years ago - 3 comments

#89 - Documentation: commands contain incorrect dashes

Issue - State: closed - Opened by loj over 3 years ago

#88 - Add GIN datacite-file generation from BIDS dataset_description.json

Pull Request - State: open - Opened by christian-monch over 3 years ago - 6 comments

#87 - Switch to AppVeyor

Pull Request - State: closed - Opened by bpoldrack over 3 years ago

#86 - Fix for pydicom >= 2.0.0

Pull Request - State: closed - Opened by bpoldrack over 4 years ago - 1 comment

#85 - fresh pydicom started to cause troubles?

Issue - State: closed - Opened by yarikoptic over 4 years ago - 1 comment
Labels: fix-implemented, severity-important

#84 - AFNI dereferences files while accessing them

Issue - State: closed - Opened by yarikoptic over 9 years ago - 8 comments

#83 - DICOM import failed with datalad hirni-import-dcm

Issue - State: open - Opened by lsempf over 4 years ago - 2 comments
Labels: bug

#82 - test_bids2scidata AssertionError

Issue - State: closed - Opened by yarikoptic over 4 years ago - 3 comments

#80 - RF: Stop using pre DataLad 0.12 functionality

Pull Request - State: closed - Opened by mih over 4 years ago - 1 comment

#79 - 0.2.4 changelog and version boost

Pull Request - State: closed - Opened by yarikoptic over 4 years ago - 1 comment

#78 - MNT: nipype_workshop_dataset: Update save() call for DataLad 0.12

Pull Request - State: closed - Opened by kyleam over 4 years ago - 2 comments

#77 - Workaround datalad gh-3836

Pull Request - State: closed - Opened by bpoldrack almost 5 years ago - 1 comment

#76 - [WIP] datalad 0.12.0rc6 broke installation of example datasets for testing

Pull Request - State: closed - Opened by bpoldrack almost 5 years ago - 1 comment

#75 - enhance DICOM metadata extractor

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

#74 - MNT: bids2scidata: Use .iloc instead of deprecated .ix

Pull Request - State: closed - Opened by kyleam about 5 years ago - 6 comments

#73 - BF: ignore broken derivatives

Pull Request - State: open - Opened by yarikoptic about 5 years ago - 3 comments

#72 - RF: demand pybids >=0.9.2.

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

#70 - BF: be compatible with upcoming pybids > 0.9.1

Pull Request - State: closed - Opened by yarikoptic about 5 years ago - 2 comments

#69 - BF(workaround): no pybids 0.9.x for us yet

Pull Request - State: closed - Opened by yarikoptic over 5 years ago

#68 - BF: revert to the original way of installing package data to install cfg_bids; test out of source

Pull Request - State: closed - Opened by yarikoptic over 5 years ago - 1 comment
Labels: needs-the-best-merge, fix-implemented

#67 - Become compatible with upcoming pybids 0.9.0

Issue - State: open - Opened by yarikoptic over 5 years ago - 1 comment

#66 - Prepare 0.2.1 release

Pull Request - State: closed - Opened by bpoldrack over 5 years ago - 1 comment

#65 - RF: CI/setup.py -- all versioned dependencies should be specified in setup.py

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

#64 - Revert "RF: Adapt to datalad release 0.12.0.rc3"

Pull Request - State: closed - Opened by bpoldrack over 5 years ago - 20 comments

#63 - RF: Adapt to datalad release 0.12.0.rc3

Pull Request - State: closed - Opened by bpoldrack over 5 years ago - 1 comment

#62 - cfg_bids -- template it out

Issue - State: open - Opened by yarikoptic over 5 years ago - 1 comment

#61 - bids extractor - sidecar .json files have no bids info

Issue - State: open - Opened by yarikoptic over 5 years ago - 3 comments

#60 - Improved BIDS config procedure

Pull Request - State: closed - Opened by mih over 5 years ago - 6 comments

#59 - DOC: Commit forgot RST changelog update

Pull Request - State: closed - Opened by mih over 5 years ago - 1 comment

#58 - NIDM results extractor and demo

Issue - State: open - Opened by mih over 5 years ago

#57 - get_bids_dataset is broken

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

#56 - Add a minc metadata extractor

Pull Request - State: closed - Opened by driusan over 5 years ago - 10 comments

#55 - [DON'T MERGE]

Pull Request - State: closed - Opened by bpoldrack over 5 years ago - 1 comment

#54 - bids extractor: succeptable to symlinks in the path

Issue - State: open - Opened by yarikoptic over 6 years ago - 1 comment

#53 - participants.tsv information is silently not embedded?

Issue - State: open - Opened by yarikoptic over 6 years ago - 2 comments

#52 - Release 0.2.0

Pull Request - State: closed - Opened by yarikoptic over 5 years ago - 1 comment

#51 - RF: make compatible also with recent pybids 0.7.0

Pull Request - State: closed - Opened by yarikoptic over 5 years ago - 6 comments

#50 - BF: dicom - handle dcm.multival.MultiValue (or any MutableSequence) as a list

Pull Request - State: closed - Opened by yarikoptic almost 6 years ago - 2 comments

#49 - "Support" MultiValue type from pydicom

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

#48 - WIP: Add travis matrix runs for devel version of datalad and heudiconv

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

#47 - ds000174 participants is problematic for pybids

Issue - State: open - Opened by yarikoptic almost 6 years ago - 1 comment

#46 - pybids pandas complaining non descriptively

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

#45 - BF: typo in a variable name, obviously within code not covered by tests

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

#44 - RF: Use datalad-export-archive to create DICOM tarball for testing

Pull Request - State: closed - Opened by bpoldrack almost 6 years ago - 3 comments

#43 - pybids API is changing

Issue - State: closed - Opened by yarikoptic almost 6 years ago
Labels: bug

#42 - TST: Replace direct mode test runs with v6

Pull Request - State: closed - Opened by mih about 6 years ago - 1 comment

#41 - NF: NIDMResults metadata extractor draft

Pull Request - State: closed - Opened by mih about 6 years ago - 4 comments

#40 - Various BIDS-related improvements

Pull Request - State: closed - Opened by mih about 6 years ago - 1 comment

#39 - BF: make compatible with pybids 0.6.4

Pull Request - State: closed - Opened by yarikoptic about 6 years ago - 2 comments

#38 - BIDS extractor outdated

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

#37 - Prepare conda recipe/package

Issue - State: open - Opened by yarikoptic over 6 years ago

#36 - Finalize Debian package

Issue - State: open - Opened by yarikoptic over 6 years ago

#35 - Move BIDS procedure here

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

#34 - bids extractor "fails" on benign CHANGES

Issue - State: closed - Opened by yarikoptic over 6 years ago
Labels: fix-implemented

#33 - 0.1.3 release?

Issue - State: closed - Opened by yarikoptic over 6 years ago - 4 comments