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Stanford University
Keene, NH

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Pinned

fmriprep Public

Forked from nipreps/fmriprep

fMRIprep is a functional magnetic resonance image pre-processing pipeline that is designed to provide an easily accessible, state-of-the-art interface that is robust to differences in scan acquisit…

HTML 2
fitlins Public

Forked from poldracklab/fitlins

Fit Linear models to fMRI

Python
nibabel Public

Forked from nipy/nibabel

Python package to access a cacophony of neuro-imaging file formats

Python
curriculum_vitae Public

TeX 1

Contemporary Python Packaging - 2020

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# Contemporary Python Packaging

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This document lays out a set of Python packaging practices. I don't claim they are *best*

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practices, but they fit my needs, and might fit yours.

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cookiecutter-packaging Public

A cookiecutter template to go along with Contemporary Python Packaging gists

Python 4 1

2,871 contributions in the last year

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Activity overview

Contributed to bids-standard/bids-specification, nipreps/fmriprep, nipy/nipype and 134 other repositories

Contribution activity

August 2022

Created 106 commits in 6 repositories

Created a pull request in nipy/nibabel that received 15 comments

ENH: Add to/from_stream methods and from_url classmethod to SerializableImage

Extends #639 to allow from_url() to load an image. Does not currently handle gzipped (see #1128 for some more discussion) streams, though this shou…

+147 −31 • 15 comments

Opened 18 other pull requests in 6 repositories

bids-standard/bids-specification 4 merged 2 open 2 closed

python-versioneer/python-versioneer 1 open 3 merged

MNT: Version versioneer with versioneer Aug 31
ENH: Prepare for py2exe dropping distutils support Aug 24
MNT: Relicense to Unlicense Aug 23
CI: Update gh-actions PLATFORM variable to avoid double-testing Aug 10

nipy/nibabel 1 merged 1 open

nipreps/niworkflows 2 merged

MNT: Pin traits < 6.4 Aug 14
MNT: Upgrade versioneer Aug 14

TheChymera/bids-specification 1 merged

CI/TEST: Separate build, test and publish stages Aug 25

nipy/nipype 1 merged

MNT: Pin traits < 6.4 Aug 22

Reviewed 38 pull requests in 8 repositories

bids-standard/bids-specification 25 pull requests

[WIP][ENH] BEP030: Functional Near-Infrared Spectroscopy Aug 30
[ENH] Add filename template legend Aug 30
[ENH] Add filename template legend Aug 29
[REF] Reorder appendices Aug 26
SCHEMA: Uniformize rules Aug 26
CI: Package bids-examples and bids-error-examples into Python distributions on schema-* tags Aug 25
[MNT] remove skip ci checks from CI workflow Aug 24
[MISC] Adding qMRI BIDS article reference (BEP001) Aug 24
RF: Make subobject tables from qualified object names Aug 24
[FIX] Use SPEC_ROOT/src_path in make_filename_template Aug 23
[ENH] Link to filename element definitions in filename templates Aug 22
[SCHEMA] add description entity to imaging derivative rules Aug 19
[ENH] Prettier; Updating yaml formatting to play nicely w/ yamllint, .editorconfig, and prettier. (Warning: compromises made) Aug 19
SCHEMACODE: Generate test data archive Aug 19
[SCHEMA] Implement mutually exclusive conditions for sidecar rules Aug 19
MNT: Bump schema version to 0.4.0-dev Aug 19
Normalize version files Aug 18
[SCHEMA] bep012 functional derivatives Aug 18
Use static testdata if present Aug 18
ENH: Add make_sidecar_table macro that accepts a table name Aug 18
Default logpaths Aug 18
[TST] Merge the schema validation tests Aug 17
[SCHEMA] add schema and spec version to object dumped by bidsschematools Aug 17
MNT: Do not add schema tags to changelog Aug 17
[REF] Consistently reference object keys in rules Aug 16
Some pull request reviews not shown.

nipy/nibabel 2 pull requests

python-versioneer/python-versioneer 1 pull request

MNT: Version versioneer with versioneer Aug 31

nipy/nipype 1 pull request

extend apply VDM functionality to imaging data containing multiple fr… Aug 29

nipraxis/first-pull-request 1 pull request

The get_spm_globals function was added. Aug 29

TheChymera/bids-specification 1 pull request

CI/TEST: Separate build, test and publish stages Aug 25

nipreps/niworkflows 1 pull request

ENH: Add minimum_fs_version input to handle outdated fsaverages Aug 23

nipreps/smriprep 1 pull request

FIX: Update removed -autorecon-hemi flag Aug 22

Created an issue in nipype/pydra that received 4 comments

Common doc for nipype and pydra with guidelines for which project to use

As much as we would like people to move to Pydra and help build out the ecosystem, in many cases the short path is still to augment nipype 1. I thi…

4 comments

Opened 8 other issues in 6 repositories

bids-standard/bids-specification 3 open

nipreps/fmriprep 1 open

Allow dummy-scans to be specified per-task Aug 30

nipreps/sdcflows 1 open

Brain extraction data can't be found Aug 29

afni/afni 1 open

3drefit truncating .nii.gz files Aug 24

OpenNeuroOrg/openneuro 1 open

Dataset branches with unprivileged maintainers Aug 24

scientific-python/lazy_loader 1 open

Optional package features Aug 9

Started 1 discussion in 1 repository

pytest-dev/pytest

Retrieve fixture directly Aug 16