1.3.1.post1

Release Notes

A hotfix release addressing issues related to TemplateFlow for Singularity users.

CHANGES

• FIX: Make sure --cifti-output requires at least one of fsaverage{5,6} (#1514) @oesteban
• [FIX] Avoid using $HOME for storing templates (#1529) @chrisfilo

1.3.1

Release Notes

Updated ecosystem's versions (TemplateFlow 0.1.x, Niworkflows 0.8.x, and sMRIPrep 0.1.x) to include the latest improvements (bugfixes from niworkflows and the new pybids interface of templateflow). TemplateFlow 0.1.0 does not require datalad anymore. With thanks to @franklin-feingold and @wiheto for contributions.

CHANGES

• UX: Reduce warning levels (#1513) @effigies
• DOC: fmriprep-docker documentation (#1515) @franklin-feingold
• REL: 1.3.1 (#1527) @oesteban

1.3.0.post3

Release Notes

Hotfix release intended for Docker users, smoothing the experience of TemplateFlow
when using the -u UID flag is necessary.

CHANGES

• [ENH] TemplateFlow + docker run -u ... (#1525) @oesteban
• [ENH] Include repetition time in functional summary (#1508) @wiheto
• [FIX] Do not crash if all aroma components are classified as noise (#1467) @jdkent

1.3.0.post2

Hotfix release intended for Singularity users, amending the previous iteration
that didn't fix the problem (#1510) @effigies.

1.3.0.post1

Release Notes

Hotfix release intended for Singularity users. For further detail, please see #1500.

1.3.0

Release Notes

We start the 1.3.x series including a few bugfixes, housekeeping duty and a refactors to leverage sMRIPrep (which is a fork of fMRIPrep's anatomical workflow), pybids>=0.7 for querying dataset, and TemplateFlow for handling standard spaces.

CHANGES

• [FIX] Bad fsnative replacement in CIfTI workflow (#1476) @oesteban
• [FIX] Avoid warning when generating boilerplate (#1464) @oesteban
• [MAINT] resolves #1485 : patch fmriprep-docker automount for use with Python 3.7 (#1486) @rciric
• [RF] Use anatomical workflows from sMRIPrep (#1482) @oesteban
• [MAINT] Update sentry-sdk (#1490) @chrisfilo
• [ENH] Remaining TemplateFlow integrations (#1494) @oesteban
• [MAINT] Update to keep up with nipreps/niworkflows#299 (#1496) @oesteban
• [FIX] Updating bids-validator to 1.1.3 (#1498) @chrisfilo

1.2.6-1

Release Notes

Hotfix release of version 1.2.6, pinning niworkflows to a release version (instead
of the development branch, since #1459) and including to bugfixes.

CHANGES

• [PIN] NiWorkflows 0.5.2.post7 (1bf4a21).
• [FIX] Bad fsnative replacement in CIfTI workflow (#1476) @oesteban
• [FIX] Avoid warning when generating boilerplate (#1464) @oesteban

1.2.6

Release Notes

This is a bug fix release in the 1.2 series. Probably the most noticeable
improvement is the restoration of auto-generated content in the documentation.

Additionally, FreeSurfer aparc/aseg segmentations are now sampled to all
output spaces.

For any users importing fMRIPrep interfaces, many of these have been moved to
the niworkflows package.

With thanks to Nir Jacoby and Hrvoje Stojic for contributions.

CHANGES

• [FIX] Use keyword arguments for Sentry breadcrumb reporting (#1441) @chrisfilo
• [FIX] Verify proc file exists before reading (#1454) @effigies
• [ENH] Only report participants with errors (#1437) @effigies
• [ENH] Resample aparc/aseg into specified output spaces (#1401) @nirjacoby
• [ENH] Copy BibTeX file to log directory for LaTeX users (#1446) @hstojic
• [RF] Use niworkflows upstreamed interfaces and utilities (#1438) @oesteban
• [DOC] Fix documentation build (#1451) @oesteban
• [DOC] Fix ReadTheDocs builds (#1459) @effigies
• [MAINT/DOC] Clean-up __about__, update with Nat Meth (#1445) @oesteban
• [MAINT] Make sure Python 3.7.1 is installed (#1452) @oesteban
• [MAINT] Dev status to beta, bump copyright year (#1468) @effigies

1.2.5

Hotfix Release

• [FIX] Breadcrumb reporting (#1435) @chrisfilo

1.2.4

Release Notes

Bugfixes, an additional iteration over Sentry reporting and some relevant ME-EPI updates
(with thanks to @emdupre).

CHANGES

• [ENH] Update ME-EPI workflow to create optimal combination (#1263) @emdupre
• [MAINT] Merge master into multiecho (#1324) @effigies
• [ENH] Add echo-idx flag (#1355) @emdupre
• [FIX] Always run FreeSurfer interfaces that sink outside working directory (#1397) @effigies
• [ENH] Use Python 3.7 in Dockerfile (#1398) @effigies
• [DOC] Update contributing guide and add code of conduct (#1404) @emdupre
• [FIX] Calculate template transforms explicitly as RAS2RAS (#1399) @effigies
• [MAINT] Replace img.get_affine() -> img.affine (#1414) @oesteban
• [FIX] Truncating of sentry messages (#1417) @chrisfilo
• [ENH] Add fmriprep-docker execution environment (#1416) @chrisfilo
• [MAINT] Update indexed_gzip to handle small .nii.gz (#1421) @effigies
• [ENH] Group common issues with fingerprints (#1418) @chrisfilo
• [ENH] adding memory and cpu info to sentry logs (#1420) @chrisfilo
• [ENH] Use standard T2* map as coregistration target (#1383) @emdupre
• [ENH] Handle FreeSurfer subject directory preparation gracefully when run in parallel (#1413) @effigies
• [ENH] Make sure inputs are BIDS compliant before running fmriprep (#1419) @chrisfilo
• [ENH] Sentry event categorization propagation (#1422) @chrisfilo
• [MAINT] Require nipype >= 1.1.6 (#1426) @effigies
• [ENH] Omnibus multi-echo pull request (#1296) @effigies
• [ENH] Report memory overcommit policies (#1429) @effigies