1.1.3

Release Notes

This release comes with many updates to the documentation, a more lightweight SignalExtraction, a new dynamic boilerplate and some new features from Nipype.

CHANGES

• [ENH] Use upstream afni.TShift improvements (#1160)
• [PIN] Nipype 1.1.1 (65078c9)
• [ENH] Dynamic citation boilerplate (#1024)
• [ENH] Check Command Line dependencies before running (#1044)
• [ENH] Reimplement SignalExtraction (#1170)
• [DOC] Update copyright year to 2018 (#1224)
• [ENH] Enable -u (docker user/userid) flag in wrapper (#1223)
• [FIX] Corrects Dockerfile WORKDIR. (#1218)
• [ENH] More specific errors for missing echo times (#1221)
• [ENH] Change WORKDIR of Docker image (#1204)
• [DOC] Update documentation related to contributions (#1187)
• [DOC] Additions to include before responding to reviews of the pre-print (#1195)
• [DOC] Improving documentation on using Singularity (#1063)
• [DOC] Add OHBM 2018 poster, presentation (#1198)
• [ENH] Replace InvertT1w with upstream Rescale(invert=True) (#1161)

1.1.2

Release Notes

This release incorporates Nipype improvements that should reduce the
chance of hanging if tasks are killed for excessive resource consumption.

Thanks to Elizabeth DuPre for documentation updates.

CHANGES

• [DOC] Clarify how to reuse FreeSurfer derivatives (#1189)
• [DOC] Improve command line option documentation (#1186, #1080)
• [MAINT] Update core dependencies (#1179, #1180)

1.1.1

Release Notes

Maintenance release, with updates to Docker image.

CHANGES

• [ENH] Pre-cache DKT31 template in Docker image (#1159)
• [MAINT] Update core dependencies (#1163)

1.1.0

Release Notes

This release restores drop-in compatibility with Nipype.

CHANGES

• [ENH] Use Reorient interface included upstream in nipype (#1153)
• [FIX] Refine BIDS queries to avoid indexing derivatives (#1141)
• [DOC] Clarify outlier columns (#1138)
• [PIN] Update to niworkflows 0.4.0 and nipype 1.0.4 (#1133)

1.0.15

Release Notes

Hotfix a bug affecting multi-echo datasets.

CHANGES

• [DOC] Add lesion masking during registration (#1113)
• [FIX] Patch boldbuffer for ME (#1134)

1.0.14

Release Notes

A couple of hot fixes.

CHANGES

With thanks to @ZhifangYe for contributions

• [FIX] Non-invertible transforms bringing parcellation to BOLD (#1130)
• [FIX] Bad connection for --medial-surface-nan option (#1128)

1.0.13

Release Notes

FMRIPrep-1.0.13 includes a major new feature with the addition of improved registration of atypical brains to the MNI template, by enabling cost-function masking. This is useful e.g. on brains with focal lesions.

With thanks to @danlurie for the outstanding contribution of this cool new feature.

CHANGES

• [ENH] Some nit picks on reports (#1123)
• [ENH] Carpetplot + confounds plot (#1114)
• [ENH] Add constrained cost-function masking to T1-MNI registration (#1106)
• [FIX] Circular dependency (#1104)
• [ENH] Set PYTHONNOUSERSITE in containers (#1103)

1.0.12

Release Notes

A long overdue release. This release integrates the great work of @mgxd to provide results in the CIFTI/grayordinates format for surface-based analyses. It also fixes several issues related to ICA-AROMA, and a long list of miscellaneous improvements.

CHANGES

• [MAINT] fmriprep-docker: Ensure data/output/work paths are absolute (#1089)
• [ENH] Add usage tracking and centralized error reporting (#1088)
• [FIX] Ensure one motion IC index is loaded as list (#1096)
• [TST] Refactoring CircleCI setup (#1098)
• [FIX] Compression in DataSinks (#1095)
• [MAINT] fmriprep-docker: Support Python 2/3 without future or other helpers (#1082)
• [MAINT] Update npm to 10.x (#1087)
• [DOC] Prefer pre-print over Zenodo doi in boilerplate (#1086)
• [DOC] Stylistic fix (`'template'`) (#1083)
• [FIX] Run ICA-AROMA in MNI152Lin 2mm resampling grid (91x109x91 vox) (#1064)
• [MAINT] Remove cwebp to revert to png (#1081)
• [ENH] Allow changing the dimensionality of Melodic for AROMA. (#1052)
• [FIX] Derivatives datasink handling of compression (#1077)
• [FIX] Check for invalid sform matrices (#1072)
• [FIX] Check exit code from subprocess (#1073)
• [DOC] Add preprint fig. 1 to About (#1070)
• [FIX] Always strip session from T1w for derivative naming (#1071)
• [DOC] Add RRIDs in the citation boilerplate (#1061)
• [ENH] Generate CIFTI derivatives (#1001)

1.0.11

Release notes

Hotfix to the negative values within the global signals regressors (#1015).

CHANGES

• [FIX] Do not detrend CSF/WhiteMatter/GlobalSignal (#1058)

1.0.10

Release Notes

Hotfix version to address https://neurostars.org/t/fmriprep-traiterror/1538

CHANGES

• [TST] Re-run ds005 with only one BOLD run (#1048)
• [FIX] Patch subject_summary in reports (#1047)