Preprocessing visualizations missing from .html report in 1.0.0rc2 #947

I have successfully run QSIPrep on my dataset consisting of a full reverse phase encoded DWI pair (AP and PA). The html reports have been extremely handy for QC and for checking that all steps ran correctly. However, on this dataset in version 1.0.0rc2 the html report now shows the visualizations for only anat brain mask and brain tissue segmentation, B0 field mapping, and DWI Denoising (for directions AP and PA). In particular, it is missing the following sections: T1 to MNI registration, diffusion summary, DWI sampling scheme, SDC, bias correction, b0 reference image, dMRI and anatomical coregistration, DWI summary.

The html report finishes with "No errors to report!" and the dwi outputs look good (e.g., SDC is performed).

Additional details

• QSIPrep version: 1.0.0rc2
• Docker version: 28.0.2

Reproducing the bug

Command I used to run QSIPrep:

docker_cmd="docker run -ti --rm --gpus "device=${gpu}" \
		-v $fs_license:/opt/freesurfer/license.txt:ro \
		-v $bids_dir:/data:ro \
		-v $eddy_config_file:/sngl/eddy/eddy_config.json:ro \
		-v $qsiprep_dir:/out \
		-v $qsiprep_dir:/scratch \
		$qsiprep_tag /data /out participant \
		--fs-license-file /opt/freesurfer/license.txt \
		--eddy-config /sngl/eddy/eddy_config.json \
		--output-resolution $res \
		--pepolar-method TOPUP \
		--bids-database-dir $bids_dir -w /scratch \
		--stop-on-first-crash \
		--participant-label $subjID"