FIX: Re-enable reverse-PE EPI fieldmaps

[effigies]

Requires nipreps/sdcflows#258.

Started testing on ds000223, and the workflow looks reasonable, but the affines are slightly different between EPI and BOLD. I'll look for another dataset or just hack the affines for now.

[effigies]

Currently have TOPUP running with:

Node: single_subject_CSI1_wf (fmap_preproc_wf (wf_auto_00000 (topup (fsl)
=========================================================================


 Hierarchy : fmriprep_wf.single_subject_CSI1_wf.fmap_preproc_wf.wf_auto_00000.topup
 Exec ID : topup


Original Inputs
---------------


* args : <undefined>
* config : /opt/conda/lib/python3.8/site-packages/sdcflows/data/flirtsch/b02b0.cnf
* encoding_direction : ['y', 'y', 'y', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-', 'y-']
* encoding_file : <undefined>
* environ : {'FSLOUTPUTTYPE': 'NIFTI_GZ'}
* estmov : <undefined>
* fwhm : <undefined>
* in_file : /scratch/fmriprep_wf/single_subject_CSI1_wf/fmap_preproc_wf/wf_auto_00000/pad_blip_slices/sub-CSI1_ses-01_acq-PA_epi_idx-000_merged_padded.nii.gz
* interp : <undefined>
* max_iter : <undefined>
* minmet : <undefined>
* numprec : <undefined>
* out_base : <undefined>
* out_corrected : <undefined>
* out_field : <undefined>
* out_jac_prefix : jac
* out_logfile : <undefined>
* out_mat_prefix : xfm
* out_warp_prefix : warpfield
* output_type : NIFTI_GZ
* readout_times : [0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788, 0.0568788]
* reg_lambda : <undefined>
* regmod : <undefined>
* regrid : <undefined>
* scale : <undefined>
* splineorder : <undefined>
* ssqlambda : <undefined>
* subsamp : <undefined>
* warp_res : <undefined>

That's 3 EPI and 50 BOLD volumes, which is what the old behavior was.

This is on ds001499, btw.

[mgxd]

lgtm

[mgxd]

just so i'm clear - this was changed to ensure there is only 1 bold / fmap pair in the estimation?

[effigies]

Yes, that or all EPI, which we previously allowed.