/opt/x-tract/bin/XLICTWorkflowMPI --indir /data/imbl/workshop/input/Phase_contrast --outdir /data/imbl/workshop/output/Mayo/Phase_contrast --proj "tomo\d+.tif" --darks "dark\d+.tif" --flats "flat\d+.tif" --dark_correction 1 --flat_correction 1 --angle_step 0.2 --energy 10 --recon_method 1 --pixel_size 10 --cor_method 2 --file_prefix_ctrecon "slice.tif" --recon_out_mu 1 --cor_method 2 --zingers_filter 1 --zingers_filter_size 9 --zingers_filter_threshold 1.2 --ring_filter_sinogram 1 --ring_filter_sinogram_size 13  --phase_extraction_pbi 1  --phase_extraction_pbi_method 0 -pbir 100000 -pbd2b 400 -rodt 2 -rs 1 -rsimn 0 -rsimx 2 -rsm 1
