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nextflow.config
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nextflow.config
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process {
publishDir = {"./Results_Fiber_Cup/${task.process}"}
scratch = true
errorStrategy = { task.attempt <= 3 ? 'retry' : 'ignore' }
maxRetries = 3
maxErrors = -1
stageInMode = 'copy'
stageOutMode = 'rsync'
tag = { "$sid" }
afterScript = 'sleep 1'
}
params {
//** DENOISING DWI Options **//
extent = 3
//** DTI Options **//
ad = false
evecs = false
evals = false
fa = true
ga = false
rgb = false
md = true
mode = false
norm = false
rd = false
tensor = false
nonphysical = false
pulsation = false
residual = false
//** FRF Options **//
fa=0.7
min_fa=0.5
min_nvox=300
roi_radius=20
set_frf=true
manual_frf="15,4,4"
//** FODF Options **//
b0_thr_extract_b0 = 10
dwi_shell_tolerance = 20
min_fodf_shell_value = 700
sh_order = 8
sh_basis = "descoteaux07"
fa_threshold = 0.1
md_threshold = 0.003
relative_threshold = 0.1
processes = 4
peaks = false
peak_indices = false
afd_max = false
afd_total = false
afd_sum = false
nufo = false
//** LOCALTRACKING Options **//
local_compress_streamlines=true
local_algo="prob"
local_seeding="npv"
local_nbr_seeds=10
local_step=0.5
local_theta=20
local_sfthres=0.1
local_sfthres_init=0.5
local_min_len=20
local_max_len=200
local_compress_value=0.2
local_random_seed=0
}
profiles {
no_symlink {
process{
publishDir = [path: {"./Results_Fiber_Cup/${task.process}"}, mode: 'copy']
}
}
}