From 26d041bdc5d5329e6cf8ffb07ea84b3829142e43 Mon Sep 17 00:00:00 2001 From: Ali Khan Date: Mon, 20 Sep 2021 13:06:15 -0400 Subject: [PATCH] update autotop v0.4.1, remove deprecated mcr cfg --- hippunfold/config/snakebids.yml | 8 +------- 1 file changed, 1 insertion(+), 7 deletions(-) diff --git a/hippunfold/config/snakebids.yml b/hippunfold/config/snakebids.yml index 361adb7d..9de3d172 100644 --- a/hippunfold/config/snakebids.yml +++ b/hippunfold/config/snakebids.yml @@ -244,7 +244,7 @@ parse_args: singularity: prepdwi: 'docker://khanlab/prepdwi:latest' - autotop: 'docker://khanlab/autotop_deps:nighres' + autotop: 'docker://khanlab/autotop_deps:v0.4.1' fsl: '/project/6050199/akhanf/singularity/bids-apps/fsl_6.0.3_cuda9.1.sif' #fsl with cuda container not on docker hub yet.. only used for dwi workflow anyhow.. ants: 'docker://kaczmarj/ants:2.3.4' @@ -277,12 +277,6 @@ nnunet_model: hippb500: trained_model.3d_fullres.Task110_hcp1200_b1000crop.nnUNetTrainerV2.model_best.tar -use_mcr: True -matlab_bin: '/cvmfs/restricted.computecanada.ca/easybuild/software/2017/Core/matlab/2019b/bin/matlab' -mlm_license_file: '/cvmfs/restricted.computecanada.ca/config/licenses/matlab/inst_uwo/graham.lic' -java_home: '/cvmfs/soft.computecanada.ca/easybuild/software/2017/Core/java/1.8.0_192/' - - #niftynet models -- this will be deprecated soon: cnn_model: T2w: 'HCP1200-T2'