Merge pull request #46 from arnaudbore/answer_issue_41

Answer issue 41
scilus · Nov 21, 2024 · 1126bd5 · 1126bd5
2 parents 67d2556 + 18273a2
commit 1126bd5
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diff --git a/modules/nf-neuro/betcrop/cropvolume/main.nf b/modules/nf-neuro/betcrop/cropvolume/main.nf
@@ -43,6 +43,11 @@ process BETCROP_CROPVOLUME {
 
     touch ${prefix}_${suffix}.nii.gz
 
+    if task.ext.output_bbox
+    do
+        touch ${prefix}_${suffix}_bbox.pkl
+    done
+
     cat <<-END_VERSIONS > versions.yml
     "${task.process}":
         scilpy: \$(pip list | grep scilpy | tr -s ' ' | cut -d' ' -f2)

diff --git a/modules/nf-neuro/preproc/n4/main.nf b/modules/nf-neuro/preproc/n4/main.nf
@@ -59,8 +59,8 @@ process PREPROC_N4 {
     def args = task.ext.args ?: ''
     def prefix = task.ext.prefix ?: "${meta.id}"
     """
-    N4BiasFieldCorrection.py -h
-    scil_dwi_apply_bias_field -h
+    N4BiasFieldCorrection -h
+    scil_dwi_apply_bias_field.py -h
 
     touch ${prefix}__image_n4.nii.gz