[Bug]: Parsing AFNI scripts that use tee executable

[bclenet]

batch name and line

File : https://github.com/bids-standard/BEP028_BIDSprov/blob/master/examples/from_parsers/afni/afni_alt_onesided_proc.sub_001
Lines 209, 213, 288, 396

Here is an example :

3dABoverlap -no_automask full_mask.$subj+tlrc mask_anat.$subj+tlrc    \
            |& tee out.mask_ae_overlap.txt

Note that I didn't check precisely but the same thing happens in almost any AFNI file.

What happened?

This line in the tcsh AFNI script

3dABoverlap -no_automask full_mask.$subj+tlrc mask_anat.$subj+tlrc    \
            |& tee out.mask_ae_overlap.txt

generates the following Entity in the json file

{
  "@id": "urn:457d391d-f8af-4766-94cd-9b534bda02f2",
  "Label": "tee",
  "AtLocation": "tee",
  "digest": {
    "sha256": "488c130882945cf897e96d08106e9ef8834191bd5a04c4650e3066820cd5bb9a"
  }
},

although tee is an executable, not an Entity.

Describe the expected ground-truth ?

We may want instead to :

• create an Activity for tee
• create an Entity for `out.mask_ae_overlap.txt

What soft is concerned

AFNI