[DATALAD RUNCMD] Compute SWU_4/sub-0025743/ses-2

=== Do not change lines below ===
{
 "chain": [],
 "cmd": "singularity exec -B {pwd} --cleanenv code/pipeline/cat12.8.1_r2042.simg sh -e -u -x -c '\n        rm -rf {outputs[0]} ;\n        mkdir -p {outputs[0]}         && cp {inputs[0]} {outputs[0]}         && /singularity -b code/cat_standalone_segment_enigma_subdir_rp_MSA.m {outputs[0]}/*.nii.gz         && /singularity -b code/pipeline/batches/cat_standalone_batch-surfext.m {outputs[0]}/surf/lh.central.*         && /singularity -b code/pipeline/batches/cat_standalone_batch-thick1.m {outputs[0]}/surf/lh.thickness.*         && /singularity -b code/pipeline/batches/cat_standalone_batch-thick2.m {outputs[0]}/surf/lh.thickness.*         && rm -f {outputs[0]}/*.nii*         && gzip {outputs[0]}/*/*.nii         '",
 "dsid": "6c5791d8-1803-48a1-bbaa-2b5e23b5f707",
 "exit": 0,
 "extra_inputs": [
  "code/pipeline/cat12.8.1_r2042.simg"
 ],
 "inputs": [
  "inputs/CORR/SWU_4/sub-0025743/ses-2/anat/sub-0025743_ses-2_run-1_T1w.nii.gz"
 ],
 "outputs": [
  "SWU_4/sub-0025743/ses-2"
 ],
 "pwd": "."
}
^^^ Do not change lines above ^^^

SWU_4/sub-0025743/ses-2/label/catROI_sub-0025743_ses-2_run-1_T1w.mat

@@ -0,0 +1 @@
+../../../../.git/annex/objects/80/j9/MD5E-s57733--a3e2e9252e12fc364c139ba099e22c64.mat/MD5E-s57733--a3e2e9252e12fc364c139ba099e22c64.mat

SWU_4/sub-0025743/ses-2/label/catROI_sub-0025743_ses-2_run-1_T1w.xml

@@ -0,0 +1 @@
+../../../../.git/annex/objects/9p/6w/MD5E-s188610--f0cb3841b0b3fa712c7c09992b1e0e0e.xml/MD5E-s188610--f0cb3841b0b3fa712c7c09992b1e0e0e.xml

SWU_4/sub-0025743/ses-2/label/catROIs_sub-0025743_ses-2_run-1_T1w.mat

@@ -0,0 +1 @@
+../../../../.git/annex/objects/83/m9/MD5E-s120067--e5281d8c36ed7180909801c7ee0313bb.mat/MD5E-s120067--e5281d8c36ed7180909801c7ee0313bb.mat

SWU_4/sub-0025743/ses-2/label/catROIs_sub-0025743_ses-2_run-1_T1w.xml

@@ -0,0 +1 @@
+../../../../.git/annex/objects/f3/pp/MD5E-s332077--7e138317422c6455d6f425056e777368.xml/MD5E-s332077--7e138317422c6455d6f425056e777368.xml

SWU_4/sub-0025743/ses-2/mri/Schaefer2018_100Parcels_17Networks_order_sub-0025743_ses-2_run-1_T1w.csv

@@ -0,0 +1 @@
+../../../../.git/annex/objects/fZ/39/MD5E-s6136--50f3bdd0131fed1907cdc3853421e787.csv/MD5E-s6136--50f3bdd0131fed1907cdc3853421e787.csv

SWU_4/sub-0025743/ses-2/mri/Schaefer2018_100Parcels_17Networks_order_sub-0025743_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/ff/Q7/MD5E-s157035--71223c599ea1047e51ab0dfc1569e56e.nii.gz/MD5E-s157035--71223c599ea1047e51ab0dfc1569e56e.nii.gz

SWU_4/sub-0025743/ses-2/mri/Schaefer2018_200Parcels_17Networks_order_sub-0025743_ses-2_run-1_T1w.csv

@@ -0,0 +1 @@
+../../../../.git/annex/objects/jj/fX/MD5E-s12250--7714c270a22e7bfd7765b21fe4dbc773.csv/MD5E-s12250--7714c270a22e7bfd7765b21fe4dbc773.csv

SWU_4/sub-0025743/ses-2/mri/Schaefer2018_200Parcels_17Networks_order_sub-0025743_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/2k/km/MD5E-s176265--2da5c534b4aa4888ac6729aa7fa1d817.nii.gz/MD5E-s176265--2da5c534b4aa4888ac6729aa7fa1d817.nii.gz

SWU_4/sub-0025743/ses-2/mri/Schaefer2018_400Parcels_17Networks_order_sub-0025743_ses-2_run-1_T1w.csv

@@ -0,0 +1 @@
+../../../../.git/annex/objects/Mk/2V/MD5E-s24625--7f90d1d2497826b5422e2922f504392e.csv/MD5E-s24625--7f90d1d2497826b5422e2922f504392e.csv

SWU_4/sub-0025743/ses-2/mri/Schaefer2018_400Parcels_17Networks_order_sub-0025743_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/9f/GG/MD5E-s237102--24ed26a397412b6ebcb2af311ff40fe4.nii.gz/MD5E-s237102--24ed26a397412b6ebcb2af311ff40fe4.nii.gz

SWU_4/sub-0025743/ses-2/mri/Schaefer2018_600Parcels_17Networks_order_sub-0025743_ses-2_run-1_T1w.csv

@@ -0,0 +1 @@
+../../../../.git/annex/objects/0m/PX/MD5E-s30411--bd66f8658a8cab01372d71f820aff658.csv/MD5E-s30411--bd66f8658a8cab01372d71f820aff658.csv

SWU_4/sub-0025743/ses-2/mri/Schaefer2018_600Parcels_17Networks_order_sub-0025743_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/Vq/0g/MD5E-s264420--a4e1c9f2bb1fc02637bc14a505a5a0d5.nii.gz/MD5E-s264420--a4e1c9f2bb1fc02637bc14a505a5a0d5.nii.gz

SWU_4/sub-0025743/ses-2/mri/Tian_Subcortex_S2_7T_sub-0025743_ses-2_run-1_T1w.csv

@@ -0,0 +1 @@
+../../../../.git/annex/objects/pX/V3/MD5E-s433--b72d075bcae9b5ca765a39fdb70a1d86.csv/MD5E-s433--b72d075bcae9b5ca765a39fdb70a1d86.csv

SWU_4/sub-0025743/ses-2/mri/Tian_Subcortex_S2_7T_sub-0025743_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/FP/33/MD5E-s24259--3a9e9b6844c5bd744081fd4d2c9d9a51.nii.gz/MD5E-s24259--3a9e9b6844c5bd744081fd4d2c9d9a51.nii.gz

SWU_4/sub-0025743/ses-2/mri/aal3_sub-0025743_ses-2_run-1_T1w.csv

@@ -0,0 +1 @@
+../../../../.git/annex/objects/PW/Wq/MD5E-s8539--0893049ededf3cc4f5e96b41b8938dc0.csv/MD5E-s8539--0893049ededf3cc4f5e96b41b8938dc0.csv

SWU_4/sub-0025743/ses-2/mri/aal3_sub-0025743_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/Gf/z7/MD5E-s178261--ecc2856b6c928f7553b25b4a668e6500.nii.gz/MD5E-s178261--ecc2856b6c928f7553b25b4a668e6500.nii.gz

SWU_4/sub-0025743/ses-2/mri/anatomy3_sub-0025743_ses-2_run-1_T1w.csv

@@ -0,0 +1 @@
+../../../../.git/annex/objects/13/J2/MD5E-s8828--e4f7360ef28ecf9e0a773b8590a94261.csv/MD5E-s8828--e4f7360ef28ecf9e0a773b8590a94261.csv

SWU_4/sub-0025743/ses-2/mri/anatomy3_sub-0025743_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/Mv/ZM/MD5E-s127799--df16f6072015b10571e332a0595f03e2.nii.gz/MD5E-s127799--df16f6072015b10571e332a0595f03e2.nii.gz

SWU_4/sub-0025743/ses-2/mri/anon_misub-0025743_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/MW/0q/MD5E-s8810488--14e6147df639a59b29166107ac593d8f.nii.gz/MD5E-s8810488--14e6147df639a59b29166107ac593d8f.nii.gz

SWU_4/sub-0025743/ses-2/mri/anon_msub-0025743_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/WP/k7/MD5E-s10249348--d6d79c439dc5b3d8f446a00aba0c0587.nii.gz/MD5E-s10249348--d6d79c439dc5b3d8f446a00aba0c0587.nii.gz

SWU_4/sub-0025743/ses-2/mri/cat_sub-0025743_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/kz/zk/MD5E-s94539--d9adc911bd5b8866622cf23b74c50c70.nii.gz/MD5E-s94539--d9adc911bd5b8866622cf23b74c50c70.nii.gz

SWU_4/sub-0025743/ses-2/mri/cobra_sub-0025743_ses-2_run-1_T1w.csv

@@ -0,0 +1 @@
+../../../../.git/annex/objects/Vg/p7/MD5E-s2767--afc9796ffee9c6ca3ca9d3316009fbc0.csv/MD5E-s2767--afc9796ffee9c6ca3ca9d3316009fbc0.csv

SWU_4/sub-0025743/ses-2/mri/cobra_sub-0025743_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/7J/ZJ/MD5E-s47754--968dff1c619e955a0e61edf38d404a3f.nii.gz/MD5E-s47754--968dff1c619e955a0e61edf38d404a3f.nii.gz

SWU_4/sub-0025743/ses-2/mri/hammers_sub-0025743_ses-2_run-1_T1w.csv

@@ -0,0 +1 @@
+../../../../.git/annex/objects/xF/fj/MD5E-s4409--6264a8be3c78a9e6e0204fef2bfda91d.csv/MD5E-s4409--6264a8be3c78a9e6e0204fef2bfda91d.csv

SWU_4/sub-0025743/ses-2/mri/hammers_sub-0025743_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/8F/x8/MD5E-s140224--082141fae24bf70215e17ad1dd252c35.nii.gz/MD5E-s140224--082141fae24bf70215e17ad1dd252c35.nii.gz

SWU_4/sub-0025743/ses-2/mri/ibsr_sub-0025743_ses-2_run-1_T1w.csv

@@ -0,0 +1 @@
+../../../../.git/annex/objects/kZ/MJ/MD5E-s1209--212307cb94c72a881f3ff865d3846481.csv/MD5E-s1209--212307cb94c72a881f3ff865d3846481.csv

SWU_4/sub-0025743/ses-2/mri/ibsr_sub-0025743_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/pK/k1/MD5E-s148406--f510e245ed3431c76b9a6897aa495f65.nii.gz/MD5E-s148406--f510e245ed3431c76b9a6897aa495f65.nii.gz

SWU_4/sub-0025743/ses-2/mri/it_sub-0025743_ses-2_run-1_T1w_affine_reorient.mat

@@ -0,0 +1 @@
+../../../../.git/annex/objects/jz/P3/MD5E-s283--af155d42e207dc771a198e97accc60c4.mat/MD5E-s283--af155d42e207dc771a198e97accc60c4.mat

SWU_4/sub-0025743/ses-2/mri/it_sub-0025743_ses-2_run-1_T1w_rigid_reorient.mat

@@ -0,0 +1 @@
+../../../../.git/annex/objects/5Z/v2/MD5E-s283--b204e083fd49b2860495e85732801a46.mat/MD5E-s283--b204e083fd49b2860495e85732801a46.mat

SWU_4/sub-0025743/ses-2/mri/iy_sub-0025743_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/8G/4J/MD5E-s42999701--50de096700f38c8d399b4b930d870215.nii.gz/MD5E-s42999701--50de096700f38c8d399b4b930d870215.nii.gz

SWU_4/sub-0025743/ses-2/mri/julichbrain_sub-0025743_ses-2_run-1_T1w.csv

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SWU_4/sub-0025743/ses-2/mri/julichbrain_sub-0025743_ses-2_run-1_T1w.nii.gz

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SWU_4/sub-0025743/ses-2/mri/lpba40_sub-0025743_ses-2_run-1_T1w.csv

@@ -0,0 +1 @@
+../../../../.git/annex/objects/Jq/ff/MD5E-s2398--3d690ee350e89df3b18143a8f653fff9.csv/MD5E-s2398--3d690ee350e89df3b18143a8f653fff9.csv

SWU_4/sub-0025743/ses-2/mri/lpba40_sub-0025743_ses-2_run-1_T1w.nii.gz

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SWU_4/sub-0025743/ses-2/mri/m0wp1sub-0025743_ses-2_run-1_T1w.nii.gz

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+../../../../.git/annex/objects/MK/0G/MD5E-s2585304--f3cd92c1a28f1799c462f6574adf361f.nii.gz/MD5E-s2585304--f3cd92c1a28f1799c462f6574adf361f.nii.gz

SWU_4/sub-0025743/ses-2/mri/m0wp2sub-0025743_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/w9/8j/MD5E-s2322478--649262f72239f15a3d32a16668a86313.nii.gz/MD5E-s2322478--649262f72239f15a3d32a16668a86313.nii.gz

SWU_4/sub-0025743/ses-2/mri/m0wp3sub-0025743_ses-2_run-1_T1w.nii.gz

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+../../../../.git/annex/objects/q4/0z/MD5E-s2519354--5c558664bbc2853fe43be2ebb4012167.nii.gz/MD5E-s2519354--5c558664bbc2853fe43be2ebb4012167.nii.gz

SWU_4/sub-0025743/ses-2/mri/mori_sub-0025743_ses-2_run-1_T1w.csv

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+../../../../.git/annex/objects/Xv/zk/MD5E-s5456--9f4808b9e7bd4b0eac1143e97b261e05.csv/MD5E-s5456--9f4808b9e7bd4b0eac1143e97b261e05.csv

SWU_4/sub-0025743/ses-2/mri/mori_sub-0025743_ses-2_run-1_T1w.nii.gz

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+../../../../.git/annex/objects/m6/MV/MD5E-s164206--b2d1920dfb31cd2bfd5d325d08fd982b.nii.gz/MD5E-s164206--b2d1920dfb31cd2bfd5d325d08fd982b.nii.gz

SWU_4/sub-0025743/ses-2/mri/mwp1sub-0025743_ses-2_run-1_T1w.nii.gz

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SWU_4/sub-0025743/ses-2/mri/mwp2sub-0025743_ses-2_run-1_T1w.nii.gz

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SWU_4/sub-0025743/ses-2/mri/mwp3sub-0025743_ses-2_run-1_T1w.nii.gz

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SWU_4/sub-0025743/ses-2/mri/neuromorphometrics_sub-0025743_ses-2_run-1_T1w.csv

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SWU_4/sub-0025743/ses-2/mri/neuromorphometrics_sub-0025743_ses-2_run-1_T1w.nii.gz

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SWU_4/sub-0025743/ses-2/mri/p0sub-0025743_ses-2_run-1_T1w.nii.gz

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+../../../../.git/annex/objects/ZM/4k/MD5E-s606531--a4a8946c51813bedea4866f251021cbb.nii.gz/MD5E-s606531--a4a8946c51813bedea4866f251021cbb.nii.gz

SWU_4/sub-0025743/ses-2/mri/p1sub-0025743_ses-2_run-1_T1w.nii.gz

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SWU_4/sub-0025743/ses-2/mri/p2sub-0025743_ses-2_run-1_T1w.nii.gz

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SWU_4/sub-0025743/ses-2/mri/p3sub-0025743_ses-2_run-1_T1w.nii.gz

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SWU_4/sub-0025743/ses-2/mri/rp1sub-0025743_ses-2_run-1_T1w_affine.nii.gz

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SWU_4/sub-0025743/ses-2/mri/rp2sub-0025743_ses-2_run-1_T1w_affine.nii.gz

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SWU_4/sub-0025743/ses-2/mri/rp3sub-0025743_ses-2_run-1_T1w_affine.nii.gz

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SWU_4/sub-0025743/ses-2/mri/t_sub-0025743_ses-2_run-1_T1w_affine_reorient.mat

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SWU_4/sub-0025743/ses-2/mri/t_sub-0025743_ses-2_run-1_T1w_rigid_reorient.mat

@@ -0,0 +1 @@
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SWU_4/sub-0025743/ses-2/mri/thalamus_sub-0025743_ses-2_run-1_T1w.csv

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SWU_4/sub-0025743/ses-2/mri/thalamus_sub-0025743_ses-2_run-1_T1w.nii.gz

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