[DATALAD RUNCMD] Compute SWU_4/sub-0025843/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-0025843/ses-2/anat/sub-0025843_ses-2_run-1_T1w.nii.gz"
 ],
 "outputs": [
  "SWU_4/sub-0025843/ses-2"
 ],
 "pwd": "."
}
^^^ Do not change lines above ^^^

SWU_4/sub-0025843/ses-2/label/catROI_sub-0025843_ses-2_run-1_T1w.mat

@@ -0,0 +1 @@
+../../../../.git/annex/objects/jq/pK/MD5E-s61264--931fd6fff5e7eeaaaa4d87eeecfa945b.mat/MD5E-s61264--931fd6fff5e7eeaaaa4d87eeecfa945b.mat

SWU_4/sub-0025843/ses-2/label/catROI_sub-0025843_ses-2_run-1_T1w.xml

@@ -0,0 +1 @@
+../../../../.git/annex/objects/mX/mj/MD5E-s188947--d69a4a9debc95482f1e70373fc08e7f8.xml/MD5E-s188947--d69a4a9debc95482f1e70373fc08e7f8.xml

SWU_4/sub-0025843/ses-2/label/catROIs_sub-0025843_ses-2_run-1_T1w.mat

@@ -0,0 +1 @@
+../../../../.git/annex/objects/1Z/v2/MD5E-s120123--442104c99566d8e03f1affa03e5c17df.mat/MD5E-s120123--442104c99566d8e03f1affa03e5c17df.mat

SWU_4/sub-0025843/ses-2/label/catROIs_sub-0025843_ses-2_run-1_T1w.xml

@@ -0,0 +1 @@
+../../../../.git/annex/objects/G9/j5/MD5E-s332124--4be44256508c4ed51178da256e83522b.xml/MD5E-s332124--4be44256508c4ed51178da256e83522b.xml

SWU_4/sub-0025843/ses-2/mri/Schaefer2018_100Parcels_17Networks_order_sub-0025843_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-0025843/ses-2/mri/Schaefer2018_100Parcels_17Networks_order_sub-0025843_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/Q1/kV/MD5E-s161185--60eda555b1a480a1fe5e9b194c1f1d95.nii.gz/MD5E-s161185--60eda555b1a480a1fe5e9b194c1f1d95.nii.gz

SWU_4/sub-0025843/ses-2/mri/Schaefer2018_200Parcels_17Networks_order_sub-0025843_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-0025843/ses-2/mri/Schaefer2018_200Parcels_17Networks_order_sub-0025843_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/gz/vm/MD5E-s179488--8b4f35116fcc071aac0d74d36d8f4ab5.nii.gz/MD5E-s179488--8b4f35116fcc071aac0d74d36d8f4ab5.nii.gz

SWU_4/sub-0025843/ses-2/mri/Schaefer2018_400Parcels_17Networks_order_sub-0025843_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-0025843/ses-2/mri/Schaefer2018_400Parcels_17Networks_order_sub-0025843_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/q3/q2/MD5E-s241980--9176fb92dbb032bfd6abb46009e2a59f.nii.gz/MD5E-s241980--9176fb92dbb032bfd6abb46009e2a59f.nii.gz

SWU_4/sub-0025843/ses-2/mri/Schaefer2018_600Parcels_17Networks_order_sub-0025843_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-0025843/ses-2/mri/Schaefer2018_600Parcels_17Networks_order_sub-0025843_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/6k/9x/MD5E-s269223--25f7ee6ddc5ba661c3ec288c63352b47.nii.gz/MD5E-s269223--25f7ee6ddc5ba661c3ec288c63352b47.nii.gz

SWU_4/sub-0025843/ses-2/mri/Tian_Subcortex_S2_7T_sub-0025843_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-0025843/ses-2/mri/Tian_Subcortex_S2_7T_sub-0025843_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/Jx/XQ/MD5E-s25293--45d7bb2da2af63994e62f794c4942fc0.nii.gz/MD5E-s25293--45d7bb2da2af63994e62f794c4942fc0.nii.gz

SWU_4/sub-0025843/ses-2/mri/aal3_sub-0025843_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-0025843/ses-2/mri/aal3_sub-0025843_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/v0/mF/MD5E-s182895--c356789ff79a4e90f05cdf94f69bceec.nii.gz/MD5E-s182895--c356789ff79a4e90f05cdf94f69bceec.nii.gz

SWU_4/sub-0025843/ses-2/mri/anatomy3_sub-0025843_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-0025843/ses-2/mri/anatomy3_sub-0025843_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/gF/fZ/MD5E-s133320--4e7a17358123fc588146b74096f21d9b.nii.gz/MD5E-s133320--4e7a17358123fc588146b74096f21d9b.nii.gz

SWU_4/sub-0025843/ses-2/mri/anon_misub-0025843_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/JQ/Vz/MD5E-s9257616--efa647c04462a1eb65910418647c0e61.nii.gz/MD5E-s9257616--efa647c04462a1eb65910418647c0e61.nii.gz

SWU_4/sub-0025843/ses-2/mri/anon_msub-0025843_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/xX/Z4/MD5E-s10685748--c36ae948412517a28d8435e37943cce1.nii.gz/MD5E-s10685748--c36ae948412517a28d8435e37943cce1.nii.gz

SWU_4/sub-0025843/ses-2/mri/cat_sub-0025843_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/5G/0G/MD5E-s96181--940f6f9d314523e31bb970f8ec185ba8.nii.gz/MD5E-s96181--940f6f9d314523e31bb970f8ec185ba8.nii.gz

SWU_4/sub-0025843/ses-2/mri/cobra_sub-0025843_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-0025843/ses-2/mri/cobra_sub-0025843_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/6w/vW/MD5E-s47924--b3943e215451e0fba0ee02cec0896dd2.nii.gz/MD5E-s47924--b3943e215451e0fba0ee02cec0896dd2.nii.gz

SWU_4/sub-0025843/ses-2/mri/hammers_sub-0025843_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-0025843/ses-2/mri/hammers_sub-0025843_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/G3/zK/MD5E-s143266--25e3266bec47df2b8b5cb8b5611610fc.nii.gz/MD5E-s143266--25e3266bec47df2b8b5cb8b5611610fc.nii.gz

SWU_4/sub-0025843/ses-2/mri/ibsr_sub-0025843_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-0025843/ses-2/mri/ibsr_sub-0025843_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/1W/mG/MD5E-s152435--670a5e43aba2c652dbe86375a09913c5.nii.gz/MD5E-s152435--670a5e43aba2c652dbe86375a09913c5.nii.gz

SWU_4/sub-0025843/ses-2/mri/it_sub-0025843_ses-2_run-1_T1w_affine_reorient.mat

@@ -0,0 +1 @@
+../../../../.git/annex/objects/QF/v8/MD5E-s283--c7196659aec8c9ab39bb3b311dc2ab6c.mat/MD5E-s283--c7196659aec8c9ab39bb3b311dc2ab6c.mat

SWU_4/sub-0025843/ses-2/mri/it_sub-0025843_ses-2_run-1_T1w_rigid_reorient.mat

@@ -0,0 +1 @@
+../../../../.git/annex/objects/qp/jM/MD5E-s284--173e26e3deb7c339d52ba0701fd1c011.mat/MD5E-s284--173e26e3deb7c339d52ba0701fd1c011.mat

SWU_4/sub-0025843/ses-2/mri/iy_sub-0025843_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/Vx/FF/MD5E-s43774905--b897cafe3d3ac63f9a7bcd87e34a35b9.nii.gz/MD5E-s43774905--b897cafe3d3ac63f9a7bcd87e34a35b9.nii.gz

SWU_4/sub-0025843/ses-2/mri/julichbrain_sub-0025843_ses-2_run-1_T1w.csv

@@ -0,0 +1 @@
+../../../../.git/annex/objects/pG/GJ/MD5E-s8614--f221d431f4917cb1e67edccb24803500.csv/MD5E-s8614--f221d431f4917cb1e67edccb24803500.csv

SWU_4/sub-0025843/ses-2/mri/julichbrain_sub-0025843_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/62/Q2/MD5E-s194618--361382515743d3929679ed0722ac52af.nii.gz/MD5E-s194618--361382515743d3929679ed0722ac52af.nii.gz

SWU_4/sub-0025843/ses-2/mri/lpba40_sub-0025843_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-0025843/ses-2/mri/lpba40_sub-0025843_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/Xg/zw/MD5E-s140086--dee8ff514277ae685d5f994036420994.nii.gz/MD5E-s140086--dee8ff514277ae685d5f994036420994.nii.gz

SWU_4/sub-0025843/ses-2/mri/m0wp1sub-0025843_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/P8/Fv/MD5E-s2575241--698d8d68f53334cb17f8bc63d8f37519.nii.gz/MD5E-s2575241--698d8d68f53334cb17f8bc63d8f37519.nii.gz

SWU_4/sub-0025843/ses-2/mri/m0wp2sub-0025843_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/x5/MW/MD5E-s2285894--5acbd9107f716bc2e945ad52675373af.nii.gz/MD5E-s2285894--5acbd9107f716bc2e945ad52675373af.nii.gz

SWU_4/sub-0025843/ses-2/mri/m0wp3sub-0025843_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/GX/Qx/MD5E-s2474907--d99f8b8beb352c08aae3f03b513ca074.nii.gz/MD5E-s2474907--d99f8b8beb352c08aae3f03b513ca074.nii.gz

SWU_4/sub-0025843/ses-2/mri/mori_sub-0025843_ses-2_run-1_T1w.csv

@@ -0,0 +1 @@
+../../../../.git/annex/objects/Xv/zk/MD5E-s5456--9f4808b9e7bd4b0eac1143e97b261e05.csv/MD5E-s5456--9f4808b9e7bd4b0eac1143e97b261e05.csv

SWU_4/sub-0025843/ses-2/mri/mori_sub-0025843_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/Xq/W1/MD5E-s169395--ce7a3bfb6f2fc0dc02de4201b6b2cc02.nii.gz/MD5E-s169395--ce7a3bfb6f2fc0dc02de4201b6b2cc02.nii.gz

SWU_4/sub-0025843/ses-2/mri/mwp1sub-0025843_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/pq/kM/MD5E-s2582506--224f511638f38d7bf6c1c869b12ef2b7.nii.gz/MD5E-s2582506--224f511638f38d7bf6c1c869b12ef2b7.nii.gz

SWU_4/sub-0025843/ses-2/mri/mwp2sub-0025843_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/4z/f5/MD5E-s2286143--94d5d3ad4e1845c773437713b2fc8930.nii.gz/MD5E-s2286143--94d5d3ad4e1845c773437713b2fc8930.nii.gz

SWU_4/sub-0025843/ses-2/mri/mwp3sub-0025843_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/x6/Gz/MD5E-s2473780--b13d5d3b80f984197bfe4b4bcf1a40e4.nii.gz/MD5E-s2473780--b13d5d3b80f984197bfe4b4bcf1a40e4.nii.gz

SWU_4/sub-0025843/ses-2/mri/neuromorphometrics_sub-0025843_ses-2_run-1_T1w.csv

@@ -0,0 +1 @@
+../../../../.git/annex/objects/w9/vx/MD5E-s6638--e2cdef92ec4761f71c0546923418c27b.csv/MD5E-s6638--e2cdef92ec4761f71c0546923418c27b.csv

SWU_4/sub-0025843/ses-2/mri/neuromorphometrics_sub-0025843_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/7q/PG/MD5E-s193684--e02c44d0af33c92c840485c514e6fe8f.nii.gz/MD5E-s193684--e02c44d0af33c92c840485c514e6fe8f.nii.gz

SWU_4/sub-0025843/ses-2/mri/p0sub-0025843_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/JX/9M/MD5E-s599300--c00d4c3e2fe8f1de4df29a99f83e1aba.nii.gz/MD5E-s599300--c00d4c3e2fe8f1de4df29a99f83e1aba.nii.gz

SWU_4/sub-0025843/ses-2/mri/p1sub-0025843_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/jM/vj/MD5E-s638762--ee70bd061dfa24e8814978e33f5d9821.nii.gz/MD5E-s638762--ee70bd061dfa24e8814978e33f5d9821.nii.gz

SWU_4/sub-0025843/ses-2/mri/p2sub-0025843_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/3G/1K/MD5E-s420870--ded19fe88f4de7911c3b5542e9c0cfc0.nii.gz/MD5E-s420870--ded19fe88f4de7911c3b5542e9c0cfc0.nii.gz

SWU_4/sub-0025843/ses-2/mri/p3sub-0025843_ses-2_run-1_T1w.nii.gz

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SWU_4/sub-0025843/ses-2/mri/rp1sub-0025843_ses-2_run-1_T1w_affine.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/FX/qk/MD5E-s445573--057aecc4cddd51a161278a92748fd97f.nii.gz/MD5E-s445573--057aecc4cddd51a161278a92748fd97f.nii.gz

SWU_4/sub-0025843/ses-2/mri/rp2sub-0025843_ses-2_run-1_T1w_affine.nii.gz

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SWU_4/sub-0025843/ses-2/mri/rp3sub-0025843_ses-2_run-1_T1w_affine.nii.gz

@@ -0,0 +1 @@
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SWU_4/sub-0025843/ses-2/mri/t_sub-0025843_ses-2_run-1_T1w_affine_reorient.mat

@@ -0,0 +1 @@
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SWU_4/sub-0025843/ses-2/mri/t_sub-0025843_ses-2_run-1_T1w_rigid_reorient.mat

@@ -0,0 +1 @@
+../../../../.git/annex/objects/G2/Kx/MD5E-s285--9d3e8bf60f85142622864f8b769a6754.mat/MD5E-s285--9d3e8bf60f85142622864f8b769a6754.mat

SWU_4/sub-0025843/ses-2/mri/thalamus_sub-0025843_ses-2_run-1_T1w.csv

@@ -0,0 +1 @@
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SWU_4/sub-0025843/ses-2/mri/thalamus_sub-0025843_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/pj/g1/MD5E-s16345--5924e643f67e1eb3a126335ffeef3f0b.nii.gz/MD5E-s16345--5924e643f67e1eb3a126335ffeef3f0b.nii.gz

SWU_4/sub-0025843/ses-2/mri/wj_sub-0025843_ses-2_run-1_T1w.nii.gz

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