[DATALAD RUNCMD] Compute SWU_4/sub-0025825/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-0025825/ses-2/anat/sub-0025825_ses-2_run-1_T1w.nii.gz"
 ],
 "outputs": [
  "SWU_4/sub-0025825/ses-2"
 ],
 "pwd": "."
}
^^^ Do not change lines above ^^^

SWU_4/sub-0025825/ses-2/label/catROI_sub-0025825_ses-2_run-1_T1w.mat

@@ -0,0 +1 @@
+../../../../.git/annex/objects/2k/fM/MD5E-s57548--fd6ff36d63426d1bbeff0b8c70afa3fb.mat/MD5E-s57548--fd6ff36d63426d1bbeff0b8c70afa3fb.mat

SWU_4/sub-0025825/ses-2/label/catROI_sub-0025825_ses-2_run-1_T1w.xml

@@ -0,0 +1 @@
+../../../../.git/annex/objects/W1/vz/MD5E-s188748--7e3c3ccf7c549562d6e2db1bbbced8c7.xml/MD5E-s188748--7e3c3ccf7c549562d6e2db1bbbced8c7.xml

SWU_4/sub-0025825/ses-2/label/catROIs_sub-0025825_ses-2_run-1_T1w.mat

@@ -0,0 +1 @@
+../../../../.git/annex/objects/mm/X3/MD5E-s120098--00968a25fd0d4f361ef400e80b582850.mat/MD5E-s120098--00968a25fd0d4f361ef400e80b582850.mat

SWU_4/sub-0025825/ses-2/label/catROIs_sub-0025825_ses-2_run-1_T1w.xml

@@ -0,0 +1 @@
+../../../../.git/annex/objects/g4/34/MD5E-s332145--90c526130246e49ae6684f41eb5a632c.xml/MD5E-s332145--90c526130246e49ae6684f41eb5a632c.xml

SWU_4/sub-0025825/ses-2/mri/Schaefer2018_100Parcels_17Networks_order_sub-0025825_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-0025825/ses-2/mri/Schaefer2018_100Parcels_17Networks_order_sub-0025825_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/Gg/vx/MD5E-s153636--2aebf17e330247b961dc17fd5677e585.nii.gz/MD5E-s153636--2aebf17e330247b961dc17fd5677e585.nii.gz

SWU_4/sub-0025825/ses-2/mri/Schaefer2018_200Parcels_17Networks_order_sub-0025825_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-0025825/ses-2/mri/Schaefer2018_200Parcels_17Networks_order_sub-0025825_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/2F/P9/MD5E-s173086--b3a1b05af6da9d739c28ab2e078dba19.nii.gz/MD5E-s173086--b3a1b05af6da9d739c28ab2e078dba19.nii.gz

SWU_4/sub-0025825/ses-2/mri/Schaefer2018_400Parcels_17Networks_order_sub-0025825_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-0025825/ses-2/mri/Schaefer2018_400Parcels_17Networks_order_sub-0025825_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/13/xj/MD5E-s233282--37de1b79e9f5cf5dfbc9c8f68bb24302.nii.gz/MD5E-s233282--37de1b79e9f5cf5dfbc9c8f68bb24302.nii.gz

SWU_4/sub-0025825/ses-2/mri/Schaefer2018_600Parcels_17Networks_order_sub-0025825_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-0025825/ses-2/mri/Schaefer2018_600Parcels_17Networks_order_sub-0025825_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/X5/6z/MD5E-s259809--a79576370ddc4ddb8ca43701d505e49f.nii.gz/MD5E-s259809--a79576370ddc4ddb8ca43701d505e49f.nii.gz

SWU_4/sub-0025825/ses-2/mri/Tian_Subcortex_S2_7T_sub-0025825_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-0025825/ses-2/mri/Tian_Subcortex_S2_7T_sub-0025825_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/J5/xf/MD5E-s24155--20591f94fa3e24ea4905bfae2a67eb84.nii.gz/MD5E-s24155--20591f94fa3e24ea4905bfae2a67eb84.nii.gz

SWU_4/sub-0025825/ses-2/mri/aal3_sub-0025825_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-0025825/ses-2/mri/aal3_sub-0025825_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/41/26/MD5E-s175614--fe724b1b9fa6008d6f92cdb124e33bf9.nii.gz/MD5E-s175614--fe724b1b9fa6008d6f92cdb124e33bf9.nii.gz

SWU_4/sub-0025825/ses-2/mri/anatomy3_sub-0025825_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-0025825/ses-2/mri/anatomy3_sub-0025825_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/26/75/MD5E-s125981--71d05bd302fb315a1eccb2f652a9dd07.nii.gz/MD5E-s125981--71d05bd302fb315a1eccb2f652a9dd07.nii.gz

SWU_4/sub-0025825/ses-2/mri/anon_misub-0025825_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/p4/X9/MD5E-s7382080--e238b6860a6148ebea01e1e50550d48d.nii.gz/MD5E-s7382080--e238b6860a6148ebea01e1e50550d48d.nii.gz

SWU_4/sub-0025825/ses-2/mri/anon_msub-0025825_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/kQ/Qw/MD5E-s7201402--4e084c08273b51f5f5f4dbefb88dc693.nii.gz/MD5E-s7201402--4e084c08273b51f5f5f4dbefb88dc693.nii.gz

SWU_4/sub-0025825/ses-2/mri/cat_sub-0025825_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/9w/kf/MD5E-s91152--846603ad52aada9478ae73fd1229e0d5.nii.gz/MD5E-s91152--846603ad52aada9478ae73fd1229e0d5.nii.gz

SWU_4/sub-0025825/ses-2/mri/cobra_sub-0025825_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-0025825/ses-2/mri/cobra_sub-0025825_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/gZ/55/MD5E-s45954--514c597c0934af03ab396aa8bca12e18.nii.gz/MD5E-s45954--514c597c0934af03ab396aa8bca12e18.nii.gz

SWU_4/sub-0025825/ses-2/mri/hammers_sub-0025825_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-0025825/ses-2/mri/hammers_sub-0025825_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/qZ/Mj/MD5E-s136056--5b193c3f18b5c77c9339d66b0be65640.nii.gz/MD5E-s136056--5b193c3f18b5c77c9339d66b0be65640.nii.gz

SWU_4/sub-0025825/ses-2/mri/ibsr_sub-0025825_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-0025825/ses-2/mri/ibsr_sub-0025825_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/0z/kj/MD5E-s145858--ec2676072d16fa0fe34f67b7b6da5e63.nii.gz/MD5E-s145858--ec2676072d16fa0fe34f67b7b6da5e63.nii.gz

SWU_4/sub-0025825/ses-2/mri/it_sub-0025825_ses-2_run-1_T1w_affine_reorient.mat

@@ -0,0 +1 @@
+../../../../.git/annex/objects/mM/3J/MD5E-s282--4628d09f2c2cb75846dd16410287c144.mat/MD5E-s282--4628d09f2c2cb75846dd16410287c144.mat

SWU_4/sub-0025825/ses-2/mri/it_sub-0025825_ses-2_run-1_T1w_rigid_reorient.mat

@@ -0,0 +1 @@
+../../../../.git/annex/objects/14/4V/MD5E-s283--4858e3c8c85cf05dcef79b2b46a790fb.mat/MD5E-s283--4858e3c8c85cf05dcef79b2b46a790fb.mat

SWU_4/sub-0025825/ses-2/mri/iy_sub-0025825_ses-2_run-1_T1w.nii.gz

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+../../../../.git/annex/objects/3k/Kz/MD5E-s42127768--0b6cecc3b86968c0c8c39b35deeba08f.nii.gz/MD5E-s42127768--0b6cecc3b86968c0c8c39b35deeba08f.nii.gz

SWU_4/sub-0025825/ses-2/mri/julichbrain_sub-0025825_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-0025825/ses-2/mri/julichbrain_sub-0025825_ses-2_run-1_T1w.nii.gz

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+../../../../.git/annex/objects/6m/9x/MD5E-s183255--c6eded0c8928d66718bd9a1f83e96af7.nii.gz/MD5E-s183255--c6eded0c8928d66718bd9a1f83e96af7.nii.gz

SWU_4/sub-0025825/ses-2/mri/lpba40_sub-0025825_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-0025825/ses-2/mri/lpba40_sub-0025825_ses-2_run-1_T1w.nii.gz

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SWU_4/sub-0025825/ses-2/mri/m0wp1sub-0025825_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/vg/P5/MD5E-s2566815--f616d4044bea5168eb7e43891d495f90.nii.gz/MD5E-s2566815--f616d4044bea5168eb7e43891d495f90.nii.gz

SWU_4/sub-0025825/ses-2/mri/m0wp2sub-0025825_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/Qx/W5/MD5E-s2312006--90a2f065a0ea6e04b9384141fb96baaf.nii.gz/MD5E-s2312006--90a2f065a0ea6e04b9384141fb96baaf.nii.gz

SWU_4/sub-0025825/ses-2/mri/m0wp3sub-0025825_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/WG/35/MD5E-s2408053--94a8a9814f2fb8d818604b4d0a19f66c.nii.gz/MD5E-s2408053--94a8a9814f2fb8d818604b4d0a19f66c.nii.gz

SWU_4/sub-0025825/ses-2/mri/mori_sub-0025825_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-0025825/ses-2/mri/mori_sub-0025825_ses-2_run-1_T1w.nii.gz

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+../../../../.git/annex/objects/V2/gF/MD5E-s160524--de55d78e119db13327892dc1ef779030.nii.gz/MD5E-s160524--de55d78e119db13327892dc1ef779030.nii.gz

SWU_4/sub-0025825/ses-2/mri/mwp1sub-0025825_ses-2_run-1_T1w.nii.gz

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SWU_4/sub-0025825/ses-2/mri/mwp2sub-0025825_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
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SWU_4/sub-0025825/ses-2/mri/mwp3sub-0025825_ses-2_run-1_T1w.nii.gz

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SWU_4/sub-0025825/ses-2/mri/neuromorphometrics_sub-0025825_ses-2_run-1_T1w.csv

@@ -0,0 +1 @@
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SWU_4/sub-0025825/ses-2/mri/neuromorphometrics_sub-0025825_ses-2_run-1_T1w.nii.gz

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SWU_4/sub-0025825/ses-2/mri/p0sub-0025825_ses-2_run-1_T1w.nii.gz

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+../../../../.git/annex/objects/wZ/K5/MD5E-s553680--379730b4b75b04cbe86f14a688cf5ee5.nii.gz/MD5E-s553680--379730b4b75b04cbe86f14a688cf5ee5.nii.gz

SWU_4/sub-0025825/ses-2/mri/p1sub-0025825_ses-2_run-1_T1w.nii.gz

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SWU_4/sub-0025825/ses-2/mri/p2sub-0025825_ses-2_run-1_T1w.nii.gz

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SWU_4/sub-0025825/ses-2/mri/p3sub-0025825_ses-2_run-1_T1w.nii.gz

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SWU_4/sub-0025825/ses-2/mri/rp1sub-0025825_ses-2_run-1_T1w_affine.nii.gz

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SWU_4/sub-0025825/ses-2/mri/rp2sub-0025825_ses-2_run-1_T1w_affine.nii.gz

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SWU_4/sub-0025825/ses-2/mri/rp3sub-0025825_ses-2_run-1_T1w_affine.nii.gz

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SWU_4/sub-0025825/ses-2/mri/t_sub-0025825_ses-2_run-1_T1w_affine_reorient.mat

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SWU_4/sub-0025825/ses-2/mri/t_sub-0025825_ses-2_run-1_T1w_rigid_reorient.mat

@@ -0,0 +1 @@
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SWU_4/sub-0025825/ses-2/mri/thalamus_sub-0025825_ses-2_run-1_T1w.csv

@@ -0,0 +1 @@
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SWU_4/sub-0025825/ses-2/mri/thalamus_sub-0025825_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
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SWU_4/sub-0025825/ses-2/mri/wj_sub-0025825_ses-2_run-1_T1w.nii.gz

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SWU_4/sub-0025825/ses-2/surf/lh.central.sub-0025825_ses-2_run-1_T1w.gii

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SWU_4/sub-0025825/ses-2/surf/lh.edgemap32k.sub-0025825_ses-2_run-1_T1w.mat

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