[DATALAD RUNCMD] Compute SWU_4/sub-0025777/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-0025777/ses-2/anat/sub-0025777_ses-2_run-1_T1w.nii.gz"
 ],
 "outputs": [
  "SWU_4/sub-0025777/ses-2"
 ],
 "pwd": "."
}
^^^ Do not change lines above ^^^

SWU_4/sub-0025777/ses-2/label/catROI_sub-0025777_ses-2_run-1_T1w.mat

@@ -0,0 +1 @@
+../../../../.git/annex/objects/96/wv/MD5E-s61371--e70c8485624e68b3e030f01a15817b39.mat/MD5E-s61371--e70c8485624e68b3e030f01a15817b39.mat

SWU_4/sub-0025777/ses-2/label/catROI_sub-0025777_ses-2_run-1_T1w.xml

@@ -0,0 +1 @@
+../../../../.git/annex/objects/9V/Fv/MD5E-s188808--87f0418d882508fb7ef7b117f7ce9e13.xml/MD5E-s188808--87f0418d882508fb7ef7b117f7ce9e13.xml

SWU_4/sub-0025777/ses-2/label/catROIs_sub-0025777_ses-2_run-1_T1w.mat

@@ -0,0 +1 @@
+../../../../.git/annex/objects/14/xw/MD5E-s120051--fe1758568c0661e4a1a4baf5124017ff.mat/MD5E-s120051--fe1758568c0661e4a1a4baf5124017ff.mat

SWU_4/sub-0025777/ses-2/label/catROIs_sub-0025777_ses-2_run-1_T1w.xml

@@ -0,0 +1 @@
+../../../../.git/annex/objects/w2/VK/MD5E-s332138--0135b05c73330a67cf08076b61c167fd.xml/MD5E-s332138--0135b05c73330a67cf08076b61c167fd.xml

SWU_4/sub-0025777/ses-2/mri/Schaefer2018_100Parcels_17Networks_order_sub-0025777_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-0025777/ses-2/mri/Schaefer2018_100Parcels_17Networks_order_sub-0025777_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/12/v9/MD5E-s177773--7193d8ccdd3549df8949d7093ab43d7f.nii.gz/MD5E-s177773--7193d8ccdd3549df8949d7093ab43d7f.nii.gz

SWU_4/sub-0025777/ses-2/mri/Schaefer2018_200Parcels_17Networks_order_sub-0025777_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-0025777/ses-2/mri/Schaefer2018_200Parcels_17Networks_order_sub-0025777_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/jK/gw/MD5E-s198234--39c510408c406c20e40b1e51364411b4.nii.gz/MD5E-s198234--39c510408c406c20e40b1e51364411b4.nii.gz

SWU_4/sub-0025777/ses-2/mri/Schaefer2018_400Parcels_17Networks_order_sub-0025777_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-0025777/ses-2/mri/Schaefer2018_400Parcels_17Networks_order_sub-0025777_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/v6/fk/MD5E-s267461--b52a755bab8876fd1416d682814e295f.nii.gz/MD5E-s267461--b52a755bab8876fd1416d682814e295f.nii.gz

SWU_4/sub-0025777/ses-2/mri/Schaefer2018_600Parcels_17Networks_order_sub-0025777_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-0025777/ses-2/mri/Schaefer2018_600Parcels_17Networks_order_sub-0025777_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/Fp/2g/MD5E-s297726--958dfc63f767cc2a3880b6cd4a5c3f97.nii.gz/MD5E-s297726--958dfc63f767cc2a3880b6cd4a5c3f97.nii.gz

SWU_4/sub-0025777/ses-2/mri/Tian_Subcortex_S2_7T_sub-0025777_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-0025777/ses-2/mri/Tian_Subcortex_S2_7T_sub-0025777_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/x8/f9/MD5E-s25370--91cda64ffba19ae51e21aa340edf4124.nii.gz/MD5E-s25370--91cda64ffba19ae51e21aa340edf4124.nii.gz

SWU_4/sub-0025777/ses-2/mri/aal3_sub-0025777_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-0025777/ses-2/mri/aal3_sub-0025777_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/qF/58/MD5E-s197810--8602c1e6219e7e19dfc308b890877fab.nii.gz/MD5E-s197810--8602c1e6219e7e19dfc308b890877fab.nii.gz

SWU_4/sub-0025777/ses-2/mri/anatomy3_sub-0025777_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-0025777/ses-2/mri/anatomy3_sub-0025777_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/8z/wF/MD5E-s145661--396f8328613f8f3bebe5cf46100cd0ec.nii.gz/MD5E-s145661--396f8328613f8f3bebe5cf46100cd0ec.nii.gz

SWU_4/sub-0025777/ses-2/mri/anon_misub-0025777_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/9k/VG/MD5E-s11976706--1984a28b2f4fe28a910743d78e9443ef.nii.gz/MD5E-s11976706--1984a28b2f4fe28a910743d78e9443ef.nii.gz

SWU_4/sub-0025777/ses-2/mri/anon_msub-0025777_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/jJ/7p/MD5E-s13312742--f069c3cf36c9ef888a20face5103f1d2.nii.gz/MD5E-s13312742--f069c3cf36c9ef888a20face5103f1d2.nii.gz

SWU_4/sub-0025777/ses-2/mri/cat_sub-0025777_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/m6/Zj/MD5E-s106164--cfbf3b456772d5cd4b96da2844e51848.nii.gz/MD5E-s106164--cfbf3b456772d5cd4b96da2844e51848.nii.gz

SWU_4/sub-0025777/ses-2/mri/cobra_sub-0025777_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-0025777/ses-2/mri/cobra_sub-0025777_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/Pv/4g/MD5E-s50132--2d427bf3bc2d85fd5b66e4826cf9bae8.nii.gz/MD5E-s50132--2d427bf3bc2d85fd5b66e4826cf9bae8.nii.gz

SWU_4/sub-0025777/ses-2/mri/hammers_sub-0025777_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-0025777/ses-2/mri/hammers_sub-0025777_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/pv/73/MD5E-s157375--1a7a88744563c4963e7d633d3c307608.nii.gz/MD5E-s157375--1a7a88744563c4963e7d633d3c307608.nii.gz

SWU_4/sub-0025777/ses-2/mri/ibsr_sub-0025777_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-0025777/ses-2/mri/ibsr_sub-0025777_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/pj/P0/MD5E-s165404--99c7088478b2cb4d38c7ef12695332e1.nii.gz/MD5E-s165404--99c7088478b2cb4d38c7ef12695332e1.nii.gz

SWU_4/sub-0025777/ses-2/mri/it_sub-0025777_ses-2_run-1_T1w_affine_reorient.mat

@@ -0,0 +1 @@
+../../../../.git/annex/objects/xW/Vj/MD5E-s283--852ba80772d6d7525c0b520f4b408347.mat/MD5E-s283--852ba80772d6d7525c0b520f4b408347.mat

SWU_4/sub-0025777/ses-2/mri/it_sub-0025777_ses-2_run-1_T1w_rigid_reorient.mat

@@ -0,0 +1 @@
+../../../../.git/annex/objects/2F/Gp/MD5E-s284--81e8f87c5d99e9d57a8f4e9ca24e6175.mat/MD5E-s284--81e8f87c5d99e9d57a8f4e9ca24e6175.mat

SWU_4/sub-0025777/ses-2/mri/iy_sub-0025777_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/Z6/zm/MD5E-s50751503--de10c70c33c0850e93d8d6cf14d61ed9.nii.gz/MD5E-s50751503--de10c70c33c0850e93d8d6cf14d61ed9.nii.gz

SWU_4/sub-0025777/ses-2/mri/julichbrain_sub-0025777_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-0025777/ses-2/mri/julichbrain_sub-0025777_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/80/7X/MD5E-s212892--80c6f3405da369d03267250b4a19c653.nii.gz/MD5E-s212892--80c6f3405da369d03267250b4a19c653.nii.gz

SWU_4/sub-0025777/ses-2/mri/lpba40_sub-0025777_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-0025777/ses-2/mri/lpba40_sub-0025777_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/52/v8/MD5E-s153578--fb6e343e5ecba4d41901e04a7c96a6ff.nii.gz/MD5E-s153578--fb6e343e5ecba4d41901e04a7c96a6ff.nii.gz

SWU_4/sub-0025777/ses-2/mri/m0wp1sub-0025777_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/62/gK/MD5E-s2565241--618cbeb6ee72f213406c84c889282ba6.nii.gz/MD5E-s2565241--618cbeb6ee72f213406c84c889282ba6.nii.gz

SWU_4/sub-0025777/ses-2/mri/m0wp2sub-0025777_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/4Z/0X/MD5E-s2324930--2bb5212951ebc4939ad411ea959fed44.nii.gz/MD5E-s2324930--2bb5212951ebc4939ad411ea959fed44.nii.gz

SWU_4/sub-0025777/ses-2/mri/m0wp3sub-0025777_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/7x/GG/MD5E-s2481600--f085739441b01dd71b720a854ff99e8d.nii.gz/MD5E-s2481600--f085739441b01dd71b720a854ff99e8d.nii.gz

SWU_4/sub-0025777/ses-2/mri/mori_sub-0025777_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-0025777/ses-2/mri/mori_sub-0025777_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/Xw/MG/MD5E-s183391--b47e3c507642bd98b333a787944bb78f.nii.gz/MD5E-s183391--b47e3c507642bd98b333a787944bb78f.nii.gz

SWU_4/sub-0025777/ses-2/mri/mwp1sub-0025777_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/fg/p6/MD5E-s2566613--64a5005b7c13f09cf1f1c7fd6a87bb4b.nii.gz/MD5E-s2566613--64a5005b7c13f09cf1f1c7fd6a87bb4b.nii.gz

SWU_4/sub-0025777/ses-2/mri/mwp2sub-0025777_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/Q1/49/MD5E-s2321959--9f4cf017fb42348ce37596cc646c85f0.nii.gz/MD5E-s2321959--9f4cf017fb42348ce37596cc646c85f0.nii.gz

SWU_4/sub-0025777/ses-2/mri/mwp3sub-0025777_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/6f/44/MD5E-s2479251--fe026572585e1a6e10fcfe71d0c0ab63.nii.gz/MD5E-s2479251--fe026572585e1a6e10fcfe71d0c0ab63.nii.gz

SWU_4/sub-0025777/ses-2/mri/neuromorphometrics_sub-0025777_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-0025777/ses-2/mri/neuromorphometrics_sub-0025777_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/fg/5g/MD5E-s214064--8401a733602b3b6e4c8ab46b0169a0da.nii.gz/MD5E-s214064--8401a733602b3b6e4c8ab46b0169a0da.nii.gz

SWU_4/sub-0025777/ses-2/mri/p0sub-0025777_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/xq/64/MD5E-s680494--2e2878bad9dfaa1405d6e05a8cc65243.nii.gz/MD5E-s680494--2e2878bad9dfaa1405d6e05a8cc65243.nii.gz

SWU_4/sub-0025777/ses-2/mri/p1sub-0025777_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/K3/4W/MD5E-s723773--fa6b23a3034334959e7738f823fd752b.nii.gz/MD5E-s723773--fa6b23a3034334959e7738f823fd752b.nii.gz

SWU_4/sub-0025777/ses-2/mri/p2sub-0025777_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/kW/6g/MD5E-s491888--02d2408ff85696a3370aae80f4927909.nii.gz/MD5E-s491888--02d2408ff85696a3370aae80f4927909.nii.gz

SWU_4/sub-0025777/ses-2/mri/p3sub-0025777_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/qM/F2/MD5E-s392916--05dec8eaa860cd626e8e738158b15678.nii.gz/MD5E-s392916--05dec8eaa860cd626e8e738158b15678.nii.gz

SWU_4/sub-0025777/ses-2/mri/rp1sub-0025777_ses-2_run-1_T1w_affine.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/1f/Xj/MD5E-s441942--b812d3d56df29c0587ef16b62930dea0.nii.gz/MD5E-s441942--b812d3d56df29c0587ef16b62930dea0.nii.gz

SWU_4/sub-0025777/ses-2/mri/rp2sub-0025777_ses-2_run-1_T1w_affine.nii.gz

@@ -0,0 +1 @@
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SWU_4/sub-0025777/ses-2/mri/rp3sub-0025777_ses-2_run-1_T1w_affine.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/ZG/Z0/MD5E-s266938--93985a3900bb7f15839d761fbd351f77.nii.gz/MD5E-s266938--93985a3900bb7f15839d761fbd351f77.nii.gz

SWU_4/sub-0025777/ses-2/mri/t_sub-0025777_ses-2_run-1_T1w_affine_reorient.mat

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+../../../../.git/annex/objects/zZ/w7/MD5E-s284--0b053ab2a88404b435ae45c2807e0795.mat/MD5E-s284--0b053ab2a88404b435ae45c2807e0795.mat

SWU_4/sub-0025777/ses-2/mri/t_sub-0025777_ses-2_run-1_T1w_rigid_reorient.mat

@@ -0,0 +1 @@
+../../../../.git/annex/objects/fM/pp/MD5E-s284--25c97c303096670a19d018db9b252295.mat/MD5E-s284--25c97c303096670a19d018db9b252295.mat

SWU_4/sub-0025777/ses-2/mri/thalamus_sub-0025777_ses-2_run-1_T1w.csv

@@ -0,0 +1 @@
+../../../../.git/annex/objects/fW/VK/MD5E-s870--1d6eb64a1942214ec592afc1dbf8fbb2.csv/MD5E-s870--1d6eb64a1942214ec592afc1dbf8fbb2.csv

SWU_4/sub-0025777/ses-2/mri/thalamus_sub-0025777_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/7J/kz/MD5E-s16678--372cb7e4d144611ea5e43106a236a250.nii.gz/MD5E-s16678--372cb7e4d144611ea5e43106a236a250.nii.gz

SWU_4/sub-0025777/ses-2/mri/wj_sub-0025777_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/Km/38/MD5E-s5505035--0b07d7d02e71c6773f531f2056908c4b.nii.gz/MD5E-s5505035--0b07d7d02e71c6773f531f2056908c4b.nii.gz

SWU_4/sub-0025777/ses-2/mri/wmisub-0025777_ses-2_run-1_T1w.nii.gz

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