[DATALAD RUNCMD] Compute SWU_4/sub-0025849/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-0025849/ses-2/anat/sub-0025849_ses-2_run-1_T1w.nii.gz"
 ],
 "outputs": [
  "SWU_4/sub-0025849/ses-2"
 ],
 "pwd": "."
}
^^^ Do not change lines above ^^^

SWU_4/sub-0025849/ses-2/label/catROI_sub-0025849_ses-2_run-1_T1w.mat

@@ -0,0 +1 @@
+../../../../.git/annex/objects/JF/z3/MD5E-s61217--90bce0f3a887413433ef02ae4d86f072.mat/MD5E-s61217--90bce0f3a887413433ef02ae4d86f072.mat

SWU_4/sub-0025849/ses-2/label/catROI_sub-0025849_ses-2_run-1_T1w.xml

@@ -0,0 +1 @@
+../../../../.git/annex/objects/qM/Kx/MD5E-s189065--fcafe5f20288307416ac9f0dc2fe9998.xml/MD5E-s189065--fcafe5f20288307416ac9f0dc2fe9998.xml

SWU_4/sub-0025849/ses-2/label/catROIs_sub-0025849_ses-2_run-1_T1w.mat

@@ -0,0 +1 @@
+../../../../.git/annex/objects/Zx/FP/MD5E-s120067--9bd882f0c419896084b3450aa0ddba4b.mat/MD5E-s120067--9bd882f0c419896084b3450aa0ddba4b.mat

SWU_4/sub-0025849/ses-2/label/catROIs_sub-0025849_ses-2_run-1_T1w.xml

@@ -0,0 +1 @@
+../../../../.git/annex/objects/GJ/mG/MD5E-s332115--e4101624d1a50b604ea582840c25506a.xml/MD5E-s332115--e4101624d1a50b604ea582840c25506a.xml

SWU_4/sub-0025849/ses-2/mri/Schaefer2018_100Parcels_17Networks_order_sub-0025849_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-0025849/ses-2/mri/Schaefer2018_100Parcels_17Networks_order_sub-0025849_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/vv/G1/MD5E-s149409--5ecb4609dc7e21ae4c17207db13ecde0.nii.gz/MD5E-s149409--5ecb4609dc7e21ae4c17207db13ecde0.nii.gz

SWU_4/sub-0025849/ses-2/mri/Schaefer2018_200Parcels_17Networks_order_sub-0025849_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-0025849/ses-2/mri/Schaefer2018_200Parcels_17Networks_order_sub-0025849_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/k6/K6/MD5E-s169221--567133c683d56beab1d6fd110954a2af.nii.gz/MD5E-s169221--567133c683d56beab1d6fd110954a2af.nii.gz

SWU_4/sub-0025849/ses-2/mri/Schaefer2018_400Parcels_17Networks_order_sub-0025849_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-0025849/ses-2/mri/Schaefer2018_400Parcels_17Networks_order_sub-0025849_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/9m/V4/MD5E-s225631--49efd864dd4b4304d56d18aa2a226fe5.nii.gz/MD5E-s225631--49efd864dd4b4304d56d18aa2a226fe5.nii.gz

SWU_4/sub-0025849/ses-2/mri/Schaefer2018_600Parcels_17Networks_order_sub-0025849_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-0025849/ses-2/mri/Schaefer2018_600Parcels_17Networks_order_sub-0025849_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/86/29/MD5E-s251258--485f4ca96ae0df5d50d770a58481fcfd.nii.gz/MD5E-s251258--485f4ca96ae0df5d50d770a58481fcfd.nii.gz

SWU_4/sub-0025849/ses-2/mri/Tian_Subcortex_S2_7T_sub-0025849_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-0025849/ses-2/mri/Tian_Subcortex_S2_7T_sub-0025849_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/FK/x7/MD5E-s23774--c3905ab9cfb1781d8741b7e52e65eddb.nii.gz/MD5E-s23774--c3905ab9cfb1781d8741b7e52e65eddb.nii.gz

SWU_4/sub-0025849/ses-2/mri/aal3_sub-0025849_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-0025849/ses-2/mri/aal3_sub-0025849_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/vX/6f/MD5E-s171200--e6f26e65dbc484ca1f97e41880d86f3f.nii.gz/MD5E-s171200--e6f26e65dbc484ca1f97e41880d86f3f.nii.gz

SWU_4/sub-0025849/ses-2/mri/anatomy3_sub-0025849_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-0025849/ses-2/mri/anatomy3_sub-0025849_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/Qm/9J/MD5E-s124457--c774d903e60668d9e1a6e38fd022824f.nii.gz/MD5E-s124457--c774d903e60668d9e1a6e38fd022824f.nii.gz

SWU_4/sub-0025849/ses-2/mri/anon_misub-0025849_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/JV/vk/MD5E-s7133770--52a1a7bd11ef28f7a939c8f8ad8927e1.nii.gz/MD5E-s7133770--52a1a7bd11ef28f7a939c8f8ad8927e1.nii.gz

SWU_4/sub-0025849/ses-2/mri/anon_msub-0025849_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/0p/Wk/MD5E-s6902554--fef65f2581334c89310fe0a74726f838.nii.gz/MD5E-s6902554--fef65f2581334c89310fe0a74726f838.nii.gz

SWU_4/sub-0025849/ses-2/mri/cat_sub-0025849_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/qP/kk/MD5E-s91102--ac8377a38c43a6e957a7a2a0d19bdbed.nii.gz/MD5E-s91102--ac8377a38c43a6e957a7a2a0d19bdbed.nii.gz

SWU_4/sub-0025849/ses-2/mri/cobra_sub-0025849_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-0025849/ses-2/mri/cobra_sub-0025849_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/Gw/zG/MD5E-s45668--8859cc79ef43e0b58342e22c7e3bad8e.nii.gz/MD5E-s45668--8859cc79ef43e0b58342e22c7e3bad8e.nii.gz

SWU_4/sub-0025849/ses-2/mri/hammers_sub-0025849_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-0025849/ses-2/mri/hammers_sub-0025849_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/6X/PV/MD5E-s134870--17589b515ddb3a4fa927680af1db0021.nii.gz/MD5E-s134870--17589b515ddb3a4fa927680af1db0021.nii.gz

SWU_4/sub-0025849/ses-2/mri/ibsr_sub-0025849_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-0025849/ses-2/mri/ibsr_sub-0025849_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/28/Q4/MD5E-s142035--9e5a6091ad9ca3935018e877acd56f68.nii.gz/MD5E-s142035--9e5a6091ad9ca3935018e877acd56f68.nii.gz

SWU_4/sub-0025849/ses-2/mri/it_sub-0025849_ses-2_run-1_T1w_affine_reorient.mat

@@ -0,0 +1 @@
+../../../../.git/annex/objects/vX/gx/MD5E-s283--cc7d9413b0ad85ce43491a382a5a42f0.mat/MD5E-s283--cc7d9413b0ad85ce43491a382a5a42f0.mat

SWU_4/sub-0025849/ses-2/mri/it_sub-0025849_ses-2_run-1_T1w_rigid_reorient.mat

@@ -0,0 +1 @@
+../../../../.git/annex/objects/qf/33/MD5E-s281--39a675b22374e0c4c943f11555cedbb3.mat/MD5E-s281--39a675b22374e0c4c943f11555cedbb3.mat

SWU_4/sub-0025849/ses-2/mri/iy_sub-0025849_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/kx/8Z/MD5E-s39845395--d096339d161b51aed7a457d4d5fe0d04.nii.gz/MD5E-s39845395--d096339d161b51aed7a457d4d5fe0d04.nii.gz

SWU_4/sub-0025849/ses-2/mri/julichbrain_sub-0025849_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-0025849/ses-2/mri/julichbrain_sub-0025849_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/wq/z0/MD5E-s179989--9191b5b821ca1fef38b61d169de309f3.nii.gz/MD5E-s179989--9191b5b821ca1fef38b61d169de309f3.nii.gz

SWU_4/sub-0025849/ses-2/mri/lpba40_sub-0025849_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-0025849/ses-2/mri/lpba40_sub-0025849_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/5k/gQ/MD5E-s133374--156a7180f24ddf1013cab7aeee56c2ac.nii.gz/MD5E-s133374--156a7180f24ddf1013cab7aeee56c2ac.nii.gz

SWU_4/sub-0025849/ses-2/mri/m0wp1sub-0025849_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/V3/2z/MD5E-s2573641--980a705f41e25edbb7aca7d82983bb13.nii.gz/MD5E-s2573641--980a705f41e25edbb7aca7d82983bb13.nii.gz

SWU_4/sub-0025849/ses-2/mri/m0wp2sub-0025849_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/MK/2J/MD5E-s2285876--862dc63f7d3fc5c7c163815fbf8e1971.nii.gz/MD5E-s2285876--862dc63f7d3fc5c7c163815fbf8e1971.nii.gz

SWU_4/sub-0025849/ses-2/mri/m0wp3sub-0025849_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/7Z/Zw/MD5E-s2475947--d069cfda3dd92e26f310dcfb552abbd4.nii.gz/MD5E-s2475947--d069cfda3dd92e26f310dcfb552abbd4.nii.gz

SWU_4/sub-0025849/ses-2/mri/mori_sub-0025849_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-0025849/ses-2/mri/mori_sub-0025849_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/qq/Xp/MD5E-s156406--c5e0bc2253b6185750dcf57868055127.nii.gz/MD5E-s156406--c5e0bc2253b6185750dcf57868055127.nii.gz

SWU_4/sub-0025849/ses-2/mri/mwp1sub-0025849_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
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SWU_4/sub-0025849/ses-2/mri/mwp2sub-0025849_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/ZX/0Q/MD5E-s2292531--a20c8a21de68e4f837e98e9230df1f41.nii.gz/MD5E-s2292531--a20c8a21de68e4f837e98e9230df1f41.nii.gz

SWU_4/sub-0025849/ses-2/mri/mwp3sub-0025849_ses-2_run-1_T1w.nii.gz

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SWU_4/sub-0025849/ses-2/mri/neuromorphometrics_sub-0025849_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-0025849/ses-2/mri/neuromorphometrics_sub-0025849_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
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SWU_4/sub-0025849/ses-2/mri/p0sub-0025849_ses-2_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/1p/jW/MD5E-s552189--c7578a0cabbf95e5c283efe23fd730f8.nii.gz/MD5E-s552189--c7578a0cabbf95e5c283efe23fd730f8.nii.gz

SWU_4/sub-0025849/ses-2/mri/p1sub-0025849_ses-2_run-1_T1w.nii.gz

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SWU_4/sub-0025849/ses-2/mri/p2sub-0025849_ses-2_run-1_T1w.nii.gz

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+../../../../.git/annex/objects/JZ/6m/MD5E-s387747--50727034e8597c9da012df57025808a8.nii.gz/MD5E-s387747--50727034e8597c9da012df57025808a8.nii.gz

SWU_4/sub-0025849/ses-2/mri/p3sub-0025849_ses-2_run-1_T1w.nii.gz

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SWU_4/sub-0025849/ses-2/mri/rp1sub-0025849_ses-2_run-1_T1w_affine.nii.gz

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SWU_4/sub-0025849/ses-2/mri/rp2sub-0025849_ses-2_run-1_T1w_affine.nii.gz

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SWU_4/sub-0025849/ses-2/mri/rp3sub-0025849_ses-2_run-1_T1w_affine.nii.gz

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SWU_4/sub-0025849/ses-2/mri/t_sub-0025849_ses-2_run-1_T1w_affine_reorient.mat

@@ -0,0 +1 @@
+../../../../.git/annex/objects/Km/82/MD5E-s282--c2033d1cdc31567746510a4a5c35d48a.mat/MD5E-s282--c2033d1cdc31567746510a4a5c35d48a.mat

SWU_4/sub-0025849/ses-2/mri/t_sub-0025849_ses-2_run-1_T1w_rigid_reorient.mat

@@ -0,0 +1 @@
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SWU_4/sub-0025849/ses-2/mri/thalamus_sub-0025849_ses-2_run-1_T1w.csv

@@ -0,0 +1 @@
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SWU_4/sub-0025849/ses-2/mri/thalamus_sub-0025849_ses-2_run-1_T1w.nii.gz

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