[DATALAD RUNCMD] Compute SWU_4/sub-0025839/ses-1

=== 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-0025839/ses-1/anat/sub-0025839_ses-1_run-1_T1w.nii.gz"
 ],
 "outputs": [
  "SWU_4/sub-0025839/ses-1"
 ],
 "pwd": "."
}
^^^ Do not change lines above ^^^

SWU_4/sub-0025839/ses-1/label/catROI_sub-0025839_ses-1_run-1_T1w.mat

@@ -0,0 +1 @@
+../../../../.git/annex/objects/9W/X7/MD5E-s57653--eeeac2f22b0c4b2bfe5eb726cd06622e.mat/MD5E-s57653--eeeac2f22b0c4b2bfe5eb726cd06622e.mat

SWU_4/sub-0025839/ses-1/label/catROI_sub-0025839_ses-1_run-1_T1w.xml

@@ -0,0 +1 @@
+../../../../.git/annex/objects/4k/7q/MD5E-s189080--dfc56c4435a207fe5d82bc85409639ce.xml/MD5E-s189080--dfc56c4435a207fe5d82bc85409639ce.xml

SWU_4/sub-0025839/ses-1/label/catROIs_sub-0025839_ses-1_run-1_T1w.mat

@@ -0,0 +1 @@
+../../../../.git/annex/objects/W7/zM/MD5E-s120087--bafd9898a4e60f147b544b39bff6edc4.mat/MD5E-s120087--bafd9898a4e60f147b544b39bff6edc4.mat

SWU_4/sub-0025839/ses-1/label/catROIs_sub-0025839_ses-1_run-1_T1w.xml

@@ -0,0 +1 @@
+../../../../.git/annex/objects/3J/qq/MD5E-s332164--e5c241de95961c9c578a061b6e4a86e9.xml/MD5E-s332164--e5c241de95961c9c578a061b6e4a86e9.xml

SWU_4/sub-0025839/ses-1/mri/Schaefer2018_100Parcels_17Networks_order_sub-0025839_ses-1_run-1_T1w.csv

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

SWU_4/sub-0025839/ses-1/mri/Schaefer2018_100Parcels_17Networks_order_sub-0025839_ses-1_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/Gj/qW/MD5E-s153198--b166d5b2650bce5eb935a1cc46be5898.nii.gz/MD5E-s153198--b166d5b2650bce5eb935a1cc46be5898.nii.gz

SWU_4/sub-0025839/ses-1/mri/Schaefer2018_200Parcels_17Networks_order_sub-0025839_ses-1_run-1_T1w.csv

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

SWU_4/sub-0025839/ses-1/mri/Schaefer2018_200Parcels_17Networks_order_sub-0025839_ses-1_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/gM/Xk/MD5E-s172421--2dd05e5f8d3d91e53f4ce8921886c10c.nii.gz/MD5E-s172421--2dd05e5f8d3d91e53f4ce8921886c10c.nii.gz

SWU_4/sub-0025839/ses-1/mri/Schaefer2018_400Parcels_17Networks_order_sub-0025839_ses-1_run-1_T1w.csv

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

SWU_4/sub-0025839/ses-1/mri/Schaefer2018_400Parcels_17Networks_order_sub-0025839_ses-1_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/2Q/1g/MD5E-s231294--4850e11f062b74a3ee25d8388a610069.nii.gz/MD5E-s231294--4850e11f062b74a3ee25d8388a610069.nii.gz

SWU_4/sub-0025839/ses-1/mri/Schaefer2018_600Parcels_17Networks_order_sub-0025839_ses-1_run-1_T1w.csv

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

SWU_4/sub-0025839/ses-1/mri/Schaefer2018_600Parcels_17Networks_order_sub-0025839_ses-1_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/2j/84/MD5E-s257942--0b527b41613c723648dae9975faccd07.nii.gz/MD5E-s257942--0b527b41613c723648dae9975faccd07.nii.gz

SWU_4/sub-0025839/ses-1/mri/Tian_Subcortex_S2_7T_sub-0025839_ses-1_run-1_T1w.csv

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

SWU_4/sub-0025839/ses-1/mri/Tian_Subcortex_S2_7T_sub-0025839_ses-1_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/Q8/3k/MD5E-s24365--6268bf4ad09e29432bcc419ca07dacbe.nii.gz/MD5E-s24365--6268bf4ad09e29432bcc419ca07dacbe.nii.gz

SWU_4/sub-0025839/ses-1/mri/aal3_sub-0025839_ses-1_run-1_T1w.csv

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

SWU_4/sub-0025839/ses-1/mri/aal3_sub-0025839_ses-1_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/x5/x5/MD5E-s175341--21b646b633e65c1c7a84a6bb511986b4.nii.gz/MD5E-s175341--21b646b633e65c1c7a84a6bb511986b4.nii.gz

SWU_4/sub-0025839/ses-1/mri/anatomy3_sub-0025839_ses-1_run-1_T1w.csv

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

SWU_4/sub-0025839/ses-1/mri/anatomy3_sub-0025839_ses-1_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/k4/0v/MD5E-s126470--6127e53d4c50de3e242e4f9937e58be2.nii.gz/MD5E-s126470--6127e53d4c50de3e242e4f9937e58be2.nii.gz

SWU_4/sub-0025839/ses-1/mri/anon_misub-0025839_ses-1_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/vV/8v/MD5E-s8112489--35cd5ce77f209252598e23316e06923d.nii.gz/MD5E-s8112489--35cd5ce77f209252598e23316e06923d.nii.gz

SWU_4/sub-0025839/ses-1/mri/anon_msub-0025839_ses-1_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/5J/Qz/MD5E-s7993342--a0bbd32a4c0ec40fc646c67695b275dc.nii.gz/MD5E-s7993342--a0bbd32a4c0ec40fc646c67695b275dc.nii.gz

SWU_4/sub-0025839/ses-1/mri/cat_sub-0025839_ses-1_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/Jq/68/MD5E-s93951--e8c0e5b4e7137a4010c0aa732c90f1ef.nii.gz/MD5E-s93951--e8c0e5b4e7137a4010c0aa732c90f1ef.nii.gz

SWU_4/sub-0025839/ses-1/mri/cobra_sub-0025839_ses-1_run-1_T1w.csv

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

SWU_4/sub-0025839/ses-1/mri/cobra_sub-0025839_ses-1_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/42/KV/MD5E-s46190--a28467291800f14d79c5c38e8c2941a5.nii.gz/MD5E-s46190--a28467291800f14d79c5c38e8c2941a5.nii.gz

SWU_4/sub-0025839/ses-1/mri/hammers_sub-0025839_ses-1_run-1_T1w.csv

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

SWU_4/sub-0025839/ses-1/mri/hammers_sub-0025839_ses-1_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/fM/vF/MD5E-s137336--d37776e72a0272a2e3cc7b7e80c30982.nii.gz/MD5E-s137336--d37776e72a0272a2e3cc7b7e80c30982.nii.gz

SWU_4/sub-0025839/ses-1/mri/ibsr_sub-0025839_ses-1_run-1_T1w.csv

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

SWU_4/sub-0025839/ses-1/mri/ibsr_sub-0025839_ses-1_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/PK/PW/MD5E-s146206--0354d0341833f0740a6c523dc7e07205.nii.gz/MD5E-s146206--0354d0341833f0740a6c523dc7e07205.nii.gz

SWU_4/sub-0025839/ses-1/mri/it_sub-0025839_ses-1_run-1_T1w_affine_reorient.mat

@@ -0,0 +1 @@
+../../../../.git/annex/objects/mz/Wq/MD5E-s283--13e8cb6923477c1fc6a59be311d91575.mat/MD5E-s283--13e8cb6923477c1fc6a59be311d91575.mat

SWU_4/sub-0025839/ses-1/mri/it_sub-0025839_ses-1_run-1_T1w_rigid_reorient.mat

@@ -0,0 +1 @@
+../../../../.git/annex/objects/3k/p1/MD5E-s282--de2e0ea98a344fba14bbb13889fd587d.mat/MD5E-s282--de2e0ea98a344fba14bbb13889fd587d.mat

SWU_4/sub-0025839/ses-1/mri/iy_sub-0025839_ses-1_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/zF/pm/MD5E-s41083657--469179353f460d7630f85e4a3b3d127e.nii.gz/MD5E-s41083657--469179353f460d7630f85e4a3b3d127e.nii.gz

SWU_4/sub-0025839/ses-1/mri/julichbrain_sub-0025839_ses-1_run-1_T1w.csv

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

SWU_4/sub-0025839/ses-1/mri/julichbrain_sub-0025839_ses-1_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/w4/2F/MD5E-s183154--a96bdb200536af7eea2375a6e9df2389.nii.gz/MD5E-s183154--a96bdb200536af7eea2375a6e9df2389.nii.gz

SWU_4/sub-0025839/ses-1/mri/lpba40_sub-0025839_ses-1_run-1_T1w.csv

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

SWU_4/sub-0025839/ses-1/mri/lpba40_sub-0025839_ses-1_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/mX/0z/MD5E-s135173--3450fc3142315f02506510d0e4e56cd6.nii.gz/MD5E-s135173--3450fc3142315f02506510d0e4e56cd6.nii.gz

SWU_4/sub-0025839/ses-1/mri/m0wp1sub-0025839_ses-1_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/ZF/pX/MD5E-s2576376--cef9bc297b4650f87221f95e754da82f.nii.gz/MD5E-s2576376--cef9bc297b4650f87221f95e754da82f.nii.gz

SWU_4/sub-0025839/ses-1/mri/m0wp2sub-0025839_ses-1_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/w6/GX/MD5E-s2299088--99f696b0d9f1c6d676c6744476957b03.nii.gz/MD5E-s2299088--99f696b0d9f1c6d676c6744476957b03.nii.gz

SWU_4/sub-0025839/ses-1/mri/m0wp3sub-0025839_ses-1_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/6P/p5/MD5E-s2542362--5bdc9eb5e9e617fb142df13b12bd87c7.nii.gz/MD5E-s2542362--5bdc9eb5e9e617fb142df13b12bd87c7.nii.gz

SWU_4/sub-0025839/ses-1/mri/mori_sub-0025839_ses-1_run-1_T1w.csv

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

SWU_4/sub-0025839/ses-1/mri/mori_sub-0025839_ses-1_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/38/57/MD5E-s161181--4f2ac44730b0d5d1a014ab230b26d9cd.nii.gz/MD5E-s161181--4f2ac44730b0d5d1a014ab230b26d9cd.nii.gz

SWU_4/sub-0025839/ses-1/mri/mwp1sub-0025839_ses-1_run-1_T1w.nii.gz

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SWU_4/sub-0025839/ses-1/mri/mwp2sub-0025839_ses-1_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/KF/vx/MD5E-s2302898--cce712725b05f2beec1f501d19e1292f.nii.gz/MD5E-s2302898--cce712725b05f2beec1f501d19e1292f.nii.gz

SWU_4/sub-0025839/ses-1/mri/mwp3sub-0025839_ses-1_run-1_T1w.nii.gz

@@ -0,0 +1 @@
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SWU_4/sub-0025839/ses-1/mri/neuromorphometrics_sub-0025839_ses-1_run-1_T1w.csv

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

SWU_4/sub-0025839/ses-1/mri/neuromorphometrics_sub-0025839_ses-1_run-1_T1w.nii.gz

@@ -0,0 +1 @@
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SWU_4/sub-0025839/ses-1/mri/p0sub-0025839_ses-1_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/8j/7f/MD5E-s579559--97b97e88ff84a709ddb0fd2f7fcb0844.nii.gz/MD5E-s579559--97b97e88ff84a709ddb0fd2f7fcb0844.nii.gz

SWU_4/sub-0025839/ses-1/mri/p1sub-0025839_ses-1_run-1_T1w.nii.gz

@@ -0,0 +1 @@
+../../../../.git/annex/objects/kg/pg/MD5E-s615058--d02fb952491e8ba36722b64ded5d3fd1.nii.gz/MD5E-s615058--d02fb952491e8ba36722b64ded5d3fd1.nii.gz

SWU_4/sub-0025839/ses-1/mri/p2sub-0025839_ses-1_run-1_T1w.nii.gz

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SWU_4/sub-0025839/ses-1/mri/p3sub-0025839_ses-1_run-1_T1w.nii.gz

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SWU_4/sub-0025839/ses-1/mri/rp1sub-0025839_ses-1_run-1_T1w_affine.nii.gz

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SWU_4/sub-0025839/ses-1/mri/rp2sub-0025839_ses-1_run-1_T1w_affine.nii.gz

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SWU_4/sub-0025839/ses-1/mri/rp3sub-0025839_ses-1_run-1_T1w_affine.nii.gz

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SWU_4/sub-0025839/ses-1/mri/t_sub-0025839_ses-1_run-1_T1w_affine_reorient.mat

@@ -0,0 +1 @@
+../../../../.git/annex/objects/Vz/gK/MD5E-s283--e790c6c95bb42f3764bd37b347d16225.mat/MD5E-s283--e790c6c95bb42f3764bd37b347d16225.mat

SWU_4/sub-0025839/ses-1/mri/t_sub-0025839_ses-1_run-1_T1w_rigid_reorient.mat

@@ -0,0 +1 @@
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SWU_4/sub-0025839/ses-1/mri/thalamus_sub-0025839_ses-1_run-1_T1w.csv

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

SWU_4/sub-0025839/ses-1/mri/thalamus_sub-0025839_ses-1_run-1_T1w.nii.gz

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