1705 lines
104 KiB
XML
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id="tspan2729-7">$ datalad containers-run \</tspan><tspan
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id="tspan2608"> -m "Compute subject ${subid}" \</tspan><tspan
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id="tspan2612"> -n cat \</tspan><tspan
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id="tspan2614"> --input "inputs/${subid}/*T1w.nii.gz" \</tspan><tspan
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id="tspan2616"> --output "${subid}" \</tspan><tspan
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id="tspan2618"> "<arguments for container invocation>"</tspan><tspan
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id="tspan2610" /><tspan
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id="tspan3590">commit e035f896s45c9fac70cn7cc4dbd0dad43907755p</tspan><tspan
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</tspan></tspan><tspan
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id="tspan3600"><tspan
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style="fill:#217867"
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id="tspan3596">Author: Jane Doe <j.doe@fz-juelich.de></tspan><tspan
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</tspan></tspan><tspan
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id="tspan3606"><tspan
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style="fill:#d4aa00"
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id="tspan3602">AuthorDate: Wed Feb 10 18:05:30 2021 +0100</tspan><tspan
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</tspan></tspan><tspan
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y="-193.77673"
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id="tspan3612"><tspan
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style="fill:#501644"
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id="tspan3608">Commit: Jane Doe <j.doe@fz-juelich.de></tspan><tspan
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id="tspan3610">
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</tspan></tspan><tspan
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x="1078.5664"
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y="-179.06523"
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id="tspan3618"><tspan
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style="fill:#d4aa00"
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id="tspan3614">CommitDate: Wed Feb 10 18:05:30 2021 +0100</tspan><tspan
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style="shape-inside:url(#rect51159-7-36)"
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id="tspan3616">
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</tspan></tspan><tspan
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</tspan></tspan><tspan
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x="1078.5664"
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y="-149.64222"
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id="tspan3626"><tspan
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style="shape-inside:url(#rect51159-7-36)"
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id="tspan3624">[DATALAD RUNCMD] Compute sub-6025043/ses-2
|
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</tspan></tspan><tspan
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x="1078.5664"
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y="-134.93072"
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id="tspan3630"><tspan
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style="shape-inside:url(#rect51159-7-36)"
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id="tspan3628">
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</tspan></tspan><tspan
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x="1078.5664"
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y="-120.21922"
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id="tspan3634"><tspan
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style="shape-inside:url(#rect51159-7-36)"
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id="tspan3632"> === Do not change lines below ===
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</tspan></tspan><tspan
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x="1078.5664"
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y="-105.50772"
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id="tspan3638"><tspan
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style="shape-inside:url(#rect51159-7-36)"
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id="tspan3636"> {
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</tspan></tspan><tspan
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x="1078.5664"
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y="-90.796214"
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id="tspan3642"><tspan
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style="shape-inside:url(#rect51159-7-36)"
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id="tspan3640"> "chain": [],
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</tspan></tspan><tspan
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x="1078.5664"
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y="-76.084712"
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id="tspan3646"><tspan
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style="shape-inside:url(#rect51159-7-36)"
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id="tspan3644"> "cmd": "singularity exec -B {pwd} --cleanenv code/pipeline/.datalad/
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</tspan></tspan><tspan
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x="1078.5664"
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y="-61.37321"
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id="tspan3650"><tspan
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style="shape-inside:url(#rect51159-7-36)"
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id="tspan3648"> environments/cat/image sh -e -u -x -c [...]'
|
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</tspan></tspan><tspan
|
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x="1078.5664"
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y="-46.661708"
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id="tspan3654"><tspan
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style="shape-inside:url(#rect51159-7-36)"
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id="tspan3652"> "dsid": "8938de76-0302-45b5-9825-3c6ce3f3fffe",
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</tspan></tspan><tspan
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x="1078.5664"
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y="-31.950206"
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id="tspan3658"><tspan
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style="shape-inside:url(#rect51159-7-36)"
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id="tspan3656"> "exit": 0,
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</tspan></tspan><tspan
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x="1078.5664"
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y="-17.238706"
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id="tspan3662"><tspan
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style="shape-inside:url(#rect51159-7-36)"
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id="tspan3660"> "extra_inputs": [
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</tspan></tspan><tspan
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x="1078.5664"
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y="-2.5272055"
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id="tspan3666"><tspan
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style="shape-inside:url(#rect51159-7-36)"
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id="tspan3664"> "code/pipeline/.datalad/environments/cat/image"
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</tspan></tspan><tspan
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x="1078.5664"
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y="12.184295"
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id="tspan3670"><tspan
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style="shape-inside:url(#rect51159-7-36)"
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id="tspan3668"> ],
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</tspan></tspan><tspan
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x="1078.5664"
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y="26.895795"
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id="tspan3674"><tspan
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style="shape-inside:url(#rect51159-7-36)"
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id="tspan3672"> "inputs": [
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</tspan></tspan><tspan
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|
x="1078.5664"
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|
y="41.607295"
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id="tspan3678"><tspan
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style="shape-inside:url(#rect51159-7-36)"
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id="tspan3676"> "inputs/ukb/sub-6025043/ses-2/anat/sub-6025043_ses-2_T1w.nii.gz",
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</tspan></tspan><tspan
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x="1078.5664"
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y="56.318795"
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id="tspan3682"><tspan
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|
style="shape-inside:url(#rect51159-7-36)"
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|
id="tspan3680"> "code/cat_standalone_batch.txt",
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</tspan></tspan><tspan
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x="1078.5664"
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y="71.030293"
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id="tspan3686"><tspan
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style="shape-inside:url(#rect51159-7-36)"
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id="tspan3684"> "code/finalize_job_outputs.sh"
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</tspan></tspan><tspan
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|
x="1078.5664"
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|
y="85.741796"
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id="tspan3690"><tspan
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style="shape-inside:url(#rect51159-7-36)"
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id="tspan3688"> ],
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</tspan></tspan><tspan
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x="1078.5664"
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y="100.4533"
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id="tspan3695"><tspan
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style="shape-inside:url(#rect51159-7-36)"
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|
id="tspan3692"> "outputs": [
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</tspan></tspan><tspan
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|
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id="tspan7062">A datalad containers-run </tspan><tspan
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id="tspan7082">call in each compute job </tspan><tspan
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