Closed steelec closed 6 years ago
gdevenyi
commented
7 years ago Hrm, so, this is weird.
If this was the first time multitlas commands were run, then output/multiatlas didn't exist and
https://github.com/CobraLab/antsRegistration-MAGeT/blob/master/bin/mb.sh#L247-L251
shouldn't have run.
The error indicates that that code was run.
So, my question is, were any multiatlas commands run previously?
steelec
commented
7 years ago It is possible. The command may have been mistakenly run once outside of the scinet gpc (i.e, still on the login node). Chris
On Sep 19, 2017 9:52 AM, "Gabriel A. Devenyi" notifications@github.com wrote:
Hrm, so, this is weird.
If this was the first time multitlas commands were run, then output/multiatlas didn't exist and https://github.com/CobraLab/antsRegistration-MAGeT/blob/mast er/bin/mb.sh#L247-L251 shouldn't have run.
The error indicates that that code was run.
So, my question is, were any multiatlas commands run previously?
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When running mb.sh -- multiatlas-resample multiatlas-vote (to perform atlas-template QC)
after the completion of the atlas-template registrations (135 of 135 atlas-template registrations completed) but before the completion of the run (i.e., jobs still in the que!)
the following error occurs: ls: cannot access output/multiatlas/labels/majorityvote: No such file or directory
full output from mb.sh -- multiatlas-resample multiatlas-vote 2017-09-17 13:55:31 UTC [ info] Found: 2017-09-17 13:55:31 UTC [ info] 5 atlases in input/atlas 2017-09-17 13:55:31 UTC [ info] 3 labels per atlas in input/atlas 2017-09-17 13:55:31 UTC [ info] 27 templates in input/template 2017-09-17 13:55:31 UTC [ info] 1428 subjects in input/subject 2017-09-17 13:55:31 UTC [ info] 0 models in input/models 2017-09-17 13:55:31 UTC [ info] Progress: 2017-09-17 13:55:31 UTC [ info] 135 of 135 atlas-template registrations completed 2017-09-17 13:55:40 UTC [ info] 159 of 38529 template-subject registrations completed 2017-09-17 13:55:50 UTC [ info] 0 of 578340 resample labels completed 2017-09-17 13:55:50 UTC [ info] 0 of 4284 voted labels completed 2017-09-17 13:55:51 UTC [ info] 0 of 405 multiatlas resample labels completed ls: cannot access output/multiatlas/labels/majorityvote: No such file or directory 2017-09-17 13:55:51 UTC [ info] 0 of 81 multiatlas voted labels completed 2017-09-17 13:55:51 UTC [ info] Computing Multiatlas/Template Label Resamples 45241991.gpc-sched-ib0 2017-09-17 13:55:55 UTC [ info] Computing Multiatlas/Template Votes 45241992.gpc-sched-ib0 2017-09-17 13:55:56 UTC [ info] Cleaning up. Done