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cbrain profile outputs to results_rbx, not results_tractometry #28

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SamGuay opened this issue Sep 10, 2024 · 0 comments · Fixed by #29
Closed

cbrain profile outputs to results_rbx, not results_tractometry #28

SamGuay opened this issue Sep 10, 2024 · 0 comments · Fixed by #29

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@SamGuay
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SamGuay commented Sep 10, 2024

cbrain profile in the config.file appears to output some of the files to results_rbx instead of results_tractometry/ or to user-defined dir. It seems to me a simple copy/paste error from the RBX config file?

I guess that'd be great if we could do the same as with tractoflow, considering the possibilities of running tractometry with several along tract profiles (eg, 5, 20, 50, 100) and keeping things seperate. ie:

    cbrain {
      process{
        if(params.output_dir) {
          publishDir = [path: {"$params.output_dir/$sid/$task.process"}, mode: 'copy']
        }
        else{
          publishDir = [path: {"./results_tractometry/$sid/$task.process"}, mode: 'copy']
        }
    }
    }

Happy to open a PR if welcome :)

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