... | ... | @@ -15,7 +15,7 @@ Note that using `scp` and its equivalents on the root bids directory will also c |
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**Setup Script**
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On the remote, do the following:
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On the remote end, do the following:
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```bash
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cd /path/to/root/of/project
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# chmod +x of the setup-remote.sh script is only required if
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... | ... | @@ -32,18 +32,18 @@ Eventually, you will receive the following message for both Octave and Amica: |
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Prompt:We need to load session environment variables for amica
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Prompt:Select a file containing environment variables
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Note:You may need to select a different version based on your scheduler
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File name: [bids/code/lossless/config/amica.sesinit]:
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File name: [../derivatives/lossless/code/config/amica.sesinit]:
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```
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* If you are using Compute Canada's Graham cluster or Cedar cluster you will want to leave this as the default. (Just press enter)
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* If you are using Orca or Redfin you will want to use "bids/derivatives/lossless/code/config/amica-sqsub.sesinit".
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* If you are using Orca or Redfin you will want to use `../derivatives/lossless/code/config/amica-sqsub.sesinit`.
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Note: `setup-remote.sh` has readline enabled so you may use tab completion for the file names.
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## Lock Files
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If somehow the `setup-remote.sh` script has failed halfway through, mechanisms are in place to make sure that completed steps are not repeated.
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To recompile a pipeline dependency, remove the respective `.lock` file specified by the script and run `setup-remote.sh` again.
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To recompile a pipeline dependency, remove the respective `.lock` file specified by the script located in `derivatives/lossless/code/misc/locks/` and run `setup-remote.sh` again.
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## Practice Data Files
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Sample data and information for your first test runs can be found [here](sample-data).
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