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113 | 113 | "### Upload the coordinates to your virtual machine\n", |
114 | 114 | "\n", |
115 | 115 | "<div class=\"alert alert-block alert-warning\"> \n", |
116 | | - "**IMPORTANT**: _If you have not done so already_, make sure you create a folder for your group's expedition data in the persistent storage on SURF RC (i.e. the `data/storage-osl/` folder). You can do so by running `mkdir /data/storage-osl/{your-group-name}` in Terminal, replacing `{your-group-name}` with your actual group name, or by using the \"New Folder\" button in the JupyterLab file explorer panel.\n", |
| 116 | + "**IMPORTANT**: _If you have not done so already_, make sure you create a folder for your group's expedition data in the persistent storage on SURF RC (i.e. the `data/storage/` folder). You can do so by running `mkdir /data/storage/{your-group-name}` in Terminal, replacing `{your-group-name}` with your actual group name, or by using the \"New Folder\" button in the JupyterLab file explorer panel.\n", |
117 | 117 | "</div>\n", |
118 | 118 | "\n", |
119 | | - "Back in the SURF RC JupyterLab interface, use the **file explorer** on the left hand side to navigate to the directory where your group will be running your expedition (i.e. `data/storage-osl/{your-group-name}`). \n", |
| 119 | + "Back in the SURF RC JupyterLab interface, use the **file explorer** on the left hand side to navigate to the directory where your group will be running your expedition (i.e. `data/storage/{your-group-name}`). \n", |
120 | 120 | "\n", |
121 | 121 | "Then upload the exported .xlsx file (it will be called something like \"Coordinates-20251125T1403.xlsx\") by either dragging and dropping it from your laptop's Downloads into the file explorer, or by using the \"Upload Files\" button (the icon with an upward arrow) at the top of the file explorer panel." |
122 | 122 | ] |
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130 | 130 | "Open a Terminal window if you do not already have one open. Remember, this can be done from the Launcher tab by clicking on \"Terminal\" button under the \"Other\" section, or by going to the \"File\" menu --> \"New\" --> \"Terminal\".\n", |
131 | 131 | "\n", |
132 | 132 | "<div class=\"alert alert-block alert-warning\"> \n", |
133 | | - "**IMPORTANT**: Once in Terminal, navigate to where you would like your expedition to be run on your (virtual) machine. You can do so by `cd /data/storage-osl/{your-group-name}`, replacing `{your-group-name}` with your actual group name. This is where you will be working from for the rest of the session.\n", |
| 133 | + "**IMPORTANT**: Once in Terminal, navigate to where you would like your expedition to be run on your (virtual) machine. You can do so by `cd /data/storage/{your-group-name}`, replacing `{your-group-name}` with your actual group name. This is where you will be working from for the rest of the session.\n", |
134 | 134 | "</div>\n", |
135 | 135 | "\n", |
136 | 136 | "Now enter the following command in the Terminal (changing `EXPEDITION_NAME` to something more meaningful for your group's expedition):\n", |
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246 | 246 | "\n", |
247 | 247 | "From here you can carry on your analysis. In general, we encourage you to explore and analyse these data using [Xarray](https://docs.xarray.dev/en/stable/). We also provide various further [VirtualShip tutorials](https://virtualship.readthedocs.io/en/latest/user-guide/tutorials/index.html) which provide examples of how to visualise data recorded by the VirtualShip instruments. Use these to help you get started!\n", |
248 | 248 | "\n", |
249 | | - "If you are using VirtualShip in class, the same tutorial notebooks will be uploaded in your SURF RC environment for you to use and interact directly with the code. These should be available in e.g. the `data/storage-osl/tutorials/` directory. You will notice that there is a notebook file dedicated to visualising each of the different instruments available in VirtualShip. \n", |
| 249 | + "If you are using VirtualShip in class, the same tutorial notebooks will be uploaded in your SURF RC environment for you to use and interact directly with the code. These should be available in e.g. the `data/storage/tutorials/` directory. You will notice that there is a notebook file dedicated to visualising each of the different instruments available in VirtualShip. \n", |
250 | 250 | "\n", |
251 | | - "To run these notebooks with your own data, you will need to copy the them over to your expedition working directory (i.e. `data/storage-osl/{your-group-name}`). This can be done by either 1) using the file explorer panel in JupyterLab to copy the relevant files or the via the command line in Terminal. In the terminal, running `cp -r /data/storage-osl/tutorials/* /data/storage-osl/{your-group-name}/` would copy __all__ the tutorial notebooks to your group's directory, so if you only want to copy specific ones, make sure to adjust the command accordingly." |
| 251 | + "To run these notebooks with your own data, you will need to copy the them over to your expedition working directory (i.e. `data/storage/{your-group-name}`). This can be done by either 1) using the file explorer panel in JupyterLab to copy the relevant files or the via the command line in Terminal. In the terminal, running `cp -r /data/storage/tutorials/* /data/storage/{your-group-name}/` would copy __all__ the tutorial notebooks to your group's directory, so if you only want to copy specific ones, make sure to adjust the command accordingly." |
252 | 252 | ] |
253 | 253 | }, |
254 | 254 | { |
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