1/7/2024 0 Comments Git annex remoteIn this way, we will connect the points and tell annex where in globus git annex whereis 2015_11_18_cortex/mask/mask.matĪt this point we can go ahead and register a url to be associated with the given file key. Now, to make sure globus knows about this file, we can run the command below. The 1 at the end tells globus about the existence of this file with its given key. Therefore we need to make this location know about the file we want to retrieve. This file shows the remote "globus" which we just initialized, and the globus remote location ID given by annex. We can find Globus location ID by running the following command from the dataset root location: cat. When initialized, globus was given a location ID by annex which distributes one to every remote it communicates with. We now need to tell globus of the existence of the file based on its hash, which we call key. The last command will allow you to visualize the symlink which contains the MD6 hash of the file content.Īt this point, globus does not know anything about this file and its symlink, as you can see running the following command git annex whereis 2015_11_18_cortex/mask/mask.mat Run the following to find the file symlink, which includes the file hash cd FRDR-multimodal We use (datalad install ) repository as an example git annex initremote globus type=external externaltype=globus encryption=none endpoint=FRDR_Prod_2 fileprefix=/5/published/publication_170/submitted_data/ Happens when datasets are registered in the first place. Dedicated tools automate this process, but the point of this section is to explain in details what The following steps are usually performed when datasets files get registered with the globus remoteįor the first time. Will then be able to get access to its Globus location to retrieve its content. Then the file can be registered with Globus and git annex The dataset file we will be working on is currently not available to use as it only includes a symlink generated by annex.įirst the globus remote must be initialized to start the process. In order to understand how globus remote works, we can give an example with one dataset file. Manually registering a dataset with globus remote (internals) This command should initialize the remote successfully if everything went all rightĦ Try to download any file with git annex get path/to/file If may you need in a fresh virtual env, install dependencies specified. In the repository, run git-annex-remote-globus setup and follow the instructions to authenticate.Add the path of your git-annex-remote-globus location to your current dataset PATH.įrom now on we are going to work from the dataset repo location where you cd'ed In a different folder, install the following dataset: datalad install -r and cd.git clone this repository: git clone and checkout the branch you want to test.This procedure is only for testing purposes: If every step was followed correctly, it will ger successfully downloaded ! Testing procedure for changes Where is the name of the dataset in and is the prefix path before the dataset files in Git annex enableremote globus type=external externaltype=globus encryption=none endpoint= fileprefix= If the dataset was previously registered which is expected, it enough to enable the globus remote by running: Thus run git-annex-remote-globus setup anf follow the steps. ![]() If it is the first time a user uses globus remote, authentication to Globus.ors must take place to continue Install the dataset to be retrieved via the remote datalad install -r and cd. Install the repository with pip install git-annex-remote-globus Git-annex-remote-globus adds to git-annex the ability to retrieve files present in.
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