From 6c9ad9d02c91fa1f559c098ecd445cfa63ff3850 Mon Sep 17 00:00:00 2001 From: kyleoconnell-NIH <102973993+kyleoconnell-NIH@users.noreply.github.com> Date: Tue, 5 Dec 2023 08:42:25 -0500 Subject: [PATCH] Update agc.md with correct STAK doc link --- docs/agc.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/docs/agc.md b/docs/agc.md index 766e763..c2adb56 100644 --- a/docs/agc.md +++ b/docs/agc.md @@ -6,7 +6,7 @@ You can do all of the following from your local computer using the AWS SDK, but Because agc uses AWS Batch for computation, you can get away with spinning up a small VM, like the t2 micro for this tutorial. Once you VM is ready, ssh into it. If you are using a notebook, open the Jupyter environment. -Make sure you set up your environment following the [Prerequisites](https://aws.github.io/amazon-genomics-cli/docs/getting-started/prerequisites/) page. Install the AWS CLI if running locally, and if on EC2 or Sagemaker, you just need to install nodejs. Make sure you run `aws configure` and input your Short-term Access keys. Intramural users can access keys following [these instructions](/docs/STAKs_intramural.md). +Make sure you set up your environment following the [Prerequisites](https://aws.github.io/amazon-genomics-cli/docs/getting-started/prerequisites/) page. Install the AWS CLI if running locally, and if on EC2 or Sagemaker, you just need to install nodejs. Make sure you run `aws configure` and input your Short-term Access keys. Intramural users can access keys following [these instructions](/docs/Intramural_STAKs.md). Now run the [install instructions](https://aws.github.io/amazon-genomics-cli/docs/getting-started/installation/) and add agc to the path with `export PATH=$HOME/bin:$PATH`. If the install went well, go ahead and activate. You need to add a few flags to the base `activate` command. Create the bucket before running this command, and make sure that the bucket is empty.