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Remove vscode specific instructions.
[rnaseq-cwl-training.git]
/
lesson1
/
lesson1.md
diff --git
a/lesson1/lesson1.md
b/lesson1/lesson1.md
index f394c901f82c5583152839a31975ddfcf1eae3ac..cf10e406d17fc7f87136a0857577ac2487f5e822 100644
(file)
--- a/
lesson1/lesson1.md
+++ b/
lesson1/lesson1.md
@@
-7,9
+7,7
@@
In this lesson we will turn `rnaseq_analysis_on_input_file.sh` into a workflow.
We will create a new git repository and import a library of existing
tool definitions that will help us build our workflow.
We will create a new git repository and import a library of existing
tool definitions that will help us build our workflow.
-1. Select "Terminal->New terminal"
-
-2. Create a new git repository to hold our workflow with this command:
+Create a new git repository to hold our workflow with this command:
```
git init rnaseq-cwl-training-exercises
```
git init rnaseq-cwl-training-exercises
@@
-21,11
+19,7
@@
On Arvados use this:
git clone https://github.com/arvados/arvados-vscode-cwl-template.git rnaseq-cwl-training-exercises
```
git clone https://github.com/arvados/arvados-vscode-cwl-template.git rnaseq-cwl-training-exercises
```
-3. Go to File->Open Folder and select rnaseq-cwl-training-exercises
-
-4. Go to the terminal window
-
-5. Import bio-cwl-tools with this command:
+Next, import bio-cwl-tools with this command:
```
git submodule add https://github.com/common-workflow-library/bio-cwl-tools.git
```
git submodule add https://github.com/common-workflow-library/bio-cwl-tools.git