Testing the installation

Included examples
Testing command line mode
Testing Airflow User Interface

To keep in mind: a few useful commands.

Included examples 

This distribution include 3 tests:

Basic CWL, aka “Hello World” example
CWL, using a python project
CWL, using an R program

The first two examples should run in all modes, the third requires conda environment.

The examples should run in both command-line mode (from a terminal) and in Airflow UI.

Testing command line mode 

Test 1: basic CWL (Hello World)

Execute:

docker exec webserver bash -ic 'cwl-runner /dependencies/examples/1st-tool.cwl /dependencies/examples/echo-job.yaml'

Look for the words “Hello World” and a message:

INFO Final process status is success

You might need to use sudo to run docker commands:

sudo docker exec webserver bash -ic 'cwl-runner /dependencies/examples/1st-tool.cwl /dependencies/examples/echo-job.yaml'

Test 2: CWL, using python project 

Execute:

docker exec webserver bash -ic 'cwl-runner /dependencies/examples/pi.cwl --iterations 1000'

Look for the words a message:

INFO [job calculate] /tmp/l416_dsl$ python \
    -m \
    pi \
    1000
3.140592653839794
...
INFO Final process status is success

You might need to use sudo to run docker commands:
sudo docker exec webserver bash -ic 'cwl-runner /dependencies/examples/pi.cwl --iterations 1000'

Test 3: CWL, using R script 

This test only works if Conda has been installed. It will fail in “noconda” mode

Execute:

docker exec webserver bash -ic 'cwl-runner /dependencies/examples/rpi.cwl --script /dependencies/r_sample_project/rpi.R --iterations 1000'

Look for the words a message:

INFO [job calculate] /tmp/s7tumyy5$ Rscript \
  /tmp/tmpmkit67pd/stg19d1507c-992d-4722-82a7-fb24a87ff427/rpi.R \
  1000
1000  ->  3.059059 
...
INFO Final process status is success

You might need to use sudo to run docker commands:

sudo docker exec webserver bash -ic 'cwl-runner /dependencies/examples/rpi.cwl --script /dependencies/r_sample_project/rpi.R --iterations 1000'

Alternative way to test command line 

Instead of executing docker exec webserver command for each test, you can enter the container once and then run all the tests inside the container environment

Execute the following command to enter the container:

docker exec -it webserver bash

You might need to use sudo to run docker commands:
sudo docker exec -it webserver bash

Inside the container, execute the following commands:

cwl-runner /dependencies/examples/1st-tool.cwl /dependencies/examples/echo-job.yaml
cwl-runner /dependencies/examples/pi.cwl --iterations 1000
cwl-runner /dependencies/examples/rpi.cwl --script /dependencies/r_sample_project/rpi.R --iterations 1000

Testing Airflow User Interface 

Preparation 

Point your browser to http://localhost:8080
Log in with the username and passowrd you have defined by
```
_AIRFLOW_WWW_USER_USERNAME
_AIRFLOW_WWW_USER_PASSWORD
```
environment variables (default airflow/airflow).
Go to the DAGs Tab and enable all dags (at least 1st-tool and pi)

UI Test 1: basic CWL (Hello World)

Click Play button to the right of the DAG name 1st-tool

Enter the following code into box:

{
    "job": {
       "message": "Hello World"
    }
}

Click Trigger button
Examine the Graph and the Log for the “Hello World” result.

UI Test 2: CWL, using python project 

Click Play button to the right of the DAG name pi
Enter the following code into box:
```
{
    "job": {
        "iterations": "1000"
    }
}
```
Note, that the number of iterations must be a quoted string.
Click Trigger button
Examine the Graph and the Log.

UI Test 3: CWL, using R script 

Click Play button to the right of the DAG name rpi

Enter the following code into box:

{
   "job": {
       "script": {
          "class": "File",
          "location": "/dependencies/r_sample_project/rpi.R"
       },
       "iterations": "1000"
   }
}

Note, that the number of iterations must be a quoted string.

Click Trigger button
Examine the Graph and the Log.