# tests

## make-template

```bash
# CWL
$ cargo run -- make-template https://github.com/suecharo/gh-trs/blob/main/tests/CWL/wf/trimming_and_qc.cwl \
    --output ./tests/test_config_CWL.yml

# WDL
$ cargo run -- make-template https://github.com/suecharo/gh-trs/blob/main/tests/WDL/wf/dockstore-tool-bamstats.wdl \
   --output ./tests/test_config_WDL.yml

# NFL
$ cargo run -- make-template https://github.com/suecharo/gh-trs/blob/main/tests/NFL/wf/file_input.nf \
    --output ./tests/test_config_NFL.yml

# SMK
$ cargo run -- make-template https://github.com/suecharo/gh-trs/blob/main/tests/SMK/wf/Snakefile \
    --output ./tests/test_config_SMK.yml
```

## validate

```bash
# CWL
$ cargo run -- validate ./tests/test_config_CWL.yml

# WDL
$ cargo run -- validate ./tests/test_config_WDL.yml

# NFL
$ cargo run -- validate ./tests/test_config_NFL.yml

# SMK
$ cargo run -- validate ./tests/test_config_SMK.yml
```

## test

```bash
# CWL
$ cargo run -- test ./tests/test_config_CWL.yml

# WDL
$ cargo run -- test ./tests/test_config_WDL.yml

# NFL
$ cargo run -- test ./tests/test_config_NFL.yml

# SMK
$ cargo run -- test ./tests/test_config_SMK.yml
```

## publish

```bash
# CWL
$ cargo run -- publish --repo suecharo/gh-trs --with-test ./tests/test_config_CWL.yml

# WDL
$ cargo run -- publish --repo suecharo/gh-trs --with-test ./tests/test_config_WDL.yml

# NFL
$ cargo run -- publish --repo suecharo/gh-trs --with-test ./tests/test_config_NFL.yml

# SMK
$ cargo run -- publish --repo suecharo/gh-trs --with-test ./tests/test_config_SMK.yml
```

### multiple files

```bash
$ cargo run -- publish --repo suecharo/gh-trs ./tests/test_config_CWL.yml ./tests/test_config_WDL.yml ./tests/test_config_NFL.yml ./tests/test_config_SMK.yml
```

### from-trs

```bash
$ cargo run -- publish --repo suecharo/gh-trs --with-test --from-trs https://suecharo.github.io/gh-trs/
```