Drop "Atomic" types in favor of recursive typedefs #1896

Job	Run time
No leftovers	7m 4s
build_test_container	9m 7s
CWL conformance (v1.0, docker)	4m 16s
CWL conformance (v1.0, singularity)	3m 56s
Test on macos-latest	8m 19s
CWL conformance (v1.0, podman)	4m 24s
cwltool release test	17m 24s
CWL conformance (v1.1, docker)	5m 48s
CWL conformance (v1.1, singularity)	7m 12s
CWL conformance (v1.1, podman)	6m 12s
Linters (lintreadme)	56s
Tox (3, 8, lint)	45s
Linters (shellcheck)	19s
CWL conformance (v1.2, docker)	7m 55s
Tox (3, 8, unit)	7m 11s
Linters (pydocstyle)	21s
Tox (3, 8, bandit)	25s
CWL conformance (v1.2, singularity)	8m 43s
Tox (3, 8, mypy)	7m 32s
CWL conformance (v1.2, podman)	8m 2s
Tox (3, 9, lint)	42s
CWL conformance (v1.2, docker, --fast-parser)	7m 45s
Tox (3, 9, unit)	7m 0s
Tox (3, 9, bandit)	28s
Tox (3, 9, mypy)	7m 22s
Tox (3, 10, lint)	29s
Tox (3, 10, unit)	6m 20s
Tox (3, 10, bandit)	30s
Tox (3, 10, mypy)	8m 44s
Tox (3, 11, lint)	26s
Tox (3, 11, unit)	5m 49s
Tox (3, 11, bandit)	25s
Tox (3, 11, mypy)	7m 26s
Tox (3, 12, lint)	38s
Tox (3, 12, unit)	8m 56s
Tox (3, 12, bandit)	24s
Tox (3, 12, mypy)	7m 54s
	3h 7m 9s

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