Fix 2d output arrays with format tag #2166

Job	Run time
No leftovers	3m 18s
cwltool release test	13m 53s
CWL conformance (v1.0, docker)	6m 21s
build_test_container	10m 2s
CWL conformance (v1.0, singularity)	6m 13s
Tox (3, 8, lint)	1s
Test on macos-latest	3m 53s
CWL conformance (v1.0, podman)	6m 19s
Tox (3, 8, unit)	1s
Linters (lintreadme)	36s
CWL conformance (v1.1, docker)	7m 5s
Tox (3, 8, bandit)	1s
Linters (shellcheck)	16s
CWL conformance (v1.1, singularity)	8m 28s
Tox (3, 8, mypy)	1s
Linters (pydocstyle)	17s
CWL conformance (v1.1, podman)	7m 35s
Tox (3, 9, lint)	1s
CWL conformance (v1.2, docker)	8m 21s
Tox (3, 9, unit)	1s
CWL conformance (v1.2, singularity)	7m 57s
CWL conformance (v1.2, podman)	8m 33s
Tox (3, 9, bandit)	1s
CWL conformance (v1.2, docker, --fast-parser)	8m 38s
Tox (3, 9, mypy)	1s
Tox (3, 10, lint)	26s
Tox (3, 10, unit)	1s
Tox (3, 10, bandit)	23s
Tox (3, 10, mypy)	39s
Tox (3, 11, lint)	1s
Tox (3, 11, unit)	1s
Tox (3, 11, bandit)	1s
Tox (3, 11, mypy)	1s
Tox (3, 12, lint)	1s
Tox (3, 12, unit)	1s
Tox (3, 12, bandit)	1s
Tox (3, 12, mypy)	1s
	1h 49m 30s

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