cwltool --debug --leave-tmpdir --leave-outputs v1.0/recursive-input-directory.cwl v1.0/recursive-input-directory.json

/Users/gijs/Work/cwltool/.virtualenv/bin/cwltool 1.0.20170213175853
Resolved 'v1.0/recursive-input-directory.cwl' to 'file:///Users/gijs/Work/common-workflow-language/v1.0/v1.0/recursive-input-directory.cwl'
[job recursive-input-directory.cwl] initializing from file:///Users/gijs/Work/common-workflow-language/v1.0/v1.0/recursive-input-directory.cwl
[job recursive-input-directory.cwl] {
    "input_dir": {
        "class": "Directory",
        "location": "file:///Users/gijs/Work/common-workflow-language/v1.0/v1.0/testdir",
        "basename": "testdir",
        "listing": [
            {
                "class": "File",
                "location": "file:///Users/gijs/Work/common-workflow-language/v1.0/v1.0/testdir/a"
            },
            {
                "class": "File",
                "location": "file:///Users/gijs/Work/common-workflow-language/v1.0/v1.0/testdir/b"
            },
            {
                "listing": [
                    {
                        "class": "File",
                        "location": "file:///Users/gijs/Work/common-workflow-language/v1.0/v1.0/testdir/c/d"
                    }
                ],
                "class": "Directory",
                "location": "file:///Users/gijs/Work/common-workflow-language/v1.0/v1.0/testdir/c"
            }
        ]
    }
}
[job recursive-input-directory.cwl] path mappings is {
    "file:///Users/gijs/Work/common-workflow-language/v1.0/v1.0/testdir": [
        "file:///Users/gijs/Work/common-workflow-language/v1.0/v1.0/testdir",
        "/private/var/folders/qs/hpsrfjwx0313rdk2t7jj2ddw0000gn/T/tmpXvxTgT/stg44d023ed-d4d9-4009-9820-22f4d170af22/testdir",
        "Directory"
    ],
    "file:///Users/gijs/Work/common-workflow-language/v1.0/v1.0/testdir/c": [
        "file:///Users/gijs/Work/common-workflow-language/v1.0/v1.0/testdir/c",
        "/private/var/folders/qs/hpsrfjwx0313rdk2t7jj2ddw0000gn/T/tmpXvxTgT/stg44d023ed-d4d9-4009-9820-22f4d170af22/testdir/c",
        "Directory"
    ],
    "file:///Users/gijs/Work/common-workflow-language/v1.0/v1.0/testdir/b": [
        "/Users/gijs/Work/common-workflow-language/v1.0/v1.0/testdir/b",
        "/private/var/folders/qs/hpsrfjwx0313rdk2t7jj2ddw0000gn/T/tmpXvxTgT/stg44d023ed-d4d9-4009-9820-22f4d170af22/testdir/b",
        "File"
    ],
    "file:///Users/gijs/Work/common-workflow-language/v1.0/v1.0/testdir/a": [
        "/Users/gijs/Work/common-workflow-language/v1.0/v1.0/testdir/a",
        "/private/var/folders/qs/hpsrfjwx0313rdk2t7jj2ddw0000gn/T/tmpXvxTgT/stg44d023ed-d4d9-4009-9820-22f4d170af22/testdir/a",
        "File"
    ],
    "file:///Users/gijs/Work/common-workflow-language/v1.0/v1.0/testdir/c/d": [
        "/Users/gijs/Work/common-workflow-language/v1.0/v1.0/testdir/c/d",
        "/private/var/folders/qs/hpsrfjwx0313rdk2t7jj2ddw0000gn/T/tmpXvxTgT/stg44d023ed-d4d9-4009-9820-22f4d170af22/testdir/c/d",
        "File"
    ]
}
[job recursive-input-directory.cwl] command line bindings is [
    {
        "position": [
            -1000000,
            0
        ],
        "datum": "bash"
    },
    {
        "position": [
            -1000000,
            1
        ],
        "datum": "-c"
    },
    {
        "position": [
            -1000000,
            2
        ],
        "datum": "touch work_dir/e; if [ ! -w work_dir ]; then echo work_dir not writable; fi; if [ -L work_dir ]; then echo work_dir is a symlink; fi; if [ ! -w work_dir/a ]; then echo work_dir/a not writable; fi; if [ -L work_dir/a ]; then echo work_dir/a is a symlink; fi; if [ ! -w work_dir/c ]; then echo work_dir/c not writable; fi; if [ -L work_dir/c ]; then echo work_dir/c is a symlink; fi; if [ ! -w work_dir/c/d ]; then echo work_dir/c/d not writable; fi; if [ -L work_dir/c/d ]; then echo work_dir/c/d is a symlink; fi; if [ ! -w work_dir/e ]; then echo work_dir/e not writable; fi; if [ -L work_dir/e ]; then echo work_dir/e is a symlink ; fi;"
    }
]
[job recursive-input-directory.cwl] /private/var/folders/qs/hpsrfjwx0313rdk2t7jj2ddw0000gn/T/tmpuBVMn8$ bash \
    -c \
    'touch work_dir/e; if [ ! -w work_dir ]; then echo work_dir not writable; fi; if [ -L work_dir ]; then echo work_dir is a symlink; fi; if [ ! -w work_dir/a ]; then echo work_dir/a not writable; fi; if [ -L work_dir/a ]; then echo work_dir/a is a symlink; fi; if [ ! -w work_dir/c ]; then echo work_dir/c not writable; fi; if [ -L work_dir/c ]; then echo work_dir/c is a symlink; fi; if [ ! -w work_dir/c/d ]; then echo work_dir/c/d not writable; fi; if [ -L work_dir/c/d ]; then echo work_dir/c/d is a symlink; fi; if [ ! -w work_dir/e ]; then echo work_dir/e not writable; fi; if [ -L work_dir/e ]; then echo work_dir/e is a symlink ; fi;' > /private/var/folders/qs/hpsrfjwx0313rdk2t7jj2ddw0000gn/T/tmpuBVMn8/output.txt
[job recursive-input-directory.cwl] initial work dir {
    "_:dd47a2f2-6054-44a4-a9ea-0c2bd8f74d6f": [
        "_:dd47a2f2-6054-44a4-a9ea-0c2bd8f74d6f",
        "/private/var/folders/qs/hpsrfjwx0313rdk2t7jj2ddw0000gn/T/tmpuBVMn8/",
        "Directory"
    ],
    "file:///Users/gijs/Work/common-workflow-language/v1.0/v1.0/testdir/c/d": [
        "/Users/gijs/Work/common-workflow-language/v1.0/v1.0/testdir/c/d",
        "/private/var/folders/qs/hpsrfjwx0313rdk2t7jj2ddw0000gn/T/tmpuBVMn8/work_dir/c/d",
        "File"
    ],
    "file:///Users/gijs/Work/common-workflow-language/v1.0/v1.0/testdir/c": [
        "file:///Users/gijs/Work/common-workflow-language/v1.0/v1.0/testdir/c",
        "/private/var/folders/qs/hpsrfjwx0313rdk2t7jj2ddw0000gn/T/tmpuBVMn8/work_dir/c",
        "Directory"
    ],
    "file:///Users/gijs/Work/common-workflow-language/v1.0/v1.0/testdir/b": [
        "/Users/gijs/Work/common-workflow-language/v1.0/v1.0/testdir/b",
        "/private/var/folders/qs/hpsrfjwx0313rdk2t7jj2ddw0000gn/T/tmpuBVMn8/work_dir/b",
        "File"
    ],
    "file:///Users/gijs/Work/common-workflow-language/v1.0/v1.0/testdir/a": [
        "/Users/gijs/Work/common-workflow-language/v1.0/v1.0/testdir/a",
        "/private/var/folders/qs/hpsrfjwx0313rdk2t7jj2ddw0000gn/T/tmpuBVMn8/work_dir/a",
        "File"
    ],
    "file:///Users/gijs/Work/common-workflow-language/v1.0/v1.0/testdir": [
        "file:///Users/gijs/Work/common-workflow-language/v1.0/v1.0/testdir",
        "/private/var/folders/qs/hpsrfjwx0313rdk2t7jj2ddw0000gn/T/tmpuBVMn8/work_dir",
        "Directory"
    ]
}
[job recursive-input-directory.cwl] completed success
[job recursive-input-directory.cwl] {
    "test_result": {
        "checksum": "sha1$a507d94dea7e758fbe8a143e608c3b048e37c9d2",
        "basename": "output.txt",
        "size": 50,
        "location": "file:///private/var/folders/qs/hpsrfjwx0313rdk2t7jj2ddw0000gn/T/tmpuBVMn8/output.txt",
        "class": "File"
    },
    "output_dir": {
        "basename": "work_dir",
        "listing": [
            {
                "checksum": "sha1$da39a3ee5e6b4b0d3255bfef95601890afd80709",
                "basename": "a",
                "size": 0,
                "class": "File",
                "location": "file:///private/var/folders/qs/hpsrfjwx0313rdk2t7jj2ddw0000gn/T/tmpuBVMn8/work_dir/a"
            },
            {
                "checksum": "sha1$da39a3ee5e6b4b0d3255bfef95601890afd80709",
                "basename": "b",
                "size": 0,
                "class": "File",
                "location": "file:///private/var/folders/qs/hpsrfjwx0313rdk2t7jj2ddw0000gn/T/tmpuBVMn8/work_dir/b"
            },
            {
                "basename": "c",
                "listing": [
                    {
                        "checksum": "sha1$da39a3ee5e6b4b0d3255bfef95601890afd80709",
                        "basename": "d",
                        "size": 0,
                        "class": "File",
                        "location": "file:///private/var/folders/qs/hpsrfjwx0313rdk2t7jj2ddw0000gn/T/tmpuBVMn8/work_dir/c/d"
                    }
                ],
                "class": "Directory",
                "location": "file:///private/var/folders/qs/hpsrfjwx0313rdk2t7jj2ddw0000gn/T/tmpuBVMn8/work_dir/c"
            },
            {
                "checksum": "sha1$da39a3ee5e6b4b0d3255bfef95601890afd80709",
                "basename": "e",
                "size": 0,
                "class": "File",
                "location": "file:///private/var/folders/qs/hpsrfjwx0313rdk2t7jj2ddw0000gn/T/tmpuBVMn8/work_dir/e"
            }
        ],
        "location": "file:///private/var/folders/qs/hpsrfjwx0313rdk2t7jj2ddw0000gn/T/tmpuBVMn8/work_dir",
        "class": "Directory"
    }
}
[job recursive-input-directory.cwl] Removing input staging directory /private/var/folders/qs/hpsrfjwx0313rdk2t7jj2ddw0000gn/T/tmpXvxTgT
{
    "test_result": {
        "checksum": "sha1$a507d94dea7e758fbe8a143e608c3b048e37c9d2",
        "basename": "output.txt",
        "location": "file:///private/var/folders/qs/hpsrfjwx0313rdk2t7jj2ddw0000gn/T/tmpuBVMn8/output.txt",
        "path": "/private/var/folders/qs/hpsrfjwx0313rdk2t7jj2ddw0000gn/T/tmpuBVMn8/output.txt",
        "class": "File",
        "size": 50
    },
    "output_dir": {
        "path": "/private/var/folders/qs/hpsrfjwx0313rdk2t7jj2ddw0000gn/T/tmpuBVMn8/work_dir",
        "basename": "work_dir",
        "listing": [
            {
                "checksum": "sha1$da39a3ee5e6b4b0d3255bfef95601890afd80709",
                "basename": "a",
                "location": "file:///private/var/folders/qs/hpsrfjwx0313rdk2t7jj2ddw0000gn/T/tmpuBVMn8/work_dir/a",
                "path": "/private/var/folders/qs/hpsrfjwx0313rdk2t7jj2ddw0000gn/T/tmpuBVMn8/work_dir/a",
                "class": "File",
                "size": 0
            },
            {
                "checksum": "sha1$da39a3ee5e6b4b0d3255bfef95601890afd80709",
                "basename": "b",
                "location": "file:///private/var/folders/qs/hpsrfjwx0313rdk2t7jj2ddw0000gn/T/tmpuBVMn8/work_dir/b",
                "path": "/private/var/folders/qs/hpsrfjwx0313rdk2t7jj2ddw0000gn/T/tmpuBVMn8/work_dir/b",
                "class": "File",
                "size": 0
            },
            {
                "path": "/private/var/folders/qs/hpsrfjwx0313rdk2t7jj2ddw0000gn/T/tmpuBVMn8/work_dir/c",
                "basename": "c",
                "listing": [
                    {
                        "checksum": "sha1$da39a3ee5e6b4b0d3255bfef95601890afd80709",
                        "basename": "d",
                        "location": "file:///private/var/folders/qs/hpsrfjwx0313rdk2t7jj2ddw0000gn/T/tmpuBVMn8/work_dir/c/d",
                        "path": "/private/var/folders/qs/hpsrfjwx0313rdk2t7jj2ddw0000gn/T/tmpuBVMn8/work_dir/c/d",
                        "class": "File",
                        "size": 0
                    }
                ],
                "class": "Directory",
                "location": "file:///private/var/folders/qs/hpsrfjwx0313rdk2t7jj2ddw0000gn/T/tmpuBVMn8/work_dir/c"
            },
            {
                "checksum": "sha1$da39a3ee5e6b4b0d3255bfef95601890afd80709",
                "basename": "e",
                "location": "file:///private/var/folders/qs/hpsrfjwx0313rdk2t7jj2ddw0000gn/T/tmpuBVMn8/work_dir/e",
                "path": "/private/var/folders/qs/hpsrfjwx0313rdk2t7jj2ddw0000gn/T/tmpuBVMn8/work_dir/e",
                "class": "File",
                "size": 0
            }
        ],
        "location": "file:///private/var/folders/qs/hpsrfjwx0313rdk2t7jj2ddw0000gn/T/tmpuBVMn8/work_dir",
        "class": "Directory"
    }
}
Final process status is success