Created
January 16, 2018 05:47
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50th test failing
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| --- Running conformance test v1.0 on /Users/anton/.virtualenvs/reana-py3/bin/reana-cwl-runner --- | |
| [INFO] REANA Server URL ($REANA_SERVER_URL) is: http://192.168.99.100:31628 | |
| /Users/anton/.virtualenvs/reana-py3/bin/reana-cwl-runner 1.0.20171219150536 | |
| [INFO] /Users/anton/.virtualenvs/reana-py3/bin/reana-cwl-runner 1.0.20171219150536 | |
| [DEBUG] Running find_module: rdflib.plugins.memory... | |
| [DEBUG] Running load_module for rdflib.plugins.memory... | |
| [DEBUG] Excluded rdflib.plugins.memory from translation | |
| Search path is ['/Users/anton/Programming/CWL/common-workflow-language/v1.0/v1.0/search.cwl#main', '/Users/anton/.local/share/commonwl/v1.0/search.cwl#main', '/usr/local/share/commonwl/v1.0/search.cwl#main', '/usr/share/commonwl/v1.0/search.cwl#main'] | |
| [DEBUG] Search path is ['/Users/anton/Programming/CWL/common-workflow-language/v1.0/v1.0/search.cwl#main', '/Users/anton/.local/share/commonwl/v1.0/search.cwl#main', '/usr/local/share/commonwl/v1.0/search.cwl#main', '/usr/share/commonwl/v1.0/search.cwl#main'] | |
| [DEBUG] Running find_module: netrc... | |
| [DEBUG] Running load_module for netrc... | |
| [DEBUG] Excluded netrc from translation | |
| [DEBUG] Running find_module: shlex... | |
| [DEBUG] Running load_module for shlex... | |
| [DEBUG] Excluded shlex from translation | |
| [DEBUG] Running find_module: encodings.charmap... | |
| [DEBUG] Running load_module for encodings.charmap... | |
| [DEBUG] Excluded encodings.charmap from translation | |
| Resolved 'v1.0/search.cwl#main' to 'file:///Users/anton/Programming/CWL/common-workflow-language/v1.0/v1.0/search.cwl#main' | |
| [INFO] Resolved 'v1.0/search.cwl#main' to 'file:///Users/anton/Programming/CWL/common-workflow-language/v1.0/v1.0/search.cwl#main' | |
| [INFO] Connecting to http://192.168.99.100:31628 | |
| [ERROR] {'message': 'Workflow workspace created', 'workflow_id': '1d6e243a-3b19-4463-bd83-5746ca23eedb'} | |
| [ERROR] {'message': 'File successfully transferred', 'workflow_id': None} | |
| [ERROR] Transferred file: /Users/anton/Programming/CWL/common-workflow-language/v1.0/v1.0/index.py | |
| [ERROR] {'message': 'File successfully transferred', 'workflow_id': None} | |
| [ERROR] Transferred file: /Users/anton/Programming/CWL/common-workflow-language/v1.0/v1.0/search.py | |
| [ERROR] {'message': 'File successfully transferred', 'workflow_id': None} | |
| [ERROR] Transferred file: /Users/anton/Programming/CWL/common-workflow-language/v1.0/v1.0/whale.txt | |
| [ERROR] {'message': 'File successfully transferred', 'workflow_id': None} | |
| [ERROR] Transferred file: /Users/anton/Programming/CWL/common-workflow-language/v1.0/v1.0/hello.txt | |
| [ERROR] {'message': 'Workflow successfully launched', 'organization': 'default', 'status': 'running', 'user': '00000000-0000-0000-0000-000000000000', 'workflow_id': '1d6e243a-3b19-4463-bd83-5746ca23eedb'} | |
| [ERROR] Polling workflow logs | |
| [ERROR] Polling workflow logs | |
| [ERROR] Polling workflow logs | |
| [ERROR] Polling workflow logs | |
| [ERROR] /usr/local/bin/celery 0.0.1.dev20170912 with cwltool 1.0.20171227212058Search path is [u'/data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/workflow.json#main', u'/root/.local/share/commonwl/workflow.json#main', u'/usr/local/share/commonwl/workflow.json#main', u'/usr/share/commonwl/workflow.json#main'] | |
| [ERROR] Polling workflow logs | |
| [ERROR] Polling workflow logs | |
| [ERROR] Resolved 'workflow.json#main' to 'file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/workflow.json#main' | |
| [ERROR] Polling workflow logs | |
| [ERROR] Polling workflow logs | |
| [ERROR] [workflow main_2] initialized from file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/workflow.json#main[workflow main_2] start[workflow main_2] starting step index_2[job step index_2] job input { | |
| "file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/workflow.json#main/index/secondfile": { | |
| "class": "File", | |
| "location": "file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/hello.txt", | |
| "size": 13, | |
| "basename": "hello.txt", | |
| "nameroot": "hello", | |
| "nameext": ".txt" | |
| }, | |
| "file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/workflow.json#main/index/file": { | |
| "class": "File", | |
| "location": "file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/whale.txt", | |
| "size": 1111, | |
| "basename": "whale.txt", | |
| "nameroot": "whale", | |
| "nameext": ".txt" | |
| } | |
| }[job step index_2] evaluated job input to { | |
| "file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/workflow.json#main/index/secondfile": { | |
| "class": "File", | |
| "location": "file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/hello.txt", | |
| "size": 13, | |
| "basename": "hello.txt", | |
| "nameroot": "hello", | |
| "nameext": ".txt" | |
| }, | |
| "file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/workflow.json#main/index/file": { | |
| "class": "File", | |
| "location": "file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/whale.txt", | |
| "size": 1111, | |
| "basename": "whale.txt", | |
| "nameroot": "whale", | |
| "nameext": ".txt" | |
| } | |
| }[step index_2] start[job index_2] initializing from file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/workflow.json#index as part of step index_2[job index_2] { | |
| "secondfile": { | |
| "class": "File", | |
| "location": "file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/hello.txt", | |
| "size": 13, | |
| "basename": "hello.txt", | |
| "nameroot": "hello", | |
| "nameext": ".txt" | |
| }, | |
| "file": { | |
| "class": "File", | |
| "location": "file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/whale.txt", | |
| "size": 1111, | |
| "basename": "whale.txt", | |
| "nameroot": "whale", | |
| "nameext": ".txt" | |
| } | |
| }[job index_2] path mappings is { | |
| "file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/index.py": [ | |
| "/data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/index.py", | |
| "/data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/cwl/docker_stagedir/stg3f93aae2-304f-4387-a839-13c43d50f91a/index.py", | |
| "File", | |
| true | |
| ], | |
| "file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/whale.txt": [ | |
| "/data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/whale.txt", | |
| "/data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/cwl/docker_outdir/input.txt", | |
| "File", | |
| false | |
| ], | |
| "file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/hello.txt": [ | |
| "/data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/hello.txt", | |
| "/data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/cwl/docker_stagedir/stg87f3db59-a044-4bec-a7aa-ac4f93c4b6de/hello.txt", | |
| "File", | |
| true | |
| ] | |
| }[job index_2] command line bindings is [ | |
| { | |
| "position": [ | |
| -1000000, | |
| 0 | |
| ], | |
| "datum": "python" | |
| }, | |
| { | |
| "position": [ | |
| 0, | |
| "index.py" | |
| ], | |
| "datum": { | |
| "class": "File", | |
| "location": "file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/index.py", | |
| "basename": "index.py", | |
| "nameroot": "index", | |
| "nameext": ".py", | |
| "path": "/data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/cwl/docker_stagedir/stg3f93aae2-304f-4387-a839-13c43d50f91a/index.py", | |
| "dirname": "/data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/cwl/docker_stagedir/stg3f93aae2-304f-4387-a839-13c43d50f91a" | |
| } | |
| }, | |
| { | |
| "position": [ | |
| 1, | |
| 0 | |
| ], | |
| "valueFrom": "input.txt" | |
| } | |
| ][job index_2] initial work dir { | |
| "file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/whale.txt": [ | |
| "/data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/whale.txt", | |
| "/data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/cwl/docker_outdir/input.txt", | |
| "File", | |
| true | |
| ] | |
| } | |
| [ERROR] Polling workflow logs | |
| [ERROR] [workflow main_2] job step file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/workflow.json#main/search not ready[workflow main_2] job step file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/workflow.json#main/search not ready | |
| [ERROR] Polling workflow logs | |
| [ERROR] [workflow main_2] job step file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/workflow.json#main/search not ready | |
| [ERROR] Polling workflow logs | |
| [ERROR] [workflow main_2] job step file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/workflow.json#main/search not ready | |
| [ERROR] Polling workflow logs | |
| [ERROR] [workflow main_2] job step file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/workflow.json#main/search not ready | |
| [ERROR] Polling workflow logs | |
| [ERROR] [step index_2] produced output { | |
| "file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/workflow.json#main/index/result": { | |
| "checksum": "sha1$327fc7aedf4f6b69a42a7c8b808dc5a7aff61376", | |
| "basename": "input.txt", | |
| "nameext": ".txt", | |
| "nameroot": "input", | |
| "http://commonwl.org/cwltool#generation": 0, | |
| "location": "/data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/whale.txt", | |
| "secondaryFiles": [ | |
| { | |
| "checksum": "sha1$553f3a09003a9f69623f03bec13c0b078d706023", | |
| "basename": "input.txt.idx1", | |
| "nameroot": "input.txt", | |
| "nameext": ".idx1", | |
| "http://commonwl.org/cwltool#generation": 0, | |
| "location": "file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/cwl/outdir/Q6F8N3/input.txt.idx1", | |
| "class": "File", | |
| "size": 1500 | |
| }, | |
| { | |
| "checksum": "sha1$da39a3ee5e6b4b0d3255bfef95601890afd80709", | |
| "basename": "input.idx2", | |
| "nameroot": "input", | |
| "nameext": ".idx2", | |
| "http://commonwl.org/cwltool#generation": 0, | |
| "location": "file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/cwl/outdir/Q6F8N3/input.idx2", | |
| "class": "File", | |
| "size": 0 | |
| }, | |
| { | |
| "checksum": "sha1$da39a3ee5e6b4b0d3255bfef95601890afd80709", | |
| "basename": "input.txt.idx3", | |
| "nameroot": "input.txt", | |
| "nameext": ".idx3", | |
| "http://commonwl.org/cwltool#generation": 0, | |
| "location": "file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/cwl/outdir/Q6F8N3/input.txt.idx3", | |
| "class": "File", | |
| "size": 0 | |
| }, | |
| { | |
| "checksum": "sha1$da39a3ee5e6b4b0d3255bfef95601890afd80709", | |
| "basename": "input.txt.idx4", | |
| "nameroot": "input.txt", | |
| "nameext": ".idx4", | |
| "http://commonwl.org/cwltool#generation": 0, | |
| "location": "file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/cwl/outdir/Q6F8N3/input.txt.idx4", | |
| "class": "File", | |
| "size": 0 | |
| }, | |
| { | |
| "checksum": "sha1$da39a3ee5e6b4b0d3255bfef95601890afd80709", | |
| "basename": "input.txt.idx5", | |
| "nameroot": "input.txt", | |
| "nameext": ".idx5", | |
| "http://commonwl.org/cwltool#generation": 0, | |
| "location": "file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/cwl/outdir/Q6F8N3/input.txt.idx5", | |
| "class": "File", | |
| "size": 0 | |
| }, | |
| { | |
| "checksum": "sha1$da39a3ee5e6b4b0d3255bfef95601890afd80709", | |
| "basename": "input.idx6.txt", | |
| "nameroot": "input.idx6", | |
| "nameext": ".txt", | |
| "http://commonwl.org/cwltool#generation": 0, | |
| "location": "file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/cwl/outdir/Q6F8N3/input.idx6.txt", | |
| "class": "File", | |
| "size": 0 | |
| }, | |
| { | |
| "checksum": "sha1$da39a3ee5e6b4b0d3255bfef95601890afd80709", | |
| "basename": "input.txt.idx7", | |
| "nameroot": "input.txt", | |
| "nameext": ".idx7", | |
| "http://commonwl.org/cwltool#generation": 0, | |
| "location": "file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/cwl/outdir/Q6F8N3/input.txt.idx7", | |
| "class": "File", | |
| "size": 0 | |
| }, | |
| { | |
| "checksum": "sha1$47a013e660d408619d894b20806b1d5086aab03b", | |
| "basename": "hello.txt", | |
| "nameroot": "hello", | |
| "nameext": ".txt", | |
| "http://commonwl.org/cwltool#generation": 0, | |
| "location": "/data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/hello.txt", | |
| "dirname": "/data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/cwl/docker_stagedir/stg87f3db59-a044-4bec-a7aa-ac4f93c4b6de", | |
| "class": "File", | |
| "size": 13 | |
| }, | |
| { | |
| "basename": "input.txt_idx8", | |
| "location": "file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/cwl/outdir/Q6F8N3/input.txt_idx8", | |
| "class": "Directory" | |
| } | |
| ], | |
| "class": "File", | |
| "size": 1111 | |
| } | |
| }[step index_2] completed success[workflow main_2] starting step search_2[job step search_2] job input { | |
| "file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/workflow.json#main/search/file": { | |
| "checksum": "sha1$327fc7aedf4f6b69a42a7c8b808dc5a7aff61376", | |
| "basename": "input.txt", | |
| "nameext": ".txt", | |
| "nameroot": "input", | |
| "http://commonwl.org/cwltool#generation": 0, | |
| "location": "/data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/whale.txt", | |
| "secondaryFiles": [ | |
| { | |
| "checksum": "sha1$553f3a09003a9f69623f03bec13c0b078d706023", | |
| "basename": "input.txt.idx1", | |
| "nameroot": "input.txt", | |
| "nameext": ".idx1", | |
| "http://commonwl.org/cwltool#generation": 0, | |
| "location": "file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/cwl/outdir/Q6F8N3/input.txt.idx1", | |
| "class": "File", | |
| "size": 1500 | |
| }, | |
| { | |
| "checksum": "sha1$da39a3ee5e6b4b0d3255bfef95601890afd80709", | |
| "basename": "input.idx2", | |
| "nameroot": "input", | |
| "nameext": ".idx2", | |
| "http://commonwl.org/cwltool#generation": 0, | |
| "location": "file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/cwl/outdir/Q6F8N3/input.idx2", | |
| "class": "File", | |
| "size": 0 | |
| }, | |
| { | |
| "checksum": "sha1$da39a3ee5e6b4b0d3255bfef95601890afd80709", | |
| "basename": "input.txt.idx3", | |
| "nameroot": "input.txt", | |
| "nameext": ".idx3", | |
| "http://commonwl.org/cwltool#generation": 0, | |
| "location": "file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/cwl/outdir/Q6F8N3/input.txt.idx3", | |
| "class": "File", | |
| "size": 0 | |
| }, | |
| { | |
| "checksum": "sha1$da39a3ee5e6b4b0d3255bfef95601890afd80709", | |
| "basename": "input.txt.idx4", | |
| "nameroot": "input.txt", | |
| "nameext": ".idx4", | |
| "http://commonwl.org/cwltool#generation": 0, | |
| "location": "file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/cwl/outdir/Q6F8N3/input.txt.idx4", | |
| "class": "File", | |
| "size": 0 | |
| }, | |
| { | |
| "checksum": "sha1$da39a3ee5e6b4b0d3255bfef95601890afd80709", | |
| "basename": "input.txt.idx5", | |
| "nameroot": "input.txt", | |
| "nameext": ".idx5", | |
| "http://commonwl.org/cwltool#generation": 0, | |
| "location": "file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/cwl/outdir/Q6F8N3/input.txt.idx5", | |
| "class": "File", | |
| "size": 0 | |
| }, | |
| { | |
| "checksum": "sha1$da39a3ee5e6b4b0d3255bfef95601890afd80709", | |
| "basename": "input.idx6.txt", | |
| "nameroot": "input.idx6", | |
| "nameext": ".txt", | |
| "http://commonwl.org/cwltool#generation": 0, | |
| "location": "file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/cwl/outdir/Q6F8N3/input.idx6.txt", | |
| "class": "File", | |
| "size": 0 | |
| }, | |
| { | |
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| "http://commonwl.org/cwltool#generation": 0, | |
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| }[job step search_2] evaluated job input to { | |
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| "location": "/data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/hello.txt", | |
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| { | |
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| }[step search_2] startunrecognized extension field `http://commonwl.org/cwltool#generation`. Did you include a $schemas section?unrecognized extension field `http://commonwl.org/cwltool#generation`. Did you include a $schemas section?unrecognized extension field `http://commonwl.org/cwltool#generation`. Did you include a $schemas section?unrecognized extension field `http://commonwl.org/cwltool#generation`. Did you include a $schemas section?unrecognized extension field `http://commonwl.org/cwltool#generation`. Did you include a $schemas section?unrecognized extension field `http://commonwl.org/cwltool#generation`. Did you include a $schemas section?unrecognized extension field `http://commonwl.org/cwltool#generation`. Did you include a $schemas section?unrecognized extension field `http://commonwl.org/cwltool#generation`. Did you include a $schemas section?unrecognized extension field `http://commonwl.org/cwltool#generation`. Did you include a $schemas section?[job search_2] initializing from file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/workflow.json#search as part of step search_2[job search_2] { | |
| "term": "find", | |
| "file": { | |
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| "basename": "input.txt", | |
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| "http://commonwl.org/cwltool#generation": 0, | |
| "location": "/data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/whale.txt", | |
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| { | |
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| { | |
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| { | |
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| "http://commonwl.org/cwltool#generation": 0, | |
| "location": "/data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/hello.txt", | |
| "dirname": "/data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/cwl/docker_stagedir/stg87f3db59-a044-4bec-a7aa-ac4f93c4b6de", | |
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| { | |
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| "location": "file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/cwl/outdir/Q6F8N3/input.txt_idx8", | |
| "class": "Directory" | |
| } | |
| ], | |
| "class": "File", | |
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| } | |
| }[job search_2] path mappings is { | |
| "file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/cwl/outdir/Q6F8N3/input.txt.idx1": [ | |
| "/data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/cwl/outdir/Q6F8N3/input.txt.idx1", | |
| "/data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/cwl/docker_stagedir/stga943da51-11de-47fd-8259-67ae0ecb1f0c/input.txt.idx1", | |
| "File", | |
| true | |
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| "file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/cwl/outdir/Q6F8N3/input.txt.idx3": [ | |
| "/data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/cwl/outdir/Q6F8N3/input.txt.idx3", | |
| "/data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/cwl/docker_stagedir/stga943da51-11de-47fd-8259-67ae0ecb1f0c/input.txt.idx3", | |
| "File", | |
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| "/data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/cwl/docker_stagedir/stga943da51-11de-47fd-8259-67ae0ecb1f0c/input.txt.idx4", | |
| "File", | |
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| "/data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/cwl/docker_stagedir/stga943da51-11de-47fd-8259-67ae0ecb1f0c/input.txt.idx5", | |
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| "/data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/whale.txt", | |
| "/data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/cwl/docker_stagedir/stga943da51-11de-47fd-8259-67ae0ecb1f0c/input.txt", | |
| "File", | |
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| "/data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/hello.txt": [ | |
| "/data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/hello.txt", | |
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| "/data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/cwl/docker_stagedir/stgd6c4ec83-bd6f-4958-95ac-e22f9b056797/search.py", | |
| "File", | |
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| "/data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/cwl/outdir/Q6F8N3/input.txt_idx8", | |
| "/data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/cwl/docker_stagedir/stga943da51-11de-47fd-8259-67ae0ecb1f0c/input.txt_idx8", | |
| "Directory", | |
| true | |
| ] | |
| }[job search_2] command line bindings is [ | |
| { | |
| "position": [ | |
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| 0 | |
| ], | |
| "datum": "python" | |
| }, | |
| { | |
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| "search.py" | |
| ], | |
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| "location": "file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/search.py", | |
| "basename": "search.py", | |
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| [ERROR] Polling workflow logs | |
| [ERROR] Polling workflow logs | |
| [ERROR] Polling workflow logs | |
| [ERROR] Polling workflow logs | |
| [ERROR] Polling workflow logs | |
| [ERROR] Polling workflow logs | |
| [ERROR] Polling workflow logs | |
| [ERROR] Polling workflow logs | |
| [ERROR] Polling workflow logs | |
| [ERROR] Polling workflow logs | |
| [ERROR] Polling workflow logs | |
| [ERROR] [step search_2] produced output { | |
| "file:///data/00000000-0000-0000-0000-000000000000/analyses/1d6e243a-3b19-4463-bd83-5746ca23eedb/workspace/workflow.json#main/search/result": { | |
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| "size": 142 | |
| } | |
| }[step search_2] completed success[workflow main_2] completed success | |
| [ERROR] Polling workflow logs | |
| [ERROR] Final process status is success{ | |
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| 1 tool tests failed |
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