diff --git a/docs/conformance/1.0/conformance.md b/docs/conformance/1.0/conformance.md index cf15deb..bfd3a76 100644 --- a/docs/conformance/1.0/conformance.md +++ b/docs/conformance/1.0/conformance.md @@ -27,4 +27,4 @@ ### Conformance output -[log](../result-1.0.txt) \ No newline at end of file +[log](../result-1.0.txt){:download} \ No newline at end of file diff --git a/docs/conformance/1.0/result-1-0.txt b/docs/conformance/1.0/result-1-0.txt index ecf04ce..30dab07 100644 --- a/docs/conformance/1.0/result-1-0.txt +++ b/docs/conformance/1.0/result-1-0.txt @@ -1,398 +1,405 @@ Test [1/197] cl_basic_generation: General test of command line generation +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmplhizum2n --quiet v1.0/v1.0/bwa-mem-tool.cwl v1.0/v1.0/bwa-mem-job.json Test [2/197] nested_prefixes_arrays: Test nested prefixes with arrays +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpw6zrs4j9 --quiet v1.0/v1.0/binding-test.cwl v1.0/v1.0/bwa-mem-job.json Test [3/197] nested_cl_bindings: Test nested command line bindings +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmp7g1o5pr7 --quiet v1.0/v1.0/tmap-tool.cwl v1.0/v1.0/tmap-job.json Test [4/197] cl_optional_inputs_missing: Test command line with optional input (missing) +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmprx5hi_37 --quiet v1.0/v1.0/cat1-testcli.cwl v1.0/v1.0/cat-job.json Test [5/197] cl_optional_bindings_provided: Test command line with optional input (provided) +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpvdg2d_nv --quiet v1.0/v1.0/cat1-testcli.cwl v1.0/v1.0/cat-n-job.json Test [6/197] initworkdir_expreng_requirements: Test InitialWorkDirRequirement ExpressionEngineRequirement.engineConfig feature +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmp0sslyngx --quiet v1.0/v1.0/template-tool.cwl v1.0/v1.0/cat-job.json +WARNING v1.0/v1.0/template-tool.cwl:7:9: JSHINT: exports = module.exports = _; +v1.0/v1.0/template-tool.cwl:7:9: JSHINT: ^ +v1.0/v1.0/template-tool.cwl:7:9: JSHINT: W117: 'exports' is not defined. +WARNING v1.0/v1.0/template-tool.cwl:7:9: JSHINT: exports._ = _; +v1.0/v1.0/template-tool.cwl:7:9: JSHINT: ^ +v1.0/v1.0/template-tool.cwl:7:9: JSHINT: W117: 'exports' is not defined. +WARNING v1.0/v1.0/template-tool.cwl:7:9: JSHINT: if (typeof module !== 'undefined' && module.exports) { +v1.0/v1.0/template-tool.cwl:7:9: JSHINT: ^ +v1.0/v1.0/template-tool.cwl:7:9: JSHINT: W117: 'module' is not defined. +WARNING v1.0/v1.0/template-tool.cwl:7:9: JSHINT: exports = module.exports = _; +v1.0/v1.0/template-tool.cwl:7:9: JSHINT: ^ +v1.0/v1.0/template-tool.cwl:7:9: JSHINT: W117: 'module' is not defined. +WARNING v1.0/v1.0/template-tool.cwl:7:9: JSHINT: return setTimeout(function(){ +v1.0/v1.0/template-tool.cwl:7:9: JSHINT: ^ +v1.0/v1.0/template-tool.cwl:7:9: JSHINT: W117: 'setTimeout' is not defined. +WARNING v1.0/v1.0/template-tool.cwl:7:9: JSHINT: timeout = setTimeout(later, remaining); +v1.0/v1.0/template-tool.cwl:7:9: JSHINT: ^ +v1.0/v1.0/template-tool.cwl:7:9: JSHINT: W117: 'setTimeout' is not defined. +WARNING v1.0/v1.0/template-tool.cwl:7:9: JSHINT: timeout = setTimeout(later, wait - last); +v1.0/v1.0/template-tool.cwl:7:9: JSHINT: ^ +v1.0/v1.0/template-tool.cwl:7:9: JSHINT: W117: 'setTimeout' is not defined. +WARNING v1.0/v1.0/template-tool.cwl:7:9: JSHINT: if (!timeout) timeout = setTimeout(later, wait); +v1.0/v1.0/template-tool.cwl:7:9: JSHINT: ^ +v1.0/v1.0/template-tool.cwl:7:9: JSHINT: W117: 'setTimeout' is not defined. +WARNING v1.0/v1.0/template-tool.cwl:7:9: JSHINT: clearTimeout(timeout); +v1.0/v1.0/template-tool.cwl:7:9: JSHINT: ^ +v1.0/v1.0/template-tool.cwl:7:9: JSHINT: W117: 'clearTimeout' is not defined. +WARNING v1.0/v1.0/template-tool.cwl:7:9: JSHINT: root._ = previousUnderscore; +v1.0/v1.0/template-tool.cwl:7:9: JSHINT: ^ +v1.0/v1.0/template-tool.cwl:7:9: JSHINT: W117: 'previousUnderscore' is not defined. +WARNING v1.0/v1.0/template-tool.cwl:7:9: JSHINT: if (typeof define === 'function' && define.amd) { +v1.0/v1.0/template-tool.cwl:7:9: JSHINT: ^ +v1.0/v1.0/template-tool.cwl:7:9: JSHINT: W117: 'define' is not defined. +WARNING v1.0/v1.0/template-tool.cwl:7:9: JSHINT: define('underscore', [], function() { +v1.0/v1.0/template-tool.cwl:7:9: JSHINT: ^ +v1.0/v1.0/template-tool.cwl:7:9: JSHINT: W117: 'define' is not defined. +WARNING v1.0/v1.0/template-tool.cwl:8:9: JSHINT: var t = function(s) { return _.template(s, {variable: 'data'})({'inputs': inputs}); }; +v1.0/v1.0/template-tool.cwl:8:9: JSHINT: ^ +v1.0/v1.0/template-tool.cwl:8:9: JSHINT: W117: '_' is not defined. Test [7/197] stdout_redirect_docker: Test command execution in Docker with stdout redirection +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpp9dw8a2l --quiet v1.0/v1.0/cat3-tool-docker.cwl v1.0/v1.0/cat-job.json Test [8/197] stdout_redirect_shortcut_docker: Test command execution in Docker with shortcut stdout redirection +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpkg2jt22s --quiet v1.0/v1.0/cat3-tool-shortcut.cwl v1.0/v1.0/cat-job.json Test [9/197] stdout_redirect_mediumcut_docker: Test command execution in Docker with mediumcut stdout redirection +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmp8ibbiv2_ --quiet v1.0/v1.0/cat3-tool-mediumcut.cwl v1.0/v1.0/cat-job.json Test [10/197] stderr_redirect: Test command line with stderr redirection +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpug2kwvgx --quiet v1.0/v1.0/stderr.cwl v1.0/v1.0/empty.json Test [11/197] stderr_redirect_shortcut: Test command line with stderr redirection, brief syntax +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmph4o55fd0 --quiet v1.0/v1.0/stderr-shortcut.cwl v1.0/v1.0/empty.json Test [12/197] stderr_redirect_mediumcut: Test command line with stderr redirection, named brief syntax +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmp78rqp7vi --quiet v1.0/v1.0/stderr-mediumcut.cwl v1.0/v1.0/empty.json Test [13/197] stdinout_redirect_docker: Test command execution in Docker with stdin and stdout redirection +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpoi5q6ali --quiet v1.0/v1.0/cat4-tool.cwl v1.0/v1.0/cat-job.json Test [14/197] expression_any: Test default usage of Any in expressions. +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpf78k5k1p --quiet v1.0/v1.0/null-expression1-tool.cwl v1.0/v1.0/empty.json Test [15/197] expression_any_null: Test explicitly passing null to Any type inputs with default values. +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmp4u66uc35 --quiet v1.0/v1.0/null-expression1-tool.cwl v1.0/v1.0/null-expression1-job.json Test [16/197] expression_any_string: Testing the string 'null' does not trip up an Any with a default value. +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmp6vvcyqpb --quiet v1.0/v1.0/null-expression1-tool.cwl v1.0/v1.0/null-expression2-job.json Test [17/197] expression_any_nodefaultany: Test Any without defaults cannot be unspecified. +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmphr5i7jbc --quiet v1.0/v1.0/null-expression2-tool.cwl v1.0/v1.0/empty.json +ERROR Workflow error, try again with --debug for more information: +Invalid job input record: +v1.0/v1.0/null-expression2-tool.cwl:9:3: Missing required input parameter 'i1' Test [18/197] expression_any_null_nodefaultany: Test explicitly passing null to Any type without a default value. +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmplhtzpxqk --quiet v1.0/v1.0/null-expression2-tool.cwl v1.0/v1.0/null-expression1-job.json +ERROR Workflow error, try again with --debug for more information: +Invalid job input record: +v1.0/v1.0/null-expression2-tool.cwl:9:3: Missing required input parameter 'i1' Test [19/197] expression_any_nullstring_nodefaultany: Testing the string 'null' does not trip up an Any without a default value. +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmp7ngtqmaq --quiet v1.0/v1.0/null-expression2-tool.cwl v1.0/v1.0/null-expression2-job.json Test [20/197] any_outputSource_compatibility: Testing Any type compatibility in outputSource +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmp8eo5hk1_ --quiet v1.0/v1.0/any-type-compat.cwl v1.0/v1.0/any-type-job.json Test [21/197] stdinout_redirect: Test command execution in with stdin and stdout redirection +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmp3d_zgqgt --quiet v1.0/v1.0/cat-tool.cwl v1.0/v1.0/cat-job.json Test [22/197] expression_parseint: Test ExpressionTool with Javascript engine +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpdxxhx_sl --quiet v1.0/v1.0/parseInt-tool.cwl v1.0/v1.0/parseInt-job.json Test [23/197] expression_outputEval: Test outputEval to transform output +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmplrm3jnma --quiet v1.0/v1.0/wc2-tool.cwl v1.0/v1.0/wc-job.json Test [24/197] wf_wc_parseInt: Test two step workflow with imported tools +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmp_qc1i8tc --quiet v1.0/v1.0/count-lines1-wf.cwl v1.0/v1.0/wc-job.json Test [25/197] wf_wc_expressiontool: Test two step workflow with inline tools +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpsia_f99w --quiet v1.0/v1.0/count-lines2-wf.cwl v1.0/v1.0/wc-job.json Test [26/197] wf_wc_scatter: Test single step workflow with Scatter step +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpf5su3uln --quiet v1.0/v1.0/count-lines3-wf.cwl v1.0/v1.0/count-lines3-job.json Test [27/197] wf_wc_scatter_multiple_merge: Test single step workflow with Scatter step and two data links connected to same input, default merge behavior +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpmwues5g1 --quiet v1.0/v1.0/count-lines4-wf.cwl v1.0/v1.0/count-lines4-job.json Test [28/197] wf_wc_scatter_multiple_nested: Test single step workflow with Scatter step and two data links connected to same input, nested merge behavior +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmp8j3bfvvl --quiet v1.0/v1.0/count-lines6-wf.cwl v1.0/v1.0/count-lines6-job.json Test [29/197] wf_wc_scatter_multiple_flattened: Test single step workflow with Scatter step and two data links connected to same input, flattened merge behavior +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmp9y3hsv5y --quiet v1.0/v1.0/count-lines7-wf.cwl v1.0/v1.0/count-lines6-job.json Test [30/197] wf_wc_nomultiple: Test that no MultipleInputFeatureRequirement is necessary when workflow step source is a single-item list +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmp0cfvny0n --quiet v1.0/v1.0/count-lines13-wf.cwl v1.0/v1.0/count-lines6-job.json Test [31/197] wf_input_default_missing: Test workflow with default value for input parameter (missing) +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpx3vrvnv_ --quiet v1.0/v1.0/count-lines5-wf.cwl v1.0/v1.0/empty.json Test [32/197] wf_input_default_provided: Test workflow with default value for input parameter (provided) +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmp281clgu_ --quiet v1.0/v1.0/count-lines5-wf.cwl v1.0/v1.0/wc-job.json Test [33/197] wf_default_tool_default: Test that workflow defaults override tool defaults +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmprugp03k2 --quiet v1.0/v1.0/echo-wf-default.cwl v1.0/v1.0/empty.json Test [34/197] envvar_req: Test EnvVarRequirement +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpzby31jnu --quiet v1.0/v1.0/env-tool1.cwl v1.0/v1.0/env-job.json Test [35/197] wf_scatter_single_param: Test workflow scatter with single scatter parameter +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpqm1gm3on --quiet v1.0/v1.0/scatter-wf1.cwl v1.0/v1.0/scatter-job1.json Test [36/197] wf_scatter_two_nested_crossproduct: Test workflow scatter with two scatter parameters and nested_crossproduct join method +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmppb2w5b87 --quiet v1.0/v1.0/scatter-wf2.cwl v1.0/v1.0/scatter-job2.json Test [37/197] wf_scatter_two_flat_crossproduct: Test workflow scatter with two scatter parameters and flat_crossproduct join method +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpwjt2_ma7 --quiet v1.0/v1.0/scatter-wf3.cwl#main v1.0/v1.0/scatter-job2.json Test [38/197] wf_scatter_two_dotproduct: Test workflow scatter with two scatter parameters and dotproduct join method +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmppjpk55cc --quiet v1.0/v1.0/scatter-wf4.cwl#main v1.0/v1.0/scatter-job2.json Test [39/197] wf_scatter_emptylist: Test workflow scatter with single empty list parameter +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpgq_v2tvs --quiet v1.0/v1.0/scatter-wf1.cwl v1.0/v1.0/scatter-empty-job1.json +WARNING [job step step1] Notice: scattering over empty input in 'echo_in'. All outputs will be empty. Test [40/197] wf_scatter_nested_crossproduct_secondempty: Test workflow scatter with two scatter parameters and nested_crossproduct join method with second list empty +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpi_ga_pb9 --quiet v1.0/v1.0/scatter-wf2.cwl v1.0/v1.0/scatter-empty-job2.json +WARNING [job step step1] Notice: scattering over empty input in 'echo_in2'. All outputs will be empty. Test [41/197] wf_scatter_nested_crossproduct_firstempty: Test workflow scatter with two scatter parameters and nested_crossproduct join method with first list empty +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmps4ocz9tq --quiet v1.0/v1.0/scatter-wf3.cwl#main v1.0/v1.0/scatter-empty-job3.json +WARNING [job step step1] Notice: scattering over empty input in 'echo_in1'. All outputs will be empty. Test [42/197] wf_scatter_flat_crossproduct_oneempty: Test workflow scatter with two scatter parameters, one of which is empty and flat_crossproduct join method +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpqaxt9mv0 --quiet v1.0/v1.0/scatter-wf3.cwl#main v1.0/v1.0/scatter-empty-job2.json +WARNING [job step step1] Notice: scattering over empty input in 'echo_in2'. All outputs will be empty. Test [43/197] wf_scatter_dotproduct_twoempty: Test workflow scatter with two empty scatter parameters and dotproduct join method +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpjdcbg6ls --quiet v1.0/v1.0/scatter-wf4.cwl#main v1.0/v1.0/scatter-empty-job4.json +WARNING [job step step1] Notice: scattering over empty input in 'echo_in1', 'echo_in2'. All outputs will be empty. Test [44/197] any_input_param: Test Any type input parameter +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmphnbyezhv --quiet v1.0/v1.0/echo-tool.cwl v1.0/v1.0/env-job.json Test [45/197] nested_workflow: Test nested workflow +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpe3tm3l5n --quiet v1.0/v1.0/count-lines8-wf.cwl v1.0/v1.0/wc-job.json Test [46/197] requirement_priority: Test requirement priority +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpekg4rheu --quiet v1.0/v1.0/env-wf1.cwl v1.0/v1.0/env-job.json Test [47/197] requirement_override_hints: Test requirements override hints +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpm74ki14h --quiet v1.0/v1.0/env-wf2.cwl v1.0/v1.0/env-job.json Test [48/197] requirement_workflow_steps: Test requirements on workflow steps +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpxuhoa_v3 --quiet v1.0/v1.0/env-wf3.cwl v1.0/v1.0/env-job.json Test [49/197] step_input_default_value: Test default value on step input parameter +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpktp2grtr --quiet v1.0/v1.0/count-lines9-wf.cwl v1.0/v1.0/empty.json Test [50/197] step_input_default_value_nosource: Test use default value on step input parameter with empty source +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpu83e2whe --quiet v1.0/v1.0/count-lines11-wf.cwl v1.0/v1.0/empty.json +WARNING Workflow checker warning: +v1.0/v1.0/count-lines11-wf.cwl:6:3: Source 'file1' of type ["null", "File"] may be incompatible +v1.0/v1.0/count-lines11-wf.cwl:17:7: with sink 'file1' of type "File" Test [51/197] step_input_default_value_nullsource: Test use default value on step input parameter with null source +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmplk7v35h9 --quiet v1.0/v1.0/count-lines11-wf.cwl v1.0/v1.0/file1-null.json +WARNING Workflow checker warning: +v1.0/v1.0/count-lines11-wf.cwl:6:3: Source 'file1' of type ["null", "File"] may be incompatible +v1.0/v1.0/count-lines11-wf.cwl:17:7: with sink 'file1' of type "File" Test [52/197] step_input_default_value_overriden: Test default value on step input parameter overridden by provided source +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpopaoqb7k --quiet v1.0/v1.0/count-lines11-wf.cwl v1.0/v1.0/cat-job.json +WARNING Workflow checker warning: +v1.0/v1.0/count-lines11-wf.cwl:6:3: Source 'file1' of type ["null", "File"] may be incompatible +v1.0/v1.0/count-lines11-wf.cwl:17:7: with sink 'file1' of type "File" Test [53/197] wf_simple: Test simple workflow +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpkepgn7t3 --quiet v1.0/v1.0/revsort.cwl v1.0/v1.0/revsort-job.json Test [54/197] hints_unknown_ignored: Test unknown hints are ignored. +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmp69ms9ah2 --quiet v1.0/v1.0/cat5-tool.cwl v1.0/v1.0/cat-job.json +v1.0/v1.0/cat5-tool.cwl:12:3: Warning: checking item + Warning: Field 'class' contains undefined reference to + 'http://example.com/BlibberBlubberFakeRequirement' Test [55/197] initial_workdir_secondary_files_expr: Test InitialWorkDirRequirement linking input files and capturing secondaryFiles on input and output. Also tests the use of a variety of parameter references and expressions in the secondaryFiles field. +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmp96wj9st1 --quiet v1.0/v1.0/search.cwl#main v1.0/v1.0/search-job.json +WARNING Workflow checker warning: +v1.0/v1.0/search.cwl:107:13: Source 'result' of type "File" may be incompatible +v1.0/v1.0/search.cwl:112:9: with sink 'file' of type "File" Test [56/197] rename: Test InitialWorkDirRequirement with expression in filename. +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpoc9y_ff0 --quiet v1.0/v1.0/rename.cwl v1.0/v1.0/rename-job.json Test [57/197] initial_workdir_trailingnl: Test if trailing newline is present in file entry in InitialWorkDir +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpzapab28t --quiet v1.0/v1.0/iwdr-entry.cwl v1.0/v1.0/string-job.json Test [58/197] inline_expressions: Test inline expressions +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmp0jvohjyd --quiet v1.0/v1.0/wc4-tool.cwl v1.0/v1.0/wc-job.json Test [59/197] schemadef_req_tool_param: Test SchemaDefRequirement definition used in tool parameter +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmp5u6pzg9o --quiet v1.0/v1.0/schemadef-tool.cwl v1.0/v1.0/schemadef-job.json Test [60/197] schemadef_req_wf_param: Test SchemaDefRequirement definition used in workflow parameter +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmp_ylh7jqk --quiet v1.0/v1.0/schemadef-wf.cwl v1.0/v1.0/schemadef-job.json Test [61/197] param_evaluation_noexpr: Test parameter evaluation, no support for JS expressions +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmp8tn5z4qt --quiet v1.0/v1.0/params.cwl v1.0/v1.0/empty.json Test [62/197] param_evaluation_expr: Test parameter evaluation, with support for JS expressions +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmphyux02yu --quiet v1.0/v1.0/params2.cwl v1.0/v1.0/empty.json Test [63/197] metadata: Test metadata +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmp97a_hho8 --quiet v1.0/v1.0/metadata.cwl v1.0/v1.0/cat-job.json Test [64/197] format_checking: Test simple format checking. +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpglsvia62 --quiet v1.0/v1.0/formattest.cwl v1.0/v1.0/formattest-job.json Test [65/197] format_checking_subclass: Test format checking against ontology using subclassOf. +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmp386tzjil --quiet v1.0/v1.0/formattest2.cwl v1.0/v1.0/formattest2-job.json Test [66/197] format_checking_equivalentclass: Test format checking against ontology using equivalentClass. +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpmr14ui87 --quiet v1.0/v1.0/formattest3.cwl v1.0/v1.0/formattest2-job.json Test [67/197] output_secondaryfile_optional: Test optional output file and optional secondaryFile on output. +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmp9ff8n52j --quiet v1.0/v1.0/optional-output.cwl v1.0/v1.0/cat-job.json Test [68/197] valuefrom_ignored_null: Test that valueFrom is ignored when the parameter is null +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmp5znexwex --quiet v1.0/v1.0/vf-concat.cwl v1.0/v1.0/empty.json Test [69/197] valuefrom_secondexpr_ignored: Test that second expression in concatenated valueFrom is not ignored +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmp3g1gav_f --quiet v1.0/v1.0/vf-concat.cwl v1.0/v1.0/cat-job.json Test [70/197] valuefrom_wf_step: Test valueFrom on workflow step. +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpwalew0qt --quiet v1.0/v1.0/step-valuefrom-wf.cwl v1.0/v1.0/step-valuefrom-wf.json Test [71/197] valuefrom_wf_step_multiple: Test valueFrom on workflow step with multiple sources +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmp2yo0a4n7 --quiet v1.0/v1.0/step-valuefrom2-wf.cwl v1.0/v1.0/step-valuefrom-job.json Test [72/197] valuefrom_wf_step_other: Test valueFrom on workflow step referencing other inputs +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpnd98s26q --quiet v1.0/v1.0/step-valuefrom3-wf.cwl v1.0/v1.0/step-valuefrom-job.json Test [73/197] record_output_binding: Test record type output binding. +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpqcmmeoz2 --quiet v1.0/v1.0/record-output.cwl v1.0/v1.0/record-output-job.json Test [74/197] docker_json_output_path: Test support for reading cwl.output.json when running in a Docker container and just 'path' is provided. +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpmrmuwt6b --quiet v1.0/v1.0/test-cwl-out.cwl v1.0/v1.0/empty.json Test [75/197] docker_json_output_location: Test support for reading cwl.output.json when running in a Docker container and just 'location' is provided. +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpi77rqipp --quiet v1.0/v1.0/test-cwl-out2.cwl v1.0/v1.0/empty.json Test [76/197] multiple_glob_expr_list: Test support for returning multiple glob patterns from expression +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpcoj05tac --quiet v1.0/v1.0/glob-expr-list.cwl v1.0/v1.0/abc.json Test [77/197] wf_scatter_oneparam_valuefrom: Test workflow scatter with single scatter parameter and two valueFrom on step input (first and current el) +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmp8aj70xv0 --quiet v1.0/v1.0/scatter-valuefrom-wf1.cwl v1.0/v1.0/scatter-valuefrom-job1.json Test [78/197] wf_scatter_twoparam_nested_crossproduct_valuefrom: Test workflow scatter with two scatter parameters and nested_crossproduct join method and valueFrom on step input +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpaaxm0ed4 --quiet v1.0/v1.0/scatter-valuefrom-wf2.cwl v1.0/v1.0/scatter-valuefrom-job2.json Test [79/197] wf_scatter_twoparam_flat_crossproduct_valuefrom: Test workflow scatter with two scatter parameters and flat_crossproduct join method and valueFrom on step input +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpbgm395rh --quiet v1.0/v1.0/scatter-valuefrom-wf3.cwl#main v1.0/v1.0/scatter-valuefrom-job2.json Test [80/197] wf_scatter_twoparam_dotproduct_valuefrom: Test workflow scatter with two scatter parameters and dotproduct join method and valueFrom on step input +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmppk_mw83o --quiet v1.0/v1.0/scatter-valuefrom-wf4.cwl#main v1.0/v1.0/scatter-valuefrom-job2.json Test [81/197] wf_scatter_oneparam_valuefrom_twice_current_el: Test workflow scatter with single scatter parameter and two valueFrom on step input (current el twice) +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpfc627mm5 --quiet v1.0/v1.0/scatter-valuefrom-wf5.cwl v1.0/v1.0/scatter-valuefrom-job1.json Test [82/197] wf_scatter_oneparam_valueFrom: Test valueFrom eval on scattered input parameter +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpi8fucefs --quiet v1.0/v1.0/scatter-valuefrom-wf6.cwl v1.0/v1.0/scatter-valuefrom-job3.json Test [83/197] wf_two_inputfiles_namecollision: Test workflow two input files with same name. +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpp7fznoty --quiet v1.0/v1.0/conflict-wf.cwl#collision v1.0/v1.0/conflict-job.json Test [84/197] directory_input_param_ref: Test directory input with parameter reference +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpyli2ukw5 --quiet v1.0/v1.0/dir.cwl v1.0/v1.0/dir-job.yml Test [85/197] directory_input_docker: Test directory input in Docker +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpgpy__77i --quiet v1.0/v1.0/dir2.cwl v1.0/v1.0/dir-job.yml Test [86/197] directory_output: Test directory output +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmp3rr3x8x_ --quiet v1.0/v1.0/dir3.cwl v1.0/v1.0/dir3-job.yml Test [87/197] directory_secondaryfiles: Test directories in secondaryFiles +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpiuevl4bd --quiet v1.0/v1.0/dir4.cwl v1.0/v1.0/dir4-job.yml Test [88/197] dynamic_initial_workdir: Test dynamic initial work dir +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpdoz_kf56 --quiet v1.0/v1.0/dir5.cwl v1.0/v1.0/dir-job.yml Test [89/197] writable_stagedfiles: Test writable staged files. +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpgig94qvn --quiet v1.0/v1.0/stagefile.cwl v1.0/v1.0/stagefile-job.yml Test [90/197] input_file_literal: Test file literal as input +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmph0q78l8d --quiet v1.0/v1.0/cat3-tool.cwl v1.0/v1.0/file-literal.yml Test [91/197] initial_workdir_expr: Test expression in InitialWorkDir listing +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpcymez7c6 --quiet v1.0/v1.0/linkfile.cwl v1.0/v1.0/arguments-job.yml Test [92/197] nameroot_nameext_stdout_expr: Test nameroot/nameext expression in arguments, stdout +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpzal5j4_c --quiet v1.0/v1.0/nameroot.cwl v1.0/v1.0/wc-job.json Test [93/197] input_dir_inputbinding: Test directory input with inputBinding +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmp35zxak_e --quiet v1.0/v1.0/dir6.cwl v1.0/v1.0/dir-job.yml Test [94/197] cl_gen_arrayofarrays: Test command line generation of array-of-arrays +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpqwdg7bwz --quiet v1.0/v1.0/nested-array.cwl v1.0/v1.0/nested-array-job.yml Test [95/197] env_home_tmpdir: Test $HOME and $TMPDIR are set correctly +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpwumac2w1 --quiet v1.0/v1.0/envvar.cwl v1.0/v1.0/empty.json Test [96/197] env_home_tmpdir_docker: Test $HOME and $TMPDIR are set correctly in Docker +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpklaoetco --quiet v1.0/v1.0/envvar2.cwl v1.0/v1.0/empty.json Test [97/197] expressionlib_tool_wf_override: Test that expressionLib requirement of individual tool step overrides expressionLib of workflow. +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpzd9j47kg --quiet v1.0/v1.0/js-expr-req-wf.cwl#wf v1.0/v1.0/empty.json Test [98/197] initial_workdir_output: Test output of InitialWorkDir +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpo_phtoz3 --quiet v1.0/v1.0/initialworkdirrequirement-docker-out.cwl v1.0/v1.0/initialworkdirrequirement-docker-out-job.json Test [99/197] embedded_subworkflow: Test embedded subworkflow +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpzuj5dend --quiet v1.0/v1.0/count-lines10-wf.cwl v1.0/v1.0/wc-job.json Test [100/197] filesarray_secondaryfiles: Test secondaryFiles on array of files. +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpvg8c772f --quiet v1.0/v1.0/docker-array-secondaryfiles.cwl v1.0/v1.0/docker-array-secondaryfiles-job.json Test [101/197] exprtool_directory_literal: Test directory literal output created by ExpressionTool +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpdka4odv_ --quiet v1.0/v1.0/dir7.cwl v1.0/v1.0/dir7.yml Test [102/197] exprtool_file_literal: Test file literal output created by ExpressionTool +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpknfltgf1 --quiet v1.0/v1.0/file-literal-ex.cwl v1.0/v1.0/empty.json Test [103/197] dockeroutputdir: Test dockerOutputDirectory +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmprwo7a6hp --quiet v1.0/v1.0/docker-output-dir.cwl v1.0/v1.0/empty.json +ERROR Found a queued exception, canceling outstanding futures +ERROR Waiting for canceled futures to finish +ERROR Workflow or tool uses unsupported feature: +Error: feature DockerRequirement.dockerOutputDirectory is not supported Test [104/197] hints_import: Test hints with $import +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpuhqm8py5 --quiet v1.0/v1.0/imported-hint.cwl v1.0/v1.0/empty.json Test [105/197] default_path_notfound_warning: Test warning instead of error when default path is not found +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpsp_xovyi --quiet v1.0/v1.0/default_path.cwl v1.0/v1.0/default_path_job.yml Test [106/197] inlinejs_req_expressions: Test InlineJavascriptRequirement with multiple expressions in the same tool +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpq8ltgzms --quiet v1.0/v1.0/inline-js.cwl v1.0/v1.0/empty.json Test [107/197] input_dir_recurs_copy_writable: Test if a writable input directory is recursively copied and writable +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmp6ol2afwf --quiet v1.0/v1.0/recursive-input-directory.cwl v1.0/v1.0/recursive-input-directory.yml Test [108/197] null_missing_params: Test that missing parameters are null (not undefined) in expression +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpn6lymkdu --quiet v1.0/v1.0/null-defined.cwl v1.0/v1.0/empty.json Test [109/197] param_notnull_expr: Test that provided parameter is not null in expression +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpb6_o0qh3 --quiet v1.0/v1.0/null-defined.cwl v1.0/v1.0/cat-job.json Test [110/197] wf_compound_doc: Test compound workflow document +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmphnlehcxy --quiet v1.0/v1.0/revsort-packed.cwl#main v1.0/v1.0/revsort-job.json Test [111/197] nameroot_nameext_generated: Test that nameroot and nameext are generated from basename at execution time by the runner +Running: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmpwng6lu60 --quiet v1.0/v1.0/basename-fields-test.cwl v1.0/v1.0/basename-fields-job.yml Test [112/197] initialworkpath_output: Test that file path in $(inputs) for initialworkdir is in $(outdir). -Test [113/197] wf_scatter_twopar_oneinput_flattenedmerge: Test single step workflow with Scatter step and two data links connected to same input, flattened merge behavior. Workflow inputs are set as list - -Test [114/197] wf_multiplesources_multipletypes: Test step input with multiple sources with multiple types - -Test [115/197] shelldir_notinterpreted: Test that shell directives are not interpreted. - -Test [116/197] shelldir_quoted: Test that shell directives are quoted. - -Test [117/197] initial_workdir_empty_writable: Test empty writable dir with InitialWorkDirRequirement - -Test [118/197] initial_workdir_empty_writable_docker: Test empty writable dir with InitialWorkDirRequirement inside Docker - -Test [119/197] dynamic_resreq_inputs: Test dynamic resource reqs referencing inputs - -Test [120/197] fileliteral_input_docker: Test file literal as input without Docker - -Test [121/197] outputbinding_glob_sorted: Test that OutputBinding.glob is sorted as specified by POSIX - -Test [122/197] initialworkdir_nesteddir: Test InitialWorkDirRequirement with a nested directory structure from another step - -Test [123/197] booleanflags_cl_noinputbinding: Test that boolean flags do not appear on command line if inputBinding is empty and not null - -Test [124/197] expr_reference_self_noinput: Test that expression engine does not fail to evaluate reference to self with unprovided input - -Test [125/197] success_codes: Test successCodes - -Test [126/197] dynamic_resreq_wf: Test simple workflow with a dynamic resource requirement - -Test [127/197] cl_empty_array_input: Test that empty array input does not add anything to command line - -Test [128/197] resreq_step_overrides_wf: Test that ResourceRequirement on a step level redefines requirement on the workflow level - -Test [129/197] valuefrom_constant_overrides_inputs: Test valueFrom with constant value overriding provided array inputs - -Test [130/197] dynamic_resreq_filesizes: Test dynamic resource reqs referencing the size of Files inside a Directory - -Test [131/197] wf_step_connect_undeclared_param: Test that it is not an error to connect a parameter to a workflow step, even if the parameter doesn't appear in the `run` process inputs. - -Test [132/197] wf_step_access_undeclared_param: Test that parameters that don't appear in the `run` process inputs are not present in the input object used to run the tool. - -Test [133/197] env_home_tmpdir_docker: Test $HOME and $TMPDIR are set correctly in Docker without using return code - -Test [134/197] wf_scatter_oneparam_valuefrom_inputs: Test workflow scatter with single scatter parameter and two valueFrom using $inputs (first and current el) - -Test [135/197] packed_import_schema: SchemaDefRequirement with $import, and packed - -Test [136/197] job_input_secondary_subdirs: Test specifying secondaryFiles in subdirectories of the job input document. - -Test [137/197] job_input_subdir_primary_and_secondary_subdirs: Test specifying secondaryFiles in same subdirectory of the job input as the primary input file. - -Test [138/197] scatter_embedded_subworkflow: Test simple scatter over an embedded subworkflow - -Test [139/197] scatter_multi_input_embedded_subworkflow: Test simple multiple input scatter over an embedded subworkflow - -Test [140/197] workflow_embedded_subworkflow_embedded_subsubworkflow: Test twice nested subworkflow - -Test [141/197] workflow_embedded_subworkflow_with_tool_and_subsubworkflow: Test subworkflow of mixed depth with tool first - -Test [142/197] workflow_embedded_subworkflow_with_subsubworkflow_and_tool: Test subworkflow of mixed depth with tool after - -Test [143/197] workflow_records_inputs_and_outputs: Test record type inputs to and outputs from workflows. - -Test [144/197] workflow_integer_input: Test integer workflow input and outputs - -Test [145/197] workflow_integer_input_optional_specified: Test optional integer workflow inputs (specified) - -Test [146/197] workflow_integer_input_optional_unspecified: Test optional integer workflow inputs (unspecified) - -Test [147/197] workflow_integer_input_default_specified: Test default integer workflow inputs (specified) - -Test [148/197] workflow_integer_input_default_unspecified: Test default integer workflow inputs (unspecified) - -Test [149/197] workflow_integer_input_default_and_tool_integer_input_default: Test default integer tool and workflow inputs (unspecified) - -Test [150/197] workflow_file_input_default_unspecified: Test File input with default unspecified to workflow - -Test [151/197] workflow_file_input_default_specified: Test File input with default specified to workflow - -Test [152/197] clt_optional_union_input_file_or_files_with_array_of_one_file_provided: Test input union type or File or File array to a tool with one file in array specified. - -Test [153/197] clt_optional_union_input_file_or_files_with_many_files_provided: Test input union type or File or File array to a tool with a few files in array specified. - -Test [154/197] clt_optional_union_input_file_or_files_with_single_file_provided: Test input union type or File or File array to a tool with one file specified. - -Test [155/197] clt_optional_union_input_file_or_files_with_nothing_provided: Test input union type or File or File array to a tool with null specified. - -Test [156/197] clt_any_input_with_integer_provided: Test Any parameter with integer input to a tool - -Test [157/197] clt_any_input_with_string_provided: Test Any parameter with string input to a tool - -Test [158/197] clt_any_input_with_file_provided: Test Any parameter with file input to a tool - -Test [159/197] clt_any_input_with_mixed_array_provided: Test Any parameter with array input to a tool - -Test [160/197] clt_any_input_with_record_provided: Test Any parameter with record input to a tool - -Test [161/197] workflow_any_input_with_integer_provided: Test Any parameter with integer input to a workflow - -Test [162/197] workflow_any_input_with_string_provided: Test Any parameter with string input to a workflow - -Test [163/197] workflow_any_input_with_file_provided: Test Any parameter with file input to a workflow - -Test [164/197] workflow_any_input_with_mixed_array_provided: Test Any parameter with array input to a workflow - -Test [165/197] workflow_any_input_with_record_provided: Test Any parameter with record input to a tool - -Test [166/197] workflow_union_default_input_unspecified: Test union type input to workflow with default unspecified - -Test [167/197] workflow_union_default_input_with_file_provided: Test union type input to workflow with default specified as file - -Test [168/197] workflowstep_valuefrom_string: Test valueFrom on workflow step from literal (string). - -Test [169/197] workflowstep_valuefrom_file_basename: Test valueFrom on workflow step using basename. - -Test [170/197] expression_tool_int_array_output: Test output arrays in a tool (with ints). - -Test [171/197] workflowstep_int_array_input_output: Test output arrays in a workflow (with ints). - -Test [172/197] workflow_file_array_output: Test output arrays in a workflow (with Files). - -Test [173/197] docker_entrypoint: Test Docker ENTRYPOINT usage - -Test 173 failed: calrissian --max-ram 8G --max-cores 4 --default-container debian:stretch-slim --outdir=/output/tmp4i_2wfjf --quiet v1.0/v1.0/docker-run-cmd.cwl v1.0/v1.0/empty.json -Test Docker ENTRYPOINT usage -Returned non-zero -Test [174/197] clt_file_size_property_with_empty_file: Test use of size in expressions for an empty file - -Test [175/197] clt_file_size_property_with_multi_file: Test use of size in expressions for a few files - -Test [176/197] any_without_defaults_unspecified_fails: Test Any without defaults, unspecified, should fail. - -Test [177/197] any_without_defaults_specified_fails: Test Any without defaults, specified, should fail. - -Test [178/197] step_input_default_value_noexp: Test default value on step input parameter, no ExpressionTool - -Test [179/197] step_input_default_value_overriden_noexp: Test default value on step input parameter overridden by provided source, no ExpressionTool - -Test [180/197] nested_workflow_noexp: Test nested workflow, without ExpressionTool - -Test [181/197] wf_multiplesources_multipletypes_noexp: Test step input with multiple sources with multiple types, without ExpressionTool - -Test [182/197] dynamic_resreq_wf_optional_file_default: Within a workflow, test accessing the size attribute of an optional input File as part of a CommandLineTool's ResourceRequirement calculation. The CommandLineTool input has a default value (a local file) and the workflow nor the workflow step does not provide any value for this input. - -Test [183/197] dynamic_resreq_wf_optional_file_step_default: Within a workflow, test accessing the size attribute of an optional input File as part of a CommandLineTool's ResourceRequirement calculation. The workflow step provides a default value (a local file) for this input and the workflow itself does not provide any value for this input. - -Test [184/197] dynamic_resreq_wf_optional_file_wf_default: Within a workflow, test accessing the size attribute of an optional input File as part of a CommandLineTool's ResourceRequirement calculation. The workflow itelf provides a default value (a local file) for this input. - -Test [185/197] step_input_default_value_overriden_2nd_step: Test default value on step input parameter overridden by provided source. With passthrough first step - -Test [186/197] step_input_default_value_overriden_2nd_step_noexp: Test default value on step input parameter overridden by provided source. With passthrough first step and no ExpressionTool - -Test [187/197] step_input_default_value_overriden_2nd_step_null: Test default value on step input parameter overridden by provided source. With null producing first step - -Test [188/197] step_input_default_value_overriden_2nd_step_null_noexp: Test default value on step input parameter overridden by provided source. With null producing first step and no ExpressionTool - -Test [189/197] stdin_from_directory_literal_with_local_file: Pipe to stdin from user provided local File via a Directory literal - -Test [190/197] stdin_from_directory_literal_with_literal_file: Pipe to stdin from literal File via a Directory literal - -Test [191/197] directory_literal_with_literal_file_nostdin: Test non-stdin reference to literal File via a Directory literal - -Test [192/197] no_inputs_commandlinetool: Test CommandLineTool without inputs - -Test [193/197] no_outputs_commandlinetool: Test CommandLineTool without outputs - -Test [194/197] no_inputs_workflow: Test Workflow without inputs - -Test [195/197] no_outputs_workflow: Test Workflow without outputs - -Test [196/197] anonymous_enum_in_array: Test an anonymous enum inside an array inside a record - -Test [197/197] schema-def_anonymous_enum_in_array: Test an anonymous enum inside an array inside a record, SchemaDefRequirement - -195 tests passed, 1 failures, 1 unsupported features +Running: calrissian --max-ram 8G --max-cores 4 --de \ No newline at end of file