stxue1

The `test_struct.wdl` unit test has an expected output of [`test_struct.person`](https://github.com/openwdl/wdl/blob/9c0b9cf4586508a9e6260cc5c5e562e21f625aac/SPEC.md?plain=1#L1151), but the workflow itself does not have an output variable named `person`: https://github.com/openwdl/wdl/blob/9c0b9cf4586508a9e6260cc5c5e562e21f625aac/SPEC.md?plain=1#L1124-L1136 I think instead of expecting `test_struct.person`, the...

Standard library function `as_map` outputs EvalError if File type is encountered

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The function `as_map` is unable to handle cases where one of its nested types is File. ```wdl version 1.1 workflow test_as_map { input { Array[Pair[String, File]] test_arr = [("a.bam", "a.bai")]...

Half numbers in miniwdl are rounded down instead of rounding up, which differs with the spec: https://github.com/openwdl/wdl/blob/9c0b9cf4586508a9e6260cc5c5e562e21f625aac/SPEC.md?plain=1#L6279 > Rounds a floating point number to the nearest integer based on standard...

When `transpose` is called on an array, it is not considered equal to its explicitly typed counterpart: ```wdl version 1.1 workflow wf { input {} Array[Array[Int]] a = [[1,2,3]] output...

The WDL spec says [read_boolean is whitespace and case insensitive](https://github.com/openwdl/wdl/blob/9c0b9cf4586508a9e6260cc5c5e562e21f625aac/SPEC.md?plain=1#L7046C146-L7046C152) when calling `read_bool`. However, MiniWDK is unable to run the following workflow: ```wdl version 1.1 task read_bool { command false_file...

The WDL spec states that `write_json` [cannot serialize a map with integer keys](https://github.com/openwdl/wdl/blob/9c0b9cf4586508a9e6260cc5c5e562e21f625aac/SPEC.md?plain=1#L7597-L7603). ```wdl Pair[Int, Map[Int, String]] x = (1, {2: "hello"}) # this fails with an error - Map...

Inconsistent behavior with optional file types when coercing from string

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[When a file is declared as optional, the value should be null if the file does not exist](https://github.com/openwdl/wdl/blob/caff59db192636d9f93f3f5659eb5939f51ff877/SPEC.md?plain=1#L3880). In an array of optional files, this should mean those nonexistent file...

Support for WDL's Object type

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Objects are deprecated in 1.1, but the spec, at least according to their unit tests, requires the object type to be supported for WDL 1.1. There is a unit test...

Cannot supply inputs to task only workflows

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If a WDL doesn't specify a workflow and only has a task, trying to supply input JSON always errors: ``` check JSON input; unknown input/output: glob.num_files ``` Some of the...

[Question] Should string-to-file coerced files ensure files exist at coercion or at use/output

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For string-to-file coercion, MiniWDL is content with a nonexistent file if the variable is never used. For example: ```wdl version 1.1 workflow wf { input { File f = "path/to/file"...