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Update README.md to make links to markdown reports
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tom-tan committed Aug 26, 2024
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Expand Up @@ -16,13 +16,13 @@ The main purpose of this engine is to be embedded in more enhanced workflow engi
[![release](https://badgen.net/github/release/tom-tan/shaft)](https://github.com/tom-tan/shaft/releases/latest) ![commit](https://badgen.net/https/raw.githubusercontent.com/tom-tan/conformance/master/shaft/cwl_v1.0/shaft_latest/commit.json)

### Classes
[![CommandLineTool](https://badgen.net/https/raw.githubusercontent.com/tom-tan/conformance/master/shaft/cwl_v1.0/shaft_latest/command_line_tool.json?icon=commonwl)](https://www.commonwl.org/v1.0/CommandLineTool.html) [![ExpressionTool](https://badgen.net/https/raw.githubusercontent.com/tom-tan/conformance/master/shaft/cwl_v1.0/shaft_latest/expression_tool.json?icon=commonwl)](https://www.commonwl.org/v1.0/Workflow.html#ExpressionTool)
[![CommandLineTool](https://badgen.net/https/raw.githubusercontent.com/tom-tan/conformance/master/shaft/cwl_v1.0/shaft_latest/command_line_tool.json?icon=commonwl)](https://github.com/tom-tan/conformance/blob/master/shaft/cwl_v1.0/shaft_latest/command_line_tool.md) [![ExpressionTool](https://badgen.net/https/raw.githubusercontent.com/tom-tan/conformance/master/shaft/cwl_v1.0/shaft_latest/expression_tool.json?icon=commonwl)](https://github.com/tom-tan/conformance/blob/master/shaft/cwl_v1.0/shaft_latest/expression_tool.md)

### Required features
[![Required](https://badgen.net/https/raw.githubusercontent.com/tom-tan/conformance/master/shaft/cwl_v1.0/shaft_latest/required.json?icon=commonwl)](https://www.commonwl.org/v1.0/)
[![Required](https://badgen.net/https/raw.githubusercontent.com/tom-tan/conformance/master/shaft/cwl_v1.0/shaft_latest/required.json?icon=commonwl)](https://github.com/tom-tan/conformance/blob/master/shaft/cwl_v1.0/shaft_latest/required.md)

### Optional features
[![DockerRequirement](https://badgen.net/https/raw.githubusercontent.com/tom-tan/conformance/master/shaft/cwl_v1.0/shaft_latest/docker.json?icon=commonwl)](https://www.commonwl.org/v1.0/CommandLineTool.html#DockerRequirement) [![EnvVarRequirement](https://badgen.net/https/raw.githubusercontent.com/tom-tan/conformance/master/shaft/cwl_v1.0/shaft_latest/env_var.json?icon=commonwl)](https://www.commonwl.org/v1.0/CommandLineTool.html#EnvVarRequirement) [![InitialWorkDirRequirement](https://badgen.net/https/raw.githubusercontent.com/tom-tan/conformance/master/shaft/cwl_v1.0/shaft_latest/initial_work_dir.json?icon=commonwl)](https://www.commonwl.org/v1.0/CommandLineTool.html#InitialWorkDirRequirement) [![InlineJavascriptRequirement](https://badgen.net/https/raw.githubusercontent.com/tom-tan/conformance/master/shaft/cwl_v1.0/shaft_latest/inline_javascript.json?icon=commonwl)](https://www.commonwl.org/v1.0/CommandLineTool.html#InlineJavascriptRequirement) [![ResourceRequirement](https://badgen.net/https/raw.githubusercontent.com/tom-tan/conformance/master/shaft/cwl_v1.0/shaft_latest/resource.json?icon=commonwl)](https://www.commonwl.org/v1.0/CommandLineTool.html#ResourceRequirement) [![SchemaDefRequirement](https://badgen.net/https/raw.githubusercontent.com/tom-tan/conformance/master/shaft/cwl_v1.0/shaft_latest/schema_def.json?icon=commonwl)](https://www.commonwl.org/v1.0/CommandLineTool.html#SchemaDefRequirement) [![ShellCommandRequirement](https://badgen.net/https/raw.githubusercontent.com/tom-tan/conformance/master/shaft/cwl_v1.0/shaft_latest/shell_command.json?icon=commonwl)](https://www.commonwl.org/v1.0/CommandLineTool.html#ShellCommandRequirement)
[![DockerRequirement](https://badgen.net/https/raw.githubusercontent.com/tom-tan/conformance/master/shaft/cwl_v1.0/shaft_latest/docker.json?icon=commonwl)](https://github.com/tom-tan/conformance/blob/master/shaft/cwl_v1.0/shaft_latest/docker.md) [![EnvVarRequirement](https://badgen.net/https/raw.githubusercontent.com/tom-tan/conformance/master/shaft/cwl_v1.0/shaft_latest/env_var.json?icon=commonwl)](https://github.com/tom-tan/conformance/blob/master/shaft/cwl_v1.0/shaft_latest/env_var.md) [![InitialWorkDirRequirement](https://badgen.net/https/raw.githubusercontent.com/tom-tan/conformance/master/shaft/cwl_v1.0/shaft_latest/initial_work_dir.json?icon=commonwl)](https://github.com/tom-tan/conformance/blob/master/shaft/cwl_v1.0/shaft_latest/initial_work_dir.md) [![InlineJavascriptRequirement](https://badgen.net/https/raw.githubusercontent.com/tom-tan/conformance/master/shaft/cwl_v1.0/shaft_latest/inline_javascript.json?icon=commonwl)](https://github.com/tom-tan/conformance/blob/master/shaft/cwl_v1.0/shaft_latest/inline_javascript.md) [![ResourceRequirement](https://badgen.net/https/raw.githubusercontent.com/tom-tan/conformance/master/shaft/cwl_v1.0/shaft_latest/resource.json?icon=commonwl)](https://github.com/tom-tan/conformance/blob/master/shaft/cwl_v1.0/shaft_latest/resource.md) [![SchemaDefRequirement](https://badgen.net/https/raw.githubusercontent.com/tom-tan/conformance/master/shaft/cwl_v1.0/shaft_latest/schema_def.json?icon=commonwl)](https://github.com/tom-tan/conformance/blob/master/shaft/cwl_v1.0/shaft_latest/schema_def.md) [![ShellCommandRequirement](https://badgen.net/https/raw.githubusercontent.com/tom-tan/conformance/master/shaft/cwl_v1.0/shaft_latest/shell_command.json?icon=commonwl)](https://github.com/tom-tan/conformance/blob/master/shaft/cwl_v1.0/shaft_latest/shell_command.md)

## Shaft extension
### Taking inherited process requirements and hints via the input object
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