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common-workflow-language / cwljava / #352

07 Apr 2025 10:22AM UTC coverage: 59.538% (-0.6%) from 60.167%
#352

Pull #193

github

web-flow
Merge d636f9333 into 46536cad2
Pull Request #193: Add accessor for the extension field.

0 of 129 new or added lines in 129 files covered. (0.0%)

7347 of 12340 relevant lines covered (59.54%)

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43.75
/src/main/java/org/w3id/cwl/cwl1_1/CommandInputRecordFieldImpl.java
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// Copyright Common Workflow Language project contributors
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//
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// Licensed under the Apache License, Version 2.0 (the "License");
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// you may not use this file except in compliance with the License.
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// You may obtain a copy of the License at
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//
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//      http://www.apache.org/licenses/LICENSE-2.0
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//
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// Unless required by applicable law or agreed to in writing, software
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// distributed under the License is distributed on an "AS IS" BASIS,
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// WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
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// See the License for the specific language governing permissions and
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// limitations under the License.
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package org.w3id.cwl.cwl1_1;
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import org.w3id.cwl.cwl1_1.utils.LoaderInstances;
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import org.w3id.cwl.cwl1_1.utils.LoadingOptions;
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import org.w3id.cwl.cwl1_1.utils.LoadingOptionsBuilder;
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import org.w3id.cwl.cwl1_1.utils.SaveableImpl;
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import org.w3id.cwl.cwl1_1.utils.ValidationException;
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/**
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* Auto-generated class implementation for <I>https://w3id.org/cwl/cwl#CommandInputRecordField</I><BR>
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 */
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public class CommandInputRecordFieldImpl extends SaveableImpl implements CommandInputRecordField {
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  private LoadingOptions loadingOptions_ = new LoadingOptionsBuilder().build();
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  private java.util.Map<String, Object> extensionFields_ =
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      new java.util.HashMap<String, Object>();
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  public java.util.Map<String, Object> getExtensionFields() {
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    return this.extensionFields_;
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  }
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  private String name;
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  /**
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   * Getter for property <I>https://w3id.org/cwl/salad#RecordField/name</I><BR>
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   * <BLOCKQUOTE>
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   * The name of the field
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   *    * </BLOCKQUOTE>
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   */
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  public String getName() {
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    return this.name;
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  }
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  private Object doc;
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  /**
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   * Getter for property <I>https://w3id.org/cwl/salad#Documented/doc</I><BR>
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   * <BLOCKQUOTE>
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   * A documentation string for this object, or an array of strings which should be concatenated.   * </BLOCKQUOTE>
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   */
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  public Object getDoc() {
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    return this.doc;
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  }
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  private Object type;
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  /**
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   * Getter for property <I>https://w3id.org/cwl/salad#type</I><BR>
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   * <BLOCKQUOTE>
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   * The field type
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   *    * </BLOCKQUOTE>
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   */
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  public Object getType() {
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    return this.type;
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  }
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  private java.util.Optional<String> label;
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  /**
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   * Getter for property <I>https://w3id.org/cwl/cwl#Labeled/label</I><BR>
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   * <BLOCKQUOTE>
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   * A short, human-readable label of this object.   * </BLOCKQUOTE>
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   */
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  public java.util.Optional<String> getLabel() {
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    return this.label;
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  }
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  private Object secondaryFiles;
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  /**
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   * Getter for property <I>https://w3id.org/cwl/cwl#secondaryFiles</I><BR>
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   * <BLOCKQUOTE>
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   * Only valid when `type: File` or is an array of `items: File`.
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   * 
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   * Provides a pattern or expression specifying files or
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   * directories that should be included alongside the primary
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   * file.  Secondary files may be required or optional.  When not
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   * explicitly specified, secondary files specified for `inputs`
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   * are required and `outputs` are optional.  An implementation
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   * must include matching Files and Directories in the
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   * `secondaryFiles` property of the primary file.  These Files
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   * and Directories must be transferred and staged alongside the
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   * primary file.  An implementation may fail workflow execution
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   * if a required secondary file does not exist.
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   * 
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   * If the value is an expression, the value of `self` in the expression
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   * must be the primary input or output File object to which this binding
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   * applies.  The `basename`, `nameroot` and `nameext` fields must be
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   * present in `self`.  For `CommandLineTool` outputs the `path` field must
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   * also be present.  The expression must return a filename string relative
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   * to the path to the primary File, a File or Directory object with either
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   * `path` or `location` and `basename` fields set, or an array consisting
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   * of strings or File or Directory objects.  It is legal to reference an
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   * unchanged File or Directory object taken from input as a secondaryFile.
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   * The expression may return "null" in which case there is no secondaryFile
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   * from that expression.
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   * 
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   * To work on non-filename-preserving storage systems, portable tool
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   * descriptions should avoid constructing new values from `location`, but
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   * should construct relative references using `basename` or `nameroot`
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   * instead.
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   * 
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   * If a value in `secondaryFiles` is a string that is not an expression,
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   * it specifies that the following pattern should be applied to the path
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   * of the primary file to yield a filename relative to the primary File:
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   * 
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   *   1. If string ends with `?` character, remove the last `?` and mark
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   *     the resulting secondary file as optional.
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   *   2. If string begins with one or more caret `^` characters, for each
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   *     caret, remove the last file extension from the path (the last
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   *     period `.` and all following characters).  If there are no file
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   *     extensions, the path is unchanged.
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   *   3. Append the remainder of the string to the end of the file path.
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   *    * </BLOCKQUOTE>
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   */
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  public Object getSecondaryFiles() {
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    return this.secondaryFiles;
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  }
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  private java.util.Optional<Boolean> streamable;
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  /**
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   * Getter for property <I>https://w3id.org/cwl/cwl#FieldBase/streamable</I><BR>
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   * <BLOCKQUOTE>
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   * Only valid when `type: File` or is an array of `items: File`.
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   * 
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   * A value of `true` indicates that the file is read or written
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   * sequentially without seeking.  An implementation may use this flag to
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   * indicate whether it is valid to stream file contents using a named
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   * pipe.  Default: `false`.
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   *    * </BLOCKQUOTE>
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   */
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  public java.util.Optional<Boolean> getStreamable() {
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    return this.streamable;
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  }
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  private Object format;
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  /**
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   * Getter for property <I>https://w3id.org/cwl/cwl#format</I><BR>
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   * <BLOCKQUOTE>
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   * Only valid when `type: File` or is an array of `items: File`.
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   * 
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   * This must be one or more IRIs of concept nodes
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   * that represents file formats which are allowed as input to this
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   * parameter, preferrably defined within an ontology.  If no ontology is
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   * available, file formats may be tested by exact match.
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   *    * </BLOCKQUOTE>
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   */
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  public Object getFormat() {
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    return this.format;
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  }
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  private java.util.Optional<Boolean> loadContents;
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  /**
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   * Getter for property <I>https://w3id.org/cwl/cwl#LoadContents/loadContents</I><BR>
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   * <BLOCKQUOTE>
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   * Only valid when `type: File` or is an array of `items: File`.
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   * 
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   * Read up to the first 64 KiB of text from the file and place it in the
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   * "contents" field of the file object for use by expressions.
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   *    * </BLOCKQUOTE>
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   */
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  public java.util.Optional<Boolean> getLoadContents() {
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    return this.loadContents;
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  }
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  private java.util.Optional<LoadListingEnum> loadListing;
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  /**
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   * Getter for property <I>https://w3id.org/cwl/cwl#LoadContents/loadListing</I><BR>
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   * <BLOCKQUOTE>
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   * Only valid when `type: Directory` or is an array of `items: Directory`.
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   * 
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   * Specify the desired behavior for loading the `listing` field of
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   * a Directory object for use by expressions.
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   * 
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   * The order of precedence for loadListing is:
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   * 
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   *   1. `loadListing` on an individual parameter
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   *   2. Inherited from `LoadListingRequirement`
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   *   3. By default: `no_listing`
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   *    * </BLOCKQUOTE>
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   */
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  public java.util.Optional<LoadListingEnum> getLoadListing() {
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    return this.loadListing;
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  }
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  private java.util.Optional<CommandLineBinding> inputBinding;
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  /**
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   * Getter for property <I>https://w3id.org/cwl/cwl#CommandLineBindable/inputBinding</I><BR>
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   * <BLOCKQUOTE>
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   * Describes how to turn this object into command line arguments.   * </BLOCKQUOTE>
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   */
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  public java.util.Optional<CommandLineBinding> getInputBinding() {
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    return this.inputBinding;
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  }
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  /**
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   * Used by {@link org.w3id.cwl.cwl1_1.utils.RootLoader} to construct instances of CommandInputRecordFieldImpl.
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   *
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   * @param __doc_            Document fragment to load this record object from (presumably a
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                              {@link java.util.Map}).
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   * @param __baseUri_        Base URI to generate child document IDs against.
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   * @param __loadingOptions  Context for loading URIs and populating objects.
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   * @param __docRoot_        ID at this position in the document (if available) (maybe?)
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   * @throws ValidationException If the document fragment is not a {@link java.util.Map}
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   *                             or validation of fields fails.
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   */
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  public CommandInputRecordFieldImpl(
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      final Object __doc_,
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      final String __baseUri_,
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      LoadingOptions __loadingOptions,
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      final String __docRoot_) {
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    super(__doc_, __baseUri_, __loadingOptions, __docRoot_);
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    // Prefix plumbing variables with '__' to reduce likelihood of collision with
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    // generated names.
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    String __baseUri = __baseUri_;
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    String __docRoot = __docRoot_;
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    if (!(__doc_ instanceof java.util.Map)) {
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      throw new ValidationException("CommandInputRecordFieldImpl called on non-map");
×
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    }
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    final java.util.Map<String, Object> __doc = (java.util.Map<String, Object>) __doc_;
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    final java.util.List<ValidationException> __errors =
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        new java.util.ArrayList<ValidationException>();
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    if (__loadingOptions != null) {
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      this.loadingOptions_ = __loadingOptions;
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    }
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    String name;
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    if (__doc.containsKey("name")) {
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      try {
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        name =
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            LoaderInstances
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                .uri_StringInstance_True_False_None_None
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                .loadField(__doc.get("name"), __baseUri, __loadingOptions);
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      } catch (ValidationException e) {
×
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        name = null; // won't be used but prevents compiler from complaining.
×
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        final String __message = "the `name` field is not valid because:";
×
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        __errors.add(new ValidationException(__message, e));
×
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      }
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    } else {
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      name = null;
×
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    }
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    if (name == null) {
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      if (__docRoot != null) {
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        name = __docRoot;
×
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      } else {
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        throw new ValidationException("Missing name");
×
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      }
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    }
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    __baseUri = (String) name;
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    Object doc;
280

281
    if (__doc.containsKey("doc")) {
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      try {
283
        doc =
×
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            LoaderInstances
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                .union_of_NullInstance_or_StringInstance_or_array_of_StringInstance
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                .loadField(__doc.get("doc"), __baseUri, __loadingOptions);
×
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      } catch (ValidationException e) {
×
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        doc = null; // won't be used but prevents compiler from complaining.
×
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        final String __message = "the `doc` field is not valid because:";
×
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        __errors.add(new ValidationException(__message, e));
×
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      }
×
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293
    } else {
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      doc = null;
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    }
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    Object type;
297
    try {
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      type =
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          LoaderInstances
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              .typedsl_union_of_CWLType_or_CommandInputRecordSchema_or_CommandInputEnumSchema_or_CommandInputArraySchema_or_StringInstance_or_array_of_union_of_CWLType_or_CommandInputRecordSchema_or_CommandInputEnumSchema_or_CommandInputArraySchema_or_StringInstance_2
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              .loadField(__doc.get("type"), __baseUri, __loadingOptions);
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    } catch (ValidationException e) {
×
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      type = null; // won't be used but prevents compiler from complaining.
×
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      final String __message = "the `type` field is not valid because:";
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      __errors.add(new ValidationException(__message, e));
×
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    }
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    java.util.Optional<String> label;
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309
    if (__doc.containsKey("label")) {
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      try {
311
        label =
×
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            LoaderInstances
313
                .optional_StringInstance
314
                .loadField(__doc.get("label"), __baseUri, __loadingOptions);
×
315
      } catch (ValidationException e) {
×
316
        label = null; // won't be used but prevents compiler from complaining.
×
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        final String __message = "the `label` field is not valid because:";
×
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        __errors.add(new ValidationException(__message, e));
×
319
      }
×
320

321
    } else {
322
      label = null;
1✔
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    }
324
    Object secondaryFiles;
325

326
    if (__doc.containsKey("secondaryFiles")) {
1✔
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      try {
328
        secondaryFiles =
1✔
329
            LoaderInstances
330
                .secondaryfilesdsl_union_of_NullInstance_or_SecondaryFileSchema_or_array_of_SecondaryFileSchema
331
                .loadField(__doc.get("secondaryFiles"), __baseUri, __loadingOptions);
1✔
332
      } catch (ValidationException e) {
×
333
        secondaryFiles = null; // won't be used but prevents compiler from complaining.
×
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        final String __message = "the `secondaryFiles` field is not valid because:";
×
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        __errors.add(new ValidationException(__message, e));
×
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      }
1✔
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338
    } else {
339
      secondaryFiles = null;
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    }
341
    java.util.Optional<Boolean> streamable;
342

343
    if (__doc.containsKey("streamable")) {
1✔
344
      try {
345
        streamable =
×
346
            LoaderInstances
347
                .optional_BooleanInstance
348
                .loadField(__doc.get("streamable"), __baseUri, __loadingOptions);
×
349
      } catch (ValidationException e) {
×
350
        streamable = null; // won't be used but prevents compiler from complaining.
×
351
        final String __message = "the `streamable` field is not valid because:";
×
352
        __errors.add(new ValidationException(__message, e));
×
353
      }
×
354

355
    } else {
356
      streamable = null;
1✔
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    }
358
    Object format;
359

360
    if (__doc.containsKey("format")) {
1✔
361
      try {
362
        format =
1✔
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            LoaderInstances
364
                .uri_union_of_NullInstance_or_StringInstance_or_array_of_StringInstance_or_ExpressionLoader_True_False_None_True
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                .loadField(__doc.get("format"), __baseUri, __loadingOptions);
1✔
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      } catch (ValidationException e) {
×
367
        format = null; // won't be used but prevents compiler from complaining.
×
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        final String __message = "the `format` field is not valid because:";
×
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        __errors.add(new ValidationException(__message, e));
×
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      }
1✔
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372
    } else {
373
      format = null;
1✔
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    }
375
    java.util.Optional<Boolean> loadContents;
376

377
    if (__doc.containsKey("loadContents")) {
1✔
378
      try {
379
        loadContents =
×
380
            LoaderInstances
381
                .optional_BooleanInstance
382
                .loadField(__doc.get("loadContents"), __baseUri, __loadingOptions);
×
383
      } catch (ValidationException e) {
×
384
        loadContents = null; // won't be used but prevents compiler from complaining.
×
385
        final String __message = "the `loadContents` field is not valid because:";
×
386
        __errors.add(new ValidationException(__message, e));
×
387
      }
×
388

389
    } else {
390
      loadContents = null;
1✔
391
    }
392
    java.util.Optional<LoadListingEnum> loadListing;
393

394
    if (__doc.containsKey("loadListing")) {
1✔
395
      try {
396
        loadListing =
×
397
            LoaderInstances
398
                .optional_LoadListingEnum
399
                .loadField(__doc.get("loadListing"), __baseUri, __loadingOptions);
×
400
      } catch (ValidationException e) {
×
401
        loadListing = null; // won't be used but prevents compiler from complaining.
×
402
        final String __message = "the `loadListing` field is not valid because:";
×
403
        __errors.add(new ValidationException(__message, e));
×
404
      }
×
405

406
    } else {
407
      loadListing = null;
1✔
408
    }
409
    java.util.Optional<CommandLineBinding> inputBinding;
410

411
    if (__doc.containsKey("inputBinding")) {
1✔
412
      try {
413
        inputBinding =
1✔
414
            LoaderInstances
415
                .optional_CommandLineBinding
416
                .loadField(__doc.get("inputBinding"), __baseUri, __loadingOptions);
1✔
417
      } catch (ValidationException e) {
×
418
        inputBinding = null; // won't be used but prevents compiler from complaining.
×
419
        final String __message = "the `inputBinding` field is not valid because:";
×
420
        __errors.add(new ValidationException(__message, e));
×
421
      }
1✔
422

423
    } else {
424
      inputBinding = null;
1✔
425
    }
426
    if (!__errors.isEmpty()) {
1✔
427
      throw new ValidationException("Trying 'RecordField'", __errors);
×
428
    }
429
    this.doc = (Object) doc;
1✔
430
    this.name = (String) name;
1✔
431
    this.type = (Object) type;
1✔
432
    this.label = (java.util.Optional<String>) label;
1✔
433
    this.secondaryFiles = (Object) secondaryFiles;
1✔
434
    this.streamable = (java.util.Optional<Boolean>) streamable;
1✔
435
    this.format = (Object) format;
1✔
436
    this.loadContents = (java.util.Optional<Boolean>) loadContents;
1✔
437
    this.loadListing = (java.util.Optional<LoadListingEnum>) loadListing;
1✔
438
    this.inputBinding = (java.util.Optional<CommandLineBinding>) inputBinding;
1✔
439
  }
1✔
440
}
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