start development of CWL v1.3.0-dev1

Author: mr-c

CommandLineTool.yml

@@ -10,10 +10,10 @@ $graph:
   type: documentation
   doc:
     - |
-      # Common Workflow Language (CWL) Command Line Tool Description, v1.2
+      # Common Workflow Language (CWL) Command Line Tool Description, v1.3.0-dev1
 
       This version:
-        * https://w3id.org/cwl/v1.2/
+        * https://w3id.org/cwl/v1.3.0-dev1
 
       Latest stable version:
         * https://w3id.org/cwl/
@@ -37,53 +37,19 @@ $graph:
     - {$include: intro.md}
 
     - |
-      ## Introduction to the CWL Command Line Tool standard v1.2
-
-      This specification represents the latest development release from the
-      CWL group.  Since the v1.1 release, v1.2 introduces the
-      following updates to the CWL Command Line Tool standard.
-      Documents should use `cwlVersion: v1.2` to make use of new
-      syntax and features introduced in v1.2.  Existing v1.1 documents
-      should be trivially updatable by changing `cwlVersion`, however
-      CWL documents that relied on previously undefined or
-      underspecified behavior may have slightly different behavior in
-      v1.2.
+      ## Introduction to the CWL Command Line Tool standard v1.3.0-dev1
+
+      This specification represents the latest development version from the
+      CWL group.
 
       ## Changelog
 
-      * `coresMin` and `coresMax` of
-          [ResourceRequirement](#ResourceRequirement) may now request fractional CPUs.
-      * `ramMin`, `ramMax`, `tmpdirMin`, `tmpdirMax`, `outdirMin`, and `outdirMax` of
-          [ResourceRequirement](#ResourceRequirement) now accept floating point values.
-      * [CommandLineTool](#CommandLineTool) can now express `intent`
-        with an identifier for the type of computational operation.
-      * Added conformance tests for order of operations evaluating `secondaryFiles` on input
-        and ensure that input and output secondaryFiles expressions can return a File object.
-      * Clarify there are no limits on the size of file literal `contents`.
-      * When using `loadContents` it now must fail when attempting to
-        load a file greater than 64 KiB instead of silently truncating
-        the data.
-      * Objects, arrays and numbers returned by parameter references
-        or expressions in `Dirent.entry` that are not a `File` or
-        `Directory` object (or array of such) are now specified to be
-        JSON serialized to produce file contents.
-      * Note that only enum and record types can be typedef-ed
-      * Added conformance tests for order of operations evaluating `secondaryFiles` on input
-        and ensure that input and output secondaryFiles expressions can return a File object.
-      * Escaping in [string interpolation](#String_Interpolation) has
-        been added to the specification along with conformance tests.
-      * It is now possible to have an absolute path in the `entryname`
-        field in
-        [InitialWorkDirRequirement](#InitialWorkDirRequirement) when
-        running in a mandatory container.  Together with
-        `DockerRequirement.dockerOutputDirectory` this it possible to
-        control the locations of both input and output files when
-        running in containers.
-      * Specify default success/fail interpretation of exit codes when not given.
-
-      See also the [CWL Workflow Description, v1.2 changelog](Workflow.html#Changelog).
+
+      See also the [CWL Workflow Description, v1.3.0-dev1 changelog](Workflow.html#Changelog).
       For other changes since CWL v1.0, see the
       [CWL Command Line Tool Description, v1.1 changelog](https://www.commonwl.org/v1.1/CommandLineTool.html#Changelog)
+      and
+      [CWL Command Line Tool Description, v1.2 changelog](https://www.commonwl.org/v1.2/CommandLineTool.html#Changelog).
 
       ## Purpose
 

Process.yml

@@ -46,6 +46,7 @@ $graph:
     - cwl:v1.2.0-dev4
     - cwl:v1.2.0-dev5
     - cwl:v1.2
+    - cwl:v1.3.0-dev1
 
 - name: CWLType
   type: enum

README.md

@@ -1,9 +1,3 @@
 Hello!
 
-This repo holds the development version of CWL v1.2.1; see https://github.com/common-workflow-language/cwl-v1.2/issues/54 for the plan.
-
-See https://github.com/common-workflow-language/cwl-v1.2/tree/v1.2.0 for the released v1.2 of the Common Workflow Language standards and the history of its development.
-
-You can render this using https://github.com/common-workflow-language/cwl-website/blob/main/website.sh
-
-You may browse the released v1.2 standards online at https://www.commonwl.org/v1.2
+This repo holds the v1.3.0-dev0 in-development version of the Common Workflow Language standard and the history of its development.

Workflow.yml

@@ -11,10 +11,10 @@ $graph:
   type: documentation
   doc:
     - |
-      # Common Workflow Language (CWL) Workflow Description, v1.2
+      # Common Workflow Language (CWL) Workflow Description, v1.3.0-dev1
 
       This version:
-        * https://w3id.org/cwl/v1.2/
+        * https://w3id.org/cwl/v1.3.0-dev1
 
       Latest stable version:
         * https://w3id.org/cwl/
@@ -35,49 +35,21 @@ $graph:
 
     - |
 
-      ## Introduction to CWL Workflow standard v1.2
+      ## Introduction to CWL Workflow standard v1.3.0-dev1
 
-      This specification represents the latest stable release from the
-      CWL group.  Since the v1.1 release, v1.2 introduces the
-      following updates to the CWL Workflow standard.
-      Documents should to use `cwlVersion: v1.2` to make use of new
-      syntax and features introduced in v1.2.  Existing v1.1 documents
-      should be trivially updatable by changing `cwlVersion`, however
-      CWL documents that relied on previously undefined or
-      underspecified behavior may have slightly different behavior in
-      v1.2.  See note about `cwl-upgrader` in the changelog.
+      This specification represents the latest development version from the
+      CWL group.
+
+      
 
       ## Changelog
 
-        * Adds `when` field to [WorkflowStep](#WorkflowStep) for conditional
-          execution
-        * Adds `pickValue` field to [WorkflowStepInput](#WorkflowStepInput) and
-          [WorkflowOutputParameter](#WorkflowOutputParameter) for selecting among null and
-          non-null source values
-        * Add abstract [Operation](#Operation) that can be used as a
-          no-op stand-in to describe abstract workflows.
-        * [Workflow](#Workflow), [ExpressionTool](#ExpressionTool) and
-          [Operation](#Operation) can now express `intent` with an
-          identifier for the type of computational operation.
-        * Clarify there are no limits on the size of file literal `contents`.
-        * When using `loadContents` it now must fail when attempting to
-          load a file greater than 64 KiB instead of silently truncating
-          the data.
-        * Note that only enum and record types can be typedef-ed
-        * Escaping in [string interpolation](#String_Interpolation) has
-          been added to the specification along with conformance tests.
-        * Added discussion of [packed documents](#Packed_documents).
-        * Specify behavior when `source` is a single-item list and no
-          linkMerge is set.
-        * Added discussion about handling different document versions.
-        * Added definition of **data link**
-
-      See also the [CWL Command Line Tool Description, v1.2 changelog](CommandLineTool.html#Changelog).
-      For other changes since CWL v1.0, see the
-      [CWL Workflow Description, v1.1 changelog](https://www.commonwl.org/v1.1/Workflow.html#Changelog).
 
-      [`cwl-upgrader`](https://github.com/common-workflow-language/cwl-upgrader) can
-      be used for upgrading CWL documents from version `draft-3`, `v1.0`, and `v1.1` to `v1.2`.
+      See also the [CWL Command Line Tool Description, v1.3.0-dev1 changelog](CommandLineTool.html#Changelog).
+      For other changes since CWL v1.0, see the
+      [CWL Workflow Description, v1.1 changelog](https://www.commonwl.org/v1.1/Workflow.html#Changelog)
+      and
+      [CWL Workflow Description, v1.2 changelog](https://www.commonwl.org/v1.2/Workflow.html#Changelog)
 
       ## Purpose
 

contrib.md

@@ -1,26 +1,8 @@
 Authors:
 
-* Peter Amstutz <[email protected]>, Curii Inc. / Arvados; https://orcid.org/0000-0003-3566-7705
-* Michael R. Crusoe <[email protected]>, CWL Project Lead; https://orcid.org/0000-0002-2961-9670
-* Kaushik Ghose <[email protected]>, Seven Bridges Genomics, Inc; https://orcid.org/0000-0003-2933-1260
 
-Contributors to v1.2:
+Contributors to v1.3.0-dev1:
 
-* John Chilton <[email protected]>, Galaxy Project, Pennsylvania State University; https://orcid.org/0000-0002-6794-0756
-* Michael Franklin <[email protected]>, Peter MacCallum Cancer Centre and University of Melbourne; https://orcid.org/0000-0001-9292-1533
-* Bogdan Gavrilovic <[email protected]>, Seven Bridges Genomics; https://orcid.org/0000-0003-1550-1716
-* Stian Soiland-Reyes, University of Manchester; https://orcid.org/0000-0001-9842-9718
-
-Incorporates the work of past authors and contributors to [CWL v1.0](https://www.commonwl.org/v1.0/Workflow.html) and [CWL v1.1](https://www.commonwl.org/v1.1/Workflow.html).
-
-This standard was [approved on 2020-08-07](https://github.com/common-workflow-language/cwl-v1.2/pull/47) by the CWL leadership team consisting of:
-
-* Peter Amstutz, Curii Inc. / Arvados; https://orcid.org/0000-0003-3566-7705
-* John Chilton, Pennsylvania State University / Galaxy Project; https://orcid.org/0000-0002-6794-0756
-* Michael R. Crusoe, CWL Project Lead; https://orcid.org/0000-0002-2961-9670
-* Brandi Davis Dusenbery, Seven Bridges Genomics, Inc.; https://orcid.org/0000-0001-7811-8613
-* Jeff Gentry, Foundation Medicine; https://orcid.org/0000-0001-5351-8442
-* Hervé Ménager, Institut Pasteur; https://orcid.org/0000-0002-7552-1009
-* Stian Soiland-Reyes, University of Manchester; https://orcid.org/0000-0001-9842-9718
-
-Publisher: [Common Workflow Language project](https://www.commonwl.org), a member project of [Software Freedom Conservancy](https://sfconservancy.org/)
+Incorporates the work of past authors and contributors to [CWL v1.0](https://www.commonwl.org/v1.0/Workflow.html),
+ [CWL v1.1](https://www.commonwl.org/v1.1/Workflow.html),
+and [CWL v1.2](https://www.commonwl.org/v1.2/Workflow.html).

run_test.sh

@@ -36,7 +36,7 @@ Note:
   Example: RUNNER=cwltool EXTRA=--enable-dev
 EOF
 
-CWL_VER=v1.2
+CWL_VER=v1.3.0-dev1
 TEST_n=""
 TEST_N=""
 TEST_s=""