Squashed 'cwltool/schemas/' changes from 25784a9..46ce0c3

46ce0c3 Merge pull request #265 from common-workflow-language/optional-baseCommand
64774b2 Merge pull request #271 from kislyuk/patch-1
dc8ac51 add description->doc to release notes
8189f03 Update contrib.md
5b7ad26 Merge pull request #263 from common-workflow-language/better-writable-test
1d5714d Merge pull request #268 from chapmanb/tests-docker-hints
4b78524 Merge pull request #267 from common-workflow-language/test-nameroot-in-stdout
7d45aca Tests: move Docker from requirements to hints
c95d302 Add test using $(inputs.file.nameroot) in stdout field.
66046d1 Errata: make baseCommand optional because the text did not specify if "baseCommand: []" is legal, but functionally "baseCommand: []" has the same effect as not providing baseCommand at all.
c807103 Adjust conformance test for "writable" flag.  Previous test did not test intended behavior because 'sed -i' doesn't modify the file in place.
c256c08 update CITATION to v1.0
98da9c1 bump DOI version
e4daf25 errata: SoftwarePackage 'name' conflicts; use 'package'
5619853 errata: SoftwarePackage packages is a required array
9a6a044 last update to test 72
5932a26 Merge pull request #261 from common-workflow-language/mr-c-patch-1
bc38b68 match new SoftwareRequirement syntax
e065755 Merge pull request #260 from StarvingMarvin/master
af25c0a Making stronger promise on runtime values that platform provides
de7a9ca update link to user guide
3db2c7c Add missing file
5eae857 Merge branch 'master' into userguide-1.0
0071e84 Update user guide for v1.0
f3d7dce Merge pull request #257 from StarvingMarvin/master
111df5b deleted repeated words
01286d2 Merge pull request #256 from common-workflow-language/release-notes
7889ab2 update URL to v1.0
e2aeceb format map<>
ac1ad16 corrent URL to v1.0
53cf86d clarify map feature
70a076a update release notes
ce50dfd Merge pull request #255 from common-workflow-language/matt-edits
db11e6e last edits
fa84959 update contribs
5fa3867 Build user guide.  Bugfix user guide.
08ea290 last Matt edits
9686fde Merge branch 'master' into userguide-1.0
adda389 cwlsite v1.0.dev4 -> v1.0
c1bd238 fix typo
b7b0355 more edits
fbe0e8b typo
ab83ec2 update my affiliation and email address
c25dfc9 More edits
901ea7c Merge branch 'master' into userguide-1.0
156d28f Update examples to v1.0
5403799 Add examples
4fcf203 Copy draft-3 user guide.
c113a39 Tests are v1.0
0fbc47b Add v1.0 as real valid version.

git-subtree-dir: cwltool/schemas
git-subtree-split: 46ce0c3

Author: mr-c

.coveragerc

@@ -1,16 +1,7 @@
-# Python temps
-__pycache__/
-*.py[cod]
-*$py.class
-build/
-dist/
-eggs/
-.eggs/
-*.egg-info/
-*.egg
-
-# Editor Temps
-.*.sw?
 *~
-\#*\#
-.desktop
+*.pyc
+*.egg
+*.egg-info
+.idea/*
+common-workflow-language.github.io/
+cwltool/

.gitignore

@@ -0,0 +1,20 @@
+To cite the Common Workflow Language standard in a publication, please use:
+
+Amstutz, Peter; Crusoe, Michael R; Tijanić, Nebojša; Chapman, Brad;
+Chilton, John; Heuer, Michael; Kartashov, Andrey; Kern, John; Leehr, Dan;
+Ménager, Hervé; Nedeljkovich, Maya; Scales, Matt; Soiland-Reyes, Stian;
+Stojanovic, Luka (2016): Common Workflow Language, v1.0. figshare.
+https://dx.doi.org/10.6084/m9.figshare.3115156.v2
+
+@data{common-workflow-language-draft3,
+  doi = {10.6084/m9.figshare.3115156.v2},
+  url = {http://dx.doi.org/10.6084/m9.figshare.3115156.v2},
+  author = {Peter Amstutz; Michael R. Crusoe; Nebojša Tijanić; Brad Chapman;
+John Chilton; Michael Heuer; Andrey Kartashov; John Kern; Dan Leehr;
+Hervé Ménager; Maya Nedeljkovich; Matt Scales; Stian Soiland-Reyes;
+Luka Stojanovic
+ },
+  publisher = {Figshare},
+  title = {Common Workflow Language, v1.0},
+  year = {2016}
+}

CITATION

@@ -16,20 +16,20 @@ Bioinformatics, Medical Imaging, Chemistry, Physics, and Astronomy.
 
 ## CWL User Guide
 
-[User guide for the current stable specification (draft-3)](http://www.commonwl.org/draft-3/UserGuide.html),
+[User guide for the current stable specification (v1.0)](http://www.commonwl.org/v1.0/UserGuide.html),
 provides a gentle introduction to writing CWL command line tool and workflow descriptions.
 
 ## CWL Specification
 
 The current stable specification is [v1.0](http://www.commonwl.org/v1.0/):
 
-http://www.commonwl.org/draft-v1.0/
+http://www.commonwl.org/v1.0/
 
 Older drafts: [draft-1](https://github.com/common-workflow-language/common-workflow-language/tree/master/draft-1), [draft-2](http://www.commonwl.org/draft-2/), [draft-3](http://www.commonwl.org/draft-3/)
 
 ### Citation
 
-Please cite https://dx.doi.org/10.6084/m9.figshare.3115156.v1
+Please cite https://dx.doi.org/10.6084/m9.figshare.3115156.v2
 
 ## Implementations