[WIP] Hacking on the Userspace Containers idea #33
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mr-c
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3e1b02c Merge commit '6ac559ed62780091eb0cfff914018ed101ef46ef' into scoped-ref-and-typedsl 6ac559e version bump 2cfde6b Merge pull request #32 from common-workflow-language/type_dsl b8edddc re-enable test_avro_regression bedb736 Merge branch 'type_dsl' of github.com:common-workflow-language/schema_salad into type_dsl e93b038 Add missing file 9ca6cc9 remove more str types, possible fix for edam failed test d65fb83 more unicode 4350b30 type clarification 96f08e8 Merge remote-tracking branch 'origin/master' into type_dsl 57f7e83 borrow the updated re.pyi from typeshed c03eb1e type fixes 6e71f35 Merge remote-tracking branch 'origin/master' into type_dsl 68a5c6c More updating to draft-4.dev2 97e8f75 More updating to draft-4.dev2 e554b2b Merge pull request #33 from common-workflow-language/fix-resolve_all_refactor ad34521 fix bug introduced by refactor 5393edc fixes types, removes a few more Anys e298bdc Detect when an abstract class is used but doesn't have a concrete subtype. git-subtree-dir: cwltool/schemas git-subtree-split: 3e1b02c
mr-c
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Jul 6, 2016
…refactor fixes types, removes a few more Anys
mr-c
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Jul 6, 2016
c509a07 Merge pull request #34 from common-workflow-language/unscoped_ids f857e9d type fixups 0407370 Allow idmaps for record fields. 5d9a08e Use makerdf for --print-rdf ce00252 Add test for non-scoped identifiers. ef27301 restore a dropped cast 6ac559e version bump 2cfde6b Merge pull request #32 from common-workflow-language/type_dsl b8edddc re-enable test_avro_regression bedb736 Merge branch 'type_dsl' of github.com:common-workflow-language/schema_salad into type_dsl e93b038 Add missing file 9ca6cc9 remove more str types, possible fix for edam failed test d65fb83 more unicode 4350b30 type clarification 96f08e8 Merge remote-tracking branch 'origin/master' into type_dsl 57f7e83 borrow the updated re.pyi from typeshed c03eb1e type fixes 6e71f35 Merge remote-tracking branch 'origin/master' into type_dsl e554b2b Merge pull request #33 from common-workflow-language/fix-resolve_all_refactor ad34521 fix bug introduced by refactor 5393edc fixes types, removes a few more Anys e298bdc Detect when an abstract class is used but doesn't have a concrete subtype. 851b3c1 Split minimal base types used in CWL into metaschema_base.yml 8823aaa Adjust ref scopes 3431e18 Use scopedRef and typeDSL in metaschema 1e6dab6 Using typeDSL in metaschema. 3055f70 Update bootstrap context. 31db28e Merge branch 'master' into type_dsl. Add test for typeDSL. 116d9e4 Merge branch 'resolve_all_refactor' 8072bf5 "type" DSL wip 33ef215 Refactor resolve_all into smaller methods. ad8a111 Merge pull request #28 from common-workflow-language/scoped_ref 5aadf27 fix types 4ef52be Improve documentation. Add feature of skipping some inner scopes. c6d4a7b Reworking refScope to be fixed instead of search based. ae0ef4e Remove explicit calls to validate_links since it is folded into resolve_all(). 2fa6bfb update types e5d4730 New test for scoped ref that better reflects actual desired behavior. efbc9c4 Add scopedRef to metaschema. Tweak test. 9fcd67d Fold link validation into resolve_all() and resolve scoped identifiers. da10eec always be updating (mypy-lang) e1e17ea upgrade Jenkins setuptools 563e5ef fix jenkins build f0ac285 Merge branch 'master' of github.com:common-workflow-language/schema_salad 84738f1 better RDF schema error handling (#26) 3b8dc09 mypy 0.4 is out (#25) 8c5bda0 Fix mapSubject fields when $import or $include is provided. 5b969ca fix diff-cover d798a7e split out mypy f43fa45 Fix tests 2d0398e Bump version. aeab7c3 Merge branch 'master' of github.com:common-workflow-language/schema_salad e381f64 Return metaschema loader from load_schema. Don't crash expanding identifier fields when value is not a string. 15dae9f enhance CI fd2fcb3 more type checking (#21) c51c723 enable rdfa schema format (#22) ff192e8 turn off py3 support for now (#19) 0c5dba5 measure code coverage (#12) 2514a23 switch to ruamel.yaml, use C loader if available, only load safely (#20) 37c129d Merge branch 'master' of github.com:common-workflow-language/schema_salad 0b09a19 Makedoc detects any ``` for toggling looking for # for section headings. d361b6c Bump version # 2da084e Add mapSubject and mapPredicate to metaschema. 2b00752 Turn idMap into mapSubject and mapPredicate. af7a419 Support id maps in preprocessing. 984ab9c Fix makedoc section header bug. cc0f52b Add margin to <pre> sections in generated documentation. git-subtree-dir: draft-4/salad git-subtree-split: c509a07
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Can one of the admins verify this patch? |
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Hey @kdmurray91 I think udocker fills this role well, so I'm going to close this PR. Thanks for being a trailblazer! |
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@mr-c: Was forwarded this today, are folks here aware of Singularity? https://github.com/singularityware/singularity |
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@kdmurray91 Yep! @alaindomissy has got it working smoothly with Also, Alain has a script to build a Singularity container from a CWL requirements list and has promised to eventually share that as well! |
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@kdmurray91 Do you mind if I delete this branch? |
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@mr-c done :) |
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A standing pull request covering the userspace container ideas discussed in the wiki