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Libraries to collections #5080

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merged 15 commits into from Dec 20, 2017

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@martenson
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martenson commented Nov 27, 2017

this is tied to the client API that will be probably made obsolete by #5038 so I will continue with this after I review that

ping @jmchilton

edit: this is ready for review now

@martenson martenson added this to the 18.01 milestone Nov 27, 2017

@@ -1,4 +1,8 @@
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@jmchilton

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Bad merge here

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@martenson

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This is just a static file though, the whole PR is not make client'd just this file got there for some reason. Should be fine after build I think.

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@jmchilton

jmchilton Nov 27, 2017

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Yup - good points - I didn't mean to nit pick.

@nsoranzo nsoranzo changed the title from [WIP] Libraries to colllections to [WIP] Libraries to collections Nov 27, 2017

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martenson commented Dec 18, 2017

ready for fist review I think - ping @jmchilton

@martenson martenson changed the title from [WIP] Libraries to collections to Libraries to collections Dec 18, 2017

@martenson martenson removed the status/WIP label Dec 18, 2017

martenson added some commits Nov 16, 2017

wip on importing from library to history as a collection
+ various es6 additions; cleanup; refactoring

I tried to separate it into more commits but it kept growing too fast, sorry
}
// if (element.history_content_type !== "dataset") {
// return _l("is not a dataset");
// }

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@jmchilton

jmchilton Dec 18, 2017

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Ha! That was simple it seems - very nice!

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@martenson

martenson Dec 18, 2017

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I improved that so it respects data coming from datalibrary

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martenson commented Dec 18, 2017

screenshot 2017-12-18 12 04 44
screenshot 2017-12-18 12 04 53

// }
if (element.history_content_type !== "dataset" && element.type !== "file") {
return _l("is not a dataset or a library file");
}

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@jmchilton

jmchilton Dec 18, 2017

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Well I liked it better before you did this - there is no reason in my mind for this extra check.

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@martenson

martenson Dec 18, 2017

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Really? I mean the check is kinda silly indeed, but I thought it serves a purpose of disallowing collections in?

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@jmchilton

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But collections should be allowed in ideally - that used to be allowed - but good point the current version of these wouldn't work with collections.

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@martenson

martenson Dec 18, 2017

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Yeah, they should be allowed in, but this is not what is stopping them as you point out.

},
createHDCA: function(elementIdentifiers, collectionType, name, hideSourceItems, history_id, options) {
let hdca = new HDCA_MODEL.HistoryDatasetCollection({

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@martenson

martenson Dec 18, 2017

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it would be nice to refactor this together with how the collection builder modals are invoked, but it does not seem too inelegant

refactor modal to bind closing event at different time
this allows chaining modals after each other with closing events working
];
return this.createHDCA(elements, this.collectionType, name, hideSourceItems, history_id);
};
LIST_CREATOR.collectionCreatorModal(

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@jmchilton

jmchilton Dec 18, 2017

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PAIR_CREATOR.pairCollectionCreatorModal right?

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@martenson

martenson Dec 18, 2017

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The function you mention is just a wrapper over LIST_CREATOR.collectionCreatorModal that adds a title which I do not want to use. I can refactor it if you deem it a better approach.

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@jmchilton

jmchilton Dec 18, 2017

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Should we just change the title everywhere then to the one you want - yours looks better? If yes, can we eliminate the other entries points all together?

Also, if the LIST_CREATOR has a good general purpose collection creator method we want to use to create pairs - can we move it into base-creator.js to make it more clear its function?

I know these aren't your problems - I'm happy to clean this up in a follow up PR if you wish. I'd just like to better understand the collection creator entry points.

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@martenson

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I'd just like to better understand the collection creator entry points.

you and me both 🤣

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@martenson

martenson Dec 18, 2017

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@jmchilton The modal titles here are only different in the fact they include name of the history you are creating the collections in - which is only relevant for the datalib use case - when you are invoking the collection modals from history it is obvious which one you are creating it in.

};
LIST_CREATOR.collectionCreatorModal(
collection_elements,
{creationFn: creationFn, title: modal_title},

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@jmchilton

jmchilton Dec 18, 2017

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I think in each case this option array should have defaultHideSourceItems: true enabled. It'd be better to not see the original HDAs in the history by default. It makes even moderately large collections difficult to work with.

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@martenson

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I suspect this is overruled in the creator modal itself (which has its own checkbox for this, but I will check)

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@martenson

martenson Dec 18, 2017

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you are right, the modal respects this and I adjusted my code to take advantage of that and hide the source items by default

jmchilton and others added some commits Dec 18, 2017

Improvements to library testing.
- Add tests for creating a collection from a library.
- Add more class names to library GUI to improve selectors for tests.
- Automatically select whichever radio box makes sense in library collection builder dialog based on whether there is a selection or not.
Merge pull request #26 from jmchilton/lib-to-colllection
Improvements to library testing.
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jmchilton commented Dec 19, 2017

Thanks for the Selenium fix - sorry about that.

@jmchilton jmchilton merged commit ee6512e into galaxyproject:dev Dec 20, 2017

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jmchilton commented Dec 20, 2017

Awesome thanks for the great new feature @martenson!

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