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Initial merge: Dash sequence viewer #8
Commits on Sep 18, 2018
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Add sequence viewer to package.json.
Shammamah Hossain committedSep 18, 2018 Configuration menu - View commit details
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Add React wrapper for sequence viewer component.
Shammamah Hossain committedSep 18, 2018 Configuration menu - View commit details
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Commits on Sep 19, 2018
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Add in requirements to package.json; add in selection feature for seq…
…uence viewer.
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Add testing code for sequence viewer.
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Commits on Sep 22, 2018
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Update progress; setProps still undefined.
Shammamah Hossain committedSep 22, 2018 Configuration menu - View commit details
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Commits on Sep 24, 2018
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Back to working state; setProps still is not defined as a function.
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Fix issue with setProps; all onclick functions work now for coverage.
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Change deprecated ComponentWillMount to ComponentDidMount.
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Shammamah Hossain committed
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Add error handling for updating coverage.
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First attempt at implementing mouse selection and subpart selection.
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Add sections for testing all aspects of coverage and selection.
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Add descriptions of all prop types.
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Implement and show example of legend.
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Commits on Sep 25, 2018
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onMouseSelection and onSubpartSelected correctly work with the consol…
…e, but not with setProps.
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Remove some unnecessary lines of code and add TODO for ShouldComponen…
…tUpdate.
Shammamah Hossain committedSep 25, 2018 Configuration menu - View commit details
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Commits on Sep 26, 2018
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Fix issue with rerendering in the middle of searching for a sequence;…
… implement subpart selection and mouse selection.
Shammamah Hossain committedSep 26, 2018 Configuration menu - View commit details
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Modify usage.py to demonstrate subpart selection.
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Minor typo corrections; note that onMouseSelection and onclick events…
… for coverage cannot work together for some reason.
Shammamah Hossain committedSep 26, 2018 Configuration menu - View commit details
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Add beginnings of app styling.
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Commits on Sep 27, 2018
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Implement shouldComponentUpdate to deal with issue of re-rendering up…
…on seach.
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First draft of demo app for meeting.
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Commits on Sep 28, 2018
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Add fix for webpack issue described on dash-component-boilerplate rep…
…ository.
Shammamah Hossain committedSep 28, 2018 Configuration menu - View commit details
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Add dash_bio and package-lock.
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Commits on Oct 3, 2018
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Add in a helper script to parse .fasta files, and incorporate these c…
…hanges into usage.py.
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Commits on Oct 4, 2018
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Add functionality for multiple proteins in single fasta file.
Shammamah Hossain committedOct 4, 2018 Configuration menu - View commit details
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Always return a list of proteins in protein reader.
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Modify to allow reading a raw data string as well as reading from a f…
…ile; reading contents of file will make application work when running on Heroku.
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Add docstrings and clean up code.
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Commits on Oct 11, 2018
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Add test app for sequence viewer.
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Remove protein files and folder.
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Commits on Oct 17, 2018
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Fix merge conflicts when merging master back in.
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Update code to reflect dependencies for this app.
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Commits on Oct 18, 2018
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Make some changes as suggested in PR.
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Add coverage option into demo app.
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Commits on Oct 22, 2018
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Shammamah Hossain committed
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Fix double declaration of dash in requirements.txt.
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Remove base64 from requirements.txt.
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Add server variable for DDS to usage.py.
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Include entire event details for mouse selection event.
Shammamah Hossain committedOct 22, 2018 Configuration menu - View commit details
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Ensure that component updates when a new sequence is loaded.
Shammamah Hossain committedOct 22, 2018 Configuration menu - View commit details
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Fix issue with coverage not being enabled.
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Fix issue with selection and/or coverage not having a length due to b…
…eing null.
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Update tarball to fix error with initializing selection and coverage …
…to null.
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Commits on Oct 24, 2018
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Initialize coverage and selection to be empty lists instead of null.
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Fix issue with trying to access 'selection' key in a NoneType variable.
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Add support for selecting a different protein in the same file.
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Update tarball to reflect changes in component.
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Modify protein reader to use Bio.SeqIO for parsing; clean up usage.py…
… code.
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add biopython to requirements.
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Commits on Oct 30, 2018
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Shammamah Hossain committed
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Remove onMouseSelection and onSubpartSelected functions from componen…
…t's props.
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condense declaration of constants in render method.
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Remove null initialization of selection in usage.py, and remove condi…
…tional for checking if selection and/or coverage is null in render method.
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Use "some" functions to filter through selection and coverage in shou…
…ldComponentUpdate, and remove checking for null values. Fix usage.py to not return None as value of selection.
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Put sequenceMaxHeight in defaultProps.
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Commits on Nov 5, 2018
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Clean up code and fix stylesheet to be specific to sequence viewer co…
…mponent.
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Commits on Nov 6, 2018
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Add parsing for other databases.
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Commits on Nov 7, 2018
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Add default props to sequence viewer component.
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Commits on Nov 8, 2018
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Merge branch 'master' into dash-sequence-viewer
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Merge branch 'master' into dash-sequence-viewer
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merge master back and resolve conflicts.
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Fix conflicts with master and add description/image.
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Update style to display properly in new gallery page.
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Merge branch 'master' into dash-sequence-viewer
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Commits on Nov 9, 2018
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Merge branch 'master' into dash-sequence-viewer
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Commits on Nov 13, 2018
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Remove unnecessary functionality from proteinReader.
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Use Biopython to translate amino acid sequences.
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Fix height of controls container.
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Use Biopython for translation and add translation alphabet options.
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change style and add logo to demo app.
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Remove index.py from gitignore.
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Commits on Nov 14, 2018
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Remove whitespace and clean up code as per code review comments.
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Commits on Nov 15, 2018
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Merge master and resolve conflicts.
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Remove versions from requirements.
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Commits on Nov 16, 2018
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Merge master back into branch.
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Fix index.py and package.json to include most current versions on mas…
…ter.
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Commits on Nov 19, 2018
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Fix whitespace errors in package.json; regenerate tarball.
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Change react-sequence-viewer dependency to come from git repository.
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Commits on Nov 20, 2018
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Update stylesheet to have component-specific scrollbar styling.
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Move onclick function assignments for coverage outside of render meth…
…od (still buggy; onclick is assigned, but clicking doesn't register until changing to a different sequence and then changing back).
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Add sample data and add support for adding coverage in-app.
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Commits on Nov 21, 2018
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Load default data and coverage.
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Fix webkit scrollbar styling to be specific to app.
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Fix bug in which multiples of 3 for subsequence selection would not a…
…ppear.
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Rename SequenceViewerComponent to SequenceViewer.
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Commits on Nov 22, 2018
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Add specific sequence viewer commit ID.
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Merge master back into branch.
Shammamah Hossain committedNov 23, 2018 Configuration menu - View commit details
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Add or update descriptions for component and props.
Shammamah Hossain committedNov 23, 2018 Configuration menu - View commit details
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Commits on Nov 27, 2018
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Re-add selection to props in render.
Shammamah Hossain committedNov 27, 2018 Configuration menu - View commit details
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Merge master back into branch and re-build package.
Shammamah Hossain committedNov 27, 2018 Configuration menu - View commit details
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Shammamah Hossain committed
Nov 27, 2018 Configuration menu - View commit details
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