https://github.com/hms-dbmi/higlass

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2d05b43 1.8.4 14 February 2020, 00:21:35 UTC
c04fa22 Updated the CHANGELOG 14 February 2020, 00:20:58 UTC
5d9c222 Fix corrupted locks and svg export bugs (#857) * Working on adding a test * Added LockTests.js * Fixed test * Enabled all the tests again * Updated the CHANGELOG * Removed console log statement * Missing comma in karma.conf.js * Fixed viewport project test * Update app/scripts/HeatmapTiledPixiTrack.js * Add checks for locks 14 February 2020, 00:19:44 UTC
5659ac1 Horizontal multivec row filtering (#842) * WIP: attempt 1 at select/filter rows * WIP: lower level row filtering attempt * Undo code style changes * Style changes again * Fix tooltips when filtering rows * Style changes again * Update changelog * Fix tooltip bug * Add test for horizontal-multivec filtered rows * Clean up viewconfig, update test * Add 'control' test * Do not make selectedRows a tile property, pass it directly to tileDataToPixData() * Revert accidental code style changes 12 February 2020, 16:05:04 UTC
18a226a Merge branch 'master' into develop 11 February 2020, 18:09:42 UTC
c3224de Revert "Merge branch 'alexander-veit/viewconf-editor-track-displacement' into develop" This reverts commit f9d417795939b0939850cbeeb884e1d147e5d9d8, reversing changes made to bebf2acb4a2f0f6ba98061166d44a6989cca8217. 11 February 2020, 17:37:15 UTC
f9d4177 Merge branch 'alexander-veit/viewconf-editor-track-displacement' into develop 11 February 2020, 17:34:54 UTC
6cf02f0 Reset zoomTransform when saving new view config 11 February 2020, 16:55:02 UTC
8fe3ae2 Removed file from npm release 08 February 2020, 20:12:05 UTC
be557a8 Use edge:true for s3 provider 08 February 2020, 19:17:53 UTC
fe91438 Use local_dir 08 February 2020, 19:17:25 UTC
9eac4a1 Remove edge:true from travis s3 deployment 08 February 2020, 17:15:43 UTC
08b2389 Added edge: true to deployment 08 February 2020, 15:24:39 UTC
6c6d8fd 1.8.3 08 February 2020, 03:58:23 UTC
a9c4d9d Updated the CHANGELOG 08 February 2020, 03:58:07 UTC
96d17ec Merge branch 'develop' 08 February 2020, 03:56:40 UTC
bebf2ac Empty track (#850) * Added dates to release notes * Removed dates from CHANGELOG * Started working on the empty-track feature * Added empty track and test * Added EmptyTrackTests * Added a short description of the empty track * Updated comment * Fixed typo 08 February 2020, 03:54:02 UTC
b13d154 Update data_preparation.rst 04 February 2020, 04:31:20 UTC
81d6a95 Update data_preparation.rst 30 January 2020, 20:32:02 UTC
53a708e Update data_preparation.rst 30 January 2020, 20:08:43 UTC
5aa9cc2 Run prettier (#844) 30 January 2020, 19:21:41 UTC
e19536f Removed dates from CHANGELOG 27 January 2020, 15:17:58 UTC
8f187fc Added dates to release notes 27 January 2020, 15:16:35 UTC
8ad27bd Fixed CHANGELOG 27 January 2020, 14:27:43 UTC
25542fe Removed sphinx-autobuild from requirements 27 January 2020, 03:49:33 UTC
5cf8341 1.8.2 27 January 2020, 02:09:13 UTC
521ab05 Merged CHANGELOG 27 January 2020, 02:08:04 UTC
432f729 Fixed adding position to track defs (#843) * Updated the release notes" * 1.8.1 * Fixed adding position to track defs * Updated the CHANGELOG * Fritz's suggestions 27 January 2020, 02:04:00 UTC
03151f5 1.8.1 26 January 2020, 00:20:56 UTC
4248bde Updated the release notes" 25 January 2020, 23:57:22 UTC
ab9bed5 Add labelShowAssembly option (#828) * Add labelShowAssembly option * Add information about label options to track options docs * Add labelShowAssembly option * Add information about label options to track options docs * Trailing comma * Add test for labelShowAssembly option Co-authored-by: Peter Kerpedjiev <pkerpedjiev@gmail.com> 25 January 2020, 23:49:40 UTC
787fa64 Ticks that mark the bounds of the view (#840) * Ticks that mark the bounds of the view * Added end positions as a chromosome labels style * Updated the wording of the docs * Updated the CHANGELOG * Removed unnecessary comment * Fixing tests * Fixed tests * Only add bounds ticks if that option is selected * Only create gBoundTicks if necessary * Small performance improvement 24 January 2020, 23:21:04 UTC
23315e7 Enable horizontal-multivec colorbar (#836) * Functions for color bar * Add colorbar options to horizontal multivec track * Add test for colorbar in horizontal-multivec track, update changelog * Make suggested update to changelog * Add section to docs/track_types for horizontal-multivec Co-authored-by: Peter Kerpedjiev <pkerpedjiev@gmail.com> 24 January 2020, 19:29:11 UTC
af3e61c Add release notes to docs (#829) * Add release notes page to docs * Resolved sphinx warning and updated changelog 24 January 2020, 05:19:39 UTC
79b47f8 Remove semi colons 15 January 2020, 16:07:55 UTC
8b73f3f Flekschas/prettier (#831) * Add prettier * Install ESLint Prettier plugin and configs * Run prettier on utils * Run prettier on configs, data-fetchers, factories, hocs, and services * Ran prettier on primary source files * Run prettier on config files * Run prettier on test files * Update * Add prettier to lintstaged * Update 15 January 2020, 00:58:44 UTC
b6e5b8e Merge branch 'master' of https://github.com/higlass/higlass 13 January 2020, 00:39:28 UTC
6373d61 1.8.0 13 January 2020, 00:39:05 UTC
1943f51 1.8.0 13 January 2020, 00:35:58 UTC
89e4aae Updated the CHANGELOG for release 13 January 2020, 00:35:01 UTC
479abb1 SVG export for Rule tracks (#822) * exportSVG function for VerticalRule component * Add exportSVG functions for horizontal, vertical, and cross rules * Update changelog 12 January 2020, 23:44:21 UTC
4fcfcc7 Add troubleshooting section to docs (#821) * Create troubleshooting.rst And added how to fix empty page on FF on Linux. * Add troubleshooting to index.rst * Update troubleshooting.rst Changed section structure * Update troubleshooting.rst 10 January 2020, 22:20:01 UTC
7fec8c9 Update CHANGELOG.md 08 January 2020, 22:04:09 UTC
56c8acb Added valueScaleMin / valueScaleMax options ... (#816) * Added valueScaleMin / valueScaleMax options and standardized formatting a little bit * Update docs/track_types.rst 08 January 2020, 22:02:16 UTC
06ab0d2 Added the option to flip and mirror 2d annotations (#807) * Added the option to flip and mirror 2d annotations * Changed http://resgen.io to https://resgen.io * Added test * Update options-info.js 08 January 2020, 22:00:14 UTC
d05944d Flelschas/small options fix (#820) * Allow a completely transparent colorbar background * Allow a completely transparent label background 08 January 2020, 21:59:42 UTC
52e2824 Segment style for bedlike tracks (#818) * Add a new style to the bedlike track that displays annotations that look like line segments * Updated the CHANGELOG and documentation * Added tests 08 January 2020, 21:53:51 UTC
335534f added docker networking config example (#819) added docker networking config example - trying to address following issues: https://github.com/higlass/higlass-manage/issues/34 https://github.com/higlass/higlass-docker/issues/148 @pkerpedjiev - I did it finally! sorry for the delay. what happened to us was, that the default docker's IP-pool `172.17.x.x` was interfering with the WiFi router - which has an IP from the same subrange. So docker was modifying the `route` table like so: ``` 172.17.0.0 0.0.0.0 255.255.0.0 U 0 0 0 docker0 172.18.1.0 0.0.0.0 255.255.255.0 U 0 0 0 br-blahblahblah ``` and then the machine running this docker would get unavailable via Wi-Fi ... Pretty nasty issue, and a bit hard to figure out for someone unfamiliar with the networking. This isn't very well documented on the docker side unfortunately, but the config-capabilities are there. Here are all relevant links: https://docs.docker.com/engine/reference/commandline/dockerd/ https://forums.docker.com/t/custom-ip-range-for-new-networks/60839 https://docs.docker.com/engine/reference/commandline/network_create/ PS altering global docker config in `/etc/docker/daemon.json` seems like a great solution because it would restrict IP-addresses used by docker in general - useful when using `redis` and maybe some other docker-containers alongside higlass ... The previous solution https://github.com/higlass/higlass-docker/issues/148 by adding `docker create network --subnet x.x.x.x` would not take care of all the cases PPS I have a feeling information like that belong more to something like `troubleshooting` section of some kind, but there is no such thing yet AFAIK 07 January 2020, 21:34:23 UTC
78b1d93 alexander-veit/default plot types when adding tracks (#817) * Changed the default plot types for the PlotTypeChooser when adding new tracks. The defaults are defined in configs/default-tracks-for-datatype.js * When adding multiple tracks with different datatype, each track is added with its respective default plot type. Instead of the PlotTypeChooser, a message that states this is displayed. * Slight UI improvements of the PlotTypeChooser 03 January 2020, 15:26:55 UTC
47451b5 Start improving gene annotation track creation docs (#815) * Start improving gene annotation track creation docs * Update data_preparation.rst * Update docs/data_preparation.rst Co-Authored-By: Peter Kerpedjiev <pkerpedjiev@gmail.com> * Delete upload code 19 December 2019, 04:56:23 UTC
3a31113 Added a doc section about `colorRange` (#808) * Added a short section about * Updated the CHANGELOG * Updated resgen test data sets to https * Added a link to color-names 14 December 2019, 23:21:42 UTC
6d19dc6 Updated version of node-sass (#809) * Bump node-sass to latest version The current version of node-sass was incompatible with Node 12 and 13. * Update CHANGELOG.md * Revert "Update CHANGELOG.md" This reverts commit 19d1bc51ccb5e58a657586dbe89a962f6dd06d24. 14 December 2019, 02:46:35 UTC
f188eca Improvements to the BedLikeTrack (#731) * Added strandedness to the bedlike track so that plus and minus strand entries are drawn above each other * Placed the triangles in the right position * Added alternating contigs * Text labels work * Added gene textsw and fixed staggered genes error * Renamed alternating to staggered' * Gene annotation display improvements * Remove texts on rerender * Adjust rect height through the options * Add white background to text * Default value for maxValue * Add thumbnails to the examples list * Updated the merged version and changed the default fillcolor * Updated updateTile * Updated the docs * Updated the docs * Enabled all tests again * Replace http with https for resgen test sets * Switch to https resgen * Added example line * Update CHANGELOG.md Co-Authored-By: Fritz Lekschas <service@lekschas.de> * Suggestions from Fritz's code review * Fixed bedlike-track.json 13 December 2019, 17:14:32 UTC
49e52d1 Ensure that the valueScale is available (#799) * Ensure that the valueScale is available * Update 11 November 2019, 22:27:14 UTC
69b6593 Merge branch 'master' into develop 07 November 2019, 15:23:46 UTC
713178d 1.7.2 07 November 2019, 15:21:28 UTC
b462419 Add comparison link 07 November 2019, 15:20:30 UTC
fed6540 Merge branch 'develop' 07 November 2019, 15:19:11 UTC
f3fb128 Flekschas/fix event listener scrollable views (#797) * Add separate property to allow switching between scrolling and pan&zoom * Update the docs for the new scrolling option * Update the changelog for the new scrolling * Only scroll when scrollable and scrolling are true * Extend tests to check scrollable, scrolling, and pan&zoom AFTER scrolling * Update Examples * Change property to sizeMode * Update examples * Update test * Update docs * Switch to new property * Fix two glitches related to backward compatibility * Increase timeout to avoid failure... ...not sure why but sometimes it fails. * Switch to CSS rather than hard-coded styles * Fix unfinished text * Update changelog to latest changes * Add explanatory figure * Fix tests 02 November 2019, 22:06:54 UTC
9679e30 1.7.1 01 November 2019, 03:14:00 UTC
7adcc7c 1.7.0 31 October 2019, 23:30:54 UTC
8644654 Updated the comparison link in the CHANGELOG 31 October 2019, 23:30:10 UTC
53031ea Flekschas/fix scrollable multi views (#795) * Update * Fix view height calculation for scrollable multi-views * Zoom fix is handled automatically * Refactor scrollability to support scrollable multiview container * Fix scroll event source and scroll SVG too * Add a heatmap for demonstration purposes * Update tests 31 October 2019, 23:25:22 UTC
2c9a26e Flekschas/enhance value locks (#794) * Add support to ignore offscreen values for value scale locking * Update * Update schema * Add script for schema test that runs locally 31 October 2019, 23:07:39 UTC
1b79a66 Flekschas/scrollable container (#572) * Implemented a y-scrollable container * I've added an example * Avoid updating the row height when in scroll mode * Add a second demo with multiple views * Avoid code duplication. Simplify code * Add option() to the JS API for setting/getting root options * Update the changelog * Demonstrate the new option() API endpoint * Update the docs * Adjust view height differently when in scrollable mode * Test scroll container * Micro update * Fix view config * Add a comment * Remove timeout as it's not needed * Revert 31 October 2019, 02:36:34 UTC
6ca2c5d Show Loading... when retrieving a tileset (#793) * Show Loading... when retrieving a tileset * Updated the CHANGELOG 30 October 2019, 20:59:52 UTC
9b2589c Updated the CHANGELOG 30 October 2019, 04:40:31 UTC
be37030 1.6.12 30 October 2019, 04:39:01 UTC
eab9ae3 Fix moving horizontal rules bug (#790) * Fixed the horizontal rules so that they move correctly when loaded from a viewconf * Added a test * Updated the CHANGELOG * Fix error on overlay orientation by checking to make sure we have a track info 26 October 2019, 19:01:01 UTC
3bf28c7 Updated gene annotation track creation URL (#789) 16 October 2019, 00:49:58 UTC
6304e4e Flekschas/fancified overlays (#785) * Bombastify overlay borders and add support for outlines * Add fancy overlay example inspired by 1d-annotations * Update changelog * Update schema * Add a comment about the stroke width and height * Constify function * Update docs * Add type description of options 03 October 2019, 16:51:22 UTC
c5cd323 Rename unsafe react lifecycle methods and update packages (#781) * Rename unsafe react lifecycle methods and update packages * Updated the CHANGELOG 27 September 2019, 14:29:54 UTC
007c440 Merge branch 'master' into develop 20 September 2019, 01:43:19 UTC
aac12e3 1.6.11 20 September 2019, 01:42:53 UTC
5d4dfcf Merge branch 'develop' 19 September 2019, 23:07:09 UTC
d95e0a2 Merge branch 'develop' of https://github.com/higlass/higlass into develop 19 September 2019, 23:06:51 UTC
0b017a0 Flekschas/overlay min width height (#777) * Added minWidth and minHeight options for better guidance * Update changelog * Updated example * Robustify last hotfix * Update CHANGELOG.md Co-Authored-By: Peter Kerpedjiev <44822038+pkerpedjiev-zymergen@users.noreply.github.com> * Make sure that overlays are centered when min extent is applied 19 September 2019, 23:06:38 UTC
98e5bde Robustify last hotfix 19 September 2019, 22:30:51 UTC
a7aeab4 Hotfix default width & height 19 September 2019, 22:11:10 UTC
4d6fec1 Improve default options for gene anno tracks 19 September 2019, 21:57:47 UTC
dba8227 Overlay track bug fixes (#774) * Fixed the overlay track * Updated changelog 19 September 2019, 21:45:39 UTC
105c7c9 Allow viewconf to override min dims with `minHeight` or `minWidth` props (2) (#776) * Allow viewconf to override min track dimensions with `minHeight` or `minWidth` properties * Allow viewconf to override min track dimensions with `minHeight` or `minWidth` properties * Edited view configuration documentation * Added `minWidth`/`minHeight` override unit tests; added `test-watch-headless` target for running karma via headless Chromium to test that the override unit test passed * Moved test viewconf, updated test to standards, modified headless browser list * Removed `moved` and `static` fields from the `layout` object * Using track options for minHeight and minWidth * Changed default minHeight and minWidth option values * Remove minWidth and minHeight from schema * Removed minWidth and minHeight from test viewconfs * Schema fixes * Removed invalid commas * Fixed ValueIntervalTrack viewconf * Test fixes * Fixed invalid track tests * Fixed higlasscomponent test * Reenabled all the tests 16 September 2019, 16:54:31 UTC
26917a8 1.6.10 10 September 2019, 16:27:39 UTC
7949236 Updated the CHANGELOG 10 September 2019, 16:06:06 UTC
ff05c05 Merge branch 'master' into develop 10 September 2019, 16:04:25 UTC
3d00c49 Check whether genbank files are gzipped and better handle errors (#771) * Check whether genbank files are gzipped and better handle errors * Updated the CHANGELOG * Display CDS regions rather than genes 10 September 2019, 16:03:44 UTC
36d8cda Add api call to show track chooser (#769) * More working on showing the track chooser * Show track chooser when dragging something over the higlass window * Formatting the PR * Update CHANGELOG.md 10 September 2019, 03:25:19 UTC
a1034e2 Limit icon size in plot type chooser (#770) * Limit icon size in plot type chooser * Use css for logo style 09 September 2019, 01:01:49 UTC
03869b0 1.6.9 06 September 2019, 01:28:03 UTC
b5cb681 Merge branch 'develop' 06 September 2019, 01:26:55 UTC
2ac0d9f Merge branch 'develop' 06 September 2019, 01:26:21 UTC
9af00ef Flekschas/enable brushing on bar point 1d heatmap tracks (#768) * Enable brushing on bar, point, and 1d-heatmap tracks * Fix position of bullet point * Update changelog 06 September 2019, 01:25:43 UTC
fefd0a4 Merge branch 'master' into develop 05 September 2019, 23:59:26 UTC
bff409f 1.6.8 03 September 2019, 01:39:39 UTC
c7494f4 Changed a heading type in the changelog 03 September 2019, 01:36:29 UTC
fd43080 Updated the version number on the CHANGELOG 03 September 2019, 01:35:56 UTC
ea8a33c Common trackUtils function (#767) * Added trackUilts * Updated CHANGELOG.md * Added movedY * Update app/scripts/utils/track-utils.js Co-Authored-By: Fritz Lekschas <service@lekschas.de> * Update app/scripts/utils/track-utils.js Co-Authored-By: Fritz Lekschas <service@lekschas.de> * Update app/scripts/utils/track-utils.js Co-Authored-By: Fritz Lekschas <service@lekschas.de> * Update app/scripts/utils/track-utils.js Co-Authored-By: Fritz Lekschas <service@lekschas.de> * Update app/scripts/utils/track-utils.js Co-Authored-By: Fritz Lekschas <service@lekschas.de> * Update app/scripts/utils/track-utils.js Co-Authored-By: Fritz Lekschas <service@lekschas.de> * Update app/scripts/utils/track-utils.js Co-Authored-By: Fritz Lekschas <service@lekschas.de> * Update app/scripts/utils/track-utils.js Co-Authored-By: Fritz Lekschas <service@lekschas.de> * Apply suggestions from code review Co-Authored-By: Fritz Lekschas <service@lekschas.de> * Fixed a few extraneous this's * Apply suggestions from code review Co-Authored-By: Fritz Lekschas <service@lekschas.de> * Removed console log statements 02 September 2019, 23:31:24 UTC
e173000 Value scale zooming (#762) * Started working on getting zooming for value scales * With rendering and unclamped value scale * Drag works with zooming * Working value scale zoom and pan zoom * Comment out movedY and zoomedY * Updated the CHANGELOG * Commented out movedY and zoomedY * Remove console log statements * y-scale zoom moving for horizontal works without shift key * Working value scale zooming infrastructure along x and y axes * Fix small linting issue * Comment out movedY and zoomedY in BarTrack * Added tests * Added two-bars-and-a-heatmap * Fixed panning when shift is held down * Removed a console log statement * Removed transforms and resolutions properties * Removed extra comma * Fixed tests * Just ZoomTests * Add back all tests * Added empty-body * Removed emptybody * Included other tests 01 September 2019, 03:58:07 UTC
1b07601 Genbank data fetcher (#742) * Build amd module * Added webpack.config.amd.js * Presumably working module * Started working on custom datafetcher classes * Added webpack.config.amd.dev.js * Only call the pubsub if it exists * Working custom datafetcher example * Updated the COMMANDS * Removed console log statement * Add tests and integrate with viewer * Added data url to JSON schema * Added genbank-data-fetcher.json example * Dynamic tile size * Updated the CHANGELOG and removed a console log statement * Fixed tests: * Use the imported genbank parser rather than the local copy * Update CHANGELOG.md * Update DataFetcher.js * Remove empty spaces * Simplified plugin track assignment * Export tracks under hglib.tracks * Use fakePubSub 31 August 2019, 00:02:06 UTC
f132a59 Add import statement (#752) 25 August 2019, 03:36:37 UTC
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