 James Taylor
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4ec0018c61
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circster: render in entire window, ensure initially entire plot fits in view and is centered
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2012-09-10 17:40:56 -04:00 |
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James Taylor
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2a2003c606
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circster: Allow data_standalone types to work; phyloviz: add tree datatypes to sample conf
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2012-09-10 17:09:09 -04:00 |
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James Taylor
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218e32119b
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Datatype conversion exceptions no imported but used in base controller.
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2012-09-10 14:05:56 -04:00 |
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Dannon Baker
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13abf22d96
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Merged in nuwan_ag/galaxy-central (pull request #63)
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2012-09-10 12:33:01 -04:00 |
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Nate Coraor
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e19092e9c5
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Add a dataset cleanup script that's optimized for (and compatible only with) PostgreSQL 9.1+. Also add a bunch of tables for logging all cleanup events, which makes reversing such events trivial.
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2012-09-10 12:03:23 -04:00 |
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Remi Marenco
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b21125a335
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Added the base.css generated from base.less
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2012-09-09 18:24:51 -04:00 |
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Remi Marenco
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9a24592eaa
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Added links to BioStar in the Help Menu and in tool forms + When asking to create a new post from galaxy tool form, tag is automatically fulfilled with the name of the tool + Added the url as global variable in universe
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2012-09-09 17:13:00 -04:00 |
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Jeremy Goecks
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e8e25ec41a
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Circster enhancements: (a) dragging and zooming; and (b) fill complete palette.
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2012-09-08 12:08:33 -05:00 |
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Greg Von Kuster
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495669bbd1
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Enhancements to tool dependency installation when installing with a tool shed repository: multiple environment variables can now be set and a new "make_directory" tag is supported.
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2012-09-07 14:49:46 -04:00 |
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Dave Bouvier
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bf636a7e67
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Added an error message to the repository clone error handling.
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2012-09-07 11:54:02 -04:00 |
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Dave Bouvier
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bf744b4c9c
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Handle errors when cloning a tool shed repository.
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2012-09-07 11:22:09 -04:00 |
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Greg Von Kuster
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702ab05095
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Fix bug introduced 2 commits ago.
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2012-09-06 16:27:35 -04:00 |
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Greg Von Kuster
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7520bcdf8a
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Fix a mis-named variable.
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2012-09-06 16:22:57 -04:00 |
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Greg Von Kuster
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80ffd0ddee
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Fixes for displaying error messages when displaying invalid tools in tool shed repository changeset revisions.
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2012-09-06 16:17:15 -04:00 |
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Greg Von Kuster
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f99bf6c981
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Enhance the way that multiple versions of the same tool simultaneously loaded into a Galaxy instance are displayed in the tool panel. Only one link will now be displayed in the tool panel for the tool versions, but the tool page will inlcude a select list allowing the user to select a specific version of the tool. Re-running a job for a specific version of a tool (from the history item) works the same as it did before this change set.
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2012-09-06 14:33:11 -04:00 |
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Jeremy Goecks
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13cdd234b8
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Pack scripts.
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2012-09-05 22:28:32 -04:00 |
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Jeremy Goecks
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0d2a7cf7ea
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Add feature search to Trackster; typing in location box will search tracks in visualization for features that start with entered text. Works with both GFF/GTF and BED datasets. Fixes #611
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2012-09-05 17:26:43 -04:00 |
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Jeremy Goecks
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686bbb1bb3
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Remove jQuery UI slider code because it's now integrated into jquery-ui custom package.
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2012-09-05 09:50:23 -04:00 |
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Jeremy Goecks
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e7b7853dd2
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jQuery UI enhancements: (a) update to v1.8.23; (b) remove core script and replace with script that includes core, autocomplete, sliders, and dependencies; (c) replace overcast theme with smoothness theme; and (d) add directory for jQuery UI styles.
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2012-09-05 09:35:21 -04:00 |
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Dave Bouvier
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233378619c
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Added API integration for genome downloader. Improved detection of existing liftover files.
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2012-09-05 08:24:29 -04:00 |
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Carl Eberhard
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4f83877e81
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Fix sniff.py blastxml doc/unittest, removal of func.test_get_data.py 0140 (megablast xml upload), increased lines_diff in cuffmerge_wrapper.xml to handle inconsistent oId assignment (cuffmerge.test_tool_000000)
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2012-09-04 13:28:25 -04:00 |
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Nate Coraor
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9b7b994ce8
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Merged in jmchilton/galaxy-central-binary-type-enhancements (pull request #59)
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2012-09-04 11:07:45 -04:00 |
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Dave Bouvier
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95a66294d6
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Fixed error in solid2fasta.xml preventing help text from displaying.
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2012-09-04 10:15:18 -04:00 |
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Dave Bouvier
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3c67587880
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Improve display of job status, migration script to accomodate same
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2012-09-04 09:42:54 -04:00 |
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John Chilton
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3ef2cb0a7c
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I messed up the previous merge, this fixes that commit.
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2012-09-03 22:25:42 -05:00 |
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John Chilton
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886a5c61b9
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Merge.
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2012-09-03 22:14:36 -05:00 |
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Carl Eberhard
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cfb5445544
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fix to annotation handling js, history.mako
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2012-09-02 11:27:09 -04:00 |
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Greg Von Kuster
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587fbae3ac
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Fix for resetting all metadata on a tool shed repository.
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2012-08-31 16:04:46 -04:00 |
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Greg Von Kuster
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c0b7ea3f56
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Display error message when unable to set metadata on a tool shed repository because of invalid tool configs. Also correct the way metadata is set on a tool shed repository when all repository files are deleted in a changeset.
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2012-08-31 15:25:48 -04:00 |
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Jeremy Goecks
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5a650ed653
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Set attribute metadata for GFF and GFF3 in addition to GTF.
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2012-08-31 15:24:25 -04:00 |
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Greg Von Kuster
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6cda697f85
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Add new repository tip column to tool shed repository grids, and differentiate between the repository tip revision and the repository's metadata revisions and installable revisions in various grids.
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2012-08-31 14:03:40 -04:00 |
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Carl Eberhard
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f1c09ee6cf
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merge; add temporary template to commit
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2012-08-31 12:12:28 -04:00 |
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Carl Eberhard
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ac67dc378e
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(WIP) history panel, backbone.js conversion (includes alternate_history.mako as a temporary transition template)
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2012-08-31 11:53:46 -04:00 |
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Greg Von Kuster
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2d589bd376
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Change the implementation for importing proprietary datatype class modules that are included in installed tool shed repositories. This approach will correctly import proprietary datatype classes whose file names conflict with a Python standard library module name (e.g., if a proprietary datatype class file is named xml.py, it will conflict with the Python standard library's xml module when attempting to import it).
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2012-08-30 14:40:28 -04:00 |
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Greg Von Kuster
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d018ca4734
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Fix for loading a tool from a tool config located in a temporary working directory.
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2012-08-30 10:54:12 -04:00 |
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Greg Von Kuster
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4823c62333
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Enhancements, fixes and code cleanup related to setting metadata and loading and displaying tools in the tool shed.
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2012-08-30 10:42:55 -04:00 |
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Remi Marenco
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b38716394f
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Missing verification of the conditon before checking the conditional parameters
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2012-08-29 17:27:02 -04:00 |
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Dave Bouvier
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ef0fa0fa8f
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Upgrade mercurial egg to 2.2.3
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2012-08-29 16:08:01 -04:00 |
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Daniel Blankenberg
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bb03bcb697
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Unicode fixes for running and extracting workflows.
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2012-08-29 13:50:32 -04:00 |
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Daniel Blankenberg
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ae893c4b3e
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Have form_builder class's get_html methods return unicode.
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2012-08-29 13:50:31 -04:00 |
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Nate Coraor
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dc7ebc62ba
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When creating the temp directory for library zip downloads, use the Galaxy user's umask and group on the directory.
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2012-08-29 12:36:21 -04:00 |
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Dannon Baker
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45c8339f3c
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Merge.
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2012-08-29 11:41:13 -04:00 |
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Daniel Blankenberg
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b91071c40f
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Unicode fixes for moving library datasets.
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2012-08-29 10:49:38 -04:00 |
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Daniel Blankenberg
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b1c2d22242
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Unicode fixes for editing library permissions.
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2012-08-29 10:49:38 -04:00 |
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Daniel Blankenberg
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9ba8573b7e
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Unicode fixes for viewing library datasets.
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2012-08-29 10:49:38 -04:00 |
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Daniel Blankenberg
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e94beb693b
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Unicode fixes for editing library datasets.
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2012-08-29 10:49:37 -04:00 |
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Daniel Blankenberg
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d4131dce41
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Unicode fixes for importing library datasets.
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2012-08-29 10:49:37 -04:00 |
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Daniel Blankenberg
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cd73015dc2
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Unicode fixes for browsing libraries.
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2012-08-29 10:49:37 -04:00 |
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Daniel Blankenberg
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96266b0cc5
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Unicode fixes for template selection.
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2012-08-29 10:49:37 -04:00 |
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Dannon Baker
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c1ad7e9d64
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Missed .hgignore change, reverted.
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2012-08-29 10:20:49 -04:00 |
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