{"action":"created","issue":{"url":"https://api.github.com/repos/ropensci/taxa/issues/155","repository_url":"https://api.github.com/repos/ropensci/taxa","labels_url":"https://api.github.com/repos/ropensci/taxa/issues/155/labels{/name}","comments_url":"https://api.github.com/repos/ropensci/taxa/issues/155/comments","events_url":"https://api.github.com/repos/ropensci/taxa/issues/155/events","html_url":"https://github.com/ropensci/taxa/issues/155","id":311704827,"number":155,"title":"CRAN release 2.1","user":{"login":"zachary-foster","id":6090555,"avatar_url":"https://avatars3.githubusercontent.com/u/6090555?v=4","gravatar_id":"","url":"https://api.github.com/users/zachary-foster","html_url":"https://github.com/zachary-foster","followers_url":"https://api.github.com/users/zachary-foster/followers","following_url":"https://api.github.com/users/zachary-foster/following{/other_user}","gists_url":"https://api.github.com/users/zachary-foster/gists{/gist_id}","starred_url":"https://api.github.com/users/zachary-foster/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/zachary-foster/subscriptions","organizations_url":"https://api.github.com/users/zachary-foster/orgs","repos_url":"https://api.github.com/users/zachary-foster/repos","events_url":"https://api.github.com/users/zachary-foster/events{/privacy}","received_events_url":"https://api.github.com/users/zachary-foster/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":null,"assignees":[],"milestone":{"url":"https://api.github.com/repos/ropensci/taxa/milestones/4","html_url":"https://github.com/ropensci/taxa/milestone/4","labels_url":"https://api.github.com/repos/ropensci/taxa/milestones/4/labels","id":3229863,"number":4,"title":"v0.2.1","description":null,"creator":{"login":"zachary-foster","id":6090555,"avatar_url":"https://avatars3.githubusercontent.com/u/6090555?v=4","gravatar_id":"","url":"https://api.github.com/users/zachary-foster","html_url":"https://github.com/zachary-foster","followers_url":"https://api.github.com/users/zachary-foster/followers","following_url":"https://api.github.com/users/zachary-foster/following{/other_user}","gists_url":"https://api.github.com/users/zachary-foster/gists{/gist_id}","starred_url":"https://api.github.com/users/zachary-foster/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/zachary-foster/subscriptions","organizations_url":"https://api.github.com/users/zachary-foster/orgs","repos_url":"https://api.github.com/users/zachary-foster/repos","events_url":"https://api.github.com/users/zachary-foster/events{/privacy}","received_events_url":"https://api.github.com/users/zachary-foster/received_events","type":"User","site_admin":false},"open_issues":1,"closed_issues":26,"state":"open","created_at":"2018-03-29T21:46:04Z","updated_at":"2018-04-16T21:59:05Z","due_on":null,"closed_at":null},"comments":5,"created_at":"2018-04-05T17:39:18Z","updated_at":"2018-04-16T22:07:28Z","closed_at":null,"author_association":"COLLABORATOR","body":"I think I have made all the changes I want for a minor version release. Its actually been a while and a lot of changes have accumulated. Here is the news for this version so far:\r\n\r\n### Improvements\r\n\r\n* `parse_tax_data` can now incorperate rank information which can be accessed by `result$taxon_ranks()` ([issue #113](https://github.com/ropensci/taxa/issues/113)).\r\n* `taxmap` print methods now have more information and color ([issue #124](https://github.com/ropensci/taxa/issues/124)).\r\n* Added `leaves_apply` function that works like `subtaxa_apply`, but on leaves ([issue #126](https://github.com/ropensci/taxa/issues/126)).\r\n* Functions with a `value` option now return named taxon indexes by default, instead of unnamed taxon indexes ([issue #128](https://github.com/ropensci/taxa/issues/128)).\r\n* `lookup_tax_data` and `extract_tax_data` can now use \"fuzzy\" matching when looking up taxon names, so taxon names can be mispelled and still be founds.\r\n* `lookup_tax_data` and `extract_tax_data` now only look up unique sequence IDs, improving download speed.\r\n* `filter_obs` now can filter out observations in non-target data sets that are assocaited with taxa that are removed when `drop_taxa = TRUE` ([issue #143](https://github.com/ropensci/taxa/issues/143)). This is done using `filter_taxa`, so the `supertaxa`, `subtaxa`, and `reassign_obs` options are now available to `filter_obs` to control how taxon removal is done.\r\n* `lookup_tax_data` and `extract_tax_data` now have progress bars instead of printing lots of text when downloading information.\r\n* `mutate_obs` now creates new vector/tables if the data set specified does not exist ([issue #121](https://github.com/ropensci/taxa/issues/124)).\r\n* Add `filter_taxa` option `keep_order` that preserves input taxon order. It is `TRUE` by default, which changes how it used to work. Set to `FALSE` for old behavior.\r\n* Using NSE with an ambiguous name (appears in multiple datasets) now produces a warning ([issue #153](https://github.com/ropensci/taxa/issues/153)).\r\n\r\n### Changes\r\n\r\n* The `simplify` option in many functions is now always handled the same way: If all vectors in a list are names, then unique key-value pairs are returned. Otherwise, names are ignored and unique values are returned.\r\n* The `leaves` option now behaves like `subtaxa`, returning all leaves for each taxon. The old behavior can be replicated by setting the new `simplify` option to `TRUE` ([issue #127](https://github.com/ropensci/taxa/issues/127)).\r\n\r\n### Bug fixes\r\n\r\n* `filter_taxa` now has better error messages for invalid inputs ([issue #117](https://github.com/ropensci/taxa/issues/117)).\r\n* Fix a bug that caused an error in `filter_taxa` when no taxa pass filter ([issue #116](https://github.com/ropensci/taxa/issues/116)).\r\n* Fixed a bug in `parse_tax_data` when `class_key` was not named ([issue #131](https://github.com/ropensci/taxa/issues/131)).\r\n* Fixed bug in `hierarchy` print method with `taxon_id` class was not used ([issue #138](https://github.com/ropensci/taxa/issues/138)).\r\n* Fixed bug in `parse_tax_data` when all classification data is `NA.`\r\n* Fixed bug in `taxmap` print method when printing zero-length lists and vectors ([issue #148](https://github.com/ropensci/taxa/issues/148)).\r\n\r\n\r\n@sckott, is there anything you want done before another release to CRAN?\r\nI can think of the folllowing:\r\n\r\n- [x] make sure news is up to date\r\n- [x] make me maintainer (Thanks @sckott!)\r\n- [x] update version number\r\n\r\nanything else? Thanks\r\n\r\n"},"comment":{"url":"https://api.github.com/repos/ropensci/taxa/issues/comments/381765695","html_url":"https://github.com/ropensci/taxa/issues/155#issuecomment-381765695","issue_url":"https://api.github.com/repos/ropensci/taxa/issues/155","id":381765695,"user":{"login":"sckott","id":577668,"avatar_url":"https://avatars1.githubusercontent.com/u/577668?v=4","gravatar_id":"","url":"https://api.github.com/users/sckott","html_url":"https://github.com/sckott","followers_url":"https://api.github.com/users/sckott/followers","following_url":"https://api.github.com/users/sckott/following{/other_user}","gists_url":"https://api.github.com/users/sckott/gists{/gist_id}","starred_url":"https://api.github.com/users/sckott/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/sckott/subscriptions","organizations_url":"https://api.github.com/users/sckott/orgs","repos_url":"https://api.github.com/users/sckott/repos","events_url":"https://api.github.com/users/sckott/events{/privacy}","received_events_url":"https://api.github.com/users/sckott/received_events","type":"User","site_admin":false},"created_at":"2018-04-16T22:07:28Z","updated_at":"2018-04-16T22:07:28Z","author_association":"OWNER","body":"already did, see email from Feb 1\r\n\r\n> Then please resubmit with yourself as the maintakner citing this message in the submisison comments."}}
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