{"action":"created","comment":{"url":"https://api.github.com/repos/galaxyproject/tools-iuc/pulls/comments/65216441","id":65216441,"diff_hunk":"@@ -0,0 +1,88 @@\n+#!/usr/bin/env python\n+\n+# Reports a beta diversity matrix for tabular input file\n+# using scikit-bio\n+# Daniel Blankenberg\n+\n+\n+import sys\n+import os\n+import optparse","path":"tools/scikit-bio/scikit_bio_diversity_beta_diversity.py","position":10,"original_position":10,"commit_id":"10f213643298b20f990c27f0baa3e5b1c5f1736c","original_commit_id":"10f213643298b20f990c27f0baa3e5b1c5f1736c","user":{"login":"bgruening","id":469983,"avatar_url":"https://avatars.githubusercontent.com/u/469983?v=3","gravatar_id":"","url":"https://api.github.com/users/bgruening","html_url":"https://github.com/bgruening","followers_url":"https://api.github.com/users/bgruening/followers","following_url":"https://api.github.com/users/bgruening/following{/other_user}","gists_url":"https://api.github.com/users/bgruening/gists{/gist_id}","starred_url":"https://api.github.com/users/bgruening/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/bgruening/subscriptions","organizations_url":"https://api.github.com/users/bgruening/orgs","repos_url":"https://api.github.com/users/bgruening/repos","events_url":"https://api.github.com/users/bgruening/events{/privacy}","received_events_url":"https://api.github.com/users/bgruening/received_events","type":"User","site_admin":false},"body":"Just as a side note, as soon as we assume conda/docker dependencies we can use argparse as we do not need to support python 2.6. any more.","created_at":"2016-05-31T16:26:07Z","updated_at":"2016-05-31T16:26:07Z","html_url":"https://github.com/galaxyproject/tools-iuc/pull/774#discussion_r65216441","pull_request_url":"https://api.github.com/repos/galaxyproject/tools-iuc/pulls/774","_links":{"self":{"href":"https://api.github.com/repos/galaxyproject/tools-iuc/pulls/comments/65216441"},"html":{"href":"https://github.com/galaxyproject/tools-iuc/pull/774#discussion_r65216441"},"pull_request":{"href":"https://api.github.com/repos/galaxyproject/tools-iuc/pulls/774"}}},"pull_request":{"url":"https://api.github.com/repos/galaxyproject/tools-iuc/pulls/774","id":72043629,"html_url":"https://github.com/galaxyproject/tools-iuc/pull/774","diff_url":"https://github.com/galaxyproject/tools-iuc/pull/774.diff","patch_url":"https://github.com/galaxyproject/tools-iuc/pull/774.patch","issue_url":"https://api.github.com/repos/galaxyproject/tools-iuc/issues/774","number":774,"state":"open","locked":false,"title":"Add scikit-bio tools","user":{"login":"blankenberg","id":1231190,"avatar_url":"https://avatars.githubusercontent.com/u/1231190?v=3","gravatar_id":"","url":"https://api.github.com/users/blankenberg","html_url":"https://github.com/blankenberg","followers_url":"https://api.github.com/users/blankenberg/followers","following_url":"https://api.github.com/users/blankenberg/following{/other_user}","gists_url":"https://api.github.com/users/blankenberg/gists{/gist_id}","starred_url":"https://api.github.com/users/blankenberg/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/blankenberg/subscriptions","organizations_url":"https://api.github.com/users/blankenberg/orgs","repos_url":"https://api.github.com/users/blankenberg/repos","events_url":"https://api.github.com/users/blankenberg/events{/privacy}","received_events_url":"https://api.github.com/users/blankenberg/received_events","type":"User","site_admin":false},"body":"currently containing a beta diversity tool, able to calculate distances including weighted and unweighted unifrac.","created_at":"2016-05-31T16:11:59Z","updated_at":"2016-05-31T16:26:07Z","closed_at":null,"merged_at":null,"merge_commit_sha":"5107e3de80f12d9070474c95d13ce297da09c5a3","assignee":null,"milestone":null,"commits_url":"https://api.github.com/repos/galaxyproject/tools-iuc/pulls/774/commits","review_comments_url":"https://api.github.com/repos/galaxyproject/tools-iuc/pulls/774/comments","review_comment_url":"https://api.github.com/repos/galaxyproject/tools-iuc/pulls/comments{/number}","comments_url":"https://api.github.com/repos/galaxyproject/tools-iuc/issues/774/comments","statuses_url":"https://api.github.com/repos/galaxyproject/tools-iuc/statuses/10f213643298b20f990c27f0baa3e5b1c5f1736c","head":{"label":"blankenberg:scikit-bio-tools","ref":"scikit-bio-tools","sha":"10f213643298b20f990c27f0baa3e5b1c5f1736c","user":{"login":"blankenberg","id":1231190,"avatar_url":"https://avatars.githubusercontent.com/u/1231190?v=3","gravatar_id":"","url":"https://api.github.com/users/blankenberg","html_url":"https://github.com/blankenberg","followers_url":"https://api.github.com/users/blankenberg/followers","following_url":"https://api.github.com/users/blankenberg/following{/other_user}","gists_url":"https://api.github.com/users/blankenberg/gists{/gist_id}","starred_url":"https://api.github.com/users/blankenberg/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/blankenberg/subscriptions","organizations_url":"https://api.github.com/users/blankenberg/orgs","repos_url":"https://api.github.com/users/blankenberg/repos","events_url":"https://api.github.com/users/blankenberg/events{/privacy}","received_events_url":"https://api.github.com/users/blankenberg/received_events","type":"User","site_admin":false},"repo":{"id":32541596,"name":"tools-iuc","full_name":"blankenberg/tools-iuc","owner":{"login":"blankenberg","id":1231190,"avatar_url":"https://avatars.githubusercontent.com/u/1231190?v=3","gravatar_id":"","url":"https://api.github.com/users/blankenberg","html_url":"https://github.com/blankenberg","followers_url":"https://api.github.com/users/blankenberg/followers","following_url":"https://api.github.com/users/blankenberg/following{/other_user}","gists_url":"https://api.github.com/users/blankenberg/gists{/gist_id}","starred_url":"https://api.github.com/users/blankenberg/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/blankenberg/subscriptions","organizations_url":"https://api.github.com/users/blankenberg/orgs","repos_url":"https://api.github.com/users/blankenberg/repos","events_url":"https://api.github.com/users/blankenberg/events{/privacy}","received_events_url":"https://api.github.com/users/blankenberg/received_events","type":"User","site_admin":false},"private":false,"html_url":"https://github.com/blankenberg/tools-iuc","description":"Tool Shed repositories maintained and developed by the Intergalactic Utilities Commission","fork":true,"url":"https://api.github.com/repos/blankenberg/tools-iuc","forks_url":"https://api.github.com/repos/blankenberg/tools-iuc/forks","keys_url":"https://api.github.com/repos/blankenberg/tools-iuc/keys{/key_id}","collaborators_url":"https://api.github.com/repos/blankenberg/tools-iuc/collaborators{/collaborator}","teams_url":"https://api.github.com/repos/blankenberg/tools-iuc/teams","hooks_url":"https://api.github.com/repos/blankenberg/tools-iuc/hooks","issue_events_url":"https://api.github.com/repos/blankenberg/tools-iuc/issues/events{/number}","events_url":"https://api.github.com/repos/blankenberg/tools-iuc/events","assignees_url":"https://api.github.com/repos/blankenberg/tools-iuc/assignees{/user}","branches_url":"https://api.github.com/repos/blankenberg/tools-iuc/branches{/branch}","tags_url":"https://api.github.com/repos/blankenberg/tools-iuc/tags","blobs_url":"https://api.github.com/repos/blankenberg/tools-iuc/git/blobs{/sha}","git_tags_url":"https://api.github.com/repos/blankenberg/tools-iuc/git/tags{/sha}","git_refs_url":"https://api.github.com/repos/blankenberg/tools-iuc/git/refs{/sha}","trees_url":"https://api.github.com/repos/blankenberg/tools-iuc/git/trees{/sha}","statuses_url":"https://api.github.com/repos/blankenberg/tools-iuc/statuses/{sha}","languages_url":"https://api.github.com/repos/blankenberg/tools-iuc/languages","stargazers_url":"https://api.github.com/repos/blankenberg/tools-iuc/stargazers","contributors_url":"https://api.github.com/repos/blankenberg/tools-iuc/contributors","subscribers_url":"https://api.github.com/repos/blankenberg/tools-iuc/subscribers","subscription_url":"https://api.github.com/repos/blankenberg/tools-iuc/subscription","commits_url":"https://api.github.com/repos/blankenberg/tools-iuc/commits{/sha}","git_commits_url":"https://api.github.com/repos/blankenberg/tools-iuc/git/commits{/sha}","comments_url":"https://api.github.com/repos/blankenberg/tools-iuc/comments{/number}","issue_comment_url":"https://api.github.com/repos/blankenberg/tools-iuc/issues/comments{/number}","contents_url":"https://api.github.com/repos/blankenberg/tools-iuc/contents/{+path}","compare_url":"https://api.github.com/repos/blankenberg/tools-iuc/compare/{base}...{head}","merges_url":"https://api.github.com/repos/blankenberg/tools-iuc/merges","archive_url":"https://api.github.com/repos/blankenberg/tools-iuc/{archive_format}{/ref}","downloads_url":"https://api.github.com/repos/blankenberg/tools-iuc/downloads","issues_url":"https://api.github.com/repos/blankenberg/tools-iuc/issues{/number}","pulls_url":"https://api.github.com/repos/blankenberg/tools-iuc/pulls{/number}","milestones_url":"https://api.github.com/repos/blankenberg/tools-iuc/milestones{/number}","notifications_url":"https://api.github.com/repos/blankenberg/tools-iuc/notifications{?since,all,participating}","labels_url":"https://api.github.com/repos/blankenberg/tools-iuc/labels{/name}","releases_url":"https://api.github.com/repos/blankenberg/tools-iuc/releases{/id}","deployments_url":"https://api.github.com/repos/blankenberg/tools-iuc/deployments","created_at":"2015-03-19T19:20:08Z","updated_at":"2016-01-14T20:10:25Z","pushed_at":"2016-05-31T16:10:09Z","git_url":"git://github.com/blankenberg/tools-iuc.git","ssh_url":"git@github.com:blankenberg/tools-iuc.git","clone_url":"https://github.com/blankenberg/tools-iuc.git","svn_url":"https://github.com/blankenberg/tools-iuc","homepage":"https://wiki.galaxyproject.org/IUC","size":120361,"stargazers_count":0,"watchers_count":0,"language":"Python","has_issues":false,"has_downloads":true,"has_wiki":true,"has_pages":false,"forks_count":0,"mirror_url":null,"open_issues_count":0,"forks":0,"open_issues":0,"watchers":0,"default_branch":"master"}},"base":{"label":"galaxyproject:master","ref":"master","sha":"fb163c42014f1d06c3fa200ae15f4bccc2c1319f","user":{"login":"galaxyproject","id":7937847,"avatar_url":"https://avatars.githubusercontent.com/u/7937847?v=3","gravatar_id":"","url":"https://api.github.com/users/galaxyproject","html_url":"https://github.com/galaxyproject","followers_url":"https://api.github.com/users/galaxyproject/followers","following_url":"https://api.github.com/users/galaxyproject/following{/other_user}","gists_url":"https://api.github.com/users/galaxyproject/gists{/gist_id}","starred_url":"https://api.github.com/users/galaxyproject/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/galaxyproject/subscriptions","organizations_url":"https://api.github.com/users/galaxyproject/orgs","repos_url":"https://api.github.com/users/galaxyproject/repos","events_url":"https://api.github.com/users/galaxyproject/events{/privacy}","received_events_url":"https://api.github.com/users/galaxyproject/received_events","type":"Organization","site_admin":false},"repo":{"id":23992530,"name":"tools-iuc","full_name":"galaxyproject/tools-iuc","owner":{"login":"galaxyproject","id":7937847,"avatar_url":"https://avatars.githubusercontent.com/u/7937847?v=3","gravatar_id":"","url":"https://api.github.com/users/galaxyproject","html_url":"https://github.com/galaxyproject","followers_url":"https://api.github.com/users/galaxyproject/followers","following_url":"https://api.github.com/users/galaxyproject/following{/other_user}","gists_url":"https://api.github.com/users/galaxyproject/gists{/gist_id}","starred_url":"https://api.github.com/users/galaxyproject/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/galaxyproject/subscriptions","organizations_url":"https://api.github.com/users/galaxyproject/orgs","repos_url":"https://api.github.com/users/galaxyproject/repos","events_url":"https://api.github.com/users/galaxyproject/events{/privacy}","received_events_url":"https://api.github.com/users/galaxyproject/received_events","type":"Organization","site_admin":false},"private":false,"html_url":"https://github.com/galaxyproject/tools-iuc","description":"Tool Shed repositories maintained and developed by the Intergalactic Utilities Commission","fork":false,"url":"https://api.github.com/repos/galaxyproject/tools-iuc","forks_url":"https://api.github.com/repos/galaxyproject/tools-iuc/forks","keys_url":"https://api.github.com/repos/galaxyproject/tools-iuc/keys{/key_id}","collaborators_url":"https://api.github.com/repos/galaxyproject/tools-iuc/collaborators{/collaborator}","teams_url":"https://api.github.com/repos/galaxyproject/tools-iuc/teams","hooks_url":"https://api.github.com/repos/galaxyproject/tools-iuc/hooks","issue_events_url":"https://api.github.com/repos/galaxyproject/tools-iuc/issues/events{/number}","events_url":"https://api.github.com/repos/galaxyproject/tools-iuc/events","assignees_url":"https://api.github.com/repos/galaxyproject/tools-iuc/assignees{/user}","branches_url":"https://api.github.com/repos/galaxyproject/tools-iuc/branches{/branch}","tags_url":"https://api.github.com/repos/galaxyproject/tools-iuc/tags","blobs_url":"https://api.github.com/repos/galaxyproject/tools-iuc/git/blobs{/sha}","git_tags_url":"https://api.github.com/repos/galaxyproject/tools-iuc/git/tags{/sha}","git_refs_url":"https://api.github.com/repos/galaxyproject/tools-iuc/git/refs{/sha}","trees_url":"https://api.github.com/repos/galaxyproject/tools-iuc/git/trees{/sha}","statuses_url":"https://api.github.com/repos/galaxyproject/tools-iuc/statuses/{sha}","languages_url":"https://api.github.com/repos/galaxyproject/tools-iuc/languages","stargazers_url":"https://api.github.com/repos/galaxyproject/tools-iuc/stargazers","contributors_url":"https://api.github.com/repos/galaxyproject/tools-iuc/contributors","subscribers_url":"https://api.github.com/repos/galaxyproject/tools-iuc/subscribers","subscription_url":"https://api.github.com/repos/galaxyproject/tools-iuc/subscription","commits_url":"https://api.github.com/repos/galaxyproject/tools-iuc/commits{/sha}","git_commits_url":"https://api.github.com/repos/galaxyproject/tools-iuc/git/commits{/sha}","comments_url":"https://api.github.com/repos/galaxyproject/tools-iuc/comments{/number}","issue_comment_url":"https://api.github.com/repos/galaxyproject/tools-iuc/issues/comments{/number}","contents_url":"https://api.github.com/repos/galaxyproject/tools-iuc/contents/{+path}","compare_url":"https://api.github.com/repos/galaxyproject/tools-iuc/compare/{base}...{head}","merges_url":"https://api.github.com/repos/galaxyproject/tools-iuc/merges","archive_url":"https://api.github.com/repos/galaxyproject/tools-iuc/{archive_format}{/ref}","downloads_url":"https://api.github.com/repos/galaxyproject/tools-iuc/downloads","issues_url":"https://api.github.com/repos/galaxyproject/tools-iuc/issues{/number}","pulls_url":"https://api.github.com/repos/galaxyproject/tools-iuc/pulls{/number}","milestones_url":"https://api.github.com/repos/galaxyproject/tools-iuc/milestones{/number}","notifications_url":"https://api.github.com/repos/galaxyproject/tools-iuc/notifications{?since,all,participating}","labels_url":"https://api.github.com/repos/galaxyproject/tools-iuc/labels{/name}","releases_url":"https://api.github.com/repos/galaxyproject/tools-iuc/releases{/id}","deployments_url":"https://api.github.com/repos/galaxyproject/tools-iuc/deployments","created_at":"2014-09-13T11:18:49Z","updated_at":"2016-05-10T12:50:08Z","pushed_at":"2016-05-31T16:11:59Z","git_url":"git://github.com/galaxyproject/tools-iuc.git","ssh_url":"git@github.com:galaxyproject/tools-iuc.git","clone_url":"https://github.com/galaxyproject/tools-iuc.git","svn_url":"https://github.com/galaxyproject/tools-iuc","homepage":"https://wiki.galaxyproject.org/IUC","size":146157,"stargazers_count":25,"watchers_count":25,"language":"Python","has_issues":true,"has_downloads":true,"has_wiki":true,"has_pages":false,"forks_count":70,"mirror_url":null,"open_issues_count":107,"forks":70,"open_issues":107,"watchers":25,"default_branch":"master"}},"_links":{"self":{"href":"https://api.github.com/repos/galaxyproject/tools-iuc/pulls/774"},"html":{"href":"https://github.com/galaxyproject/tools-iuc/pull/774"},"issue":{"href":"https://api.github.com/repos/galaxyproject/tools-iuc/issues/774"},"comments":{"href":"https://api.github.com/repos/galaxyproject/tools-iuc/issues/774/comments"},"review_comments":{"href":"https://api.github.com/repos/galaxyproject/tools-iuc/pulls/774/comments"},"review_comment":{"href":"https://api.github.com/repos/galaxyproject/tools-iuc/pulls/comments{/number}"},"commits":{"href":"https://api.github.com/repos/galaxyproject/tools-iuc/pulls/774/commits"},"statuses":{"href":"https://api.github.com/repos/galaxyproject/tools-iuc/statuses/10f213643298b20f990c27f0baa3e5b1c5f1736c"}}}}
{"actor":{"display_login":"bgruening"}}