{"action":"closed","issue":{"url":"https://api.github.com/repos/bioconda/bioconda-recipes/issues/11629","repository_url":"https://api.github.com/repos/bioconda/bioconda-recipes","labels_url":"https://api.github.com/repos/bioconda/bioconda-recipes/issues/11629/labels{/name}","comments_url":"https://api.github.com/repos/bioconda/bioconda-recipes/issues/11629/comments","events_url":"https://api.github.com/repos/bioconda/bioconda-recipes/issues/11629/events","html_url":"https://github.com/bioconda/bioconda-recipes/issues/11629","id":374727112,"node_id":"MDU6SXNzdWUzNzQ3MjcxMTI=","number":11629,"title":"bracken est_abundance.py: No such file or directory","user":{"login":"nick-youngblut","id":2468572,"node_id":"MDQ6VXNlcjI0Njg1NzI=","avatar_url":"https://avatars0.githubusercontent.com/u/2468572?v=4","gravatar_id":"","url":"https://api.github.com/users/nick-youngblut","html_url":"https://github.com/nick-youngblut","followers_url":"https://api.github.com/users/nick-youngblut/followers","following_url":"https://api.github.com/users/nick-youngblut/following{/other_user}","gists_url":"https://api.github.com/users/nick-youngblut/gists{/gist_id}","starred_url":"https://api.github.com/users/nick-youngblut/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/nick-youngblut/subscriptions","organizations_url":"https://api.github.com/users/nick-youngblut/orgs","repos_url":"https://api.github.com/users/nick-youngblut/repos","events_url":"https://api.github.com/users/nick-youngblut/events{/privacy}","received_events_url":"https://api.github.com/users/nick-youngblut/received_events","type":"User","site_admin":false},"labels":[],"state":"closed","locked":false,"assignee":null,"assignees":[],"milestone":null,"comments":2,"created_at":"2018-10-28T07:43:15Z","updated_at":"2018-11-14T20:50:02Z","closed_at":"2018-11-14T20:50:02Z","author_association":"CONTRIBUTOR","body":"@dfornika I'm running `bracken  2.2   py36h2d50403_0   bioconda` on Ubuntu 18.04.1, and I'm getting the following error:\r\n\r\n```\r\n >> Checking for Valid Options...\r\n >> Running Bracken\r\n      >> python src/est_abundance.py -i tests/output_amy/kraken/36_T10.kreport -o tests/output_amy/kr\r\naken/36_T10.bracken -k /ebio/abt3_projects/databases/Kraken/K2_Progenomes/Kraken/database150mers.kmer\r\n_distrib -l s -t 10\r\npython: can't open file '/ebio/abt3_projects/software/dev/llmgp/.snakemake/conda/afe44be5/bin/src/est\r\n_abundance.py': [Errno 2] No such file or directory\r\n```\r\n\r\nIt seems that `bracken` is looking for `est_abundance.py` in bin/src/, but `est_abundance.py` is located in bin/."}}
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