{"action":"created","issue":{"url":"https://api.github.com/repos/tseemann/prokka/issues/173","repository_url":"https://api.github.com/repos/tseemann/prokka","labels_url":"https://api.github.com/repos/tseemann/prokka/issues/173/labels{/name}","comments_url":"https://api.github.com/repos/tseemann/prokka/issues/173/comments","events_url":"https://api.github.com/repos/tseemann/prokka/issues/173/events","html_url":"https://github.com/tseemann/prokka/issues/173","id":159985324,"number":173,"title":"Install problems-cmpress version","user":{"login":"ajsinghal","id":18340094,"avatar_url":"https://avatars.githubusercontent.com/u/18340094?v=3","gravatar_id":"","url":"https://api.github.com/users/ajsinghal","html_url":"https://github.com/ajsinghal","followers_url":"https://api.github.com/users/ajsinghal/followers","following_url":"https://api.github.com/users/ajsinghal/following{/other_user}","gists_url":"https://api.github.com/users/ajsinghal/gists{/gist_id}","starred_url":"https://api.github.com/users/ajsinghal/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/ajsinghal/subscriptions","organizations_url":"https://api.github.com/users/ajsinghal/orgs","repos_url":"https://api.github.com/users/ajsinghal/repos","events_url":"https://api.github.com/users/ajsinghal/events{/privacy}","received_events_url":"https://api.github.com/users/ajsinghal/received_events","type":"User","site_admin":false},"labels":[{"url":"https://api.github.com/repos/tseemann/prokka/labels/enhancement","name":"enhancement","color":"84b6eb"}],"state":"open","locked":false,"assignee":{"login":"tseemann","id":453972,"avatar_url":"https://avatars.githubusercontent.com/u/453972?v=3","gravatar_id":"","url":"https://api.github.com/users/tseemann","html_url":"https://github.com/tseemann","followers_url":"https://api.github.com/users/tseemann/followers","following_url":"https://api.github.com/users/tseemann/following{/other_user}","gists_url":"https://api.github.com/users/tseemann/gists{/gist_id}","starred_url":"https://api.github.com/users/tseemann/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/tseemann/subscriptions","organizations_url":"https://api.github.com/users/tseemann/orgs","repos_url":"https://api.github.com/users/tseemann/repos","events_url":"https://api.github.com/users/tseemann/events{/privacy}","received_events_url":"https://api.github.com/users/tseemann/received_events","type":"User","site_admin":false},"milestone":{"url":"https://api.github.com/repos/tseemann/prokka/milestones/1","html_url":"https://github.com/tseemann/prokka/milestones/Prokka%201.12","labels_url":"https://api.github.com/repos/tseemann/prokka/milestones/1/labels","id":1803692,"number":1,"title":"Prokka 1.12","description":"The long awaited official release of 1.12 ","creator":{"login":"tseemann","id":453972,"avatar_url":"https://avatars.githubusercontent.com/u/453972?v=3","gravatar_id":"","url":"https://api.github.com/users/tseemann","html_url":"https://github.com/tseemann","followers_url":"https://api.github.com/users/tseemann/followers","following_url":"https://api.github.com/users/tseemann/following{/other_user}","gists_url":"https://api.github.com/users/tseemann/gists{/gist_id}","starred_url":"https://api.github.com/users/tseemann/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/tseemann/subscriptions","organizations_url":"https://api.github.com/users/tseemann/orgs","repos_url":"https://api.github.com/users/tseemann/repos","events_url":"https://api.github.com/users/tseemann/events{/privacy}","received_events_url":"https://api.github.com/users/tseemann/received_events","type":"User","site_admin":false},"open_issues":5,"closed_issues":12,"state":"open","created_at":"2016-06-02T03:23:27Z","updated_at":"2016-06-14T04:57:44Z","due_on":"2016-08-21T14:00:00Z","closed_at":null},"comments":2,"created_at":"2016-06-13T15:58:59Z","updated_at":"2016-06-14T13:54:31Z","closed_at":null,"body":"I have been trying to install prokka, so when I got to the setup command, the terminal said that I didnt have hmmpress 3.1 installed. I managed to get that working and then ran it again and got past hmmpress but this time around I dont have cmpress 1.1 installed. I cannot find the website for where I could install this. Could you please provide the links for the website for cmpress and other things I could be missing?\r\n\r\nCode:\r\n[10:45:12] Looking for 'makeblastdb' - found /Users/AJ/prokka/bin/../binaries/darwin/makeblastdb\r\n[10:45:12] Determined makeblastdb version is 2.2\r\n[10:45:12] Making kingdom BLASTP database: /Users/AJ/prokka/bin/../db/kingdom/Archaea/sprot\r\n[10:45:12] Running: makeblastdb -hash_index -dbtype prot -in \\/Users\\/AJ\\/prokka\\/bin\\/\\.\\.\\/db\\/kingdom\\/Archaea\\/sprot -logfile /dev/null\r\n[10:45:12] Making kingdom BLASTP database: /Users/AJ/prokka/bin/../db/kingdom/Bacteria/sprot\r\n[10:45:12] Running: makeblastdb -hash_index -dbtype prot -in \\/Users\\/AJ\\/prokka\\/bin\\/\\.\\.\\/db\\/kingdom\\/Bacteria\\/sprot -logfile /dev/null\r\n[10:45:14] Making kingdom BLASTP database: /Users/AJ/prokka/bin/../db/kingdom/Mitochondria/sprot\r\n[10:45:14] Running: makeblastdb -hash_index -dbtype prot -in \\/Users\\/AJ\\/prokka\\/bin\\/\\.\\.\\/db\\/kingdom\\/Mitochondria\\/sprot -logfile /dev/null\r\n[10:45:14] Making kingdom BLASTP database: /Users/AJ/prokka/bin/../db/kingdom/Viruses/sprot\r\n[10:45:14] Running: makeblastdb -hash_index -dbtype prot -in \\/Users\\/AJ\\/prokka\\/bin\\/\\.\\.\\/db\\/kingdom\\/Viruses\\/sprot -logfile /dev/null\r\n[10:45:14] Making genus BLASTP database: /Users/AJ/prokka/bin/../db/genus/Enterococcus\r\n[10:45:14] Running: makeblastdb -hash_index -dbtype prot -in \\/Users\\/AJ\\/prokka\\/bin\\/\\.\\.\\/db\\/genus\\/Enterococcus -logfile /dev/null\r\n[10:45:14] Making genus BLASTP database: /Users/AJ/prokka/bin/../db/genus/Escherichia\r\n[10:45:14] Running: makeblastdb -hash_index -dbtype prot -in \\/Users\\/AJ\\/prokka\\/bin\\/\\.\\.\\/db\\/genus\\/Escherichia -logfile /dev/null\r\n[10:45:15] Making genus BLASTP database: /Users/AJ/prokka/bin/../db/genus/Staphylococcus\r\n[10:45:15] Running: makeblastdb -hash_index -dbtype prot -in \\/Users\\/AJ\\/prokka\\/bin\\/\\.\\.\\/db\\/genus\\/Staphylococcus -logfile /dev/null\r\n[10:45:15] Looking for 'hmmpress' - found /usr/local/bin/hmmpress\r\n[10:45:15] Determined hmmpress version is 3.1\r\n[10:45:15] Pressing HMM database: /Users/AJ/prokka/bin/../db/hmm/HAMAP.hmm\r\n[10:45:15] Running: hmmpress \\/Users\\/AJ\\/prokka\\/bin\\/\\.\\.\\/db\\/hmm\\/HAMAP\\.hmm\r\nWorking...    done.\r\nPressed and indexed 1463 HMMs (1463 names).\r\nModels pressed into binary file:   /Users/AJ/prokka/bin/../db/hmm/HAMAP.hmm.h3m\r\nSSI index for binary model file:   /Users/AJ/prokka/bin/../db/hmm/HAMAP.hmm.h3i\r\nProfiles (MSV part) pressed into:  /Users/AJ/prokka/bin/../db/hmm/HAMAP.hmm.h3f\r\nProfiles (remainder) pressed into: /Users/AJ/prokka/bin/../db/hmm/HAMAP.hmm.h3p\r\n[10:45:22] Looking for 'cmpress' - found /Users/AJ/prokka/bin/../binaries/darwin/cmpress\r\n[10:45:22] Could not determine version of cmpress - please install version 1.1 or higher\r\n\r\nThanks,\r\nAJ"},"comment":{"url":"https://api.github.com/repos/tseemann/prokka/issues/comments/225887979","html_url":"https://github.com/tseemann/prokka/issues/173#issuecomment-225887979","issue_url":"https://api.github.com/repos/tseemann/prokka/issues/173","id":225887979,"user":{"login":"ajsinghal","id":18340094,"avatar_url":"https://avatars.githubusercontent.com/u/18340094?v=3","gravatar_id":"","url":"https://api.github.com/users/ajsinghal","html_url":"https://github.com/ajsinghal","followers_url":"https://api.github.com/users/ajsinghal/followers","following_url":"https://api.github.com/users/ajsinghal/following{/other_user}","gists_url":"https://api.github.com/users/ajsinghal/gists{/gist_id}","starred_url":"https://api.github.com/users/ajsinghal/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/ajsinghal/subscriptions","organizations_url":"https://api.github.com/users/ajsinghal/orgs","repos_url":"https://api.github.com/users/ajsinghal/repos","events_url":"https://api.github.com/users/ajsinghal/events{/privacy}","received_events_url":"https://api.github.com/users/ajsinghal/received_events","type":"User","site_admin":false},"created_at":"2016-06-14T13:54:31Z","updated_at":"2016-06-14T13:54:31Z","body":"\nSo I ran the setup command for Prokka again and as usual the cmpress version was rejected, then I ran the command that you told me to run and I copy pasted the results below:\n------------------------------------------------------------------------------\nJoes-iMac:~ AJ$ /Users/AJ/prokka//binaries/darwin/cmpress -h \nIllegal instruction: 4\nJoes-iMac:~ AJ$ \n------------------------------------------------------------------------------\nThe iMac being used is running OS X Version 10.7.5\n\n\nAJ Singhal\nResearch Associate\n\niXpressGenes Inc.\n601 Genome Way\nHuntsville, AL 35806\n\nPhone:  256-655-4342\nFax:       256-585-6067\n\nwww.iXpressGenes.com\n\n\nOn Jun 14, 2016, at 12:11 AM, Torsten Seemann wrote:\n\n> Prokka comes with the cmpress binary for OS X , it comes from the Infernal package.\n> \n> It seems to find it, but rejects it!\n> \n> [10:45:22] Looking for 'cmpress' - found /Users/AJ/prokka/bin/../binaries/darwin/cmpress\n> [10:45:22] Could not determine version of cmpress - please install version 1.1 or higher\n> What does this command say if you run it?\n> \n> /Users/AJ/prokka//binaries/darwin/cmpress -h\n> \n> —\n> You are receiving this because you authored the thread.\n> Reply to this email directly, view it on GitHub, or mute the thread.\n> \n\n"}}
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