{"action":"created","issue":{"url":"https://api.github.com/repos/holmrenser/IOGA/issues/4","labels_url":"https://api.github.com/repos/holmrenser/IOGA/issues/4/labels{/name}","comments_url":"https://api.github.com/repos/holmrenser/IOGA/issues/4/comments","events_url":"https://api.github.com/repos/holmrenser/IOGA/issues/4/events","html_url":"https://github.com/holmrenser/IOGA/issues/4","id":105098191,"number":4,"title":"Read trimming/filtering is not finding the necessary adapter file","user":{"login":"holmrenser","id":8225367,"avatar_url":"https://avatars.githubusercontent.com/u/8225367?v=3","gravatar_id":"","url":"https://api.github.com/users/holmrenser","html_url":"https://github.com/holmrenser","followers_url":"https://api.github.com/users/holmrenser/followers","following_url":"https://api.github.com/users/holmrenser/following{/other_user}","gists_url":"https://api.github.com/users/holmrenser/gists{/gist_id}","starred_url":"https://api.github.com/users/holmrenser/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/holmrenser/subscriptions","organizations_url":"https://api.github.com/users/holmrenser/orgs","repos_url":"https://api.github.com/users/holmrenser/repos","events_url":"https://api.github.com/users/holmrenser/events{/privacy}","received_events_url":"https://api.github.com/users/holmrenser/received_events","type":"User","site_admin":false},"labels":[],"state":"closed","locked":false,"assignee":null,"milestone":null,"comments":28,"created_at":"2015-09-06T14:43:47Z","updated_at":"2015-10-14T07:57:15Z","closed_at":"2015-10-14T07:57:15Z","body":"Continued from #3 \r\n\r\n------\r\n\r\n\r\nHi Rens,\r\n\r\nI have a problem! I'm using IOGA.py, but I keep seeing this error: OSError: [Errno 2]. Would you please help me solve this problem?\r\n```\r\n[teste] Quality trimming with BBduk\r\n\r\nTraceback (most recent call last):\r\n\r\nFile \"./IOGA.py\", line 408, in main(args.reference,args.name,args.forward,args.reverse,args.threads,args.insertsize,args.maxrounds,args.verbose)\r\n\r\nFile \"./IOGA.py\", line 352, in main\r\n\r\nsource,FP,RP,final_iteration = IOGA_loop(name,ref,forward,reverse,insertsize,threads,maxrounds)\r\n\r\nFile \"./IOGA.py\", line 288, in IOGA_loop\r\n\r\nforward,reverse = run_bbduk(name,forward,reverse,threads)\r\n\r\nFile \"./IOGA.py\", line 187, in run_bbduk subprocess.call(['bbduk.sh','ref='+adapterdir,'in='+forward,'in2='+reverse,'out='+FP,'out2='+RP,'threads='+threads,'k=25','ktrim=rl','qtrim=t','minlength=32','-Xmx10G'],stderr=fnull,stdout=fnull)\r\n\r\nFile \"/usr/lib/python2.7/subprocess.py\", line 522, in call\r\n\r\nreturn Popen(popenargs, *kwargs).wait()\r\n\r\nFile \"/usr/lib/python2.7/subprocess.py\", line 710, in init\r\n\r\nerrread, errwrite)\r\n\r\nFile \"/usr/lib/python2.7/subprocess.py\", line 1327, in _execute_child\r\n\r\nraise child_exception\r\n\r\nOSError: [Errno 2] No such file or directory\r\n```\r\nBest regards,\r\n\r\nLilian\r\n"},"comment":{"url":"https://api.github.com/repos/holmrenser/IOGA/issues/comments/147966626","html_url":"https://github.com/holmrenser/IOGA/issues/4#issuecomment-147966626","issue_url":"https://api.github.com/repos/holmrenser/IOGA/issues/4","id":147966626,"user":{"login":"holmrenser","id":8225367,"avatar_url":"https://avatars.githubusercontent.com/u/8225367?v=3","gravatar_id":"","url":"https://api.github.com/users/holmrenser","html_url":"https://github.com/holmrenser","followers_url":"https://api.github.com/users/holmrenser/followers","following_url":"https://api.github.com/users/holmrenser/following{/other_user}","gists_url":"https://api.github.com/users/holmrenser/gists{/gist_id}","starred_url":"https://api.github.com/users/holmrenser/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/holmrenser/subscriptions","organizations_url":"https://api.github.com/users/holmrenser/orgs","repos_url":"https://api.github.com/users/holmrenser/repos","events_url":"https://api.github.com/users/holmrenser/events{/privacy}","received_events_url":"https://api.github.com/users/holmrenser/received_events","type":"User","site_admin":false},"created_at":"2015-10-14T07:57:15Z","updated_at":"2015-10-14T07:57:15Z","body":"Hurray! Thank you a lot for working this out with me!"}}