{"action":"created","issue":{"url":"https://api.github.com/repos/fhormoz/caviar/issues/3","repository_url":"https://api.github.com/repos/fhormoz/caviar","labels_url":"https://api.github.com/repos/fhormoz/caviar/issues/3/labels{/name}","comments_url":"https://api.github.com/repos/fhormoz/caviar/issues/3/comments","events_url":"https://api.github.com/repos/fhormoz/caviar/issues/3/events","html_url":"https://github.com/fhormoz/caviar/issues/3","id":268620547,"node_id":"MDU6SXNzdWUyNjg2MjA1NDc=","number":3,"title":"segmentation fault","user":{"login":"xtmgah","id":4236148,"node_id":"MDQ6VXNlcjQyMzYxNDg=","avatar_url":"https://avatars1.githubusercontent.com/u/4236148?v=4","gravatar_id":"","url":"https://api.github.com/users/xtmgah","html_url":"https://github.com/xtmgah","followers_url":"https://api.github.com/users/xtmgah/followers","following_url":"https://api.github.com/users/xtmgah/following{/other_user}","gists_url":"https://api.github.com/users/xtmgah/gists{/gist_id}","starred_url":"https://api.github.com/users/xtmgah/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/xtmgah/subscriptions","organizations_url":"https://api.github.com/users/xtmgah/orgs","repos_url":"https://api.github.com/users/xtmgah/repos","events_url":"https://api.github.com/users/xtmgah/events{/privacy}","received_events_url":"https://api.github.com/users/xtmgah/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":null,"assignees":[],"milestone":null,"comments":0,"created_at":"2017-10-26T03:45:02Z","updated_at":"2018-10-22T18:29:45Z","closed_at":null,"author_association":"NONE","body":"Hello: \r\n\r\nI am trying the caivar on the eQTL and GWAS data for few GWAS loci. However, some loci are completed and some loci had a error information like \"segmentation fault\"... Here i gave a example. Here is the output from my command. Could you help to check and fix this error? Thanks so much. \r\n\r\n eCAVIAR -l test_GWAS.ld -l test_eQTL.ld -z test_GWAS.z -z test_eQTL.z -o output \r\n\r\n@-------------------------------------------------------------@\r\n| eCAVIAR!     \t| \t   v2.0         |  01/Aug/2017 | \r\n|-------------------------------------------------------------|\r\n| (C) 2017 Farhad Hormozdiari, GNU General Public License, v2 |\r\n|-------------------------------------------------------------|\r\n| For documentation, citation & bug-report instructions:      |\r\n| \t\thttp://genetics.cs.ucla.edu/caviar/            |\r\n@-------------------------------------------------------------@\r\n-0\t0\r\nadd\r\n0\t0.1\r\nadd\r\n0\t0.2\r\nadd\r\n0\t0.3\r\nadd\r\n0\t0.4\r\nadd\r\n0\t0.5\r\nadd\r\n4.94066e-324\t0.6\r\nFINISH\r\nreach=2659\r\n2659\r\nMax Causal=2\r\nTotal=3536471\r\n0 5.67241e-23\r\n100000 4.2641e-17\r\n200000 4.98178e-17\r\n300000 5.67564e-17\r\n400000 6.55714e-17\r\n500000 7.24377e-17\r\n600000 8.29678e-17\r\n700000 9.06624e-17\r\n800000 9.79103e-17\r\n900000 1.03529e-16\r\n1000000 1.09101e-16\r\n1100000 1.15797e-16\r\n1200000 1.22241e-16\r\n1300000 1.29166e-16\r\n1400000 1.36004e-16\r\n1500000 1.47125e-16\r\n1600000 1.55799e-16\r\n1700000 1.64667e-16\r\n1800000 1.74226e-16\r\n1900000 1.81991e-16\r\n2000000 1.90807e-16\r\n2100000 2.01153e-16\r\n2200000 2.14104e-16\r\n2300000 2.34897e-16\r\n2400000 3.31121e-16\r\n2500000 7.22409e-13\r\n2600000 7.22409e-13\r\n2700000 7.22409e-13\r\n2800000 7.22409e-13\r\n2900000 7.22409e-13\r\n3000000 7.22409e-13\r\n3100000 7.22409e-13\r\n3200000 7.22409e-13\r\n3300000 7.22409e-13\r\n3400000 7.22409e-13\r\n3500000 7.22409e-13\r\nTotal Likelihood= 1.444780e-12 SNP=2659 \r\n\r\n1183 4.850940e-01\r\n\r\n-0\t0\r\nadd\r\n0\t0.1\r\nadd\r\n0\t0.2\r\nadd\r\n0\t0.3\r\nadd\r\n0\t0.4\r\nadd\r\n0\t0.5\r\nadd\r\n4.94066e-324\t0.6\r\nSegmentation fault\r\n\r\nThe data can be download here:\r\n\r\nhttps://www.dropbox.com/sh/d3wspkfm5csknk5/AABAhXeqWbfakgTBX8LJnwPpa?dl=0\r\n"},"comment":{"url":"https://api.github.com/repos/fhormoz/caviar/issues/comments/431926492","html_url":"https://github.com/fhormoz/caviar/issues/3#issuecomment-431926492","issue_url":"https://api.github.com/repos/fhormoz/caviar/issues/3","id":431926492,"node_id":"MDEyOklzc3VlQ29tbWVudDQzMTkyNjQ5Mg==","user":{"login":"fhormoz","id":5344182,"node_id":"MDQ6VXNlcjUzNDQxODI=","avatar_url":"https://avatars1.githubusercontent.com/u/5344182?v=4","gravatar_id":"","url":"https://api.github.com/users/fhormoz","html_url":"https://github.com/fhormoz","followers_url":"https://api.github.com/users/fhormoz/followers","following_url":"https://api.github.com/users/fhormoz/following{/other_user}","gists_url":"https://api.github.com/users/fhormoz/gists{/gist_id}","starred_url":"https://api.github.com/users/fhormoz/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/fhormoz/subscriptions","organizations_url":"https://api.github.com/users/fhormoz/orgs","repos_url":"https://api.github.com/users/fhormoz/repos","events_url":"https://api.github.com/users/fhormoz/events{/privacy}","received_events_url":"https://api.github.com/users/fhormoz/received_events","type":"User","site_admin":false},"created_at":"2018-10-22T18:29:45Z","updated_at":"2018-10-22T18:29:45Z","author_association":"OWNER","body":"I think most probability your LD or Z-score file has nan. Can you convert nan to 0?\r\nPlease let me know if you still have the Segmentation fault. I will try to fix this in the next \r\nversion to output a warning if the files have nan."}}
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