{"action":"created","issue":{"url":"https://api.github.com/repos/poldracklab/mriqc/issues/321","repository_url":"https://api.github.com/repos/poldracklab/mriqc","labels_url":"https://api.github.com/repos/poldracklab/mriqc/issues/321/labels{/name}","comments_url":"https://api.github.com/repos/poldracklab/mriqc/issues/321/comments","events_url":"https://api.github.com/repos/poldracklab/mriqc/issues/321/events","html_url":"https://github.com/poldracklab/mriqc/issues/321","id":194171733,"number":321,"title":"Calc failing if start_idx is given as a setting","user":{"login":"jvarada","id":4758101,"avatar_url":"https://avatars.githubusercontent.com/u/4758101?v=3","gravatar_id":"","url":"https://api.github.com/users/jvarada","html_url":"https://github.com/jvarada","followers_url":"https://api.github.com/users/jvarada/followers","following_url":"https://api.github.com/users/jvarada/following{/other_user}","gists_url":"https://api.github.com/users/jvarada/gists{/gist_id}","starred_url":"https://api.github.com/users/jvarada/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/jvarada/subscriptions","organizations_url":"https://api.github.com/users/jvarada/orgs","repos_url":"https://api.github.com/users/jvarada/repos","events_url":"https://api.github.com/users/jvarada/events{/privacy}","received_events_url":"https://api.github.com/users/jvarada/received_events","type":"User","site_admin":false},"labels":[{"id":306812526,"url":"https://api.github.com/repos/poldracklab/mriqc/labels/bug","name":"bug","color":"fc2929","default":true},{"id":428205103,"url":"https://api.github.com/repos/poldracklab/mriqc/labels/fMRI","name":"fMRI","color":"c5def5","default":false}],"state":"open","locked":false,"assignee":{"login":"oesteban","id":598470,"avatar_url":"https://avatars.githubusercontent.com/u/598470?v=3","gravatar_id":"","url":"https://api.github.com/users/oesteban","html_url":"https://github.com/oesteban","followers_url":"https://api.github.com/users/oesteban/followers","following_url":"https://api.github.com/users/oesteban/following{/other_user}","gists_url":"https://api.github.com/users/oesteban/gists{/gist_id}","starred_url":"https://api.github.com/users/oesteban/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/oesteban/subscriptions","organizations_url":"https://api.github.com/users/oesteban/orgs","repos_url":"https://api.github.com/users/oesteban/repos","events_url":"https://api.github.com/users/oesteban/events{/privacy}","received_events_url":"https://api.github.com/users/oesteban/received_events","type":"User","site_admin":false},"assignees":[{"login":"oesteban","id":598470,"avatar_url":"https://avatars.githubusercontent.com/u/598470?v=3","gravatar_id":"","url":"https://api.github.com/users/oesteban","html_url":"https://github.com/oesteban","followers_url":"https://api.github.com/users/oesteban/followers","following_url":"https://api.github.com/users/oesteban/following{/other_user}","gists_url":"https://api.github.com/users/oesteban/gists{/gist_id}","starred_url":"https://api.github.com/users/oesteban/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/oesteban/subscriptions","organizations_url":"https://api.github.com/users/oesteban/orgs","repos_url":"https://api.github.com/users/oesteban/repos","events_url":"https://api.github.com/users/oesteban/events{/privacy}","received_events_url":"https://api.github.com/users/oesteban/received_events","type":"User","site_admin":false}],"milestone":null,"comments":3,"created_at":"2016-12-07T21:15:33Z","updated_at":"2016-12-08T17:13:50Z","closed_at":null,"body":"```\r\n161207-21:12:54,768 workflow INFO:\r\n\t Traceback (most recent call last):\r\n  File \"/src/nipype/nipype/pipeline/plugins/linear.py\", line 43, in run\r\n    node.run(updatehash=updatehash)\r\n  File \"/src/nipype/nipype/pipeline/engine/nodes.py\", line 367, in run\r\n    self._run_interface()\r\n  File \"/src/nipype/nipype/pipeline/engine/nodes.py\", line 477, in _run_interface\r\n    self._result = self._run_command(execute)\r\n  File \"/src/nipype/nipype/pipeline/engine/nodes.py\", line 597, in _run_command\r\n    cmd = self._interface.cmdline\r\n  File \"/src/nipype/nipype/interfaces/base.py\", line 1677, in cmdline\r\n    self._check_mandatory_inputs()\r\n  File \"/src/nipype/nipype/interfaces/base.py\", line 978, in _check_mandatory_inputs\r\n    self._check_requires(spec, name, getattr(self.inputs, name))\r\n  File \"/src/nipype/nipype/interfaces/base.py\", line 948, in _check_requires\r\n    raise ValueError(msg)\r\nValueError: Calc requires a value for input 'start_idx' because one of stop_idx is set. For a list of required inputs, see Calc.help()\r\n```\r\n\r\nSettings were:\r\n`{'work_dir': '/data/mriqc_test/work', 'report_dir': '/data/mriqc_test/out/reports', 'hmc_afni': True, 'n_procs': 1, 'verbose_reports': False, 'testing': False, 'ants_nthreads': 6, 'write_graph': True, 'deoblique': True, 'output_dir': '/data/mriqc_test/out', 'correct_slice_timing': True, 'bids_dir': '/data/mriqc_test/bids_data', 'start_idx': 5, 'despike': True}`"},"comment":{"url":"https://api.github.com/repos/poldracklab/mriqc/issues/comments/265797092","html_url":"https://github.com/poldracklab/mriqc/issues/321#issuecomment-265797092","issue_url":"https://api.github.com/repos/poldracklab/mriqc/issues/321","id":265797092,"user":{"login":"jvarada","id":4758101,"avatar_url":"https://avatars.githubusercontent.com/u/4758101?v=3","gravatar_id":"","url":"https://api.github.com/users/jvarada","html_url":"https://github.com/jvarada","followers_url":"https://api.github.com/users/jvarada/followers","following_url":"https://api.github.com/users/jvarada/following{/other_user}","gists_url":"https://api.github.com/users/jvarada/gists{/gist_id}","starred_url":"https://api.github.com/users/jvarada/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/jvarada/subscriptions","organizations_url":"https://api.github.com/users/jvarada/orgs","repos_url":"https://api.github.com/users/jvarada/repos","events_url":"https://api.github.com/users/jvarada/events{/privacy}","received_events_url":"https://api.github.com/users/jvarada/received_events","type":"User","site_admin":false},"created_at":"2016-12-08T17:13:50Z","updated_at":"2016-12-08T17:13:50Z","body":"@chrisfilo Is the `exclude_index` param the starting index value from that point onwards after discarding the non-steady state slices? If so, the value I got for the scans I looked at seems about right from what I know for these scans/scanners."}}
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