{"action":"created","comment":{"url":"https://api.github.com/repos/OpenGeoVis/PVGeo/pulls/comments/199219117","pull_request_review_id":133300309,"id":199219117,"node_id":"MDI0OlB1bGxSZXF1ZXN0UmV2aWV3Q29tbWVudDE5OTIxOTExNw==","diff_hunk":"@@ -0,0 +1,196 @@\n+__all__ = [\n+    # 3D Mesh\n+    'wsMesh3DReader',\n+\n+    # Both\n+    #TODO: 'wsTensorMesh',\n+]\n+\n+import numpy as np\n+from vtk.util import numpy_support as nps\n+import vtk\n+import os\n+\n+# Import Helpers:\n+from ..base import ReaderBase\n+#from .. import _helpers\n+\n+class wsMesh3DReader(ReaderBase):\n+    \"\"\"\n+    @desc:\n+    This method reads a ws3dinv Mesh file and builds a vtkStructuredGrid with topology\n+    and model data.\n+    Information about the files can be found\n+        Siripunvaraporn, W.; Egbert, G.; Lenbury, Y. & Uyeshima, M.\n+        Three-dimensional magnetotelluric inversion: data-space method\n+        Physics of The Earth and Planetary Interiors, 2005, 150, 3-14\n+\n+    @params:\n+    FileName : str or list of str : The mesh filename(s) as an absolute path for the input mesh\n+        file in ws3dinv Mesh/Model Format.\n+    x0 : float : the globl x coordinate (Easting) of for the orgin point in the model (0,0,0)\n+    y0 : float : the globl y coordinate (Northing) of for the orgin point in the model (0,0,0)\n+    z0 : float : the globl z coordinate (Elevation) of for the orgin point in the model (0,0,0)\n+    angle : float : angle rotation for the model (clockwise rotation)\n+\n+    @returns:\n+    vtkStructuredGrid : Returns a vtkStructuredGrid generated from the ws3dinv Mesh/Model grid.\n+    Mesh is defined by the input mesh file and does contain data attributes.\n+\n+    \"\"\"\n+    def __init__(self, filename=None, x0=0.0, y0=0.0, z0=0.0, angle=0.0):\n+        ReaderBase.__init__(self, nOutputPorts=1, outputType='vtkStructuredGrid')\n+\n+        # Parameters:\n+        self.__x0 = x0\n+        self.__y0 = y0\n+        self.__z0 = z0\n+        self.__angle = angle\n+        if filename is not None:\n+            self.AddFileName(filename)\n+\n+\n+    def _wsMesh3D(self, FileName, pdo):\n+        \"\"\"\n+        @desc:\n+        This method reads a ws3dinv Mesh file and builds a vtkStructuredGrid with topology\n+        and model data.\n+        Information about the files can be found\n+            Siripunvaraporn, W.; Egbert, G.; Lenbury, Y. & Uyeshima, M.\n+            Three-dimensional magnetotelluric inversion: data-space method\n+            Physics of The Earth and Planetary Interiors, 2005, 150, 3-14\n+\n+        @params:\n+        FileName : str : The mesh filename as an absolute path for the input mesh\n+            file in ws3dinv Mesh/Model Format.\n+        pdo : vtk.vtkStructuredGrid : The output data object\n+\n+        @returns:\n+        vtkStructuredGrid : Returns a vtkStructuredGrid generated from the ws3dinv Mesh/Model grid.\n+        Mesh is defined by the input mesh file and does contain data attributes.\n+\n+        \"\"\"\n+\n+        # Simple file tests\n+        try:\n+            if not os.path.isfile(FileName):\n+                raise IOError('modelFile : {:s}'.format(FileName))\n+        except Exception as e:\n+            raise e\n+        # Read the model file\n+        with open(FileName, 'r') as fid:\n+            fileLines = fid.readlines()\n+        # Start extracting information\n+        # NOTE: The line indexing is hard coded into the program so if there are additional lines it will cause a miss read\n+        # NOTE: The WS3D model coord frame is x=j(northing),y=i(easting),z=depth(positive down). In order for the grid\n+        #       to be in a cartisian ref frame, with x,y,z obeing the right hand rule\n+        #       Globaly x is Easting, y is Northing and z is Elevation(that is positive upwards).\n+        # Read the number off cells information\n+        ny,nx,nz,tmp = np.array(fileLines[1].split(), dtype=int)","path":"PVGeo/ws3d/tensor_mesh.py","position":89,"original_position":89,"commit_id":"13ec5a2d8ff7aed283c0dd3b16f405fa0cd25468","original_commit_id":"13ec5a2d8ff7aed283c0dd3b16f405fa0cd25468","user":{"login":"codacy-bot","id":19940114,"node_id":"MDQ6VXNlcjE5OTQwMTE0","avatar_url":"https://avatars1.githubusercontent.com/u/19940114?v=4","gravatar_id":"","url":"https://api.github.com/users/codacy-bot","html_url":"https://github.com/codacy-bot","followers_url":"https://api.github.com/users/codacy-bot/followers","following_url":"https://api.github.com/users/codacy-bot/following{/other_user}","gists_url":"https://api.github.com/users/codacy-bot/gists{/gist_id}","starred_url":"https://api.github.com/users/codacy-bot/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/codacy-bot/subscriptions","organizations_url":"https://api.github.com/users/codacy-bot/orgs","repos_url":"https://api.github.com/users/codacy-bot/repos","events_url":"https://api.github.com/users/codacy-bot/events{/privacy}","received_events_url":"https://api.github.com/users/codacy-bot/received_events","type":"User","site_admin":false},"body":"![Codacy](https://app.codacy.com/assets/images/favicon.png) Issue found: [Unused variable 'tmp'](https://app.codacy.com/app/banesullivan/PVGeo/pullRequest?prid=1842461)","created_at":"2018-06-29T16:48:25Z","updated_at":"2018-06-29T16:48:25Z","html_url":"https://github.com/OpenGeoVis/PVGeo/pull/10#discussion_r199219117","pull_request_url":"https://api.github.com/repos/OpenGeoVis/PVGeo/pulls/10","author_association":"NONE","_links":{"self":{"href":"https://api.github.com/repos/OpenGeoVis/PVGeo/pulls/comments/199219117"},"html":{"href":"https://github.com/OpenGeoVis/PVGeo/pull/10#discussion_r199219117"},"pull_request":{"href":"https://api.github.com/repos/OpenGeoVis/PVGeo/pulls/10"}}},"pull_request":{"url":"https://api.github.com/repos/OpenGeoVis/PVGeo/pulls/10","id":198221583,"node_id":"MDExOlB1bGxSZXF1ZXN0MTk4MjIxNTgz","html_url":"https://github.com/OpenGeoVis/PVGeo/pull/10","diff_url":"https://github.com/OpenGeoVis/PVGeo/pull/10.diff","patch_url":"https://github.com/OpenGeoVis/PVGeo/pull/10.patch","issue_url":"https://api.github.com/repos/OpenGeoVis/PVGeo/issues/10","number":10,"state":"open","locked":false,"title":"Feat/ws3d reader","user":{"login":"banesullivan","id":22067021,"node_id":"MDQ6VXNlcjIyMDY3MDIx","avatar_url":"https://avatars2.githubusercontent.com/u/22067021?v=4","gravatar_id":"","url":"https://api.github.com/users/banesullivan","html_url":"https://github.com/banesullivan","followers_url":"https://api.github.com/users/banesullivan/followers","following_url":"https://api.github.com/users/banesullivan/following{/other_user}","gists_url":"https://api.github.com/users/banesullivan/gists{/gist_id}","starred_url":"https://api.github.com/users/banesullivan/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/banesullivan/subscriptions","organizations_url":"https://api.github.com/users/banesullivan/orgs","repos_url":"https://api.github.com/users/banesullivan/repos","events_url":"https://api.github.com/users/banesullivan/events{/privacy}","received_events_url":"https://api.github.com/users/banesullivan/received_events","type":"User","site_admin":false},"body":"I have reimplemented the ws3D reader in the new `VTKAlgorithmBase` format and wrapped it for use in ParaView's GUI.\r\n\r\n@grosenkj, this is ready for testing! Do you have a sample file? If so, could you run the following script in a standard Python environment to test the reader? Also, I left some `TODO` notes in `plugins/ws3d.py` for you as I am unfamiliar with this file type; would you mind taking a look?\r\n\r\n\r\n```py\r\nimport PVGeo\r\n\r\nfilename = 'model.ws3d' # TODO: an actual model file for testing\r\n\r\nwsreader = PVGeo.ws3d.wsMesh3DReader()\r\nwsreader.AddFileName(filename)\r\n\r\n# Edit Parameters as needed:\r\nwsreader.SetX0(33.33)\r\nwsreader.SetAngle(25.0)\r\nwsreader.SetOrigin(12.0, 6.5, 90.0)\r\n\r\n# Perfrom the read:\r\nwsreader.Update()\r\n\r\n# Grab the output `vtkStructuredGrid` and test\r\ngrid = wsreader.GetOutput()\r\nassert(grid.GetNumberOfCells() == numCells) # TODO: numCells\r\n# Or implement other means of ensuring the grid was constructed and passed out correctly\r\n\r\n```\r\n\r\nIf you would also like to test this in ParaView, you can download a nightly build of ParaView from their website and load the `plugins/ws3d.py` file through the Plugin Manager in ParaView.","created_at":"2018-06-29T05:56:07Z","updated_at":"2018-06-29T16:48:26Z","closed_at":null,"merged_at":null,"merge_commit_sha":"727fd71afeafb9d11b787457223cfa3f82e29524","assignee":{"login":"grosenkj","id":6052367,"node_id":"MDQ6VXNlcjYwNTIzNjc=","avatar_url":"https://avatars2.githubusercontent.com/u/6052367?v=4","gravatar_id":"","url":"https://api.github.com/users/grosenkj","html_url":"https://github.com/grosenkj","followers_url":"https://api.github.com/users/grosenkj/followers","following_url":"https://api.github.com/users/grosenkj/following{/other_user}","gists_url":"https://api.github.com/users/grosenkj/gists{/gist_id}","starred_url":"https://api.github.com/users/grosenkj/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/grosenkj/subscriptions","organizations_url":"https://api.github.com/users/grosenkj/orgs","repos_url":"https://api.github.com/users/grosenkj/repos","events_url":"https://api.github.com/users/grosenkj/events{/privacy}","received_events_url":"https://api.github.com/users/grosenkj/received_events","type":"User","site_admin":false},"assignees":[{"login":"grosenkj","id":6052367,"node_id":"MDQ6VXNlcjYwNTIzNjc=","avatar_url":"https://avatars2.githubusercontent.com/u/6052367?v=4","gravatar_id":"","url":"https://api.github.com/users/grosenkj","html_url":"https://github.com/grosenkj","followers_url":"https://api.github.com/users/grosenkj/followers","following_url":"https://api.github.com/users/grosenkj/following{/other_user}","gists_url":"https://api.github.com/users/grosenkj/gists{/gist_id}","starred_url":"https://api.github.com/users/grosenkj/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/grosenkj/subscriptions","organizations_url":"https://api.github.com/users/grosenkj/orgs","repos_url":"https://api.github.com/users/grosenkj/repos","events_url":"https://api.github.com/users/grosenkj/events{/privacy}","received_events_url":"https://api.github.com/users/grosenkj/received_events","type":"User","site_admin":false},{"login":"banesullivan","id":22067021,"node_id":"MDQ6VXNlcjIyMDY3MDIx","avatar_url":"https://avatars2.githubusercontent.com/u/22067021?v=4","gravatar_id":"","url":"https://api.github.com/users/banesullivan","html_url":"https://github.com/banesullivan","followers_url":"https://api.github.com/users/banesullivan/followers","following_url":"https://api.github.com/users/banesullivan/following{/other_user}","gists_url":"https://api.github.com/users/banesullivan/gists{/gist_id}","starred_url":"https://api.github.com/users/banesullivan/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/banesullivan/subscriptions","organizations_url":"https://api.github.com/users/banesullivan/orgs","repos_url":"https://api.github.com/users/banesullivan/repos","events_url":"https://api.github.com/users/banesullivan/events{/privacy}","received_events_url":"https://api.github.com/users/banesullivan/received_events","type":"User","site_admin":false}],"requested_reviewers":[],"requested_teams":[],"labels":[],"milestone":null,"commits_url":"https://api.github.com/repos/OpenGeoVis/PVGeo/pulls/10/commits","review_comments_url":"https://api.github.com/repos/OpenGeoVis/PVGeo/pulls/10/comments","review_comment_url":"https://api.github.com/repos/OpenGeoVis/PVGeo/pulls/comments{/number}","comments_url":"https://api.github.com/repos/OpenGeoVis/PVGeo/issues/10/comments","statuses_url":"https://api.github.com/repos/OpenGeoVis/PVGeo/statuses/13ec5a2d8ff7aed283c0dd3b16f405fa0cd25468","head":{"label":"OpenGeoVis:feat/ws3d_reader","ref":"feat/ws3d_reader","sha":"13ec5a2d8ff7aed283c0dd3b16f405fa0cd25468","user":{"login":"OpenGeoVis","id":38025977,"node_id":"MDEyOk9yZ2FuaXphdGlvbjM4MDI1OTc3","avatar_url":"https://avatars0.githubusercontent.com/u/38025977?v=4","gravatar_id":"","url":"https://api.github.com/users/OpenGeoVis","html_url":"https://github.com/OpenGeoVis","followers_url":"https://api.github.com/users/OpenGeoVis/followers","following_url":"https://api.github.com/users/OpenGeoVis/following{/other_user}","gists_url":"https://api.github.com/users/OpenGeoVis/gists{/gist_id}","starred_url":"https://api.github.com/users/OpenGeoVis/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/OpenGeoVis/subscriptions","organizations_url":"https://api.github.com/users/OpenGeoVis/orgs","repos_url":"https://api.github.com/users/OpenGeoVis/repos","events_url":"https://api.github.com/users/OpenGeoVis/events{/privacy}","received_events_url":"https://api.github.com/users/OpenGeoVis/received_events","type":"Organization","site_admin":false},"repo":{"id":97628892,"node_id":"MDEwOlJlcG9zaXRvcnk5NzYyODg5Mg==","name":"PVGeo","full_name":"OpenGeoVis/PVGeo","owner":{"login":"OpenGeoVis","id":38025977,"node_id":"MDEyOk9yZ2FuaXphdGlvbjM4MDI1OTc3","avatar_url":"https://avatars0.githubusercontent.com/u/38025977?v=4","gravatar_id":"","url":"https://api.github.com/users/OpenGeoVis","html_url":"https://github.com/OpenGeoVis","followers_url":"https://api.github.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