{"action":"created","comment":{"url":"https://api.github.com/repos/firedrakeproject/firedrake/pulls/comments/284637037","pull_request_review_id":238291634,"id":284637037,"node_id":"MDI0OlB1bGxSZXF1ZXN0UmV2aWV3Q29tbWVudDI4NDYzNzAzNw==","diff_hunk":"@@ -257,32 +423,169 @@ def apply(self, r, u=None):\n         else:\n             r.assign(self.function_arg, subset=self.node_set)\n \n-    def zero(self, r):\n-        r\"\"\"Zero the boundary condition nodes on ``r``.\n-\n-        :arg r: a :class:`.Function` to which the\n-            boundary condition should be applied.\n-\n-        \"\"\"\n-        if isinstance(r, matrix.MatrixBase):\n-            raise NotImplementedError(\"Zeroing bcs on a Matrix is not supported\")\n-\n-        for idx in self._indices:\n-            r = r.sub(idx)\n-        try:\n-            r.dat.zero(subset=self.node_set)\n-        except exceptions.MapValueError:\n-            raise RuntimeError(\"%r defined on incompatible FunctionSpace!\" % r)\n+    def integrals(self):\n+        return []\n+\n+\n+class EquationBC(object):\n+    r'''Construct and store EquationBCSplit objects (for `F`, `J`, and `Jp`).\n+\n+    :param eq: the linear/nonlinear form equation\n+    :param u: the :class:`.Function` to solve for\n+    :arg sub_domain: see :class:`.DirichletBC`.\n+    :arg bcs: a list of :class:`.DirichletBC`s and/or :class:`.EquationBC`s\n+        to be applied to this boundary condition equation (optional)\n+    :param J: the Jacobian for this boundary equation (optional)\n+    :param Jp: a form used for preconditioning the linear system,\n+        optional, if not supplied then the Jacobian itself\n+        will be used.\n+    :arg method: see :class:`.DirichletBC` (optional)\n+    :arg sub_space_index: the sub_space index for the function space\n+        on which the equation boundary condition is applied\n+    '''\n \n-    def set(self, r, val):\n-        r\"\"\"Set the boundary nodes to a prescribed (external) value.\n-        :arg r: the :class:`Function` to which the value should be applied.\n-        :arg val: the prescribed value.\n-        \"\"\"\n-        for idx in self._indices:\n-            r = r.sub(idx)\n-            val = val.sub(idx)\n-        r.assign(val, subset=self.node_set)\n+    def __init__(self, *args, bcs=None, J=None, Jp=None, method=\"topological\", V=None, is_linear=False, Jp_eq_J=False):\n+\n+        if isinstance(args[0], ufl.classes.Equation):\n+            # initial construction from equation\n+            eq = args[0]\n+            u = args[1]\n+            sub_domain = args[2]\n+            if V is None:\n+                V = eq.lhs.arguments()[0].function_space()\n+            bcs = solving._extract_bcs(bcs)\n+            # Jp_eq_J and is_linear are evaluated as the tree is constructed\n+            self.Jp_eq_J = Jp is None and all([bc.Jp_eq_J for bc in bcs])\n+            self.is_linear = all(bc.is_linear for bc in bcs)\n+\n+            from firedrake.variational_solver import check_pde_args\n+            # linear\n+            if isinstance(eq.lhs, ufl.Form) and isinstance(eq.rhs, ufl.Form):\n+                J = eq.lhs\n+                Jp = Jp or J\n+                if eq.rhs == 0:\n+                    F = ufl_expr.action(J, u)\n+                else:\n+                    if not isinstance(eq.rhs, (ufl.Form, slate.slate.TensorBase)):\n+                        raise TypeError(\"Provided BC RHS is a '%s', not a Form or Slate Tensor\" % type(eq.rhs).__name__)\n+                    if len(eq.rhs.arguments()) != 1:\n+                        raise ValueError(\"Provided BC RHS is not a linear form\")\n+                    F = ufl_expr.action(J, u) - eq.rhs\n+            # nonlinear\n+            else:\n+                if eq.rhs != 0:\n+                    raise TypeError(\"RHS of a nonlinear form equation has to be 0\")\n+                F = eq.lhs\n+                J = J or ufl_expr.derivative(F, u)\n+                Jp = Jp or J\n+                # Argument checking\n+                check_pde_args(F, J, Jp)\n+                self.is_linear = False\n+            # EquationBCSplit objects for `F`, `J`, and `Jp`\n+            self._F = EquationBCSplit(F, u, sub_domain, bcs=[bc if isinstance(bc, DirichletBC) else bc._F for bc in bcs], method=method, V=V)\n+            self._J = EquationBCSplit(J, u, sub_domain, bcs=[bc if isinstance(bc, DirichletBC) else bc._J for bc in bcs], method=method, V=V)\n+            self._Jp = EquationBCSplit(Jp, u, sub_domain, bcs=[bc if isinstance(bc, DirichletBC) else bc._Jp for bc in bcs], method=method, V=V)\n+        elif all(isinstance(args[i], EquationBCSplit) for i in range(3)):\n+            # reconstruction for splitting `solving_utils.split`\n+            self.Jp_eq_J = Jp_eq_J\n+            self.is_linear = is_linear\n+            self._F = args[0]\n+            self._J = args[1]\n+            self._Jp = args[2]\n+        else:\n+            raise TypeError(\"Wrong EquationBC arguments\")\n+\n+    def __iter__(self):\n+        yield from itertools.chain(self._F)\n+\n+    def dirichlet_bcs(self):\n+        # _F, _J, and _Jp all have the same DirichletBCs\n+        yield from self._F.dirichlet_bcs()\n+\n+    def reconstruct(self, V, subu, u, field):\n+        _F = self._F.reconstruct(field=field, V=V, subu=subu, u=u)\n+        _J = self._J.reconstruct(field=field, V=V, subu=subu, u=u)\n+        _Jp = self._Jp.reconstruct(field=field, V=V, subu=subu, u=u)\n+        if all([_F is not None, _J is not None, _Jp is not None]):\n+            return EquationBC(_F, _J, _Jp, Jp_eq_J=self.Jp_eq_J, is_linear=self.is_linear)\n+\n+\n+class EquationBCSplit(BCBase):\n+","path":"firedrake/bcs.py","position":481,"original_position":481,"commit_id":"b632779f02351bd482df426402c75f7c6222bd1c","original_commit_id":"b632779f02351bd482df426402c75f7c6222bd1c","user":{"login":"thomasgibson","id":14180421,"node_id":"MDQ6VXNlcjE0MTgwNDIx","avatar_url":"https://avatars3.githubusercontent.com/u/14180421?v=4","gravatar_id":"","url":"https://api.github.com/users/thomasgibson","html_url":"https://github.com/thomasgibson","followers_url":"https://api.github.com/users/thomasgibson/followers","following_url":"https://api.github.com/users/thomasgibson/following{/other_user}","gists_url":"https://api.github.com/users/thomasgibson/gists{/gist_id}","starred_url":"https://api.github.com/users/thomasgibson/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/thomasgibson/subscriptions","organizations_url":"https://api.github.com/users/thomasgibson/orgs","repos_url":"https://api.github.com/users/thomasgibson/repos","events_url":"https://api.github.com/users/thomasgibson/events{/privacy}","received_events_url":"https://api.github.com/users/thomasgibson/received_events","type":"User","site_admin":false},"body":"Although this is only used internally, might be useful to have a docstring attached that describes the function of this object.","created_at":"2019-05-16T10:17:02Z","updated_at":"2019-05-16T10:27:20Z","html_url":"https://github.com/firedrakeproject/firedrake/pull/1429#discussion_r284637037","pull_request_url":"https://api.github.com/repos/firedrakeproject/firedrake/pulls/1429","author_association":"CONTRIBUTOR","_links":{"self":{"href":"https://api.github.com/repos/firedrakeproject/firedrake/pulls/comments/284637037"},"html":{"href":"https://github.com/firedrakeproject/firedrake/pull/1429#discussion_r284637037"},"pull_request":{"href":"https://api.github.com/repos/firedrakeproject/firedrake/pulls/1429"}}},"pull_request":{"url":"https://api.github.com/repos/firedrakeproject/firedrake/pulls/1429","id":273975158,"node_id":"MDExOlB1bGxSZXF1ZXN0MjczOTc1MTU4","html_url":"https://github.com/firedrakeproject/firedrake/pull/1429","diff_url":"https://github.com/firedrakeproject/firedrake/pull/1429.diff","patch_url":"https://github.com/firedrakeproject/firedrake/pull/1429.patch","issue_url":"https://api.github.com/repos/firedrakeproject/firedrake/issues/1429","number":1429,"state":"open","locked":false,"title":"Equation bcs","user":{"login":"ksagiyam","id":46749170,"node_id":"MDQ6VXNlcjQ2NzQ5MTcw","avatar_url":"https://avatars2.githubusercontent.com/u/46749170?v=4","gravatar_id":"","url":"https://api.github.com/users/ksagiyam","html_url":"https://github.com/ksagiyam","followers_url":"https://api.github.com/users/ksagiyam/followers","following_url":"https://api.github.com/users/ksagiyam/following{/other_user}","gists_url":"https://api.github.com/users/ksagiyam/gists{/gist_id}","starred_url":"https://api.github.com/users/ksagiyam/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/ksagiyam/subscriptions","organizations_url":"https://api.github.com/users/ksagiyam/orgs","repos_url":"https://api.github.com/users/ksagiyam/repos","events_url":"https://api.github.com/users/ksagiyam/events{/privacy}","received_events_url":"https://api.github.com/users/ksagiyam/received_events","type":"User","site_admin":false},"body":"This branch allows for application of boundary conditions in equation form (EquationBC).  It also deprecates \"bc.apply(A),\" removing \"thunk().\"","created_at":"2019-04-26T17:20:53Z","updated_at":"2019-05-16T10:27:20Z","closed_at":null,"merged_at":null,"merge_commit_sha":"459c87956eaa0e8c5c54882ace4beddb6bc22a89","assignee":null,"assignees":[],"requested_reviewers":[],"requested_teams":[],"labels":[],"milestone":null,"commits_url":"https://api.github.com/repos/firedrakeproject/firedrake/pulls/1429/commits","review_comments_url":"https://api.github.com/repos/firedrakeproject/firedrake/pulls/1429/comments","review_comment_url":"https://api.github.com/repos/firedrakeproject/firedrake/pulls/comments{/number}","comments_url":"https://api.github.com/repos/firedrakeproject/firedrake/issues/1429/comments","statuses_url":"https://api.github.com/repos/firedrakeproject/firedrake/statuses/b632779f02351bd482df426402c75f7c6222bd1c","head":{"label":"firedrakeproject:equation_bcs","ref":"equation_bcs","sha":"b632779f02351bd482df426402c75f7c6222bd1c","user":{"login":"firedrakeproject","id":5558005,"node_id":"MDEyOk9yZ2FuaXphdGlvbjU1NTgwMDU=","avatar_url":"https://avatars3.githubusercontent.com/u/5558005?v=4","gravatar_id":"","url":"https://api.github.com/users/firedrakeproject","html_url":"https://github.com/firedrakeproject","followers_url":"https://api.github.com/users/firedrakeproject/followers","following_url":"https://api.github.com/users/firedrakeproject/following{/other_user}","gists_url":"https://api.github.com/users/firedrakeproject/gists{/gist_id}","starred_url":"https://api.github.com/users/firedrakeproject/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/firedrakeproject/subscriptions","organizations_url":"https://api.github.com/users/firedrakeproject/orgs","repos_url":"https://api.github.com/users/firedrakeproject/repos","events_url":"https://api.github.com/users/firedrakeproject/events{/privacy}","received_events_url":"https://api.github.com/users/firedrakeproject/received_events","type":"Organization","site_admin":false},"repo":{"id":13384052,"node_id":"MDEwOlJlcG9zaXRvcnkxMzM4NDA1Mg==","name":"firedrake","full_name":"firedrakeproject/firedrake","private":false,"owner":{"login":"firedrakeproject","id":5558005,"node_id":"MDEyOk9yZ2FuaXphdGlvbjU1NTgwMDU=","avatar_url":"https://avatars3.githubusercontent.com/u/5558005?v=4","gravatar_id":"","url":"https://api.github.com/users/firedrakeproject","html_url":"https://github.com/firedrakeproject","followers_url":"https://api.github.com/users/firedrakeproject/followers","following_url":"https://api.github.com/users/firedrakeproject/following{/other_user}","gists_url":"https://api.github.com/users/firedrakeproject/gists{/gist_id}","starred_url":"https://api.github.com/users/firedrakeproject/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/firedrakeproject/subscriptions","organizations_url":"https://api.github.com/users/firedrakeproject/orgs","repos_url":"https://api.github.com/users/firedrakeproject/repos","events_url":"https://api.github.com/users/firedrakeproject/events{/privacy}","received_events_url":"https://api.github.com/users/firedrakeproject/received_events","type":"Organization","site_admin":false},"html_url":"https://github.com/firedrakeproject/firedrake","description":"Firedrake 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