Actual source code: garbage.c
1: #include <petsc/private/garbagecollector.h>
3: /* Fetches garbage hashmap from communicator */
4: static PetscErrorCode GarbageGetHMap_Private(MPI_Comm comm, PetscGarbage *garbage)
5: {
6: PetscMPIInt flag;
7: PetscHMapObj garbage_map;
9: PetscFunctionBegin;
10: PetscCallMPI(MPI_Comm_get_attr(comm, Petsc_Garbage_HMap_keyval, garbage, &flag));
11: if (!flag) {
12: /* No garbage,create one */
13: PetscCall(PetscHMapObjCreate(&garbage_map));
14: garbage->map = garbage_map;
15: PetscCallMPI(MPI_Comm_set_attr(comm, Petsc_Garbage_HMap_keyval, garbage->ptr));
16: }
17: PetscFunctionReturn(PETSC_SUCCESS);
18: }
20: /*@C
21: PetscObjectDelayedDestroy - Adds an object to a data structure for
22: later destruction.
24: Not Collective
26: Input Parameter:
27: . obj - object to be destroyed
29: Level: developer
31: Notes:
32: Analogue to `PetscObjectDestroy()` for use in managed languages.
34: A PETSc object is given a creation index at initialisation based on
35: the communicator it was created on and the order in which it is
36: created. When this function is passed a PETSc object, a pointer to
37: the object is stashed on a garbage dictionary (`PetscHMapObj`) which is
38: keyed by its creation index.
40: Objects stashed on this garbage dictionary can later be destroyed
41: with a call to `PetscGarbageCleanup()`.
43: This function is intended for use with managed languages such as
44: Python or Julia, which may not destroy objects in a deterministic
45: order.
47: Serial objects (that have a communicator with size 1) are destroyed
48: eagerly since deadlocks cannot occur.
50: .seealso: `PetscGarbageCleanup()`, `PetscObjectDestroy()`
51: @*/
52: PetscErrorCode PetscObjectDelayedDestroy(PetscObject *obj)
53: {
54: MPI_Comm comm;
55: PetscMPIInt size;
56: PetscInt count;
57: PetscGarbage garbage;
59: PetscFunctionBegin;
60: PetscAssertPointer(obj, 1);
61: /* Don't stash NULL pointers */
62: if (*obj != NULL) {
63: /* Elaborate check for getting non-cyclic reference counts */
64: if (!(*obj)->non_cyclic_references) {
65: count = --(*obj)->refct;
66: } else {
67: PetscCall((*obj)->non_cyclic_references(*obj, &count));
68: --count;
69: --(*obj)->refct;
70: }
71: /* Only stash if the (non-cyclic) reference count hits 0 */
72: if (count == 0) {
73: (*obj)->refct = 1;
74: PetscCall(PetscObjectGetComm(*obj, &comm));
75: PetscCallMPI(MPI_Comm_size(comm, &size));
76: /* Eagerly destroy serial objects */
77: if (size == 1) {
78: PetscCall(PetscObjectDestroy(obj));
79: } else {
80: PetscCall(GarbageGetHMap_Private(comm, &garbage));
81: PetscCall(PetscHMapObjSet(garbage.map, (*obj)->cidx, *obj));
82: }
83: }
84: }
85: *obj = NULL;
86: PetscFunctionReturn(PETSC_SUCCESS);
87: }
89: /* Performs the intersection of 2 sorted arrays seta and setb of lengths
90: lena and lenb respectively,returning the result in seta and lena
91: This is an O(n) operation */
92: static PetscErrorCode GarbageKeySortedIntersect_Private(PetscInt64 seta[], PetscInt *lena, PetscInt64 setb[], PetscInt lenb)
93: {
94: /* The arrays seta and setb MUST be sorted! */
95: PetscInt ii, jj = 0, counter = 0;
97: PetscFunctionBegin;
98: if (PetscDefined(USE_DEBUG)) {
99: PetscBool sorted = PETSC_FALSE;
100: /* In debug mode check whether the array are sorted */
101: PetscCall(PetscSortedInt64(*lena, seta, &sorted));
102: PetscCheck(sorted, PETSC_COMM_SELF, PETSC_ERR_ARG_WRONGSTATE, "Provided array in argument 1 is not sorted");
103: PetscCall(PetscSortedInt64(lenb, setb, &sorted));
104: PetscCheck(sorted, PETSC_COMM_SELF, PETSC_ERR_ARG_WRONGSTATE, "Provided array in argument 3 is not sorted");
105: }
106: for (ii = 0; ii < *lena; ii++) {
107: while (jj < lenb && seta[ii] > setb[jj]) jj++;
108: if (jj >= lenb) break;
109: if (seta[ii] == setb[jj]) {
110: seta[counter] = seta[ii];
111: counter++;
112: }
113: }
115: *lena = counter;
116: PetscFunctionReturn(PETSC_SUCCESS);
117: }
119: /* Wrapper to create MPI reduce operator for set intersection */
120: void PetscGarbageKeySortedIntersect(void *inset, void *inoutset, PetscMPIInt *length, MPI_Datatype *dtype)
121: {
122: PetscInt64 *seta, *setb;
124: seta = (PetscInt64 *)inoutset;
125: setb = (PetscInt64 *)inset;
127: PetscCallAbort(PETSC_COMM_SELF, GarbageKeySortedIntersect_Private(&seta[1], (PetscInt *)&seta[0], &setb[1], (PetscInt)setb[0]));
128: }
130: /* Performs a collective allreduce intersection of one array per rank */
131: PetscErrorCode GarbageKeyAllReduceIntersect_Private(MPI_Comm comm, PetscInt64 *set, PetscInt *entries)
132: {
133: PetscInt ii, max_entries;
134: PetscInt64 *sendset, *recvset;
135: MPI_Datatype keyset_type;
136: PetscMPIInt imax_entries;
138: PetscFunctionBegin;
139: /* Sort keys first for use with `GarbageKeySortedIntersect_Private()`*/
140: PetscCall(PetscSortInt64(*entries, set));
142: /* Get the maximum size of all key sets */
143: PetscCallMPI(MPIU_Allreduce(entries, &max_entries, 1, MPIU_INT, MPI_MAX, comm));
144: PetscCall(PetscMalloc1(max_entries + 1, &sendset));
145: PetscCall(PetscMalloc1(max_entries + 1, &recvset));
146: sendset[0] = (PetscInt64)*entries;
147: for (ii = 1; ii < *entries + 1; ii++) sendset[ii] = set[ii - 1];
149: /* Create a custom data type to hold the set */
150: PetscCall(PetscMPIIntCast(max_entries, &imax_entries));
151: PetscCallMPI(MPI_Type_contiguous(imax_entries + 1, MPIU_INT64, &keyset_type));
152: /* PetscCallMPI(MPI_Type_set_name(keyset_type,"PETSc garbage key set type")); */
153: PetscCallMPI(MPI_Type_commit(&keyset_type));
155: /* Perform custom intersect reduce operation over sets */
156: PetscCallMPI(MPIU_Allreduce(sendset, recvset, 1, keyset_type, Petsc_Garbage_SetIntersectOp, comm));
158: PetscCallMPI(MPI_Type_free(&keyset_type));
160: *entries = (PetscInt)recvset[0];
161: for (ii = 0; ii < *entries; ii++) set[ii] = recvset[ii + 1];
163: PetscCall(PetscFree(sendset));
164: PetscCall(PetscFree(recvset));
165: PetscFunctionReturn(PETSC_SUCCESS);
166: }
168: /*@C
169: PetscGarbageCleanup - Destroys objects placed in the garbage by
170: `PetscObjectDelayedDestroy()`.
172: Collective
174: Input Parameter:
175: . comm - MPI communicator over which to perform collective cleanup
177: Level: developer
179: Notes:
180: Implements a collective garbage collection.
181: A per- MPI communicator garbage dictionary is created to store
182: references to objects destroyed using `PetscObjectDelayedDestroy()`.
183: Objects that appear in this dictionary on all MPI processes can be destroyed
184: by calling `PetscGarbageCleanup()`.
186: This is done as follows\:
187: 1. Keys of the garbage dictionary, which correspond to the creation
188: indices of the objects stashed, are sorted.
189: 2. A collective intersection of dictionary keys is performed by all
190: ranks in the communicator.
191: 3. The intersection is broadcast back to all ranks in the
192: communicator.
193: 4. The objects on the dictionary are collectively destroyed in
194: creation index order using a call to PetscObjectDestroy().
196: This function is intended for use with managed languages such as
197: Python or Julia, which may not destroy objects in a deterministic
198: order.
200: .seealso: `PetscObjectDelayedDestroy()`
201: @*/
202: PetscErrorCode PetscGarbageCleanup(MPI_Comm comm)
203: {
204: PetscInt ii, entries, offset;
205: PetscInt64 *keys;
206: PetscObject obj;
207: PetscGarbage garbage;
209: PetscFunctionBegin;
210: /* Duplicate comm to prevent it being cleaned up by PetscObjectDestroy() */
211: PetscCall(PetscCommDuplicate(comm, &comm, NULL));
213: /* Grab garbage from comm and remove it
214: this avoids calling PetscCommDestroy() and endlessly recursing */
215: PetscCall(GarbageGetHMap_Private(comm, &garbage));
216: PetscCallMPI(MPI_Comm_delete_attr(comm, Petsc_Garbage_HMap_keyval));
218: /* Get keys from garbage hash map */
219: PetscCall(PetscHMapObjGetSize(garbage.map, &entries));
220: PetscCall(PetscMalloc1(entries, &keys));
221: offset = 0;
222: PetscCall(PetscHMapObjGetKeys(garbage.map, &offset, keys));
224: /* Gather and intersect */
225: PetscCall(GarbageKeyAllReduceIntersect_Private(comm, keys, &entries));
227: /* Collectively destroy objects that appear in garbage in
228: creation index order */
229: for (ii = 0; ii < entries; ii++) {
230: PetscCall(PetscHMapObjGet(garbage.map, keys[ii], &obj));
231: PetscCall(PetscObjectDestroy(&obj));
232: PetscCall(PetscFree(obj));
233: PetscCall(PetscHMapObjDel(garbage.map, keys[ii]));
234: }
235: PetscCall(PetscFree(keys));
237: /* Put garbage back */
238: PetscCallMPI(MPI_Comm_set_attr(comm, Petsc_Garbage_HMap_keyval, garbage.ptr));
239: PetscCall(PetscCommDestroy(&comm));
240: PetscFunctionReturn(PETSC_SUCCESS);
241: }
243: /* Utility function for printing the contents of the garbage on a given comm */
244: PetscErrorCode PetscGarbageView(MPI_Comm comm, PetscViewer viewer)
245: {
246: char text[64];
247: PetscInt ii, entries, offset;
248: PetscInt64 *keys;
249: PetscObject obj;
250: PetscGarbage garbage;
251: PetscMPIInt rank;
253: PetscFunctionBegin;
254: PetscCall(PetscPrintf(comm, "PETSc garbage on "));
255: if (comm == PETSC_COMM_WORLD) {
256: PetscCall(PetscPrintf(comm, "PETSC_COMM_WORLD\n"));
257: } else if (comm == PETSC_COMM_SELF) {
258: PetscCall(PetscPrintf(comm, "PETSC_COMM_SELF\n"));
259: } else {
260: PetscCall(PetscPrintf(comm, "UNKNOWN_COMM\n"));
261: }
262: PetscCall(PetscCommDuplicate(comm, &comm, NULL));
263: PetscCall(GarbageGetHMap_Private(comm, &garbage));
265: /* Get keys from garbage hash map and sort */
266: PetscCall(PetscHMapObjGetSize(garbage.map, &entries));
267: PetscCall(PetscMalloc1(entries, &keys));
268: offset = 0;
269: PetscCall(PetscHMapObjGetKeys(garbage.map, &offset, keys));
271: /* Pretty print entries in a table */
272: PetscCallMPI(MPI_Comm_rank(comm, &rank));
273: PetscCall(PetscSynchronizedPrintf(comm, "Rank %i:: ", rank));
274: PetscCall(PetscFormatConvert("Total entries: %" PetscInt_FMT "\n", text));
275: PetscCall(PetscSynchronizedPrintf(comm, text, entries));
276: if (entries) {
277: PetscCall(PetscSynchronizedPrintf(comm, "| Key | Type | Name | Object ID |\n"));
278: PetscCall(PetscSynchronizedPrintf(comm, "|-------|------------------------|----------------------------------|-----------|\n"));
279: }
280: for (ii = 0; ii < entries; ii++) {
281: PetscCall(PetscHMapObjGet(garbage.map, keys[ii], &obj));
282: PetscCall(PetscFormatConvert("| %5" PetscInt64_FMT " | %-22s | %-32s | %6" PetscInt_FMT " |\n", text));
283: PetscCall(PetscSynchronizedPrintf(comm, text, keys[ii], obj->class_name, obj->description, obj->id));
284: }
285: PetscCall(PetscSynchronizedFlush(comm, PETSC_STDOUT));
287: PetscCall(PetscFree(keys));
288: PetscCall(PetscCommDestroy(&comm));
289: PetscFunctionReturn(PETSC_SUCCESS);
290: }