Actual source code: data_ex.c
1: /*
2: Build a few basic tools to help with partitioned domains.
4: 1)
5: On each processor, have a DomainExchangerTopology.
6: This is a doubly-connected edge list which enumerates the
7: communication paths between connected processors. By numbering
8: these paths we can always uniquely assign message identifiers.
10: edge
11: 10
12: proc ---------> proc
13: 0 <-------- 1
14: 11
15: twin
17: Eg: Proc 0 send to proc 1 with message id is 10. To receive the correct
18: message, proc 1 looks for the edge connected to proc 0, and then the
19: message id comes from the twin of that edge
21: 2)
22: A DomainExchangerArrayPacker.
23: A little function which given a piece of data, will memcpy the data into
24: an array (which will be sent to procs) into the correct place.
26: On Proc 1 we sent data to procs 0,2,3. The data is on different lengths.
27: All data gets jammed into single array. Need to "jam" data into correct locations
28: The Packer knows how much is to going to each processor and keeps track of the inserts
29: so as to avoid ever packing TOO much into one slot, and inevatbly corrupting some memory
31: data to 0 data to 2 data to 3
33: |--------|-----------------|--|
35: User has to unpack message themselves. I can get you the pointer for each i
36: entry, but you'll have to cast it to the appropriate data type.
38: Phase A: Build topology
40: Phase B: Define message lengths
42: Phase C: Pack data
44: Phase D: Send data
46: + Constructor
47: DMSwarmDataExCreate()
48: + Phase A
49: DMSwarmDataExTopologyInitialize()
50: DMSwarmDataExTopologyAddNeighbour()
51: DMSwarmDataExTopologyAddNeighbour()
52: DMSwarmDataExTopologyFinalize()
53: + Phase B
54: DMSwarmDataExZeroAllSendCount()
55: DMSwarmDataExAddToSendCount()
56: DMSwarmDataExAddToSendCount()
57: DMSwarmDataExAddToSendCount()
58: + Phase C
59: DMSwarmDataExPackInitialize()
60: DMSwarmDataExPackData()
61: DMSwarmDataExPackData()
62: DMSwarmDataExPackFinalize()
63: +Phase D
64: DMSwarmDataExBegin()
65: ... perform any calculations ...
66: DMSwarmDataExEnd()
68: ... user calls any getters here ...
70: */
71: #include <petscvec.h>
72: #include <petscmat.h>
73: #include <petsc/private/petscimpl.h>
75: #include "../src/dm/impls/swarm/data_ex.h"
77: const char *status_names[] = {"initialized", "finalized", "unknown"};
79: PETSC_EXTERN PetscLogEvent DMSWARM_DataExchangerTopologySetup;
80: PETSC_EXTERN PetscLogEvent DMSWARM_DataExchangerBegin;
81: PETSC_EXTERN PetscLogEvent DMSWARM_DataExchangerEnd;
82: PETSC_EXTERN PetscLogEvent DMSWARM_DataExchangerSendCount;
83: PETSC_EXTERN PetscLogEvent DMSWARM_DataExchangerPack;
85: PetscErrorCode DMSwarmDataExCreate(MPI_Comm comm, const PetscInt count, DMSwarmDataEx *ex)
86: {
87: DMSwarmDataEx d;
89: PetscFunctionBegin;
90: PetscCall(PetscNew(&d));
91: PetscCallMPI(MPI_Comm_dup(comm, &d->comm));
92: PetscCallMPI(MPI_Comm_rank(d->comm, &d->rank));
94: d->instance = count;
96: d->topology_status = DEOBJECT_STATE_UNKNOWN;
97: d->message_lengths_status = DEOBJECT_STATE_UNKNOWN;
98: d->packer_status = DEOBJECT_STATE_UNKNOWN;
99: d->communication_status = DEOBJECT_STATE_UNKNOWN;
101: d->n_neighbour_procs = -1;
102: d->neighbour_procs = NULL;
104: d->messages_to_be_sent = NULL;
105: d->message_offsets = NULL;
106: d->messages_to_be_recvieved = NULL;
108: d->unit_message_size = (size_t)-1;
109: d->send_message = NULL;
110: d->send_message_length = -1;
111: d->recv_message = NULL;
112: d->recv_message_length = -1;
113: d->total_pack_cnt = -1;
114: d->pack_cnt = NULL;
116: d->send_tags = NULL;
117: d->recv_tags = NULL;
119: d->_stats = NULL;
120: d->_requests = NULL;
121: *ex = d;
122: PetscFunctionReturn(PETSC_SUCCESS);
123: }
125: /*
126: This code is horrible, who let it get into main.
128: Should be printing to a viewer, should not be using PETSC_COMM_WORLD
130: */
131: PetscErrorCode DMSwarmDataExView(DMSwarmDataEx d)
132: {
133: PetscMPIInt p;
135: PetscFunctionBegin;
136: PetscCall(PetscPrintf(PETSC_COMM_WORLD, "DMSwarmDataEx: instance=%" PetscInt_FMT "\n", d->instance));
137: PetscCall(PetscPrintf(PETSC_COMM_WORLD, " topology status: %s \n", status_names[d->topology_status]));
138: PetscCall(PetscPrintf(PETSC_COMM_WORLD, " message lengths status: %s \n", status_names[d->message_lengths_status]));
139: PetscCall(PetscPrintf(PETSC_COMM_WORLD, " packer status status: %s \n", status_names[d->packer_status]));
140: PetscCall(PetscPrintf(PETSC_COMM_WORLD, " communication status: %s \n", status_names[d->communication_status]));
142: if (d->topology_status == DEOBJECT_FINALIZED) {
143: PetscCall(PetscPrintf(PETSC_COMM_WORLD, " Topology:\n"));
144: PetscCall(PetscSynchronizedPrintf(PETSC_COMM_WORLD, " [%d] neighbours: %d \n", d->rank, d->n_neighbour_procs));
145: for (p = 0; p < d->n_neighbour_procs; p++) PetscCall(PetscSynchronizedPrintf(PETSC_COMM_WORLD, " [%d] neighbour[%d] = %d \n", d->rank, p, d->neighbour_procs[p]));
146: PetscCall(PetscSynchronizedFlush(PETSC_COMM_WORLD, stdout));
147: }
149: if (d->message_lengths_status == DEOBJECT_FINALIZED) {
150: PetscCall(PetscPrintf(PETSC_COMM_WORLD, " Message lengths:\n"));
151: PetscCall(PetscSynchronizedPrintf(PETSC_COMM_WORLD, " [%d] atomic size: %ld \n", d->rank, (long int)d->unit_message_size));
152: for (p = 0; p < d->n_neighbour_procs; p++) {
153: PetscCall(PetscSynchronizedPrintf(PETSC_COMM_WORLD, " [%d] >>>>> ( %" PetscInt_FMT " units :: tag = %d) >>>>> [%d] \n", d->rank, d->messages_to_be_sent[p], d->send_tags[p], d->neighbour_procs[p]));
154: }
155: for (p = 0; p < d->n_neighbour_procs; p++) {
156: PetscCall(PetscSynchronizedPrintf(PETSC_COMM_WORLD, " [%d] <<<<< ( %" PetscInt_FMT " units :: tag = %d) <<<<< [%d] \n", d->rank, d->messages_to_be_recvieved[p], d->recv_tags[p], d->neighbour_procs[p]));
157: }
158: PetscCall(PetscSynchronizedFlush(PETSC_COMM_WORLD, stdout));
159: }
160: if (d->packer_status == DEOBJECT_FINALIZED) { }
161: if (d->communication_status == DEOBJECT_FINALIZED) { }
162: PetscFunctionReturn(PETSC_SUCCESS);
163: }
165: PetscErrorCode DMSwarmDataExDestroy(DMSwarmDataEx d)
166: {
167: PetscFunctionBegin;
168: PetscCallMPI(MPI_Comm_free(&d->comm));
169: if (d->neighbour_procs) PetscCall(PetscFree(d->neighbour_procs));
170: if (d->messages_to_be_sent) PetscCall(PetscFree(d->messages_to_be_sent));
171: if (d->message_offsets) PetscCall(PetscFree(d->message_offsets));
172: if (d->messages_to_be_recvieved) PetscCall(PetscFree(d->messages_to_be_recvieved));
173: if (d->send_message) PetscCall(PetscFree(d->send_message));
174: if (d->recv_message) PetscCall(PetscFree(d->recv_message));
175: if (d->pack_cnt) PetscCall(PetscFree(d->pack_cnt));
176: if (d->send_tags) PetscCall(PetscFree(d->send_tags));
177: if (d->recv_tags) PetscCall(PetscFree(d->recv_tags));
178: if (d->_stats) PetscCall(PetscFree(d->_stats));
179: if (d->_requests) PetscCall(PetscFree(d->_requests));
180: PetscCall(PetscFree(d));
181: PetscFunctionReturn(PETSC_SUCCESS);
182: }
184: /* === Phase A === */
186: PetscErrorCode DMSwarmDataExTopologyInitialize(DMSwarmDataEx d)
187: {
188: PetscFunctionBegin;
189: d->topology_status = DEOBJECT_INITIALIZED;
190: d->n_neighbour_procs = 0;
191: PetscCall(PetscFree(d->neighbour_procs));
192: PetscCall(PetscFree(d->messages_to_be_sent));
193: PetscCall(PetscFree(d->message_offsets));
194: PetscCall(PetscFree(d->messages_to_be_recvieved));
195: PetscCall(PetscFree(d->pack_cnt));
196: PetscCall(PetscFree(d->send_tags));
197: PetscCall(PetscFree(d->recv_tags));
198: PetscFunctionReturn(PETSC_SUCCESS);
199: }
201: PetscErrorCode DMSwarmDataExTopologyAddNeighbour(DMSwarmDataEx d, const PetscMPIInt proc_id)
202: {
203: PetscMPIInt n, found;
204: PetscMPIInt size;
206: PetscFunctionBegin;
207: PetscCheck(d->topology_status != DEOBJECT_FINALIZED, d->comm, PETSC_ERR_ARG_WRONGSTATE, "Topology has been finalized. To modify or update call DMSwarmDataExTopologyInitialize() first");
208: PetscCheck(d->topology_status == DEOBJECT_INITIALIZED, d->comm, PETSC_ERR_ARG_WRONGSTATE, "Topology must be initialised. Call DMSwarmDataExTopologyInitialize() first");
210: /* error on negative entries */
211: PetscCheck(proc_id >= 0, PETSC_COMM_SELF, PETSC_ERR_ARG_WRONGSTATE, "Trying to set proc neighbour with a rank < 0");
212: /* error on ranks larger than number of procs in communicator */
213: PetscCallMPI(MPI_Comm_size(d->comm, &size));
214: PetscCheck(proc_id < size, PETSC_COMM_SELF, PETSC_ERR_ARG_WRONGSTATE, "Trying to set proc neighbour %d with a rank >= size %d", proc_id, size);
215: if (d->n_neighbour_procs == 0) PetscCall(PetscMalloc1(1, &d->neighbour_procs));
216: /* check for proc_id */
217: found = 0;
218: for (n = 0; n < d->n_neighbour_procs; n++) {
219: if (d->neighbour_procs[n] == proc_id) found = 1;
220: }
221: if (found == 0) { /* add it to list */
222: PetscCall(PetscRealloc(sizeof(PetscMPIInt) * (d->n_neighbour_procs + 1), &d->neighbour_procs));
223: d->neighbour_procs[d->n_neighbour_procs] = proc_id;
224: d->n_neighbour_procs++;
225: }
226: PetscFunctionReturn(PETSC_SUCCESS);
227: }
229: /*
230: counter: the index of the communication object
231: N: the number of processors
232: r0: rank of sender
233: r1: rank of receiver
235: procs = { 0, 1, 2, 3 }
237: 0 ==> 0 e=0
238: 0 ==> 1 e=1
239: 0 ==> 2 e=2
240: 0 ==> 3 e=3
242: 1 ==> 0 e=4
243: 1 ==> 1 e=5
244: 1 ==> 2 e=6
245: 1 ==> 3 e=7
247: 2 ==> 0 e=8
248: 2 ==> 1 e=9
249: 2 ==> 2 e=10
250: 2 ==> 3 e=11
252: 3 ==> 0 e=12
253: 3 ==> 1 e=13
254: 3 ==> 2 e=14
255: 3 ==> 3 e=15
257: If we require that proc A sends to proc B, then the SEND tag index will be given by
258: N * rank(A) + rank(B) + offset
259: If we require that proc A will receive from proc B, then the RECV tag index will be given by
260: N * rank(B) + rank(A) + offset
262: */
263: static void _get_tags(PetscInt counter, PetscMPIInt N, PetscMPIInt r0, PetscMPIInt r1, PetscMPIInt maxtag, PetscMPIInt *_st, PetscMPIInt *_rt)
264: {
265: PetscMPIInt st, rt;
267: st = (N * r0 + r1 + N * N * counter) % maxtag;
268: rt = (N * r1 + r0 + N * N * counter) % maxtag;
269: *_st = st;
270: *_rt = rt;
271: }
273: /*
274: Makes the communication map symmetric
275: */
276: static PetscErrorCode DMSwarmDataExCompleteCommunicationMap_Private(MPI_Comm comm, PetscMPIInt n, const PetscMPIInt proc_neighbours[], PetscMPIInt *n_new, PetscMPIInt **proc_neighbours_new)
277: {
278: Mat A;
279: PetscInt i, j, nc;
280: PetscInt n_, *proc_neighbours_;
281: PetscInt rank_;
282: PetscMPIInt size, rank;
283: PetscScalar *vals;
284: const PetscInt *cols;
285: const PetscScalar *red_vals;
286: PetscMPIInt _n_new, *_proc_neighbours_new;
288: PetscFunctionBegin;
289: n_ = n;
290: PetscCall(PetscMalloc1(n_, &proc_neighbours_));
291: for (i = 0; i < n_; ++i) proc_neighbours_[i] = proc_neighbours[i];
292: PetscCallMPI(MPI_Comm_size(comm, &size));
293: PetscCallMPI(MPI_Comm_rank(comm, &rank));
294: rank_ = rank;
296: PetscCall(MatCreate(comm, &A));
297: PetscCall(MatSetSizes(A, PETSC_DECIDE, PETSC_DECIDE, size, size));
298: PetscCall(MatSetType(A, MATAIJ));
299: PetscCall(MatSeqAIJSetPreallocation(A, 1, NULL));
300: PetscCall(MatMPIAIJSetPreallocation(A, n_, NULL, n_, NULL));
301: PetscCall(MatSetOption(A, MAT_NEW_NONZERO_ALLOCATION_ERR, PETSC_FALSE));
302: /* Build original map */
303: PetscCall(PetscMalloc1(n_, &vals));
304: for (i = 0; i < n_; ++i) vals[i] = 1.0;
305: PetscCall(MatSetValues(A, 1, &rank_, n_, proc_neighbours_, vals, INSERT_VALUES));
306: PetscCall(MatAssemblyBegin(A, MAT_FLUSH_ASSEMBLY));
307: PetscCall(MatAssemblyEnd(A, MAT_FLUSH_ASSEMBLY));
308: /* Now force all other connections if they are not already there */
309: /* It's more efficient to do them all at once */
310: for (i = 0; i < n_; ++i) vals[i] = 2.0;
311: PetscCall(MatSetValues(A, n_, proc_neighbours_, 1, &rank_, vals, INSERT_VALUES));
312: PetscCall(MatAssemblyBegin(A, MAT_FINAL_ASSEMBLY));
313: PetscCall(MatAssemblyEnd(A, MAT_FINAL_ASSEMBLY));
314: /*
315: PetscCall(PetscViewerPushFormat(PETSC_VIEWER_STDOUT_WORLD,PETSC_VIEWER_ASCII_INFO));
316: PetscCall(MatView(A,PETSC_VIEWER_STDOUT_WORLD));
317: PetscCall(PetscViewerPopFormat(PETSC_VIEWER_STDOUT_WORLD));
318: */
319: if ((n_new != NULL) && (proc_neighbours_new != NULL)) {
320: PetscCall(MatGetRow(A, rank_, &nc, &cols, &red_vals));
321: _n_new = (PetscMPIInt)nc;
322: PetscCall(PetscMalloc1(_n_new, &_proc_neighbours_new));
323: for (j = 0; j < nc; ++j) _proc_neighbours_new[j] = (PetscMPIInt)cols[j];
324: PetscCall(MatRestoreRow(A, rank_, &nc, &cols, &red_vals));
325: *n_new = (PetscMPIInt)_n_new;
326: *proc_neighbours_new = (PetscMPIInt *)_proc_neighbours_new;
327: }
328: PetscCall(MatDestroy(&A));
329: PetscCall(PetscFree(vals));
330: PetscCall(PetscFree(proc_neighbours_));
331: PetscCallMPI(MPI_Barrier(comm));
332: PetscFunctionReturn(PETSC_SUCCESS);
333: }
335: PetscErrorCode DMSwarmDataExTopologyFinalize(DMSwarmDataEx d)
336: {
337: PetscMPIInt symm_nn = 0, *symm_procs = NULL, r0, n, st, rt, size, *maxtag, flg;
339: PetscFunctionBegin;
340: PetscCheck(d->topology_status == DEOBJECT_INITIALIZED, d->comm, PETSC_ERR_ARG_WRONGSTATE, "Topology must be initialised. Call DMSwarmDataExTopologyInitialize() first");
342: PetscCall(PetscLogEventBegin(DMSWARM_DataExchangerTopologySetup, 0, 0, 0, 0));
343: /* given information about all my neighbours, make map symmetric */
344: PetscCall(DMSwarmDataExCompleteCommunicationMap_Private(d->comm, d->n_neighbour_procs, d->neighbour_procs, &symm_nn, &symm_procs));
345: /* update my arrays */
346: PetscCall(PetscFree(d->neighbour_procs));
347: d->n_neighbour_procs = symm_nn;
348: d->neighbour_procs = symm_procs;
349: /* allocates memory */
350: if (!d->messages_to_be_sent) PetscCall(PetscMalloc1(d->n_neighbour_procs + 1, &d->messages_to_be_sent));
351: if (!d->message_offsets) PetscCall(PetscMalloc1(d->n_neighbour_procs + 1, &d->message_offsets));
352: if (!d->messages_to_be_recvieved) PetscCall(PetscMalloc1(d->n_neighbour_procs + 1, &d->messages_to_be_recvieved));
353: if (!d->pack_cnt) PetscCall(PetscMalloc(sizeof(PetscInt) * d->n_neighbour_procs, &d->pack_cnt));
354: if (!d->_stats) PetscCall(PetscMalloc(sizeof(MPI_Status) * 2 * d->n_neighbour_procs, &d->_stats));
355: if (!d->_requests) PetscCall(PetscMalloc(sizeof(MPI_Request) * 2 * d->n_neighbour_procs, &d->_requests));
356: if (!d->send_tags) PetscCall(PetscMalloc(sizeof(int) * d->n_neighbour_procs, &d->send_tags));
357: if (!d->recv_tags) PetscCall(PetscMalloc(sizeof(int) * d->n_neighbour_procs, &d->recv_tags));
358: /* compute message tags */
359: PetscCallMPI(MPI_Comm_size(d->comm, &size));
360: PetscCallMPI(MPI_Comm_get_attr(MPI_COMM_WORLD, MPI_TAG_UB, &maxtag, &flg));
361: PetscCheck(flg, d->comm, PETSC_ERR_LIB, "MPI error: MPI_Comm_get_attr() is not returning a MPI_TAG_UB");
362: r0 = d->rank;
363: for (n = 0; n < d->n_neighbour_procs; ++n) {
364: PetscMPIInt r1 = d->neighbour_procs[n];
366: _get_tags(d->instance, size, r0, r1, *maxtag, &st, &rt);
367: d->send_tags[n] = (int)st;
368: d->recv_tags[n] = (int)rt;
369: }
370: d->topology_status = DEOBJECT_FINALIZED;
371: PetscCall(PetscLogEventEnd(DMSWARM_DataExchangerTopologySetup, 0, 0, 0, 0));
372: PetscFunctionReturn(PETSC_SUCCESS);
373: }
375: /* === Phase B === */
376: static PetscErrorCode _DMSwarmDataExConvertProcIdToLocalIndex(DMSwarmDataEx de, PetscMPIInt proc_id, PetscMPIInt *local)
377: {
378: PetscMPIInt i, np;
380: PetscFunctionBegin;
381: np = de->n_neighbour_procs;
382: *local = -1;
383: for (i = 0; i < np; ++i) {
384: if (proc_id == de->neighbour_procs[i]) {
385: *local = i;
386: break;
387: }
388: }
389: PetscFunctionReturn(PETSC_SUCCESS);
390: }
392: PetscErrorCode DMSwarmDataExInitializeSendCount(DMSwarmDataEx de)
393: {
394: PetscMPIInt i;
396: PetscFunctionBegin;
397: PetscCheck(de->topology_status == DEOBJECT_FINALIZED, de->comm, PETSC_ERR_ORDER, "Topology not finalized");
398: PetscCall(PetscLogEventBegin(DMSWARM_DataExchangerSendCount, 0, 0, 0, 0));
399: de->message_lengths_status = DEOBJECT_INITIALIZED;
400: for (i = 0; i < de->n_neighbour_procs; ++i) de->messages_to_be_sent[i] = 0;
401: PetscFunctionReturn(PETSC_SUCCESS);
402: }
404: /*
405: 1) only allows counters to be set on neighbouring cpus
406: */
407: PetscErrorCode DMSwarmDataExAddToSendCount(DMSwarmDataEx de, const PetscMPIInt proc_id, const PetscInt count)
408: {
409: PetscMPIInt local_val;
411: PetscFunctionBegin;
412: PetscCheck(de->message_lengths_status != DEOBJECT_FINALIZED, de->comm, PETSC_ERR_ORDER, "Message lengths have been defined. To modify these call DMSwarmDataExInitializeSendCount() first");
413: PetscCheck(de->message_lengths_status == DEOBJECT_INITIALIZED, de->comm, PETSC_ERR_ORDER, "Message lengths must be defined. Call DMSwarmDataExInitializeSendCount() first");
415: PetscCall(_DMSwarmDataExConvertProcIdToLocalIndex(de, proc_id, &local_val));
416: PetscCheck(local_val != -1, PETSC_COMM_SELF, PETSC_ERR_ARG_WRONG, "Proc %d is not a valid neighbour rank", (int)proc_id);
418: de->messages_to_be_sent[local_val] = de->messages_to_be_sent[local_val] + count;
419: PetscFunctionReturn(PETSC_SUCCESS);
420: }
422: PetscErrorCode DMSwarmDataExFinalizeSendCount(DMSwarmDataEx de)
423: {
424: PetscFunctionBegin;
425: PetscCheck(de->message_lengths_status == DEOBJECT_INITIALIZED, de->comm, PETSC_ERR_ORDER, "Message lengths must be defined. Call DMSwarmDataExInitializeSendCount() first");
427: de->message_lengths_status = DEOBJECT_FINALIZED;
428: PetscCall(PetscLogEventEnd(DMSWARM_DataExchangerSendCount, 0, 0, 0, 0));
429: PetscFunctionReturn(PETSC_SUCCESS);
430: }
432: /* === Phase C === */
433: /*
434: zero out all send counts
435: free send and recv buffers
436: zeros out message length
437: zeros out all counters
438: zero out packed data counters
439: */
440: static PetscErrorCode _DMSwarmDataExInitializeTmpStorage(DMSwarmDataEx de)
441: {
442: PetscMPIInt i, np;
444: PetscFunctionBegin;
445: np = de->n_neighbour_procs;
446: for (i = 0; i < np; ++i) {
447: /* de->messages_to_be_sent[i] = -1; */
448: de->messages_to_be_recvieved[i] = -1;
449: }
450: PetscCall(PetscFree(de->send_message));
451: PetscCall(PetscFree(de->recv_message));
452: PetscFunctionReturn(PETSC_SUCCESS);
453: }
455: /*
456: Zeros out pack data counters
457: Ensures mesaage length is set
458: Checks send counts properly initialized
459: allocates space for pack data
460: */
461: PetscErrorCode DMSwarmDataExPackInitialize(DMSwarmDataEx de, size_t unit_message_size)
462: {
463: PetscMPIInt i, np;
464: PetscInt total;
466: PetscFunctionBegin;
467: PetscCheck(de->topology_status == DEOBJECT_FINALIZED, de->comm, PETSC_ERR_ORDER, "Topology not finalized");
468: PetscCheck(de->message_lengths_status == DEOBJECT_FINALIZED, de->comm, PETSC_ERR_ORDER, "Message lengths not finalized");
469: PetscCall(PetscLogEventBegin(DMSWARM_DataExchangerPack, 0, 0, 0, 0));
470: de->packer_status = DEOBJECT_INITIALIZED;
471: PetscCall(_DMSwarmDataExInitializeTmpStorage(de));
472: np = de->n_neighbour_procs;
473: de->unit_message_size = unit_message_size;
474: total = 0;
475: for (i = 0; i < np; ++i) {
476: if (de->messages_to_be_sent[i] == -1) {
477: PetscMPIInt proc_neighour = de->neighbour_procs[i];
478: SETERRQ(PETSC_COMM_SELF, PETSC_ERR_ORDER, "Messages_to_be_sent[neighbour_proc=%d] is un-initialised. Call DMSwarmDataExSetSendCount() first", (int)proc_neighour);
479: }
480: total = total + de->messages_to_be_sent[i];
481: }
482: /* create space for the data to be sent */
483: PetscCall(PetscMalloc(unit_message_size * (total + 1), &de->send_message));
484: /* initialize memory */
485: PetscCall(PetscMemzero(de->send_message, unit_message_size * (total + 1)));
486: /* set total items to send */
487: de->send_message_length = total;
488: de->message_offsets[0] = 0;
489: total = de->messages_to_be_sent[0];
490: for (i = 1; i < np; ++i) {
491: de->message_offsets[i] = total;
492: total = total + de->messages_to_be_sent[i];
493: }
494: /* init the packer counters */
495: de->total_pack_cnt = 0;
496: for (i = 0; i < np; ++i) de->pack_cnt[i] = 0;
497: PetscFunctionReturn(PETSC_SUCCESS);
498: }
500: /*
501: Ensures data gets been packed appropriately and no overlaps occur
502: */
503: PetscErrorCode DMSwarmDataExPackData(DMSwarmDataEx de, PetscMPIInt proc_id, PetscInt n, void *data)
504: {
505: PetscMPIInt local;
506: PetscInt insert_location;
507: void *dest;
509: PetscFunctionBegin;
510: PetscCheck(de->packer_status != DEOBJECT_FINALIZED, de->comm, PETSC_ERR_ORDER, "Packed data have been defined. To modify these call DMSwarmDataExInitializeSendCount(), DMSwarmDataExAddToSendCount(), DMSwarmDataExPackInitialize() first");
511: PetscCheck(de->packer_status == DEOBJECT_INITIALIZED, de->comm, PETSC_ERR_ORDER, "Packed data must be defined. Call DMSwarmDataExInitializeSendCount(), DMSwarmDataExAddToSendCount(), DMSwarmDataExPackInitialize() first");
513: PetscCheck(de->send_message, de->comm, PETSC_ERR_ORDER, "send_message is not initialized. Call DMSwarmDataExPackInitialize() first");
514: PetscCall(_DMSwarmDataExConvertProcIdToLocalIndex(de, proc_id, &local));
515: PetscCheck(local != -1, PETSC_COMM_SELF, PETSC_ERR_ARG_WRONG, "proc_id %d is not registered neighbour", (int)proc_id);
516: PetscCheck(n + de->pack_cnt[local] <= de->messages_to_be_sent[local], PETSC_COMM_SELF, PETSC_ERR_ARG_WRONG, "Trying to pack too many entries to be sent to proc %d. Space requested = %" PetscInt_FMT ": Attempt to insert %" PetscInt_FMT, (int)proc_id, de->messages_to_be_sent[local], n + de->pack_cnt[local]);
518: /* copy memory */
519: insert_location = de->message_offsets[local] + de->pack_cnt[local];
520: dest = ((char *)de->send_message) + de->unit_message_size * insert_location;
521: PetscCall(PetscMemcpy(dest, data, de->unit_message_size * n));
522: /* increment counter */
523: de->pack_cnt[local] = de->pack_cnt[local] + n;
524: PetscFunctionReturn(PETSC_SUCCESS);
525: }
527: /*
528: *) Ensures all data has been packed
529: */
530: PetscErrorCode DMSwarmDataExPackFinalize(DMSwarmDataEx de)
531: {
532: PetscMPIInt i, np;
533: PetscInt total;
535: PetscFunctionBegin;
536: PetscCheck(de->packer_status == DEOBJECT_INITIALIZED, de->comm, PETSC_ERR_ORDER, "Packer has not been initialized. Must call DMSwarmDataExPackInitialize() first.");
537: np = de->n_neighbour_procs;
538: for (i = 0; i < np; ++i) {
539: PetscCheck(de->pack_cnt[i] == de->messages_to_be_sent[i], PETSC_COMM_SELF, PETSC_ERR_ARG_WRONGSTATE, "Not all messages for neighbour[%d] have been packed. Expected %" PetscInt_FMT " : Inserted %" PetscInt_FMT, (int)de->neighbour_procs[i], de->messages_to_be_sent[i], de->pack_cnt[i]);
540: }
541: /* init */
542: for (i = 0; i < np; ++i) de->messages_to_be_recvieved[i] = -1;
543: /* figure out the recv counts here */
544: for (i = 0; i < np; ++i) PetscCallMPI(MPIU_Isend(&de->messages_to_be_sent[i], 1, MPIU_INT, de->neighbour_procs[i], de->send_tags[i], de->comm, &de->_requests[i]));
545: for (i = 0; i < np; ++i) PetscCallMPI(MPIU_Irecv(&de->messages_to_be_recvieved[i], 1, MPIU_INT, de->neighbour_procs[i], de->recv_tags[i], de->comm, &de->_requests[np + i]));
546: PetscCallMPI(MPI_Waitall(2 * np, de->_requests, de->_stats));
547: /* create space for the data to be recvieved */
548: total = 0;
549: for (i = 0; i < np; ++i) total = total + de->messages_to_be_recvieved[i];
550: PetscCall(PetscMalloc(de->unit_message_size * (total + 1), &de->recv_message));
551: /* initialize memory */
552: PetscCall(PetscMemzero(de->recv_message, de->unit_message_size * (total + 1)));
553: /* set total items to receive */
554: de->recv_message_length = total;
555: de->packer_status = DEOBJECT_FINALIZED;
556: de->communication_status = DEOBJECT_INITIALIZED;
557: PetscCall(PetscLogEventEnd(DMSWARM_DataExchangerPack, 0, 0, 0, 0));
558: PetscFunctionReturn(PETSC_SUCCESS);
559: }
561: /* do the actual message passing */
562: PetscErrorCode DMSwarmDataExBegin(DMSwarmDataEx de)
563: {
564: PetscMPIInt i, np, length;
565: void *dest;
567: PetscFunctionBegin;
568: PetscCheck(de->topology_status == DEOBJECT_FINALIZED, de->comm, PETSC_ERR_ORDER, "Topology not finalized");
569: PetscCheck(de->message_lengths_status == DEOBJECT_FINALIZED, de->comm, PETSC_ERR_ORDER, "Message lengths not finalized");
570: PetscCheck(de->packer_status == DEOBJECT_FINALIZED, de->comm, PETSC_ERR_ORDER, "Packer not finalized");
571: PetscCheck(de->communication_status != DEOBJECT_FINALIZED, de->comm, PETSC_ERR_ORDER, "Communication has already been finalized. Must call DMSwarmDataExInitialize() first.");
572: PetscCheck(de->recv_message, de->comm, PETSC_ERR_ORDER, "recv_message has not been initialized. Must call DMSwarmDataExPackFinalize() first");
573: PetscCall(PetscLogEventBegin(DMSWARM_DataExchangerBegin, 0, 0, 0, 0));
574: np = de->n_neighbour_procs;
575: /* == NON BLOCKING == */
576: for (i = 0; i < np; ++i) {
577: PetscCall(PetscMPIIntCast(de->messages_to_be_sent[i] * de->unit_message_size, &length));
578: dest = ((char *)de->send_message) + de->unit_message_size * de->message_offsets[i];
579: PetscCallMPI(MPIU_Isend(dest, length, MPI_CHAR, de->neighbour_procs[i], de->send_tags[i], de->comm, &de->_requests[i]));
580: }
581: PetscCall(PetscLogEventEnd(DMSWARM_DataExchangerBegin, 0, 0, 0, 0));
582: PetscFunctionReturn(PETSC_SUCCESS);
583: }
585: /* do the actual message passing now */
586: PetscErrorCode DMSwarmDataExEnd(DMSwarmDataEx de)
587: {
588: PetscMPIInt i, np, length;
589: PetscInt total;
590: PetscInt *message_recv_offsets;
591: void *dest;
593: PetscFunctionBegin;
594: PetscCheck(de->communication_status == DEOBJECT_INITIALIZED, de->comm, PETSC_ERR_ORDER, "Communication has not been initialized. Must call DMSwarmDataExInitialize() first.");
595: PetscCheck(de->recv_message, de->comm, PETSC_ERR_ORDER, "recv_message has not been initialized. Must call DMSwarmDataExPackFinalize() first");
596: PetscCall(PetscLogEventBegin(DMSWARM_DataExchangerEnd, 0, 0, 0, 0));
597: np = de->n_neighbour_procs;
598: PetscCall(PetscMalloc1(np + 1, &message_recv_offsets));
599: message_recv_offsets[0] = 0;
600: total = de->messages_to_be_recvieved[0];
601: for (i = 1; i < np; ++i) {
602: message_recv_offsets[i] = total;
603: total = total + de->messages_to_be_recvieved[i];
604: }
605: /* == NON BLOCKING == */
606: for (i = 0; i < np; ++i) {
607: PetscCall(PetscMPIIntCast(de->messages_to_be_recvieved[i] * de->unit_message_size, &length));
608: dest = ((char *)de->recv_message) + de->unit_message_size * message_recv_offsets[i];
609: PetscCallMPI(MPIU_Irecv(dest, length, MPI_CHAR, de->neighbour_procs[i], de->recv_tags[i], de->comm, &de->_requests[np + i]));
610: }
611: PetscCallMPI(MPI_Waitall(2 * np, de->_requests, de->_stats));
612: PetscCall(PetscFree(message_recv_offsets));
613: de->communication_status = DEOBJECT_FINALIZED;
614: PetscCall(PetscLogEventEnd(DMSWARM_DataExchangerEnd, 0, 0, 0, 0));
615: PetscFunctionReturn(PETSC_SUCCESS);
616: }
618: PetscErrorCode DMSwarmDataExGetSendData(DMSwarmDataEx de, PetscInt *length, void **send)
619: {
620: PetscFunctionBegin;
621: PetscCheck(de->packer_status == DEOBJECT_FINALIZED, de->comm, PETSC_ERR_ARG_WRONGSTATE, "Data has not finished being packed.");
622: *length = de->send_message_length;
623: *send = de->send_message;
624: PetscFunctionReturn(PETSC_SUCCESS);
625: }
627: PetscErrorCode DMSwarmDataExGetRecvData(DMSwarmDataEx de, PetscInt *length, void **recv)
628: {
629: PetscFunctionBegin;
630: PetscCheck(de->communication_status == DEOBJECT_FINALIZED, de->comm, PETSC_ERR_ARG_WRONGSTATE, "Data has not finished being sent.");
631: *length = de->recv_message_length;
632: *recv = de->recv_message;
633: PetscFunctionReturn(PETSC_SUCCESS);
634: }
636: PetscErrorCode DMSwarmDataExTopologyGetNeighbours(DMSwarmDataEx de, PetscMPIInt *n, PetscMPIInt *neigh[])
637: {
638: PetscFunctionBegin;
639: if (n) *n = de->n_neighbour_procs;
640: if (neigh) *neigh = de->neighbour_procs;
641: PetscFunctionReturn(PETSC_SUCCESS);
642: }