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++) 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]));
153: for (p = 0; p < d->n_neighbour_procs; p++) {
154: 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]));
155: }
156: PetscCall(PetscSynchronizedFlush(PETSC_COMM_WORLD, stdout));
157: }
158: if (d->packer_status == DEOBJECT_FINALIZED) { }
159: if (d->communication_status == DEOBJECT_FINALIZED) { }
160: PetscFunctionReturn(PETSC_SUCCESS);
161: }
163: PetscErrorCode DMSwarmDataExDestroy(DMSwarmDataEx d)
164: {
165: PetscFunctionBegin;
166: PetscCallMPI(MPI_Comm_free(&d->comm));
167: if (d->neighbour_procs) PetscCall(PetscFree(d->neighbour_procs));
168: if (d->messages_to_be_sent) PetscCall(PetscFree(d->messages_to_be_sent));
169: if (d->message_offsets) PetscCall(PetscFree(d->message_offsets));
170: if (d->messages_to_be_recvieved) PetscCall(PetscFree(d->messages_to_be_recvieved));
171: if (d->send_message) PetscCall(PetscFree(d->send_message));
172: if (d->recv_message) PetscCall(PetscFree(d->recv_message));
173: if (d->pack_cnt) PetscCall(PetscFree(d->pack_cnt));
174: if (d->send_tags) PetscCall(PetscFree(d->send_tags));
175: if (d->recv_tags) PetscCall(PetscFree(d->recv_tags));
176: if (d->_stats) PetscCall(PetscFree(d->_stats));
177: if (d->_requests) PetscCall(PetscFree(d->_requests));
178: PetscCall(PetscFree(d));
179: PetscFunctionReturn(PETSC_SUCCESS);
180: }
182: /* === Phase A === */
184: PetscErrorCode DMSwarmDataExTopologyInitialize(DMSwarmDataEx d)
185: {
186: PetscFunctionBegin;
187: d->topology_status = DEOBJECT_INITIALIZED;
188: d->n_neighbour_procs = 0;
189: PetscCall(PetscFree(d->neighbour_procs));
190: PetscCall(PetscFree(d->messages_to_be_sent));
191: PetscCall(PetscFree(d->message_offsets));
192: PetscCall(PetscFree(d->messages_to_be_recvieved));
193: PetscCall(PetscFree(d->pack_cnt));
194: PetscCall(PetscFree(d->send_tags));
195: PetscCall(PetscFree(d->recv_tags));
196: PetscFunctionReturn(PETSC_SUCCESS);
197: }
199: PetscErrorCode DMSwarmDataExTopologyAddNeighbour(DMSwarmDataEx d, const PetscMPIInt proc_id)
200: {
201: PetscMPIInt n, found;
202: PetscMPIInt size;
204: PetscFunctionBegin;
205: PetscCheck(d->topology_status != DEOBJECT_FINALIZED, d->comm, PETSC_ERR_ARG_WRONGSTATE, "Topology has been finalized. To modify or update call DMSwarmDataExTopologyInitialize() first");
206: PetscCheck(d->topology_status == DEOBJECT_INITIALIZED, d->comm, PETSC_ERR_ARG_WRONGSTATE, "Topology must be initialised. Call DMSwarmDataExTopologyInitialize() first");
208: /* error on negative entries */
209: PetscCheck(proc_id >= 0, PETSC_COMM_SELF, PETSC_ERR_ARG_WRONGSTATE, "Trying to set proc neighbour with a rank < 0");
210: /* error on ranks larger than number of procs in communicator */
211: PetscCallMPI(MPI_Comm_size(d->comm, &size));
212: 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);
213: if (d->n_neighbour_procs == 0) PetscCall(PetscMalloc1(1, &d->neighbour_procs));
214: /* check for proc_id */
215: found = 0;
216: for (n = 0; n < d->n_neighbour_procs; n++) {
217: if (d->neighbour_procs[n] == proc_id) found = 1;
218: }
219: if (found == 0) { /* add it to list */
220: PetscCall(PetscRealloc(sizeof(PetscMPIInt) * (d->n_neighbour_procs + 1), &d->neighbour_procs));
221: d->neighbour_procs[d->n_neighbour_procs] = proc_id;
222: d->n_neighbour_procs++;
223: }
224: PetscFunctionReturn(PETSC_SUCCESS);
225: }
227: /*
228: counter: the index of the communication object
229: N: the number of processors
230: r0: rank of sender
231: r1: rank of receiver
233: procs = { 0, 1, 2, 3 }
235: 0 ==> 0 e=0
236: 0 ==> 1 e=1
237: 0 ==> 2 e=2
238: 0 ==> 3 e=3
240: 1 ==> 0 e=4
241: 1 ==> 1 e=5
242: 1 ==> 2 e=6
243: 1 ==> 3 e=7
245: 2 ==> 0 e=8
246: 2 ==> 1 e=9
247: 2 ==> 2 e=10
248: 2 ==> 3 e=11
250: 3 ==> 0 e=12
251: 3 ==> 1 e=13
252: 3 ==> 2 e=14
253: 3 ==> 3 e=15
255: If we require that proc A sends to proc B, then the SEND tag index will be given by
256: N * rank(A) + rank(B) + offset
257: If we require that proc A will receive from proc B, then the RECV tag index will be given by
258: N * rank(B) + rank(A) + offset
260: */
261: static void _get_tags(PetscInt counter, PetscMPIInt N, PetscMPIInt r0, PetscMPIInt r1, PetscMPIInt maxtag, PetscMPIInt *_st, PetscMPIInt *_rt)
262: {
263: PetscMPIInt st, rt;
265: st = (N * r0 + r1 + N * N * counter) % maxtag;
266: rt = (N * r1 + r0 + N * N * counter) % maxtag;
267: *_st = st;
268: *_rt = rt;
269: }
271: /*
272: Makes the communication map symmetric
273: */
274: static PetscErrorCode DMSwarmDataExCompleteCommunicationMap_Private(MPI_Comm comm, PetscMPIInt n, const PetscMPIInt proc_neighbours[], PetscMPIInt *n_new, PetscMPIInt **proc_neighbours_new)
275: {
276: Mat A;
277: PetscInt i, j, nc;
278: PetscInt n_, *proc_neighbours_;
279: PetscInt rank_;
280: PetscMPIInt size, rank;
281: PetscScalar *vals;
282: const PetscInt *cols;
283: const PetscScalar *red_vals;
284: PetscMPIInt _n_new, *_proc_neighbours_new;
286: PetscFunctionBegin;
287: n_ = n;
288: PetscCall(PetscMalloc1(n_, &proc_neighbours_));
289: for (i = 0; i < n_; ++i) proc_neighbours_[i] = proc_neighbours[i];
290: PetscCallMPI(MPI_Comm_size(comm, &size));
291: PetscCallMPI(MPI_Comm_rank(comm, &rank));
292: rank_ = rank;
294: PetscCall(MatCreate(comm, &A));
295: PetscCall(MatSetSizes(A, PETSC_DECIDE, PETSC_DECIDE, size, size));
296: PetscCall(MatSetType(A, MATAIJ));
297: PetscCall(MatSeqAIJSetPreallocation(A, 1, NULL));
298: PetscCall(MatMPIAIJSetPreallocation(A, n_, NULL, n_, NULL));
299: PetscCall(MatSetOption(A, MAT_NEW_NONZERO_ALLOCATION_ERR, PETSC_FALSE));
300: /* Build original map */
301: PetscCall(PetscMalloc1(n_, &vals));
302: for (i = 0; i < n_; ++i) vals[i] = 1.0;
303: PetscCall(MatSetValues(A, 1, &rank_, n_, proc_neighbours_, vals, INSERT_VALUES));
304: PetscCall(MatAssemblyBegin(A, MAT_FLUSH_ASSEMBLY));
305: PetscCall(MatAssemblyEnd(A, MAT_FLUSH_ASSEMBLY));
306: /* Now force all other connections if they are not already there */
307: /* It's more efficient to do them all at once */
308: for (i = 0; i < n_; ++i) vals[i] = 2.0;
309: PetscCall(MatSetValues(A, n_, proc_neighbours_, 1, &rank_, vals, INSERT_VALUES));
310: PetscCall(MatAssemblyBegin(A, MAT_FINAL_ASSEMBLY));
311: PetscCall(MatAssemblyEnd(A, MAT_FINAL_ASSEMBLY));
312: /*
313: PetscCall(PetscViewerPushFormat(PETSC_VIEWER_STDOUT_WORLD,PETSC_VIEWER_ASCII_INFO));
314: PetscCall(MatView(A,PETSC_VIEWER_STDOUT_WORLD));
315: PetscCall(PetscViewerPopFormat(PETSC_VIEWER_STDOUT_WORLD));
316: */
317: if ((n_new != NULL) && (proc_neighbours_new != NULL)) {
318: PetscCall(MatGetRow(A, rank_, &nc, &cols, &red_vals));
319: PetscCall(PetscMPIIntCast(nc, &_n_new));
320: PetscCall(PetscMalloc1(_n_new, &_proc_neighbours_new));
321: for (j = 0; j < nc; ++j) PetscCall(PetscMPIIntCast(cols[j], &_proc_neighbours_new[j]));
322: PetscCall(MatRestoreRow(A, rank_, &nc, &cols, &red_vals));
323: *n_new = _n_new;
324: *proc_neighbours_new = _proc_neighbours_new;
325: }
326: PetscCall(MatDestroy(&A));
327: PetscCall(PetscFree(vals));
328: PetscCall(PetscFree(proc_neighbours_));
329: PetscCallMPI(MPI_Barrier(comm));
330: PetscFunctionReturn(PETSC_SUCCESS);
331: }
333: PetscErrorCode DMSwarmDataExTopologyFinalize(DMSwarmDataEx d)
334: {
335: PetscMPIInt symm_nn = 0, *symm_procs = NULL, r0, n, st, rt, size, *maxtag, iflg;
337: PetscFunctionBegin;
338: PetscCheck(d->topology_status == DEOBJECT_INITIALIZED, d->comm, PETSC_ERR_ARG_WRONGSTATE, "Topology must be initialised. Call DMSwarmDataExTopologyInitialize() first");
340: PetscCall(PetscLogEventBegin(DMSWARM_DataExchangerTopologySetup, 0, 0, 0, 0));
341: /* given information about all my neighbours, make map symmetric */
342: PetscCall(DMSwarmDataExCompleteCommunicationMap_Private(d->comm, d->n_neighbour_procs, d->neighbour_procs, &symm_nn, &symm_procs));
343: /* update my arrays */
344: PetscCall(PetscFree(d->neighbour_procs));
345: d->n_neighbour_procs = symm_nn;
346: d->neighbour_procs = symm_procs;
347: /* allocates memory */
348: if (!d->messages_to_be_sent) PetscCall(PetscMalloc1(d->n_neighbour_procs + 1, &d->messages_to_be_sent));
349: if (!d->message_offsets) PetscCall(PetscMalloc1(d->n_neighbour_procs + 1, &d->message_offsets));
350: if (!d->messages_to_be_recvieved) PetscCall(PetscMalloc1(d->n_neighbour_procs + 1, &d->messages_to_be_recvieved));
351: if (!d->pack_cnt) PetscCall(PetscMalloc(sizeof(PetscInt) * d->n_neighbour_procs, &d->pack_cnt));
352: if (!d->_stats) PetscCall(PetscMalloc(sizeof(MPI_Status) * 2 * d->n_neighbour_procs, &d->_stats));
353: if (!d->_requests) PetscCall(PetscMalloc(sizeof(MPI_Request) * 2 * d->n_neighbour_procs, &d->_requests));
354: if (!d->send_tags) PetscCall(PetscMalloc(sizeof(int) * d->n_neighbour_procs, &d->send_tags));
355: if (!d->recv_tags) PetscCall(PetscMalloc(sizeof(int) * d->n_neighbour_procs, &d->recv_tags));
356: /* compute message tags */
357: PetscCallMPI(MPI_Comm_size(d->comm, &size));
358: PetscCallMPI(MPI_Comm_get_attr(MPI_COMM_WORLD, MPI_TAG_UB, &maxtag, &iflg));
359: PetscCheck(iflg, d->comm, PETSC_ERR_LIB, "MPI error: MPI_Comm_get_attr() is not returning a MPI_TAG_UB");
360: r0 = d->rank;
361: for (n = 0; n < d->n_neighbour_procs; ++n) {
362: PetscMPIInt r1 = d->neighbour_procs[n];
364: _get_tags(d->instance, size, r0, r1, *maxtag, &st, &rt);
365: d->send_tags[n] = st;
366: d->recv_tags[n] = rt;
367: }
368: d->topology_status = DEOBJECT_FINALIZED;
369: PetscCall(PetscLogEventEnd(DMSWARM_DataExchangerTopologySetup, 0, 0, 0, 0));
370: PetscFunctionReturn(PETSC_SUCCESS);
371: }
373: /* === Phase B === */
374: static PetscErrorCode _DMSwarmDataExConvertProcIdToLocalIndex(DMSwarmDataEx de, PetscMPIInt proc_id, PetscMPIInt *local)
375: {
376: PetscMPIInt i, np;
378: PetscFunctionBegin;
379: np = de->n_neighbour_procs;
380: *local = -1;
381: for (i = 0; i < np; ++i) {
382: if (proc_id == de->neighbour_procs[i]) {
383: *local = i;
384: break;
385: }
386: }
387: PetscFunctionReturn(PETSC_SUCCESS);
388: }
390: PetscErrorCode DMSwarmDataExInitializeSendCount(DMSwarmDataEx de)
391: {
392: PetscMPIInt i;
394: PetscFunctionBegin;
395: PetscCheck(de->topology_status == DEOBJECT_FINALIZED, de->comm, PETSC_ERR_ORDER, "Topology not finalized");
396: PetscCall(PetscLogEventBegin(DMSWARM_DataExchangerSendCount, 0, 0, 0, 0));
397: de->message_lengths_status = DEOBJECT_INITIALIZED;
398: for (i = 0; i < de->n_neighbour_procs; ++i) de->messages_to_be_sent[i] = 0;
399: PetscFunctionReturn(PETSC_SUCCESS);
400: }
402: /*
403: 1) only allows counters to be set on neighbouring cpus
404: */
405: PetscErrorCode DMSwarmDataExAddToSendCount(DMSwarmDataEx de, const PetscMPIInt proc_id, const PetscInt count)
406: {
407: PetscMPIInt local_val;
409: PetscFunctionBegin;
410: PetscCheck(de->message_lengths_status != DEOBJECT_FINALIZED, de->comm, PETSC_ERR_ORDER, "Message lengths have been defined. To modify these call DMSwarmDataExInitializeSendCount() first");
411: PetscCheck(de->message_lengths_status == DEOBJECT_INITIALIZED, de->comm, PETSC_ERR_ORDER, "Message lengths must be defined. Call DMSwarmDataExInitializeSendCount() first");
413: PetscCall(_DMSwarmDataExConvertProcIdToLocalIndex(de, proc_id, &local_val));
414: PetscCheck(local_val != -1, PETSC_COMM_SELF, PETSC_ERR_ARG_WRONG, "Proc %d is not a valid neighbour rank", (int)proc_id);
416: de->messages_to_be_sent[local_val] = de->messages_to_be_sent[local_val] + count;
417: PetscFunctionReturn(PETSC_SUCCESS);
418: }
420: PetscErrorCode DMSwarmDataExFinalizeSendCount(DMSwarmDataEx de)
421: {
422: PetscFunctionBegin;
423: PetscCheck(de->message_lengths_status == DEOBJECT_INITIALIZED, de->comm, PETSC_ERR_ORDER, "Message lengths must be defined. Call DMSwarmDataExInitializeSendCount() first");
425: de->message_lengths_status = DEOBJECT_FINALIZED;
426: PetscCall(PetscLogEventEnd(DMSWARM_DataExchangerSendCount, 0, 0, 0, 0));
427: PetscFunctionReturn(PETSC_SUCCESS);
428: }
430: /* === Phase C === */
431: /*
432: zero out all send counts
433: free send and recv buffers
434: zeros out message length
435: zeros out all counters
436: zero out packed data counters
437: */
438: static PetscErrorCode _DMSwarmDataExInitializeTmpStorage(DMSwarmDataEx de)
439: {
440: PetscMPIInt i, np;
442: PetscFunctionBegin;
443: np = de->n_neighbour_procs;
444: for (i = 0; i < np; ++i) {
445: /* de->messages_to_be_sent[i] = -1; */
446: de->messages_to_be_recvieved[i] = -1;
447: }
448: PetscCall(PetscFree(de->send_message));
449: PetscCall(PetscFree(de->recv_message));
450: PetscFunctionReturn(PETSC_SUCCESS);
451: }
453: /*
454: Zeros out pack data counters
455: Ensures mesaage length is set
456: Checks send counts properly initialized
457: allocates space for pack data
458: */
459: PetscErrorCode DMSwarmDataExPackInitialize(DMSwarmDataEx de, size_t unit_message_size)
460: {
461: PetscMPIInt i, np;
462: PetscInt total;
464: PetscFunctionBegin;
465: PetscCheck(de->topology_status == DEOBJECT_FINALIZED, de->comm, PETSC_ERR_ORDER, "Topology not finalized");
466: PetscCheck(de->message_lengths_status == DEOBJECT_FINALIZED, de->comm, PETSC_ERR_ORDER, "Message lengths not finalized");
467: PetscCall(PetscLogEventBegin(DMSWARM_DataExchangerPack, 0, 0, 0, 0));
468: de->packer_status = DEOBJECT_INITIALIZED;
469: PetscCall(_DMSwarmDataExInitializeTmpStorage(de));
470: np = de->n_neighbour_procs;
471: de->unit_message_size = unit_message_size;
472: total = 0;
473: for (i = 0; i < np; ++i) {
474: if (de->messages_to_be_sent[i] == -1) {
475: PetscMPIInt proc_neighour = de->neighbour_procs[i];
476: SETERRQ(PETSC_COMM_SELF, PETSC_ERR_ORDER, "Messages_to_be_sent[neighbour_proc=%d] is un-initialised. Call DMSwarmDataExSetSendCount() first", proc_neighour);
477: }
478: total = total + de->messages_to_be_sent[i];
479: }
480: /* create space for the data to be sent */
481: PetscCall(PetscMalloc(unit_message_size * (total + 1), &de->send_message));
482: /* initialize memory */
483: PetscCall(PetscMemzero(de->send_message, unit_message_size * (total + 1)));
484: /* set total items to send */
485: de->send_message_length = total;
486: de->message_offsets[0] = 0;
487: total = de->messages_to_be_sent[0];
488: for (i = 1; i < np; ++i) {
489: de->message_offsets[i] = total;
490: total = total + de->messages_to_be_sent[i];
491: }
492: /* init the packer counters */
493: de->total_pack_cnt = 0;
494: for (i = 0; i < np; ++i) de->pack_cnt[i] = 0;
495: PetscFunctionReturn(PETSC_SUCCESS);
496: }
498: /*
499: Ensures data gets been packed appropriately and no overlaps occur
500: */
501: PetscErrorCode DMSwarmDataExPackData(DMSwarmDataEx de, PetscMPIInt proc_id, PetscInt n, void *data)
502: {
503: PetscMPIInt local;
504: PetscInt insert_location;
505: void *dest;
507: PetscFunctionBegin;
508: PetscCheck(de->packer_status != DEOBJECT_FINALIZED, de->comm, PETSC_ERR_ORDER, "Packed data have been defined. To modify these call DMSwarmDataExInitializeSendCount(), DMSwarmDataExAddToSendCount(), DMSwarmDataExPackInitialize() first");
509: PetscCheck(de->packer_status == DEOBJECT_INITIALIZED, de->comm, PETSC_ERR_ORDER, "Packed data must be defined. Call DMSwarmDataExInitializeSendCount(), DMSwarmDataExAddToSendCount(), DMSwarmDataExPackInitialize() first");
511: PetscCheck(de->send_message, de->comm, PETSC_ERR_ORDER, "send_message is not initialized. Call DMSwarmDataExPackInitialize() first");
512: PetscCall(_DMSwarmDataExConvertProcIdToLocalIndex(de, proc_id, &local));
513: PetscCheck(local != -1, PETSC_COMM_SELF, PETSC_ERR_ARG_WRONG, "proc_id %d is not registered neighbour", proc_id);
514: 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, proc_id, de->messages_to_be_sent[local], n + de->pack_cnt[local]);
516: /* copy memory */
517: insert_location = de->message_offsets[local] + de->pack_cnt[local];
518: dest = ((char *)de->send_message) + de->unit_message_size * insert_location;
519: PetscCall(PetscMemcpy(dest, data, de->unit_message_size * n));
520: /* increment counter */
521: de->pack_cnt[local] = de->pack_cnt[local] + n;
522: PetscFunctionReturn(PETSC_SUCCESS);
523: }
525: /*
526: *) Ensures all data has been packed
527: */
528: PetscErrorCode DMSwarmDataExPackFinalize(DMSwarmDataEx de)
529: {
530: PetscMPIInt i, np;
531: PetscInt total;
533: PetscFunctionBegin;
534: PetscCheck(de->packer_status == DEOBJECT_INITIALIZED, de->comm, PETSC_ERR_ORDER, "Packer has not been initialized. Must call DMSwarmDataExPackInitialize() first.");
535: np = de->n_neighbour_procs;
536: for (i = 0; i < np; ++i) {
537: 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, de->neighbour_procs[i], de->messages_to_be_sent[i], de->pack_cnt[i]);
538: }
539: /* init */
540: for (i = 0; i < np; ++i) de->messages_to_be_recvieved[i] = -1;
541: /* figure out the recv counts here */
542: 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]));
543: 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]));
544: PetscCallMPI(MPI_Waitall(2 * np, de->_requests, de->_stats));
545: /* create space for the data to be recvieved */
546: total = 0;
547: for (i = 0; i < np; ++i) total = total + de->messages_to_be_recvieved[i];
548: PetscCall(PetscMalloc(de->unit_message_size * (total + 1), &de->recv_message));
549: /* initialize memory */
550: PetscCall(PetscMemzero(de->recv_message, de->unit_message_size * (total + 1)));
551: /* set total items to receive */
552: de->recv_message_length = total;
553: de->packer_status = DEOBJECT_FINALIZED;
554: de->communication_status = DEOBJECT_INITIALIZED;
555: PetscCall(PetscLogEventEnd(DMSWARM_DataExchangerPack, 0, 0, 0, 0));
556: PetscFunctionReturn(PETSC_SUCCESS);
557: }
559: /* do the actual message passing */
560: PetscErrorCode DMSwarmDataExBegin(DMSwarmDataEx de)
561: {
562: PetscMPIInt i, np;
563: void *dest;
565: PetscFunctionBegin;
566: PetscCheck(de->topology_status == DEOBJECT_FINALIZED, de->comm, PETSC_ERR_ORDER, "Topology not finalized");
567: PetscCheck(de->message_lengths_status == DEOBJECT_FINALIZED, de->comm, PETSC_ERR_ORDER, "Message lengths not finalized");
568: PetscCheck(de->packer_status == DEOBJECT_FINALIZED, de->comm, PETSC_ERR_ORDER, "Packer not finalized");
569: PetscCheck(de->communication_status != DEOBJECT_FINALIZED, de->comm, PETSC_ERR_ORDER, "Communication has already been finalized. Must call DMSwarmDataExInitialize() first.");
570: PetscCheck(de->recv_message, de->comm, PETSC_ERR_ORDER, "recv_message has not been initialized. Must call DMSwarmDataExPackFinalize() first");
571: PetscCall(PetscLogEventBegin(DMSWARM_DataExchangerBegin, 0, 0, 0, 0));
572: np = de->n_neighbour_procs;
573: /* == NON BLOCKING == */
574: for (i = 0; i < np; ++i) {
575: dest = ((char *)de->send_message) + de->unit_message_size * de->message_offsets[i];
576: PetscCallMPI(MPIU_Isend(dest, de->messages_to_be_sent[i] * de->unit_message_size, MPI_CHAR, de->neighbour_procs[i], de->send_tags[i], de->comm, &de->_requests[i]));
577: }
578: PetscCall(PetscLogEventEnd(DMSWARM_DataExchangerBegin, 0, 0, 0, 0));
579: PetscFunctionReturn(PETSC_SUCCESS);
580: }
582: /* do the actual message passing now */
583: PetscErrorCode DMSwarmDataExEnd(DMSwarmDataEx de)
584: {
585: PetscMPIInt i, np;
586: PetscInt total;
587: PetscInt *message_recv_offsets;
588: void *dest;
590: PetscFunctionBegin;
591: PetscCheck(de->communication_status == DEOBJECT_INITIALIZED, de->comm, PETSC_ERR_ORDER, "Communication has not been initialized. Must call DMSwarmDataExInitialize() first.");
592: PetscCheck(de->recv_message, de->comm, PETSC_ERR_ORDER, "recv_message has not been initialized. Must call DMSwarmDataExPackFinalize() first");
593: PetscCall(PetscLogEventBegin(DMSWARM_DataExchangerEnd, 0, 0, 0, 0));
594: np = de->n_neighbour_procs;
595: PetscCall(PetscMalloc1(np + 1, &message_recv_offsets));
596: message_recv_offsets[0] = 0;
597: total = de->messages_to_be_recvieved[0];
598: for (i = 1; i < np; ++i) {
599: message_recv_offsets[i] = total;
600: total = total + de->messages_to_be_recvieved[i];
601: }
602: /* == NON BLOCKING == */
603: for (i = 0; i < np; ++i) {
604: dest = ((char *)de->recv_message) + de->unit_message_size * message_recv_offsets[i];
605: PetscCallMPI(MPIU_Irecv(dest, de->messages_to_be_recvieved[i] * de->unit_message_size, MPI_CHAR, de->neighbour_procs[i], de->recv_tags[i], de->comm, &de->_requests[np + i]));
606: }
607: PetscCallMPI(MPI_Waitall(2 * np, de->_requests, de->_stats));
608: PetscCall(PetscFree(message_recv_offsets));
609: de->communication_status = DEOBJECT_FINALIZED;
610: PetscCall(PetscLogEventEnd(DMSWARM_DataExchangerEnd, 0, 0, 0, 0));
611: PetscFunctionReturn(PETSC_SUCCESS);
612: }
614: PetscErrorCode DMSwarmDataExGetSendData(DMSwarmDataEx de, PetscInt *length, void **send)
615: {
616: PetscFunctionBegin;
617: PetscCheck(de->packer_status == DEOBJECT_FINALIZED, de->comm, PETSC_ERR_ARG_WRONGSTATE, "Data has not finished being packed.");
618: *length = de->send_message_length;
619: *send = de->send_message;
620: PetscFunctionReturn(PETSC_SUCCESS);
621: }
623: PetscErrorCode DMSwarmDataExGetRecvData(DMSwarmDataEx de, PetscInt *length, void **recv)
624: {
625: PetscFunctionBegin;
626: PetscCheck(de->communication_status == DEOBJECT_FINALIZED, de->comm, PETSC_ERR_ARG_WRONGSTATE, "Data has not finished being sent.");
627: *length = de->recv_message_length;
628: *recv = de->recv_message;
629: PetscFunctionReturn(PETSC_SUCCESS);
630: }
632: PetscErrorCode DMSwarmDataExTopologyGetNeighbours(DMSwarmDataEx de, PetscMPIInt *n, PetscMPIInt *neigh[])
633: {
634: PetscFunctionBegin;
635: if (n) *n = de->n_neighbour_procs;
636: if (neigh) *neigh = de->neighbour_procs;
637: PetscFunctionReturn(PETSC_SUCCESS);
638: }