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/*
* zmq.c
*
* ZMQ data interface
*
* Copyright © 2017-2018 Deutsches Elektronen-Synchrotron DESY,
* a research centre of the Helmholtz Association.
*
* Authors:
* 2018 Thomas White <taw@physics.org>
* 2014 Valerio Mariani
* 2017 Stijn de Graaf
*
* This file is part of CrystFEL.
*
* CrystFEL is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
* (at your option) any later version.
*
* CrystFEL is distributed in the hope that it will be useful,
* but WITHOUT ANY WARRANTY; without even the implied warranty of
* MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
* GNU General Public License for more details.
*
* You should have received a copy of the GNU General Public License
* along with CrystFEL. If not, see <http://www.gnu.org/licenses/>.
*
*/
#ifdef HAVE_CONFIG_H
#include <config.h>
#endif
#include <stdlib.h>
#include <stdio.h>
#include <stdint.h>
#include <hdf5.h>
#include <assert.h>
#include <unistd.h>
#include <zmq.h>
#include <msgpack.h>
#include "events.h"
#include "image.h"
#include "hdf5-file.h"
#include "utils.h"
struct im_zmq
{
void *ctx;
void *socket;
zmq_msg_t msg;
msgpack_unpacked unpacked;
int unpacked_set;
};
struct im_zmq *im_zmq_connect(const char *zmq_address)
{
struct im_zmq *z;
z = malloc(sizeof(struct im_zmq));
if ( z == NULL ) return NULL;
z->unpacked_set = 0;
z->ctx = zmq_ctx_new();
if ( z->ctx == NULL ) return NULL;
z->socket = zmq_socket(z->ctx, ZMQ_REQ);
if ( z->socket == NULL ) return NULL;
STATUS("Connecting to ZMQ at '%s'\n", zmq_address);
if ( zmq_connect(z->socket, zmq_address) == -1 ) {
ERROR("ZMQ connection failed: %s\n", zmq_strerror(errno));
return NULL;
}
STATUS("ZMQ connected.\n");
return z;
}
msgpack_object *im_zmq_fetch(struct im_zmq *z)
{
int msg_size;
int r;
if ( zmq_send(z->socket, "m", 1, 0) == -1 ) {
ERROR("ZMQ message send failed: %s\n", zmq_strerror(errno));
return NULL;
}
zmq_msg_init(&z->msg);
msg_size = zmq_msg_recv(&z->msg, z->socket, 0);
if ( msg_size == -1 ) {
ERROR("ZMQ recieve failed: %s\n", zmq_strerror(errno));
zmq_msg_close(&z->msg);
return NULL;
}
msgpack_unpacked_init(&z->unpacked);
r = msgpack_unpack_next(&z->unpacked, zmq_msg_data(&z->msg),
msg_size, NULL);
if ( r != MSGPACK_UNPACK_SUCCESS ) {
ERROR("Msgpack unpack failed: %i\n", r);
zmq_msg_close(&z->msg);
return NULL;
}
z->unpacked_set = 1;
return &z->unpacked.data;
}
/* Clean structures ready for next frame */
void im_zmq_clean(struct im_zmq *z)
{
if ( z->unpacked_set ) {
msgpack_unpacked_destroy(&z->unpacked);
zmq_msg_close(&z->msg);
z->unpacked_set = 0;
}
}
void im_zmq_shutdown(struct im_zmq *z)
{
if ( z == NULL ) return;
zmq_msg_close(&z->msg);
zmq_close(z->socket);
zmq_ctx_destroy(z->ctx);
}
static msgpack_object *find_msgpack_kv(msgpack_object *obj, const char *key)
{
int i;
if ( obj == NULL ) return NULL;
if ( obj->type != MSGPACK_OBJECT_MAP ) return NULL;
for ( i=0; i<obj->via.map.size; i++ ) {
const char *kstr;
size_t klen;
assert(obj->via.map.ptr[i].key.type == MSGPACK_OBJECT_STR);
kstr = obj->via.map.ptr[i].key.via.str.ptr;
klen = obj->via.map.ptr[i].key.via.str.size;
if ( strncmp(kstr, key, klen) == 0 ) {
return &obj->via.map.ptr[i].val;
}
}
return NULL;
}
/**
* get_peaks_msgpack:
* @obj: A %msgpack_object containing data in OnDA format
* @image: An %image structure
* @half_pixel_shift: Non-zero if 0.5 should be added to all peak coordinates
*
* Get peaks from msgpack_object. The data should be in a map, with the value
* given by "peak_list" as an array of arrays. The first of these should contain
* the list of fs positions of the peaks, the second the ss positions, and the
* third the intensities of the peaks.
*
* http://c.msgpack.org/c/ provides documentation on msgpack objects
*
* CrystFEL considers all peak locations to be distances from the corner of the
* detector panel, in pixel units, consistent with its description of detector
* geometry (see 'man crystfel_geometry'). The software which generates the
* CXI files, including Cheetah, may instead consider the peak locations to be
* pixel indices in the data array. In this case, the peak coordinates should
* have 0.5 added to them. This will be done if @half_pixel_shift is non-zero.
*
* Returns: non-zero on error, zero otherwise.
*
*/
int get_peaks_msgpack(msgpack_object *obj, struct image *image,
int half_pixel_shift)
{
int num_peaks;
int pk;
msgpack_object *peak_list;
msgpack_object *peak_x;
msgpack_object *peak_y;
msgpack_object *peak_i;
double peak_offset = half_pixel_shift ? 0.5 : 0.0;
if ( obj == NULL ) {
ERROR("No MessagePack object to get peaks from.\n");
return 1;
}
/* Object has structure:
* {
* "peak_list": [[peak_x], [peak_y], [peak_i]]
* "key2":val2,
* ...
* }
*/
peak_list = find_msgpack_kv(obj, "peak_list");
peak_x = &peak_list->via.array.ptr[0];
peak_y = &peak_list->via.array.ptr[1];
peak_i = &peak_list->via.array.ptr[2];
/* Length of peak_x array gives number of peaks */
num_peaks = peak_x->via.array.size;
if ( image->features != NULL ) {
image_feature_list_free(image->features);
}
image->features = image_feature_list_new();
image->num_peaks = num_peaks;
for ( pk=0; pk<num_peaks; pk++ ) {
float fs, ss, val;
struct panel *p;
/* Retrieve data from peak_list and apply half_pixel_shift,
* if appropriate */
fs = peak_x->via.array.ptr[pk].via.f64 + peak_offset;
ss = peak_y->via.array.ptr[pk].via.f64 + peak_offset;
val = peak_i->via.array.ptr[pk].via.f64;
p = find_orig_panel(image->det, fs, ss);
if ( p == NULL ) continue;
if ( p->no_index ) continue;
/* Convert coordinates to panel-relative */
fs = fs - p->orig_min_fs;
ss = ss - p->orig_min_ss;
image_add_feature(image->features, fs, ss, p, image, val, NULL);
}
return 0;
}
static void im_zmq_fill_in_clen(struct detector *det)
{
int i = 0;
for ( i=0; i<det->n_panels; i++) {
struct panel *p = &det->panels[i];
if ( p->clen_from != NULL ) {
ERROR("Can't get clen over ZMQ yet.\n");
}
adjust_centering_for_rail(p);
}
}
static void im_zmq_fill_in_beam_parameters(struct beam_params *beam,
struct image *image)
{
double eV;
if ( beam->photon_energy_from == NULL ) {
/* Explicit value given */
eV = beam->photon_energy;
} else {
ERROR("Can't get photon energy over ZMQ yet.\n");
eV = 0.0;
}
image->lambda = ph_en_to_lambda(eV_to_J(eV))*beam->photon_energy_scale;
}
/* Unpacks the raw panel data from a msgpack_object, applies panel geometry,
* and stores the resulting data in an image struct. Object has structure
* {
* "corr_data":
* {
* "data": binary_data,
* "shape": [data_height, data_width],
* ...
* ...
* },
* "key2": val2,
* ...
* ...
* }
*/
int unpack_msgpack_data(msgpack_object *obj, struct image *image)
{
uint16_t *flags = NULL;
float *sat = NULL;
int pi;
int data_width, data_height;
double *data;
msgpack_object *corr_data_obj;
msgpack_object *data_obj;
msgpack_object *shape_obj;
if ( image->det == NULL ) {
ERROR("Geometry not available.\n");
return 1;
}
if ( obj == NULL ) {
ERROR("No MessagePack object!\n");
return 1;
}
corr_data_obj = find_msgpack_kv(obj, "corr_data");
if ( corr_data_obj == NULL ) {
ERROR("No corr_data MessagePack object found.\n");
return 1;
}
data_obj = find_msgpack_kv(corr_data_obj, "data");
if ( data_obj == NULL ) {
ERROR("No data MessagePack object found inside corr_data.\n");
return 1;
}
if ( data_obj->type != MSGPACK_OBJECT_STR ) {
ERROR("corr_data.data isn't a binary object.\n");
return 1;
}
data = (double *)data_obj->via.str.ptr;
shape_obj = find_msgpack_kv(corr_data_obj, "shape");
if ( shape_obj == NULL ) {
ERROR("No shape MessagePack object found inside corr_data.\n");
return 1;
}
if ( shape_obj->type != MSGPACK_OBJECT_ARRAY ) {
ERROR("corr_data.shape isn't an array object.\n");
return 1;
}
if ( shape_obj->via.array.size != 2 ) {
ERROR("corr_data.shape is wrong size (%i, should be 2)\n",
shape_obj->via.array.size);
return 1;
}
if ( shape_obj->via.array.ptr[0].type != MSGPACK_OBJECT_POSITIVE_INTEGER ) {
ERROR("corr_data.shape contains wrong type of element.\n");
return 1;
}
data_height = shape_obj->via.array.ptr[0].via.i64;
data_width = shape_obj->via.array.ptr[1].via.i64;
image->dp = malloc(image->det->n_panels*sizeof(float *));
image->bad = malloc(image->det->n_panels*sizeof(int *));
image->sat = malloc(image->det->n_panels*sizeof(float *));
if ( (image->dp == NULL) || (image->bad == NULL) || (image->sat == NULL) ) {
ERROR("Failed to allocate data arrays.\n");
return 1;
}
for ( pi=0; pi<image->det->n_panels; pi++ ) {
struct panel *p;
int fs, ss;
p = &image->det->panels[pi];
image->dp[pi] = malloc(p->w*p->h*sizeof(float));
image->bad[pi] = malloc(p->w*p->h*sizeof(int));
image->sat[pi] = malloc(p->w*p->h*sizeof(float));
if ( (image->dp[pi] == NULL) || (image->bad[pi] == NULL)
|| (image->sat[pi] == NULL) )
{
ERROR("Failed to allocate panel\n");
return 1;
}
if ( (p->orig_min_fs + p->w > data_width)
|| (p->orig_min_ss + p->h > data_height) )
{
ERROR("Panel %s is outside range of data provided\n",
p->name);
return 1;
}
for ( ss=0; ss<p->h; ss++) {
for ( fs=0; fs<p->w; fs++) {
int idx;
int cfs, css;
int bad = 0;
cfs = fs+p->orig_min_fs;
css = ss+p->orig_min_ss;
idx = cfs + css*data_width;
image->dp[pi][fs+p->w*ss] = data[idx];
if ( sat != NULL ) {
image->sat[pi][fs+p->w*ss] = sat[idx];
} else {
image->sat[pi][fs+p->w*ss] = INFINITY;
}
if ( p->no_index ) bad = 1;
if ( in_bad_region(image->det, p, cfs, css) ) {
bad = 1;
}
if ( flags != NULL ) {
int f;
f = flags[idx];
if ( (f & image->det->mask_good)
!= image->det->mask_good ) bad = 1;
if ( f & image->det->mask_bad ) bad = 1;
}
image->bad[pi][fs+p->w*ss] = bad;
}
}
}
if ( image->beam != NULL ) {
im_zmq_fill_in_beam_parameters(image->beam, image);
if ( image->lambda > 1000 ) {
ERROR("Warning: Missing or nonsensical wavelength "
"(%e m).\n", image->lambda);
}
}
im_zmq_fill_in_clen(image->det);
fill_in_adu(image);
return 0;
}
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