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/*
* crystfelmergeopts.h
*
* A GTK widget to set merge options
*
* Copyright © 2020-2021 Deutsches Elektronen-Synchrotron DESY,
* a research centre of the Helmholtz Association.
*
* Authors:
* 2020-2021 Thomas White <taw@physics.org>
*
* 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 <string.h>
#include <assert.h>
#include <gtk/gtk.h>
#include <glib-object.h>
#include <errno.h>
#include <math.h>
#include <integration.h>
#include <index.h>
#include "crystfelmergeopts.h"
#include "crystfelsymmetryselector.h"
#include "gtk-util-routines.h"
G_DEFINE_TYPE(CrystFELMergeOpts,
crystfel_merge_opts,
GTK_TYPE_NOTEBOOK)
static void crystfel_merge_opts_class_init(CrystFELMergeOptsClass *klass)
{
}
static void crystfel_merge_opts_init(CrystFELMergeOpts *mo)
{
}
static void disable_if_inactive(GtkWidget *toggle, GtkWidget *widget)
{
gtk_widget_set_sensitive(GTK_WIDGET(widget),
gtk_toggle_button_get_active(GTK_TOGGLE_BUTTON(toggle)));
}
static void deactivate_if_inactive(GtkWidget *toggle, GtkWidget *widget)
{
if ( !gtk_toggle_button_get_active(GTK_TOGGLE_BUTTON(toggle)) ) {
gtk_toggle_button_set_active(GTK_TOGGLE_BUTTON(widget), FALSE);
}
}
static void disable_and_deactivate(GtkWidget *toggle)
{
gtk_widget_set_sensitive(toggle, FALSE);
gtk_toggle_button_set_active(GTK_TOGGLE_BUTTON(toggle), FALSE);
}
static int check_greyout(GtkWidget *nothing, CrystFELMergeOpts *mo)
{
int partialate;
partialate = (gtk_combo_box_get_active(GTK_COMBO_BOX(mo->model_combo)) != 0);
if ( !partialate ) {
gtk_widget_set_sensitive(GTK_WIDGET(mo->niter), FALSE);
disable_and_deactivate(mo->bscale);
disable_and_deactivate(mo->postref);
disable_and_deactivate(mo->deltacchalf);
disable_and_deactivate(mo->custom_split);
disable_and_deactivate(mo->detwin);
} else {
gtk_widget_set_sensitive(GTK_WIDGET(mo->niter), TRUE);
gtk_widget_set_sensitive(GTK_WIDGET(mo->bscale), TRUE);
gtk_widget_set_sensitive(GTK_WIDGET(mo->postref), TRUE);
gtk_widget_set_sensitive(GTK_WIDGET(mo->deltacchalf), TRUE);
gtk_widget_set_sensitive(GTK_WIDGET(mo->custom_split), TRUE);
gtk_widget_set_sensitive(GTK_WIDGET(mo->detwin), TRUE);
disable_if_inactive(mo->custom_split, mo->custom_split_file);
disable_if_inactive(mo->detwin, mo->detwin_sym);
disable_if_inactive(mo->scale, mo->bscale);
deactivate_if_inactive(mo->scale, mo->bscale);
}
disable_if_inactive(mo->use_max_adu, mo->max_adu);
disable_if_inactive(mo->min_res, mo->min_res_val);
disable_if_inactive(mo->limit_res, mo->push_res);
return FALSE;
}
static void check_on_toggle(GtkWidget *toggle, CrystFELMergeOpts *mo)
{
g_signal_connect(G_OBJECT(toggle),
"toggled",
G_CALLBACK(check_greyout),
mo);
}
static GtkWidget *merge_parameters(CrystFELMergeOpts *mo)
{
GtkWidget *box;
GtkWidget *hbox;
GtkWidget *label;
box = gtk_box_new(GTK_ORIENTATION_VERTICAL, 8);
gtk_container_set_border_width(GTK_CONTAINER(box), 8);
hbox = gtk_box_new(GTK_ORIENTATION_HORIZONTAL, 8);
gtk_box_pack_start(GTK_BOX(box), GTK_WIDGET(hbox),
FALSE, FALSE, 0);
label = gtk_label_new("Model:");
gtk_box_pack_start(GTK_BOX(hbox), GTK_WIDGET(label),
FALSE, FALSE, 0);
mo->model_combo = gtk_combo_box_text_new();
gtk_box_pack_start(GTK_BOX(hbox), GTK_WIDGET(mo->model_combo),
FALSE, FALSE, 0);
gtk_combo_box_text_append(GTK_COMBO_BOX_TEXT(mo->model_combo),
"process_hkl",
"Simple merging (process_hkl)");
gtk_combo_box_text_append(GTK_COMBO_BOX_TEXT(mo->model_combo),
"unity",
"No partialities (unity)");
gtk_combo_box_text_append(GTK_COMBO_BOX_TEXT(mo->model_combo),
"xsphere",
"Bandwidth integral (xsphere)");
gtk_combo_box_text_append(GTK_COMBO_BOX_TEXT(mo->model_combo),
"offset",
"Monochromatic Ewald sphere offset (offset)");
g_signal_connect(G_OBJECT(mo->model_combo), "changed",
G_CALLBACK(check_greyout), mo);
gtk_widget_set_tooltip_text(hbox, "--model");
/* Symmetry */
hbox = gtk_box_new(GTK_ORIENTATION_HORIZONTAL, 8);
gtk_box_pack_start(GTK_BOX(box), GTK_WIDGET(hbox),
FALSE, FALSE, 0);
label = gtk_label_new("Symmetry:");
gtk_box_pack_start(GTK_BOX(hbox), GTK_WIDGET(label),
FALSE, FALSE, 0);
mo->symmetry = crystfel_symmetry_selector_new();
gtk_box_pack_start(GTK_BOX(hbox), GTK_WIDGET(mo->symmetry),
FALSE, FALSE, 0);
gtk_widget_set_tooltip_text(hbox, "--symmetry");
/* Scale, Bscale, post-ref on/off */
hbox = gtk_box_new(GTK_ORIENTATION_HORIZONTAL, 8);
gtk_box_pack_start(GTK_BOX(box), GTK_WIDGET(hbox),
FALSE, FALSE, 0);
mo->scale = gtk_check_button_new_with_label("Scale intensities");
gtk_box_pack_start(GTK_BOX(hbox), GTK_WIDGET(mo->scale),
FALSE, FALSE, 0);
gtk_widget_set_tooltip_text(mo->scale, "--scale / --no-scale");
mo->bscale = gtk_check_button_new_with_label("Debye-Waller scaling");
gtk_box_pack_start(GTK_BOX(hbox), GTK_WIDGET(mo->bscale),
FALSE, FALSE, 0);
gtk_widget_set_tooltip_text(mo->bscale, "--no-Bscale");
mo->postref = gtk_check_button_new_with_label("Post-refinement");
gtk_box_pack_start(GTK_BOX(hbox), GTK_WIDGET(mo->postref),
FALSE, FALSE, 0);
gtk_widget_set_tooltip_text(mo->postref, "--no-pr");
check_on_toggle(mo->scale, mo);
/* Number of iterations */
hbox = gtk_box_new(GTK_ORIENTATION_HORIZONTAL, 8);
gtk_box_pack_start(GTK_BOX(box), GTK_WIDGET(hbox),
FALSE, FALSE, 0);
label = gtk_label_new("Number of scaling/post-refinement cycles:");
gtk_box_pack_start(GTK_BOX(hbox), GTK_WIDGET(label),
FALSE, FALSE, 0);
mo->niter = gtk_entry_new();
gtk_entry_set_width_chars(GTK_ENTRY(mo->niter), 4);
gtk_box_pack_start(GTK_BOX(hbox), GTK_WIDGET(mo->niter),
FALSE, FALSE, 0);
gtk_widget_set_tooltip_text(hbox, "--iterations");
/* Polarisation horiz/vert/unpolarized beam/no correction */
hbox = gtk_box_new(GTK_ORIENTATION_HORIZONTAL, 8);
gtk_box_pack_start(GTK_BOX(box), GTK_WIDGET(hbox),
FALSE, FALSE, 0);
label = gtk_label_new("Polarisation:");
gtk_box_pack_start(GTK_BOX(hbox), GTK_WIDGET(label),
FALSE, FALSE, 0);
mo->polarisation = gtk_combo_box_text_new();
gtk_combo_box_text_append(GTK_COMBO_BOX_TEXT(mo->polarisation), "horiz",
"Horizontal e-field (most synchrotrons and FELs)");
gtk_combo_box_text_append(GTK_COMBO_BOX_TEXT(mo->polarisation), "vert",
"Vertical e-field (LCLS-II hard X-ray undulator)");
gtk_combo_box_text_append(GTK_COMBO_BOX_TEXT(mo->polarisation), "horiz50",
"Unpolarized incident beam");
gtk_combo_box_text_append(GTK_COMBO_BOX_TEXT(mo->polarisation), "none",
"No correction");
gtk_box_pack_start(GTK_BOX(hbox), GTK_WIDGET(mo->polarisation),
FALSE, FALSE, 0);
gtk_widget_set_tooltip_text(hbox, "--polarisation={horiz,vert,horiz50,none}");
/* deltaCChalf */
mo->deltacchalf = gtk_check_button_new_with_label("Reject bad patterns according to ΔCC½");
gtk_box_pack_start(GTK_BOX(box), GTK_WIDGET(mo->deltacchalf),
FALSE, FALSE, 0);
gtk_widget_set_tooltip_text(mo->deltacchalf, "--no-deltacchalf");
/* Detector saturation value */
hbox = gtk_box_new(GTK_ORIENTATION_HORIZONTAL, 8);
gtk_box_pack_start(GTK_BOX(box), GTK_WIDGET(hbox),
FALSE, FALSE, 0);
mo->use_max_adu = gtk_check_button_new_with_label("Detector saturation cutoff:");
gtk_box_pack_start(GTK_BOX(hbox), GTK_WIDGET(mo->use_max_adu),
FALSE, FALSE, 0);
mo->max_adu = gtk_entry_new();
gtk_entry_set_width_chars(GTK_ENTRY(mo->max_adu), 8);
gtk_box_pack_start(GTK_BOX(hbox), GTK_WIDGET(mo->max_adu),
FALSE, FALSE, 0);
check_on_toggle(mo->use_max_adu, mo);
gtk_widget_set_tooltip_text(hbox, "--max-adu");
/* Minimum measurements */
hbox = gtk_box_new(GTK_ORIENTATION_HORIZONTAL, 8);
gtk_box_pack_start(GTK_BOX(box), GTK_WIDGET(hbox),
FALSE, FALSE, 0);
label = gtk_label_new("Minimum number of measurements per merged reflection:");
gtk_box_pack_start(GTK_BOX(hbox), GTK_WIDGET(label),
FALSE, FALSE, 0);
mo->min_measurements = gtk_entry_new();
gtk_entry_set_width_chars(GTK_ENTRY(mo->min_measurements), 6);
gtk_box_pack_start(GTK_BOX(hbox), GTK_WIDGET(mo->min_measurements),
FALSE, FALSE, 0);
gtk_widget_set_tooltip_text(hbox, "--min-measurements");
/* Custom split */
hbox = gtk_box_new(GTK_ORIENTATION_HORIZONTAL, 8);
gtk_box_pack_start(GTK_BOX(box), GTK_WIDGET(hbox),
FALSE, FALSE, 0);
mo->custom_split = gtk_check_button_new_with_label("Split datasets after merging");
gtk_box_pack_start(GTK_BOX(hbox), GTK_WIDGET(mo->custom_split),
FALSE, FALSE, 0);
mo->custom_split_file = gtk_file_chooser_button_new("Dataset assignments",
GTK_FILE_CHOOSER_ACTION_OPEN);
gtk_box_pack_start(GTK_BOX(hbox), GTK_WIDGET(mo->custom_split_file),
FALSE, FALSE, 0);
check_on_toggle(mo->custom_split, mo);
gtk_widget_set_tooltip_text(hbox, "--custom-split");
/* --no-logs */
mo->pr_logs = gtk_check_button_new_with_label("Write partiality model diagnostics");
gtk_box_pack_start(GTK_BOX(box), GTK_WIDGET(mo->pr_logs),
FALSE, FALSE, 0);
gtk_widget_set_tooltip_text(mo->pr_logs, "--no-logs");
/* Minimum pattern resolution */
hbox = gtk_box_new(GTK_ORIENTATION_HORIZONTAL, 8);
gtk_box_pack_start(GTK_BOX(box), GTK_WIDGET(hbox),
FALSE, FALSE, 0);
mo->min_res = gtk_check_button_new_with_label("Require minimum estimated pattern resolution");
gtk_box_pack_start(GTK_BOX(hbox), GTK_WIDGET(mo->min_res),
FALSE, FALSE, 0);
mo->min_res_val = gtk_entry_new();
gtk_entry_set_width_chars(GTK_ENTRY(mo->min_res_val), 6);
gtk_box_pack_start(GTK_BOX(hbox), GTK_WIDGET(mo->min_res_val),
FALSE, FALSE, 0);
label = gtk_label_new("Å");
gtk_box_pack_start(GTK_BOX(hbox), GTK_WIDGET(label),
FALSE, FALSE, 0);
check_on_toggle(mo->min_res, mo);
gtk_widget_set_tooltip_text(hbox, "--min-res");
/* push-res */
hbox = gtk_box_new(GTK_ORIENTATION_HORIZONTAL, 8);
gtk_box_pack_start(GTK_BOX(box), GTK_WIDGET(hbox),
FALSE, FALSE, 0);
mo->limit_res = gtk_check_button_new_with_label("Exclude measurements more than");
gtk_box_pack_start(GTK_BOX(hbox), GTK_WIDGET(mo->limit_res),
FALSE, FALSE, 0);
mo->push_res = gtk_entry_new();
gtk_entry_set_width_chars(GTK_ENTRY(mo->push_res), 8);
gtk_box_pack_start(GTK_BOX(hbox), GTK_WIDGET(mo->push_res),
FALSE, FALSE, 0);
label = gtk_label_new("nm^-1 above resolution limit");
gtk_label_set_markup(GTK_LABEL(label), "nm<sup>-1</sup> above resolution limit");
gtk_box_pack_start(GTK_BOX(hbox), GTK_WIDGET(label),
FALSE, FALSE, 0);
check_on_toggle(mo->limit_res, mo);
gtk_widget_set_tooltip_text(hbox, "--push-res");
/* Detwin */
hbox = gtk_box_new(GTK_ORIENTATION_HORIZONTAL, 8);
gtk_box_pack_start(GTK_BOX(box), GTK_WIDGET(hbox),
FALSE, FALSE, 0);
mo->detwin = gtk_check_button_new_with_label("Refine indexing assignments");
gtk_box_pack_start(GTK_BOX(hbox), GTK_WIDGET(mo->detwin),
FALSE, FALSE, 0);
mo->detwin_sym = crystfel_symmetry_selector_new();
gtk_box_pack_start(GTK_BOX(hbox), GTK_WIDGET(mo->detwin_sym),
FALSE, FALSE, 0);
check_on_toggle(mo->detwin, mo);
gtk_widget_set_tooltip_text(hbox, "-w");
check_greyout(NULL, mo);
return box;
}
GtkWidget *crystfel_merge_opts_new()
{
CrystFELMergeOpts *mo;
mo = g_object_new(CRYSTFEL_TYPE_MERGE_OPTS, NULL);
gtk_notebook_set_tab_pos(GTK_NOTEBOOK(mo), GTK_POS_LEFT);
gtk_notebook_append_page(GTK_NOTEBOOK(mo),
merge_parameters(mo),
gtk_label_new("Merging"));
return GTK_WIDGET(mo);
}
static int set_if(GtkWidget *combo, const char *a, const char *new_id)
{
if ( strcmp(a, new_id) == 0 ) {
gtk_combo_box_set_active_id(GTK_COMBO_BOX(combo),
new_id);
return 1;
}
return 0;
}
static void set_int(GtkWidget *entry, int val)
{
char tmp[64];
snprintf(tmp, 63, "%i", val);
gtk_entry_set_text(GTK_ENTRY(entry), tmp);
}
static void set_float(GtkWidget *entry, float val)
{
char tmp[64];
snprintf(tmp, 63, "%f", val);
gtk_entry_set_text(GTK_ENTRY(entry), tmp);
}
void crystfel_merge_opts_set_model(CrystFELMergeOpts *opts,
const char *model)
{
int done = 0;
done += set_if(opts->model_combo, model, "process_hkl");
done += set_if(opts->model_combo, model, "unity");
done += set_if(opts->model_combo, model, "xsphere");
done += set_if(opts->model_combo, model, "offset");
done += set_if(opts->model_combo, model, "ggpm");
if ( done == 0 ) {
ERROR("Unrecognised model '%s'\n", model);
}
}
void crystfel_merge_opts_set_polarisation(CrystFELMergeOpts *opts,
const char *polar)
{
int done = 0;
done += set_if(opts->polarisation, polar, "horiz");
done += set_if(opts->polarisation, polar, "vert");
done += set_if(opts->polarisation, polar, "none");
done += set_if(opts->polarisation, polar, "horiz50");
if ( done == 0 ) {
ERROR("Unrecognised polarisation '%s'\n", polar);
}
}
void crystfel_merge_opts_set_symmetry(CrystFELMergeOpts *opts,
const char *sym)
{
crystfel_symmetry_selector_set_group_symbol(CRYSTFEL_SYMMETRY_SELECTOR(opts->symmetry),
sym);
}
void crystfel_merge_opts_set_scale(CrystFELMergeOpts *opts,
int scale)
{
gtk_toggle_button_set_active(GTK_TOGGLE_BUTTON(opts->scale),
scale);
}
void crystfel_merge_opts_set_bscale(CrystFELMergeOpts *opts,
int bscale)
{
gtk_toggle_button_set_active(GTK_TOGGLE_BUTTON(opts->bscale),
bscale);
}
void crystfel_merge_opts_set_postref(CrystFELMergeOpts *opts,
int postref)
{
gtk_toggle_button_set_active(GTK_TOGGLE_BUTTON(opts->postref),
postref);
}
void crystfel_merge_opts_set_niter(CrystFELMergeOpts *opts,
int niter)
{
set_int(opts->niter, niter);
}
void crystfel_merge_opts_set_deltacchalf(CrystFELMergeOpts *opts,
int deltacchalf)
{
gtk_toggle_button_set_active(GTK_TOGGLE_BUTTON(opts->deltacchalf),
deltacchalf);
}
void crystfel_merge_opts_set_min_measurements(CrystFELMergeOpts *opts,
int min_measurements)
{
set_int(opts->min_measurements, min_measurements);
}
void crystfel_merge_opts_set_max_adu(CrystFELMergeOpts *opts,
float max_adu)
{
set_float(opts->max_adu, max_adu);
}
void crystfel_merge_opts_set_custom_split(CrystFELMergeOpts *opts,
const char *custom_split_file)
{
if ( custom_split_file != NULL ) {
gtk_file_chooser_set_filename(GTK_FILE_CHOOSER(opts->custom_split_file),
custom_split_file);
}
gtk_toggle_button_set_active(GTK_TOGGLE_BUTTON(opts->custom_split),
(custom_split_file != NULL));
}
void crystfel_merge_opts_set_pr_logs(CrystFELMergeOpts *opts, int val)
{
gtk_toggle_button_set_active(GTK_TOGGLE_BUTTON(opts->pr_logs), val);
}
void crystfel_merge_opts_set_twin_sym(CrystFELMergeOpts *opts,
const char *twin_sym)
{
crystfel_symmetry_selector_set_group_symbol(CRYSTFEL_SYMMETRY_SELECTOR(opts->detwin_sym),
twin_sym);
}
void crystfel_merge_opts_set_min_res(CrystFELMergeOpts *opts,
float min_res)
{
gtk_toggle_button_set_active(GTK_TOGGLE_BUTTON(opts->min_res),
!isinf(min_res));
set_float(opts->min_res_val, min_res);
}
void crystfel_merge_opts_set_push_res(CrystFELMergeOpts *mo,
float push_res)
{
gtk_toggle_button_set_active(GTK_TOGGLE_BUTTON(mo->limit_res),
!isinf(push_res));
set_float(mo->push_res, push_res);
}
const char *crystfel_merge_opts_get_model(CrystFELMergeOpts *opts)
{
return gtk_combo_box_get_active_id(GTK_COMBO_BOX(opts->model_combo));
}
const char *crystfel_merge_opts_get_symmetry(CrystFELMergeOpts *opts)
{
return crystfel_symmetry_selector_get_group_symbol(CRYSTFEL_SYMMETRY_SELECTOR(opts->symmetry));
}
int crystfel_merge_opts_get_scale(CrystFELMergeOpts *opts)
{
return get_bool(opts->scale);
}
int crystfel_merge_opts_get_bscale(CrystFELMergeOpts *opts)
{
return get_bool(opts->bscale);
}
int crystfel_merge_opts_get_postref(CrystFELMergeOpts *opts)
{
return get_bool(opts->postref);
}
int crystfel_merge_opts_get_niter(CrystFELMergeOpts *opts)
{
return get_uint(opts->niter);
}
const char *crystfel_merge_opts_get_polarisation(CrystFELMergeOpts *opts)
{
return gtk_combo_box_get_active_id(GTK_COMBO_BOX(opts->polarisation));
}
int crystfel_merge_opts_get_deltacchalf(CrystFELMergeOpts *opts)
{
return get_bool(opts->deltacchalf);
}
int crystfel_merge_opts_get_min_measurements(CrystFELMergeOpts *opts)
{
return get_uint(opts->min_measurements);
}
float crystfel_merge_opts_get_max_adu(CrystFELMergeOpts *opts)
{
if ( get_bool(opts->use_max_adu) == 0 ) {
return INFINITY;
} else {
return get_float(opts->max_adu);
}
}
const char *crystfel_merge_opts_get_custom_split(CrystFELMergeOpts *opts)
{
if ( get_bool(opts->custom_split) == 0 ) {
return NULL;
} else {
return gtk_file_chooser_get_filename(GTK_FILE_CHOOSER(opts->custom_split_file));
}
}
int crystfel_merge_opts_get_pr_logs(CrystFELMergeOpts *opts)
{
return get_bool(opts->pr_logs);
}
const char *crystfel_merge_opts_get_twin_sym(CrystFELMergeOpts *opts)
{
if ( get_bool(opts->detwin) == 0 ) {
return NULL;
} else {
return crystfel_symmetry_selector_get_group_symbol(CRYSTFEL_SYMMETRY_SELECTOR(opts->detwin_sym));
}
}
float crystfel_merge_opts_get_min_res(CrystFELMergeOpts *opts)
{
if ( get_bool(opts->min_res) == 0 ) {
return INFINITY;
} else {
float min_res = get_float(opts->min_res_val);
if ( isnan(min_res) ) {
printf("Invalid value for min-res\n");
return INFINITY;
} else {
return min_res;
}
}
}
float crystfel_merge_opts_get_push_res(CrystFELMergeOpts *opts)
{
if ( get_bool(opts->limit_res) == 0 ) {
return INFINITY;
} else {
float push_res = get_float(opts->push_res);
if ( isnan(push_res) ) {
printf("Invalid value for push-res\n");
return INFINITY;
} else {
return push_res;
}
}
}
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