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-rw-r--r--src/partialator.c19
-rw-r--r--src/process_hkl.c25
-rwxr-xr-xtests/partialator_merge_check_113
-rwxr-xr-xtests/partialator_merge_check_213
-rwxr-xr-xtests/partialator_merge_check_313
-rwxr-xr-xtests/process_hkl_check_113
-rwxr-xr-xtests/process_hkl_check_213
-rwxr-xr-xtests/process_hkl_check_313
-rwxr-xr-xtests/process_hkl_check_413
9 files changed, 129 insertions, 6 deletions
diff --git a/src/partialator.c b/src/partialator.c
index a9930d9e..1f87e6b8 100644
--- a/src/partialator.c
+++ b/src/partialator.c
@@ -945,6 +945,8 @@ int main(int argc, char *argv[])
PartialityModel pmodel = PMODEL_XSPHERE;
int min_measurements = 2;
char *rval;
+ const char *geom_str;
+ DataTemplate *dtempl;
struct polarisation polarisation = {.fraction = 1.0,
.angle = 0.0,
.disable = 0};
@@ -1217,6 +1219,19 @@ int main(int argc, char *argv[])
return 1;
}
+ geom_str = stream_geometry_file(st);
+ if ( geom_str == NULL ) {
+ ERROR("No geometry file\n");
+ stream_close(st);
+ return 1;
+ }
+
+ dtempl = data_template_new_from_string(geom_str);
+ if ( dtempl == NULL ) {
+ stream_close(st);
+ return 1;
+ }
+
if ( outfile == NULL ) {
outfile = strdup("partialator.hkl");
}
@@ -1375,8 +1390,8 @@ int main(int argc, char *argv[])
RefList *as;
int i;
- image = stream_read_chunk(st, NULL, STREAM_REFLECTIONS
- | STREAM_UNITCELL);
+ image = stream_read_chunk(st, dtempl, STREAM_REFLECTIONS
+ | STREAM_UNITCELL);
if ( image == NULL ) break;
if ( isnan(image->div) || isnan(image->bw) ) {
diff --git a/src/process_hkl.c b/src/process_hkl.c
index 4fe1dbeb..b840f4ce 100644
--- a/src/process_hkl.c
+++ b/src/process_hkl.c
@@ -395,7 +395,8 @@ static void display_progress(int n_images, int n_crystals, int n_crystals_used)
}
-static int merge_all(Stream *st, RefList *model, RefList *reference,
+static int merge_all(Stream *st, DataTemplate *dtempl,
+ RefList *model, RefList *reference,
const SymOpList *sym,
double **hist_vals, signed int hist_h,
signed int hist_k, signed int hist_l,
@@ -428,7 +429,7 @@ static int merge_all(Stream *st, RefList *model, RefList *reference,
int i;
/* Get data from next chunk */
- image = stream_read_chunk(st, NULL,
+ image = stream_read_chunk(st, dtempl,
STREAM_REFLECTIONS
| STREAM_UNITCELL);
if ( image == NULL ) break;
@@ -514,6 +515,8 @@ int main(int argc, char *argv[])
int hist_i;
int space_for_hist = 0;
char *histo_params = NULL;
+ const char *geom_str;
+ DataTemplate *dtempl;
struct polarisation polarisation = {.fraction = 1.0,
.angle = 0.0,
.disable = 0};
@@ -723,6 +726,19 @@ int main(int argc, char *argv[])
return 1;
}
+ geom_str = stream_geometry_file(st);
+ if ( geom_str == NULL ) {
+ ERROR("No geometry file found in stream\n");
+ stream_close(st);
+ return 1;
+ }
+
+ dtempl = data_template_new_from_string(geom_str);
+ if ( dtempl == NULL ) {
+ stream_close(st);
+ return 1;
+ }
+
model = reflist_new();
if ( histo != NULL ) {
@@ -779,7 +795,8 @@ int main(int argc, char *argv[])
if ( config_scale ) twopass = 1;
hist_i = 0;
- r = merge_all(st, model, NULL, sym, &hist_vals, hist_h, hist_k, hist_l,
+ r = merge_all(st, dtempl, model, NULL, sym,
+ &hist_vals, hist_h, hist_k, hist_l,
&hist_i, polarisation, min_measurements, min_snr,
max_adu, start_after, stop_after, min_res, push_res,
min_cc, config_scale, flag_even_odd, stat_output);
@@ -813,7 +830,7 @@ int main(int argc, char *argv[])
hist_i = 0;
}
- r = merge_all(st, model, reference, sym, &hist_vals,
+ r = merge_all(st, dtempl, model, reference, sym, &hist_vals,
hist_h, hist_k, hist_l, &hist_i,
polarisation, min_measurements, min_snr,
max_adu, start_after, stop_after, min_res,
diff --git a/tests/partialator_merge_check_1 b/tests/partialator_merge_check_1
index 616ccf31..2d4391ef 100755
--- a/tests/partialator_merge_check_1
+++ b/tests/partialator_merge_check_1
@@ -5,6 +5,19 @@ PARTIALATOR=$1
cat > partialator_merge_check_1.stream << EOF
CrystFEL stream format 2.1
Command line: indexamajig -i dummy.lst -o dummy.stream --kraken=prawn
+----- Begin geometry file -----
+photon_energy = 9000 eV
+panel/min_fs = 0
+panel/min_ss = 0
+panel/max_fs = 1023
+panel/max_ss = 1023
+panel/corner_x = -100
+panel/corner_y = -100
+panel/clen = 50 mm
+panel/res = 1000000
+panel/adu_per_photon = 1
+panel/data = /data/data_array
+----- End geometry file -----
----- Begin chunk -----
Image filename: dummy.h5
photon_energy_eV = 6000.0
diff --git a/tests/partialator_merge_check_2 b/tests/partialator_merge_check_2
index 9938f64f..73c5873e 100755
--- a/tests/partialator_merge_check_2
+++ b/tests/partialator_merge_check_2
@@ -5,6 +5,19 @@ PARTIALATOR=$1
cat > partialator_merge_check_2.stream << EOF
CrystFEL stream format 2.1
Command line: indexamajig -i dummy.lst -o dummy.stream --kraken=prawn
+----- Begin geometry file -----
+photon_energy = 9000 eV
+panel/min_fs = 0
+panel/min_ss = 0
+panel/max_fs = 1023
+panel/max_ss = 1023
+panel/corner_x = -100
+panel/corner_y = -100
+panel/clen = 50 mm
+panel/res = 1000000
+panel/adu_per_photon = 1
+panel/data = /data/data_array
+----- End geometry file -----
----- Begin chunk -----
Image filename: dummy.h5
photon_energy_eV = 6000.0
diff --git a/tests/partialator_merge_check_3 b/tests/partialator_merge_check_3
index 2d237b02..6cb50980 100755
--- a/tests/partialator_merge_check_3
+++ b/tests/partialator_merge_check_3
@@ -5,6 +5,19 @@ PARTIALATOR=$1
cat > partialator_merge_check_3.stream << EOF
CrystFEL stream format 2.1
Command line: indexamajig -i dummy.lst -o dummy.stream --kraken=prawn
+----- Begin geometry file -----
+photon_energy = 9000 eV
+panel/min_fs = 0
+panel/min_ss = 0
+panel/max_fs = 1023
+panel/max_ss = 1023
+panel/corner_x = -100
+panel/corner_y = -100
+panel/clen = 50 mm
+panel/res = 1000000
+panel/adu_per_photon = 1
+panel/data = /data/data_array
+----- End geometry file -----
----- Begin chunk -----
Image filename: dummy.h5
photon_energy_eV = 6000.0
diff --git a/tests/process_hkl_check_1 b/tests/process_hkl_check_1
index 2d65c0a9..8496041d 100755
--- a/tests/process_hkl_check_1
+++ b/tests/process_hkl_check_1
@@ -5,6 +5,19 @@ PROCESS_HKL=$1
cat > process_hkl_check_1.stream << EOF
CrystFEL stream format 2.1
Command line: indexamajig -i dummy.lst -o dummy.stream --kraken=prawn
+----- Begin geometry file -----
+photon_energy = 9000 eV
+panel/min_fs = 0
+panel/min_ss = 0
+panel/max_fs = 1023
+panel/max_ss = 1023
+panel/corner_x = -100
+panel/corner_y = -100
+panel/clen = 50 mm
+panel/res = 1000000
+panel/adu_per_photon = 1
+panel/data = /data/data_array
+----- End geometry file -----
----- Begin chunk -----
Image filename: dummy.h5
photon_energy_eV = 2000.0
diff --git a/tests/process_hkl_check_2 b/tests/process_hkl_check_2
index b4d85fb4..2dec8840 100755
--- a/tests/process_hkl_check_2
+++ b/tests/process_hkl_check_2
@@ -5,6 +5,19 @@ PROCESS_HKL=$1
cat > process_hkl_check_2.stream << EOF
CrystFEL stream format 2.1
Command line: indexamajig -i dummy.lst -o dummy.stream --kraken=prawn
+----- Begin geometry file -----
+photon_energy = 9000 eV
+panel/min_fs = 0
+panel/min_ss = 0
+panel/max_fs = 1023
+panel/max_ss = 1023
+panel/corner_x = -100
+panel/corner_y = -100
+panel/clen = 50 mm
+panel/res = 1000000
+panel/adu_per_photon = 1
+panel/data = /data/data_array
+----- End geometry file -----
----- Begin chunk -----
Image filename: dummy.h5
photon_energy_eV = 2000.0
diff --git a/tests/process_hkl_check_3 b/tests/process_hkl_check_3
index cef7996c..763f6e87 100755
--- a/tests/process_hkl_check_3
+++ b/tests/process_hkl_check_3
@@ -5,6 +5,19 @@ PROCESS_HKL=$1
cat > process_hkl_check_3.stream << EOF
CrystFEL stream format 2.1
Command line: indexamajig -i dummy.lst -o dummy.stream --kraken=prawn
+----- Begin geometry file -----
+photon_energy = 9000 eV
+panel/min_fs = 0
+panel/min_ss = 0
+panel/max_fs = 1023
+panel/max_ss = 1023
+panel/corner_x = -100
+panel/corner_y = -100
+panel/clen = 50 mm
+panel/res = 1000000
+panel/adu_per_photon = 1
+panel/data = /data/data_array
+----- End geometry file -----
----- Begin chunk -----
Image filename: dummy.h5
photon_energy_eV = 2000.0
diff --git a/tests/process_hkl_check_4 b/tests/process_hkl_check_4
index aa36f112..1b267cf9 100755
--- a/tests/process_hkl_check_4
+++ b/tests/process_hkl_check_4
@@ -5,6 +5,19 @@ PROCESS_HKL=$1
cat > process_hkl_check_4.stream << EOF
CrystFEL stream format 2.1
Command line: indexamajig -i dummy.lst -o dummy.stream --kraken=prawn
+----- Begin geometry file -----
+photon_energy = 9000 eV
+panel/min_fs = 0
+panel/min_ss = 0
+panel/max_fs = 1023
+panel/max_ss = 1023
+panel/corner_x = -100
+panel/corner_y = -100
+panel/clen = 50 mm
+panel/res = 1000000
+panel/adu_per_photon = 1
+panel/data = /data/data_array
+----- End geometry file -----
----- Begin chunk -----
Image filename: dummy.h5
photon_energy_eV = 2000.0
generated by cgit v1.2.3 (git 2.25.1) at 2024-06-03 05:44:45 +0000