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-rw-r--r--doc/man/indexamajig.114
-rw-r--r--src/indexamajig.c5
-rw-r--r--src/process_image.h1
3 files changed, 0 insertions, 20 deletions
diff --git a/doc/man/indexamajig.1 b/doc/man/indexamajig.1
index ae71a571..124ee459 100644
--- a/doc/man/indexamajig.1
+++ b/doc/man/indexamajig.1
@@ -288,20 +288,6 @@ Run \fIn\fR analyses in parallel. Default: 1.
Don't attempt to correct the prefix (see \fB--prefix\fR) if it doesn't look correct.
.PD 0
-.IP \fB--closer-peak\fR
-.PD
-If you use this option, indexamajig will integrate around the location of a detected peak instead of the predicted peak location if one is found close to the predicted position, within ten pixels. \fBDon't use this option\fR, because
-there is currently no way to set the definition of 'nearby' to be appropriate
-for your data.
-
-.PD 0
-.IP \fB--no-closer-peak\fR
-.PD
-This is the opposite of \fB--closer-peak\fR, and is provided for compatibility
-with old scripts because this option selects the behaviour which is now the
-default.
-
-.PD 0
.IP \fB--no-use-saturated\fR
.PD
Normally, peaks which contain one or more pixels above max_adu (defined in the detector geometry file) will be used for indexing (but not used in the final integration - see the section on peak integration above). Using this option causes saturated peaks to be ignored completely. The opposite is \fB--use-saturated\fR, which is the default.
diff --git a/src/indexamajig.c b/src/indexamajig.c
index b411b901..ab148a0b 100644
--- a/src/indexamajig.c
+++ b/src/indexamajig.c
@@ -138,8 +138,6 @@ static void show_help(const char *s)
"\n"
"\nOptions you probably won't need:\n\n"
" --no-check-prefix Don't attempt to correct the --prefix.\n"
-" --closer-peak Don't integrate from the location of a nearby peak\n"
-" instead of the predicted spot. Don't use.\n"
" --no-use-saturated During the initial peak search, reject\n"
" peaks which contain pixels above max_adu.\n"
" --no-revalidate Don't re-integrate and check HDF5 peaks for\n"
@@ -205,7 +203,6 @@ int main(int argc, char *argv[])
iargs.noisefilter = 0;
iargs.median_filter = 0;
iargs.satcorr = 1;
- iargs.closer = 0;
iargs.tols[0] = 5.0;
iargs.tols[1] = 5.0;
iargs.tols[2] = 5.0;
@@ -256,7 +253,6 @@ int main(int argc, char *argv[])
/* Long-only options with no arguments */
{"filter-noise", 0, &iargs.noisefilter, 1},
{"no-check-prefix", 0, &config_checkprefix, 0},
- {"closer-peak", 0, &iargs.closer, 1},
{"basename", 0, &config_basename, 1},
{"no-peaks-in-stream", 0, &iargs.stream_peaks, 0},
{"no-refls-in-stream", 0, &iargs.stream_refls, 0},
@@ -268,7 +264,6 @@ int main(int argc, char *argv[])
/* Long-only options which don't actually do anything */
{"no-sat-corr", 0, &iargs.satcorr, 0},
{"sat-corr", 0, &iargs.satcorr, 1},
- {"no-closer-peak", 0, &iargs.closer, 0},
{"no-check-hdf5-snr", 0, &iargs.check_hdf5_snr, 0},
{"use-saturated", 0, &iargs.use_saturated, 1},
diff --git a/src/process_image.h b/src/process_image.h
index 7fedc51b..b8ded1ed 100644
--- a/src/process_image.h
+++ b/src/process_image.h
@@ -51,7 +51,6 @@ struct index_args
int noisefilter;
int median_filter;
int satcorr;
- int closer;
float threshold;
float min_gradient;
float min_snr;