diff options
| -rw-r--r-- | src/indexamajig.c | 10 |
1 files changed, 8 insertions, 2 deletions
diff --git a/src/indexamajig.c b/src/indexamajig.c index a89ecc5e..57d599b5 100644 --- a/src/indexamajig.c +++ b/src/indexamajig.c @@ -145,6 +145,8 @@ static void show_help(const char *s) " --integrate-found Skip the spot prediction step, and just integrate\n" " the intensities of the spots found by the initial\n" " peak search.\n" +" --no-peaks-in-stream Do not record peak search results in the stream.\n" +" --no-refls-in-stream Do not record integrated reflections in the stream.\n" ); } @@ -199,6 +201,8 @@ int main(int argc, char *argv[]) int use_saturated = 0; int no_revalidate = 0; int integrate_found = 0; + int config_nopeaks = 0; + int config_norefls = 0; /* For ease of upgrading from old method */ char *scellr = NULL; @@ -249,6 +253,8 @@ int main(int argc, char *argv[]) {"min-integration-snr",1, NULL, 12}, {"tolerance", 1, NULL, 13}, {"int-radius", 1, NULL, 14}, + {"no-peaks-in-stream", 1, &config_nopeaks, 1}, + {"no-refls-in-stream", 1, &config_norefls, 1}, /* FIXME: Add '--no-peaks' and '--no-reflections' */ @@ -574,8 +580,8 @@ int main(int argc, char *argv[]) iargs.integrate_saturated = integrate_saturated; iargs.no_revalidate = no_revalidate; iargs.integrate_found = integrate_found; - iargs.include_peaks = 1; - iargs.include_reflections = 1; /* FIXME! */ + iargs.include_peaks = !config_nopeaks; + iargs.include_reflections = !config_norefls; create_sandbox(&iargs, n_proc, prefix, config_basename, fh, use_this_one_instead, ofh, argc, argv); |