From 7c0a1228c1254db06e0f5956cdc9691e86033cda Mon Sep 17 00:00:00 2001 From: Thomas White Date: Fri, 20 Apr 2018 11:27:07 +0200 Subject: Restore peak alignment check and unset multi-lattice indexing as default Unfortunately, they seem to be severely reducing data quality. Partially reverts 60c48f3876b0d3c30bf729ce691dbd3f56665c4c --- src/indexamajig.c | 13 ++++++++----- 1 file changed, 8 insertions(+), 5 deletions(-) (limited to 'src/indexamajig.c') diff --git a/src/indexamajig.c b/src/indexamajig.c index a6651497..3cfe2c6e 100644 --- a/src/indexamajig.c +++ b/src/indexamajig.c @@ -124,11 +124,11 @@ static void show_help(const char *s) " --no-check-cell Don't check lattice parameters against input cell\n" " --no-cell-combinations\n" " Don't use axis combinations when checking cell\n" -" --no-multi Don't repeat indexing to index multiple hits\n" +" --multi Repeat indexing to index multiple hits\n" " --no-retry Don't repeat indexing to increase indexing rate\n" " --no-refine Skip the prediction refinement step\n" -" --check-peaks Check that most of the peaks can be accounted for\n" -" by the indexing solution\n" +" --no-check-peaks Don't check that most of the peaks can be accounted\n" +" for by the indexing solution\n" "\n" " --taketwo-member-threshold\n" " Minimum number of members in network\n" @@ -239,8 +239,8 @@ int main(int argc, char *argv[]) int if_refine = 1; int if_nocomb = 0; int if_nocheck = 0; - int if_peaks = 0; - int if_multi = 1; + int if_peaks = 1; + int if_multi = 0; int if_retry = 1; int serial_start = 1; @@ -343,8 +343,11 @@ int main(int argc, char *argv[]) {"no-check-cell", 0, &if_nocheck, 1}, {"no-cell-check", 0, &if_nocheck, 1}, {"check-peaks", 0, &if_peaks, 1}, + {"no-check-peaks", 0, &if_peaks, 0}, {"no-retry", 0, &if_retry, 0}, + {"retry", 0, &if_retry, 1}, {"no-multi", 0, &if_multi, 0}, + {"multi", 0, &if_multi, 1}, {"overpredict", 0, &iargs.overpredict, 1}, /* Long-only options which don't actually do anything */ -- cgit v1.2.3