diff options
| -rw-r--r-- | doc/stream-format.txt | 15 | ||||
| -rw-r--r-- | libcrystfel/src/peaks.c | 2 |
2 files changed, 16 insertions, 1 deletions
diff --git a/doc/stream-format.txt b/doc/stream-format.txt new file mode 100644 index 00000000..b74d50c1 --- /dev/null +++ b/doc/stream-format.txt @@ -0,0 +1,15 @@ +CrystFEL stream format +---------------------- + +num_peaks: The number of peaks accepted for indexing. If you used + "--use-saturated", this includes the saturated peaks which are also counted by + num_saturated_peaks. If you didn't, then it doesn't. + +num_saturated_peaks: The number of saturated peaks, regardless of whether or not + they were used for indexing (see --use-saturated). + +num_saturated_reflections: The number of saturated reflections, regardless of + whether or not they were included in the reflection list + (see --integrate-saturated). Reflections which could not be integrated for + some other reason, e.g. because they were close to a panel edge or hit a bad + region, are NOT included in this count. diff --git a/libcrystfel/src/peaks.c b/libcrystfel/src/peaks.c index 6b2d2b97..4b8a8ee8 100644 --- a/libcrystfel/src/peaks.c +++ b/libcrystfel/src/peaks.c @@ -799,7 +799,7 @@ static void integrate_crystal(Crystal *cr, struct image *image, int use_closer, &intensity, &sigma, ir_inn, ir_mid, ir_out, bgMasks[pnum], &saturated); - if ( saturated ) { + if ( !r && saturated ) { n_saturated++; if ( !integrate_saturated ) r = 1; } |