diff options
Diffstat (limited to 'doc')
-rw-r--r-- | doc/man/indexamajig.1 | 2 | ||||
-rw-r--r-- | doc/reference/libcrystfel/CrystFEL-sections.txt | 12 |
2 files changed, 11 insertions, 3 deletions
diff --git a/doc/man/indexamajig.1 b/doc/man/indexamajig.1 index 51c44ded..0dd31e3e 100644 --- a/doc/man/indexamajig.1 +++ b/doc/man/indexamajig.1 @@ -321,7 +321,7 @@ Do not record integrated reflections in the stream. The resulting output won't .PD 0 .IP \fB--int-diag=\fIcondition\fR .PD -Show detailed information about reflection integration when \fIcondition\fR is met. The \fIcondition\fR can be \fBall\fR, \fBnone\fR, a set of Miller indices separated by commas, \fBrandom\fR, \fBimplausible\fR or \fBnegative\fR. \fBrandom\fR means to show information about a random 1% of the peaks. \fBnegative\fR means to show peaks with intensities which are negative by more than 3 sigma. \fBimplausible\fR means to show peaks with intensities which are negative by more than 5 sigma. The default is \fB--int-diag=none\fR. +Show detailed information about reflection integration when \fIcondition\fR is met. The \fIcondition\fR can be \fBall\fR, \fBnone\fR, a set of Miller indices separated by commas, \fBrandom\fR, \fBimplausible\fR or \fBnegative\fR. \fBrandom\fR means to show information about a random 1% of the peaks. \fBnegative\fR means to show peaks with intensities which are negative by more than 3 sigma. \fBimplausible\fR means to show peaks with intensities which are negative by more than 5 sigma. \fBstrong\fR means to show peaks with intensities which are positive by more than 3 sigma The default is \fB--int-diag=none\fR. .PD 0 .IP \fB--push-res=\fIn\fR diff --git a/doc/reference/libcrystfel/CrystFEL-sections.txt b/doc/reference/libcrystfel/CrystFEL-sections.txt index 035ab935..6d966a68 100644 --- a/doc/reference/libcrystfel/CrystFEL-sections.txt +++ b/doc/reference/libcrystfel/CrystFEL-sections.txt @@ -80,7 +80,6 @@ max_intensity UnitCell LatticeType UnitCellTransformation -rvec <SUBSECTION> cell_new cell_new_from_cell @@ -173,6 +172,9 @@ ph_lambda_to_eV random_flat flat_noise show_matrix +likely +unlikely +UNUSED </SECTION> <SECTION> @@ -299,6 +301,7 @@ free_symopmask describe_symmetry symmetry_name set_symmetry_name +get_matrix_name is_centrosymmetric is_centric </SECTION> @@ -347,6 +350,7 @@ twod_mapping reverse_2d_mapping largest_q in_bad_region +mark_resolution_range_as_bad </SECTION> <SECTION> @@ -426,7 +430,6 @@ LORENTZ_SCALE <FILE>peaks</FILE> peak_sanity_check search_peaks -integrate_peak make_BgMask validate_peaks </SECTION> @@ -453,6 +456,7 @@ IntDiag integrate_all integrate_all_2 integrate_all_3 +integrate_all_4 integration_method </SECTION> @@ -468,9 +472,12 @@ PEAK_LIST_END_MARKER PEAK_LIST_START_MARKER REFLECTION_END_MARKER REFLECTION_START_MARKER +GEOM_END_MARKER +GEOM_START_MARKER open_stream_fd_for_write open_stream_for_read open_stream_for_write +open_stream_for_write_2 get_stream_fd close_stream read_chunk @@ -479,4 +486,5 @@ write_chunk rewind_stream is_stream write_command +write_geometry_file </SECTION> |