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authorThomas White <taw@physics.org>2016-03-18 16:33:02 +0100
committerThomas White <taw@physics.org>2016-03-18 16:33:02 +0100
commit84d562f28c24f0e96bf0347b26af309901deab29 (patch)
treea1be13ab49fa32fb43aac16559ad10759aa8e5e8 /doc/reference
parente52d4a865e26fbb089371e2a2e3fe3ef69de26ce (diff)
Update docs
Diffstat (limited to 'doc/reference')
-rw-r--r--doc/reference/libcrystfel/CrystFEL-sections.txt22
1 files changed, 17 insertions, 5 deletions
diff --git a/doc/reference/libcrystfel/CrystFEL-sections.txt b/doc/reference/libcrystfel/CrystFEL-sections.txt
index f423ee82..57f508c4 100644
--- a/doc/reference/libcrystfel/CrystFEL-sections.txt
+++ b/doc/reference/libcrystfel/CrystFEL-sections.txt
@@ -139,6 +139,7 @@ str_lattice
forbidden_reflection
load_cell_from_pdb
load_cell_from_file
+write_cell
lattice_from_str
cell_get_volume
</SECTION>
@@ -227,6 +228,7 @@ image_get_feature
image_add_crystal
image_remove_feature
free_all_crystals
+remove_flagged_crystals
</SECTION>
<SECTION>
@@ -263,7 +265,9 @@ INDEXING_DEFAULTS_DIRAX
INDEXING_DEFAULTS_MOSFLM
INDEXING_DEFAULTS_XDS
INDEXING_DEFAULTS_ASDF
+INDEXING_DEFAULTS_FELIX
INDEXING_METHOD_MASK
+INDEXING_CONTROL_FLAGS
build_indexer_list
cleanup_indexing
prepare_indexing
@@ -281,6 +285,9 @@ xds_cleanup
asdf_prepare
run_asdf
asdf_cleanup
+felix_prepare
+felix_index
+felix_cleanup
</SECTION>
<SECTION>
@@ -364,6 +371,7 @@ largest_q
in_bad_region
mark_resolution_range_as_bad
find_orig_panel
+find_orig_panel_number
panel_is_in_rigid_group
rigid_group_is_in_collection
single_panel_data_source
@@ -491,6 +499,7 @@ peak_sanity_check
search_peaks
make_BgMask
validate_peaks
+sort_peaks
</SECTION>
<SECTION>
@@ -523,20 +532,23 @@ integration_method
<FILE>stream</FILE>
Stream
StreamReadFlags
-CHUNK_END_MARKER
CHUNK_START_MARKER
-CRYSTAL_END_MARKER
+CHUNK_END_MARKER
CRYSTAL_START_MARKER
-PEAK_LIST_END_MARKER
+CRYSTAL_END_MARKER
PEAK_LIST_START_MARKER
-REFLECTION_END_MARKER
+PEAK_LIST_END_MARKER
REFLECTION_START_MARKER
-GEOM_END_MARKER
+REFLECTION_END_MARKER
GEOM_START_MARKER
+GEOM_END_MARKER
+CELL_START_MARKER
+CELL_END_MARKER
open_stream_fd_for_write
open_stream_for_read
open_stream_for_write
open_stream_for_write_2
+open_stream_for_write_3
get_stream_fd
close_stream
read_chunk