diff --git a/_modules/index.html b/_modules/index.html
index 419d744..f41a897 100644
--- a/_modules/index.html
+++ b/_modules/index.html
@@ -6,10 +6,10 @@
Overview: module code — laue-dials
-
+
-
+
@@ -18,8 +18,9 @@
+
+
-
@@ -104,11 +105,11 @@ Quick search
diff --git a/_modules/laue_dials/algorithms/diffgeo.html b/_modules/laue_dials/algorithms/diffgeo.html
index 98ba841..3e03b4c 100644
--- a/_modules/laue_dials/algorithms/diffgeo.html
+++ b/_modules/laue_dials/algorithms/diffgeo.html
@@ -6,10 +6,10 @@
laue_dials.algorithms.diffgeo — laue-dials
-
+
-
+
@@ -18,8 +18,9 @@
+
+
-
@@ -327,11 +328,11 @@ Quick search
diff --git a/_modules/laue_dials/algorithms/integration.html b/_modules/laue_dials/algorithms/integration.html
index 3838f87..d14b700 100644
--- a/_modules/laue_dials/algorithms/integration.html
+++ b/_modules/laue_dials/algorithms/integration.html
@@ -6,10 +6,10 @@
laue_dials.algorithms.integration — laue-dials
-
+
-
+
@@ -18,8 +18,9 @@
+
+
-
@@ -472,11 +473,11 @@ Quick search
diff --git a/_modules/laue_dials/algorithms/laue.html b/_modules/laue_dials/algorithms/laue.html
index 302c927..2df8352 100644
--- a/_modules/laue_dials/algorithms/laue.html
+++ b/_modules/laue_dials/algorithms/laue.html
@@ -6,10 +6,10 @@
laue_dials.algorithms.laue — laue-dials
-
+
-
+
@@ -18,8 +18,9 @@
+
+
-
@@ -128,8 +129,9 @@ Source code for laue_dials.algorithms.laue
# Imports
from copy import deepcopy
- from dials.algorithms.refinement.prediction.managed_predictors import \
- ExperimentsPredictorFactory
+ from dials.algorithms.refinement.prediction.managed_predictors import (
+ ExperimentsPredictorFactory,
+ )
# Instantiate new ExperimentList/reflection_table
new_expts = ExperimentList()
@@ -594,11 +596,11 @@ Quick search
Quick search
diff --git a/_modules/laue_dials/algorithms/outliers.html b/_modules/laue_dials/algorithms/outliers.html
index cc17040..7df2981 100644
--- a/_modules/laue_dials/algorithms/outliers.html
+++ b/_modules/laue_dials/algorithms/outliers.html
@@ -6,10 +6,10 @@
laue_dials.algorithms.outliers — laue-dials
-
+
-
+
@@ -18,8 +18,9 @@
+
+
-
@@ -136,11 +137,11 @@ Quick search
diff --git a/_modules/laue_dials/command_line/compute_rmsds.html b/_modules/laue_dials/command_line/compute_rmsds.html
index caf073c..bbca867 100644
--- a/_modules/laue_dials/command_line/compute_rmsds.html
+++ b/_modules/laue_dials/command_line/compute_rmsds.html
@@ -6,10 +6,10 @@
laue_dials.command_line.compute_rmsds — laue-dials
-
+
-
+
@@ -18,8 +18,9 @@
+
+
-
@@ -47,8 +48,7 @@ Source code for laue_dials.command_line.compute_rmsds
import
reciprocalspaceship as rs
from cctbx import sgtbx
from dials.util import show_mail_handle_errors
-
from dials.util.options import (ArgumentParser,
-
reflections_and_experiments_from_files)
+
from dials.util.options import ArgumentParser, reflections_and_experiments_from_files
from matplotlib import pyplot as plt
from laue_dials.utils.version import laue_version
@@ -215,6 +215,7 @@
Source code for laue_dials.command_line.compute_rmsds
resid_data
= pd.DataFrame({"Image": images, "RMSD (px)": rmsds})
+
pd.set_option("display.max_rows", None)
logger.info(f"RMSDs per image: \n{resid_data}")
# Get pixel size (assume square)
@@ -296,11 +297,11 @@
Quick search
diff --git a/_modules/laue_dials/command_line/find_spots.html b/_modules/laue_dials/command_line/find_spots.html
index 57ef435..ff47b5c 100644
--- a/_modules/laue_dials/command_line/find_spots.html
+++ b/_modules/laue_dials/command_line/find_spots.html
@@ -6,10 +6,10 @@
laue_dials.command_line.find_spots — laue-dials
-
+
-
+
@@ -18,8 +18,9 @@
+
+
-
@@ -247,11 +248,11 @@
Quick search
Source code for laue_dials.command_line.index
import libtbx.phil
from dials.util import show_mail_handle_errors
-from dials.util.options import (ArgumentParser,
- reflections_and_experiments_from_files)
+from dials.util.options import ArgumentParser, reflections_and_experiments_from_files
-from laue_dials.algorithms.monochromatic import (initial_index,
- scan_varying_refine)
+from laue_dials.algorithms.monochromatic import initial_index, scan_varying_refine
from laue_dials.utils.version import laue_version
# Print laue-dials + DIALS versions
@@ -411,11 +410,11 @@ Quick search
diff --git a/_modules/laue_dials/command_line/integrate.html b/_modules/laue_dials/command_line/integrate.html
index f186873..5ab1e0a 100644
--- a/_modules/laue_dials/command_line/integrate.html
+++ b/_modules/laue_dials/command_line/integrate.html
@@ -6,10 +6,10 @@
laue_dials.command_line.integrate — laue-dials
-
+
-
+
@@ -18,8 +18,9 @@
+
+
-
@@ -51,8 +52,7 @@ Source code for laue_dials.command_line.integrate
from
cctbx import sgtbx
from dials.array_family import flex
from dials.util import show_mail_handle_errors
-
from dials.util.options import (ArgumentParser,
-
reflections_and_experiments_from_files)
+
from dials.util.options import ArgumentParser, reflections_and_experiments_from_files
from laue_dials.algorithms.integration import SegmentedImage
from laue_dials.utils.version import laue_version
@@ -375,11 +375,11 @@
Quick search
Source code for laue_dials.command_line.optimize_indexing
from
dials.array_family import flex
from dials.array_family.flex import reflection_table
from dials.util import show_mail_handle_errors
-
from dials.util.options import (ArgumentParser,
-
reflections_and_experiments_from_files)
+
from dials.util.options import ArgumentParser, reflections_and_experiments_from_files
from dxtbx.model import ExperimentList
from laue_dials.utils.version import laue_version
@@ -480,11 +480,11 @@
Quick search
Source code for laue_dials.command_line.plot_wavelengths
import
libtbx.phil
from dials.util import show_mail_handle_errors
-
from dials.util.options import (ArgumentParser,
-
reflections_and_experiments_from_files)
+
from dials.util.options import ArgumentParser, reflections_and_experiments_from_files
from matplotlib import pyplot as plt
from laue_dials.utils.version import laue_version
@@ -283,11 +283,11 @@
Quick search
Source code for laue_dials.command_line.predict
<
from dials.array_family import flex
from dials.array_family.flex import reflection_table
from dials.util import show_mail_handle_errors
-
from dials.util.options import (ArgumentParser,
-
reflections_and_experiments_from_files)
+
from dials.util.options import ArgumentParser, reflections_and_experiments_from_files
from dxtbx.model import ExperimentList
from laue_dials.algorithms.outliers import gen_kde
@@ -496,11 +496,11 @@
Quick search
Source code for laue_dials.command_line.refine
from dxtbx.model import ExperimentList
from dxtbx.model.experiment_list import ExperimentListFactory
-from laue_dials.algorithms.laue import (gen_beam_models, remove_beam_models,
- store_wavelengths)
+from laue_dials.algorithms.laue import (
+ gen_beam_models,
+ remove_beam_models,
+ store_wavelengths,
+)
from laue_dials.utils.version import laue_version
# Print laue-dials + DIALS versions
@@ -365,11 +369,11 @@
Quick search
Source code for laue_dials.command_line.sequence_to_stills
from
dials.array_family import flex
from dials.array_family.flex import reflection_table
from dials.util import show_mail_handle_errors
-
from dials.util.options import (ArgumentParser,
-
reflections_and_experiments_from_files)
+
from dials.util.options import ArgumentParser, reflections_and_experiments_from_files
from dxtbx.model import MosaicCrystalSauter2014
from dxtbx.model.experiment_list import Experiment, ExperimentList
from libtbx.phil import parse
@@ -354,11 +354,11 @@
Quick search
Quick search
diff --git a/_static/alabaster.css b/_static/alabaster.css
index f98defb..b954dc6 100644
--- a/_static/alabaster.css
+++ b/_static/alabaster.css
@@ -69,6 +69,11 @@ div.relations {
}
+div.sphinxsidebar {
+ max-height: 100%;
+ overflow-y: auto;
+}
+
div.sphinxsidebar a {
color: #444;
text-decoration: none;
@@ -155,6 +160,14 @@ div.sphinxsidebar input {
font-size: 1em;
}
+div.sphinxsidebar #searchbox input[type="text"] {
+ width: 160px;
+}
+
+div.sphinxsidebar .search > div {
+ display: table-cell;
+}
+
div.sphinxsidebar hr {
border: none;
height: 1px;
@@ -638,15 +651,7 @@ a:hover tt, a:hover code {
display: none!important;
}
-/* Make nested-list/multi-paragraph items look better in Releases changelog
- * pages. Without this, docutils' magical list fuckery causes inconsistent
- * formatting between different release sub-lists.
- */
-div#changelog > div.section > ul > li > p:only-child {
- margin-bottom: 0;
-}
-
-/* Hide fugly table cell borders in ..bibliography:: directive output */
+/* Hide ugly table cell borders in ..bibliography:: directive output */
table.docutils.citation, table.docutils.citation td, table.docutils.citation th {
border: none;
/* Below needed in some edge cases; if not applied, bottom shadows appear */
diff --git a/_static/basic.css b/_static/basic.css
index 30fee9d..4157edf 100644
--- a/_static/basic.css
+++ b/_static/basic.css
@@ -222,7 +222,7 @@ table.modindextable td {
/* -- general body styles --------------------------------------------------- */
div.body {
- min-width: 360px;
+ min-width: inherit;
max-width: 800px;
}
diff --git a/_static/documentation_options.js b/_static/documentation_options.js
index 213acb3..cdcb7c1 100644
--- a/_static/documentation_options.js
+++ b/_static/documentation_options.js
@@ -1,5 +1,5 @@
const DOCUMENTATION_OPTIONS = {
- VERSION: '0.1.dev1+g1256728',
+ VERSION: '0.1.dev1+g969469f',
LANGUAGE: 'en',
COLLAPSE_INDEX: false,
BUILDER: 'html',
diff --git a/api/laue_dials.algorithms.html b/api/laue_dials.algorithms.html
index 8d6142e..d6a695d 100644
--- a/api/laue_dials.algorithms.html
+++ b/api/laue_dials.algorithms.html
@@ -7,10 +7,10 @@
laue_dials.algorithms namespace — laue-dials
-
+
-
+
@@ -21,8 +21,9 @@
+
+
-
@@ -831,11 +832,11 @@ Quick search
diff --git a/index.html b/index.html
index 0aa8cb5..5d42c9f 100644
--- a/index.html
+++ b/index.html
@@ -7,10 +7,10 @@
laue-dials — laue-dials
-
+
-
+
@@ -20,8 +20,9 @@
+
+
-
@@ -181,11 +182,11 @@ Quick search
diff --git a/search.html b/search.html
index adeba07..8127fd5 100644
--- a/search.html
+++ b/search.html
@@ -6,11 +6,11 @@
Search — laue-dials
-
+
-
+
@@ -23,8 +23,9 @@
+
+
-
@@ -113,11 +114,11 @@ Related Topics