DOC: Spelling corrections

CMake/ITKSetStandardCompilerFlags.cmake

@@ -88,7 +88,7 @@ function(check_compiler_warning_flags c_warning_flags_var cxx_warning_flags_var)
       #-wd1419 #Needed for Intel compilers with remark  #1419: external declaration in primary source file
       #-wd1572 #Needed for Intel compilers with remark  #1572: floating-point equality and inequality comparisons are unreliable
       #-wd2259 #Needed for Intel compilers with remark  #2259: non-pointer conversion from "itk::SizeValueType={unsigned long}" to "double" may lose significant bits
-      #-wd1268 #Needed for Intel compliers with warning #1268: support for exported templates is disabled
+      #-wd1268 #Needed for Intel compilers with warning #1268: support for exported templates is disabled
     else()
       set(VerboseWarningsFlag -Wall )
     endif ()
@@ -209,7 +209,7 @@ macro(check_compiler_platform_flags)
        if("${${listname}}" MATCHES ".*-fopenmp.*")
          string(REPLACE "-fopenmp" "" tmpFlags "${${listname}}")
          set(${listname} "${tmpFlags}")
-         message("-fopenmp causes incorrect compliation of HDF, removing from ${listname}")
+         message("-fopenmp causes incorrect compilation of HDF, removing from ${listname}")
        endif()
      endforeach()
 

CMake/ITKSoftwareGuideExternalData.cmake

@@ -2,7 +2,7 @@ get_filename_component(_ITKExternalData_DIR "${CMAKE_CURRENT_LIST_FILE}" PATH)
 include(${_ITKExternalData_DIR}/ExternalData.cmake)
 
 ## The user can specify an environmental variable for shared locations of
-## of object files to prevent continous downloading of common objects.
+## of object files to prevent continuous downloading of common objects.
 if(NOT ExternalData_OBJECT_STORES)
   # Use ExternalData_OBJECT_STORES from environment as default.
   set(ExternalData_OBJECT_STORES_DEFAULT "")

CMake/PreventInBuildInstalls.cmake

@@ -1,4 +1,4 @@
-# Adapated from ITKv4/CMake/PreventInBuildInstalls.cmake
+# Adapted from ITKv4/CMake/PreventInBuildInstalls.cmake
 string(TOLOWER "${CMAKE_INSTALL_PREFIX}" _PREFIX)
 string(TOLOWER "${${CMAKE_PROJECT_NAME}_BINARY_DIR}" _BUILD)
 if("${_PREFIX}" STREQUAL "${_BUILD}")

CMake/PreventInSourceBuilds.cmake

@@ -1,4 +1,4 @@
-# Adapated from ITKv4/CMake/PreventInSourceBuilds.cmake
+# Adapted from ITKv4/CMake/PreventInSourceBuilds.cmake
 #
 # This function will prevent in-source builds
 function(AssureOutOfSourceBuilds PROJECT_NAME)

CMake/SlicerMacroCheckExternalProjectDependency.cmake

@@ -31,7 +31,7 @@ endmacro()
 macro(ProjectDependancyPop CACHE_LIST TVAR)
   list(GET ${CACHE_LIST} -1 ${TVAR})
   list(REMOVE_AT ${CACHE_LIST} -1)
-  #message(STATUS "POPING ${${TVAR}} from ${CACHE_LIST}:  --> ${${CACHE_LIST}}")
+  #message(STATUS "POPPING ${${TVAR}} from ${CACHE_LIST}:  --> ${${CACHE_LIST}}")
 endmacro()
 
 macro(SlicerMacroCheckExternalProjectDependency proj)

CMakeLists.txt

@@ -6,7 +6,7 @@ set(PRIMARY_PROJECT_NAME ITKSoftwareGuide)
 
 ## NOTE THERE SHOULD BE NO PROJECT STATEMENT HERE!
 ## This file acts as a simple switch to initiate
-## two completely independant CMake build environments.
+## two completely independent CMake build environments.
 
 #-----------------------------------------------------------------------------
 # Superbuild Option - Enabled by default

CONTRIBUTING.md

@@ -49,7 +49,7 @@ description for the patch. Type a more detailed description of the patch after
 a blank line.
 
 Submit the patch for peer review by running the `git review-push` command.
-This will provide a summary message that inclues a URL to view the changes. If
+This will provide a summary message that includes a URL to view the changes. If
 you are logged into [GitHub], there will also be a green button to create a
 [Pull Request].
 

Common.cmake

@@ -84,7 +84,7 @@ else() # Release, or anything else
 endif()
 
 #-----------------------------------------------------------------------------
-# Add needed flag for gnu on linux like enviroments to build static common libs
+# Add needed flag for gnu on linux like environments to build static common libs
 # suitable for linking with shared object libs.
 if(CMAKE_SYSTEM_PROCESSOR STREQUAL "x86_64")
   if(NOT "${CMAKE_CXX_FLAGS}" MATCHES "-fPIC")

Latex/Insight.bib

@@ -298,9 +298,9 @@ @Book{Beaumont1987
 
 @Book{Berestovskij1993,
   Author         = "V. N. Berestovskij and I. G. Nikilaev",
-  Title          = "Multidimensional Generalised Riemannian Spaces",
+  Title          = "Multidimensional Generalized Riemannian Spaces",
   Publisher      = "Springer Verlag",
-  Series         = "Enciclopaedia of Mathematical Sciences",
+  Series         = "Encyclopaedia of Mathematical Sciences",
   year           = 1993,
 }
 
@@ -604,7 +604,7 @@ @Article{Chan2001
 @Book{CPPStandard1998,
   Author         = "ANSI-ISO",
   Title          = "Programming Languages - C++",
-  Publisher      = "American National Standards Institue",
+  Publisher      = "American National Standards Institute",
   year           = 1998,
 }
 
@@ -823,7 +823,7 @@ @TechReport{Deriche1993
                    Derivatives ",
   Institution    = "Unite de recherche INRIA Sophia-Antipolis",
   Number         = "1893",
-  Note           = "Research Repport",
+  Note           = "Research Report",
   annote         = "https://www.inria.fr",
   year           = 1993,
   month          = "avril",
@@ -923,7 +923,7 @@ @InProceedings{Duta1999
 
 @Article{RimonBurdick2,
   Author         = "Rimon E. and Burdick J.W.",
-  Title          = "Mobility of Bodies in Contact - Part 2: How Froces are
+  Title          = "Mobility of Bodies in Contact - Part 2: How Forces are
                    Generated by Curvature Effects",
   Journal        = "IEEE Transactions on Robotics and Automation",
   Volume         = "15",
@@ -1037,7 +1037,7 @@ @Article{Farouki1995
 @InProceedings{Reveilles3D,
   Author         = "O. Figueiredo and J-P Reveilles",
   Title          = "A Contribution to 3D Digital Lines",
-  BookTitle      = "Procedings 5th Discrete Geometry and Computer Imagery",
+  BookTitle      = "Proceedings 5th Discrete Geometry and Computer Imagery",
   Pages          = "187-189",
   Address        = "Clermont-Ferrand",
   year           = 1995,
@@ -1130,7 +1130,7 @@ @Article{Fritsch1994
 @InProceedings{Fritsch1997,
   Author         = "D. Fritsch and S. Pizer and L. Yu and V. Johnson and
                    E. Chaney",
-  Title          = "Localisation and Segmentation of Medical Image Objects
+  Title          = "Segmentation of Medical Image Objects
                    using Deformable Shape Loci",
   BookTitle      = "Information Processing in Medical Imaging 1997
                    (IPMI'97)",
@@ -1501,7 +1501,7 @@ @Article{Hau2002
 
 @Article{Heath,
   Author         = "M. Heath and S. Sarkar and T. Sanoki and K. Bowyer",
-  Title          = "Comparision of Edge Detectors. A Methodology and
+  Title          = "Comparison of Edge Detectors. A Methodology and
                    Initial Study",
   Journal        = "Computer Vision and Image Understanding",
   Volume         = "69",
@@ -1772,7 +1772,7 @@ @InProceedings{Ib
 
 @Article{Ib'{a}~{n}ezLines,
   Author         = "L. Ib'{a}~{n}ez and C. Hamitouche and C. Roux",
-  Title          = "A Vectorial Algorithm for Tracing Discrete Straigh
+  Title          = "A Vectorial Algorithm for Tracing Discrete Straight
                    Lines in N-Dimensional Generalized Grids",
   Journal        = "IEEE Transactions on Visualization and Computer
                    Graphics",
@@ -1932,7 +1932,7 @@ @InProceedings{Jolly2003
 
 @Book{Kaandorp1994,
   Author         = "J.A. Kaandorp",
-  Title          = "Fractal Modelling. Growth and From in Bilogy",
+  Title          = "Fractal Modelling. Growth and Fxprom in Biology",
   Publisher      = "Springer Verlag",
   year           = 1994,
 }
@@ -1998,7 +1998,7 @@ @Article{Kaufman3DScan
 @InProceedings{Kaufman,
   Author         = "A. E. Kaufman",
   Title          = "Volume Synthesis",
-  BookTitle      = "Procedings 6th International Workshop Discrete
+  BookTitle      = "Proceedings 6th International Workshop Discrete
                    Geometry for Computer Imagery DGCI'96",
   Editor         = "Springer Verlag",
   Series         = "Lecture Notes in Computer Science",
@@ -3058,7 +3058,7 @@ @InProceedings{Pelleg1999
 @Article{Penney1998,
   Author         = "G. P. Penney and J. Weese and J. A. Little and P.
                    Desmedt and D. L. G. Hill and D. J. Hawkes",
-  Title          = "A comparision of similarity measures for use in 2D-3D
+  Title          = "A comparison of similarity measures for use in 2D-3D
                    Medical image registration",
   Journal        = "IEEE Transactions on Medical Imaging",
   Volume         = "17",
@@ -3279,7 +3279,7 @@ @Book{Reshetnyak1993
 
 @PhdThesis{ReveillesThese,
   Author         = "J-P. Reveilles",
-  Title          = "Geometrie discrete, calculs en nombres entiers et
+  Title          = "Geometrie discrete, calcul en nombres entiers et
                    algorithmique",
   School         = "Universite Louis Pasteur ",
   Address        = "Strasbourg",
@@ -3380,7 +3380,7 @@ @Book{Roman1992
 
 @InProceedings{Rosch2000,
   Author         = "P. Rosch and T. Netsch and M. Quist and G. P. Penney
-                   and D. L. G. Hill adn J. Weese",
+                   and D. L. G. Hill and J. Weese",
   Title          = "Robust 3D Deformation Field Estimation by Template
                    Propagation",
   BookTitle      = "International Conference on Medical Image Computing
@@ -3807,7 +3807,7 @@ @Article{Thirion1998
 
 @Book{Thom1977,
   Author         = "R. Thom",
-  Title          = "Stabilite Structurelle et Mofphogenese. Essai d'une
+  Title          = "Stabilite Structurelle et Morphogenese. Essai d'une
                    theorie generale des modeles",
   Publisher      = "InterEditions",
   Edition        = "Deuxieme",
@@ -3947,7 +3947,7 @@ @Article{Unsgaard2003
   Author         = "G. Unsgaard and S. Ommedal and T. Muller and A.
                    Gronningsaeter and T.A. Nagelhus Hernes",
   Title          = "Neuronavigation by intraoperative 3D ultrasound,
-                   initial experiences durin brain tumor resections.
+                   initial experiences during brain tumor resections.
                    Clinical study",
   Journal        = "Neurosurgery",
   year           = 2003,
@@ -4134,8 +4134,8 @@ @InProceedings{Weickert1996
 }
 
 @InCollection{Weinans,
-  Author         = "H. Weinans and D. Summer",
-  Title          = "Finite Element Analyes to Study Periprosthetic Bone
+  Author         = "H. Weinans and D. Sumner",
+  Title          = "Finite Element Analyses to Study Periprosthetic Bone
                    Adaptation",
   BookTitle      = "Bone Research in Biomechanics",
   Publisher      = "IOS Press",
@@ -4414,7 +4414,7 @@ @InProceedings{Yao2000
 @InProceedings{Yezzi1999,
   Author         = "A. Yezzi and A. Tsai and A. Willsky",
   Title          = "A statistical approach to snakes for bimodal and trimodal imagery",
-  BookTitle      = "Internation Conf. Computer Vision",
+  BookTitle      = "International Conf. Computer Vision",
   Volume         = 2,
   Pages          = "898-903",
   year           = 1999,
@@ -4506,7 +4506,7 @@ @Article{wolpert96
 @article{hornoptflow,
         AUTHOR = "D.K.P. Horn and B.G. Schunck",
         TITLE = "Determining Optical Flow",
-        JOURNAL = "Artifical Intelligence",
+        JOURNAL = "Artificial Intelligence",
         VOLUME = "17",
         YEAR = "1981",
         NUMBER = "1-3",
@@ -4519,7 +4519,7 @@ @incollection{ mumford-bayesian
   booktitle = "Geometry-driven diffusion in Computer Vision",
   pages = {141--153},
   publisher="Kluwer Academic",
-  editer = "B. Romeny",
+  editor = "B. Romeny",
   year = 1994}
 
 
@@ -4827,7 +4827,7 @@ @TechReport{DICOMStandard
   Title          = "The DICOM Standard",
   Institution    = "NEMA",
   Address        = "http://medial.nema.org/",
-  Publisher      = "National Electical Manufacturers Association",
+  Publisher      = "National Electrical Manufacturers Association",
   Year           = 2013
 }
 

Latex/Insight.sty

@@ -1,5 +1,5 @@
 %
-% Insight.sty for the Insight docummentation  [works only with with Latex2e]
+% Insight.sty for the Insight documentation  [works only with with Latex2e]
 %
 
 \NeedsTeXFormat{LaTeX2e}[1995/12/01]

README.md

@@ -47,7 +47,7 @@ For more detailed instructions, see the [CONTRIBUTING.md](CONTRIBUTING.md) file.
 Building with Docker
 --------------------
 
-All the dependencies described belowe are available pre-installed in a [Docker]
+All the dependencies described below are available pre-installed in a [Docker]
 image. This is the easiest way to build and contribute to The Software
 Guide.
 

SoftwareGuide/Art/CMakeLists.txt

@@ -15,11 +15,11 @@ if(NOT IMAGEMAGICK_CONVERT_EXECUTABLE)
 endif()
 # Convert an image from some file format to EPS for inclusion in Latex using
 # ImageMagick. This image is an input image. A separate macro is necessary
-# because input images do not have any dependecies
+# because input images do not have any dependencies
 set(EPS_INPUT_CONVERT_FLAGS)
 set(EPS_OUTPUT_CONVERT_FLAGS)
 if( PDF_QUALITY_LEVEL STREQUAL "Printer" )
-  # Upsample to satify the printer
+  # Upsample to satisfy the printer
   set( EPS_INPUT_CONVERT_FLAGS -density 72 )
   set( EPS_OUTPUT_CONVERT_FLAGS -density 72 -scale 4194304@ )
 endif()

SoftwareGuide/CMakeLists.txt

@@ -13,7 +13,7 @@
 # directory containing the Insight executables. Specify ITK data paths.
 # The default data path inferred is ITK/Examples/Data. This should suffice
 # for building the SoftwareGuide. Should more paths be need add them in a colon
-# seperated list.
+# separated list.
 #
 # Make
 #

SoftwareGuide/Examples/CMakeLists.txt

@@ -250,11 +250,11 @@ set(ITK_FLIP_IMG
 # END FLIP_INPUTS LIST
 # Convert an image from some file format to EPS for inclusion in Latex using
 # ImageMagick. This image is an input image. A separate macro is necessary
-# because input images do not have any dependecies
+# because input images do not have any dependencies
 set(EPS_INPUT_CONVERT_FLAGS)
 set(EPS_OUTPUT_CONVERT_FLAGS)
 if( \"${PDF_QUALITY_LEVEL}\" STREQUAL \"Printer\" )
-  # Upsample to satify the printer
+  # Upsample to satisfy the printer
   set( EPS_INPUT_CONVERT_FLAGS -density 72 )
   set( EPS_OUTPUT_CONVERT_FLAGS -density 72 -scale 4194304@ )
 endif()

SoftwareGuide/Examples/ParseCxxExamples.py

@@ -124,8 +124,8 @@ def ParseOneFile(sourceFile):
 
 
 def GetPreambleString(examplefilename):
-    # The following message is a warning writen on the generated .tex
-    # files for preventing them from being manualy edited.
+    # The following message is a warning written on the generated .tex
+    # files for preventing them from being manually edited.
     preamble = f"""
 % Please do NOT edit this file.
 % It has been automatically generated

SoftwareGuide/Examples/RunExamples.py

@@ -94,7 +94,7 @@ def AreOutputsNewer(self):
             if os.path.exists(o):
                 this_output_time = os.path.getmtime(o)
                 if self.verbose:
-                    print(f"This Ouptut Time: {this_output_time}")
+                    print(f"This Output Time: {this_output_time}")
                 if this_output_time < oldest_output:
                     oldest_output = this_output_time
             else:
@@ -285,7 +285,7 @@ def __init__(self, itkSourceDir, itkExecutablesDir, itkBuildDir, SWGuidBaseOutpu
         self.outPicDir = self.outPicDir.rstrip("/")
         mkdir_p(self.outPicDir)
 
-        # HACK:  Need beter search criteria
+        # HACK:  Need better search criteria
         searchPaths = f"{itkBuildDir}/ExternalData/Testing/Data/Input#{itkBuildDir}/ExternalData/Examples/Data/BrainWeb#{itkBuildDir}/Testing/Temporary#{itkBuildDir}/Modules/Nonunit/Review/test#{itkBuildDir}/ExternalData/Modules/Segmentation/LevelSetsv4/test/Baseline#{itkBuildDir}/ExternalData/Modules/IO/GE/test/Baseline#{itkBuildDir}/ExternalData/Examples/Filtering/test/Baseline#{itkBuildDir}/Examples/Segmentation/test#{SWGuidBaseOutput}/Art/Generated#{itkSourceDir}/Examples/Data"
         dirtyDirPaths = searchPaths.split("#")
 

SoftwareGuide/LaTeXWrapper.sh.in

@@ -3,6 +3,6 @@
 TEXINPUTS=$TEXINPUTS:${ITK_TEXINPUTS}
 export TEXINPUTS
 
-# NOTE: Run 3 times just to get all dependancies resolved. 
+# NOTE: Run 3 times just to get all dependencies resolved. 
 ${LATEX_COMPILER} -shell-escape "$@"
 

SoftwareGuide/Latex/Appendices/GitWorkflow.tex

@@ -3058,7 +3058,7 @@ \subsubsection{Local}
 One of Git's standard whitespace checks is to reject trailing whitespace on
 lines that were added or modified. Many people consider extra space characters
 at the end of a line to be an unprofessional style (including Git's own
-developers), but some don ot care. Text editors typically have a mode to
+developers), but some don't care. Text editors typically have a mode to
 highlight trailing whitespace:
 
 \begin{itemize}

SoftwareGuide/Latex/DesignAndFunctionality/ConfidenceConnectedOnBrainWeb.tex

@@ -6,7 +6,7 @@ \subsubsection{Application of the Confidence Connected filter on the Brain Web D
 The previous code was used in this example replacing the image dimension by 3.
 Gradient Anistropic diffusion was applied to smooth the image. The filter used 2 iterations, a time step of 0.05 and a conductance value of 3. The smoothed volume was then segmented using the Confidence Connected approach. Five seed points were used at coordinate locations (118,85,92), (63,87,94), (63,157,90), (111,188,90), (111,50,88). The ConfidenceConnnected filter used the parameters, a neighborhood radius of 2, 5 iterations and an $f$ of 2.5 (the same as in the previous example). The results were then rendered using VolView.
 
-Figure \ref{fig:3DregionGrowingScreenshot1} shows the rendered volume. Figure \ref{fig:SlicesBrainWeb} shows an axial, saggital and a coronal slice of the volume.
+Figure \ref{fig:3DregionGrowingScreenshot1} shows the rendered volume. Figure \ref{fig:SlicesBrainWeb} shows an axial, sagittal and a coronal slice of the volume.
 
 \begin{figure}
 \centering

SoftwareGuide/Latex/DesignAndFunctionality/Optimizers.tex

@@ -124,7 +124,7 @@
 in N (initially orthogonal) directions. This optimizer is described
 in~\cite{Press1992}.  (\doxygen{PowellOptimizerv4}).
 
-\item \textbf{Exhausive Optimizer}: Fully samples a grid on the parameteric space.
+\item \textbf{Exhaustive Optimizer}: Fully samples a grid on the parametric space.
 This optimizer is equivalent to an exahaustive search in a discrete grid defined
 over the parametric space. The grid is centered on the initial position. The
 subdivisions of the grid along each one of the dimensions of the parametric space

SoftwareGuide/Latex/DesignAndFunctionality/Registration.tex

@@ -597,7 +597,7 @@ \subsection{General heuristics for parameter fine-tunning}
 
     Once you identify the anatomical structures in the
     histogram, then rerun that same program with less
-    and less number of bins, until you reach the minimun
+    and less number of bins, until you reach the minimum
     number of bins for which all the tissues that are important
     for your application, are still distinctly differentiated in the
     histogram.  At that point, take that number of bins and

SoftwareGuide/Latex/DesignAndFunctionality/Segmentation.tex

@@ -90,7 +90,7 @@ \section{Level Set Segmentation}
 \input{DesignAndFunctionality/LevelSetsSegmentation.tex}
 
 
-%HACK: TODO Review what happended to these.
+%HACK: TODO Review what happened to these.
 %REMOVED PATENTED: \section{Hybrid Methods}
 %REMOVED PATENTED: \label{sec:HybridSegmentationMethods}
 %REMOVED PATENTED: