Update website for GRAPE 4.9.1

PackageInfo.g

@@ -10,10 +10,10 @@ PackageName := "GRAPE",
 
 ##  See '?Extending: Version Numbers' in GAP help for an explanation
 ##  of valid version numbers.
-Version := "4.9.0",
+Version := "4.9.1",
 
 ##  Release date of the current version in dd/mm/yyyy format.
-Date := "09/12/2022",
+Date := "30/08/2024",
 
 ##  Machine readable license information (as an SPDX identifier)
 License := "Apache-2.0 AND GPL-2.0-or-later",
@@ -32,8 +32,6 @@ ArchiveURL      := Concatenation( ~.SourceRepository.URL,
 
 ArchiveFormats := ".tar.gz", 
 
-BinaryFiles := ["doc/manual.dvi","doc/manual.pdf","nauty2_8_6/nug28.pdf"],
-
 Persons := [
   rec(
     LastName := "Soicher",

README.md

@@ -1,5 +1,5 @@
 
-The GRAPE 4.9.0 Package for GAP
+The GRAPE 4.9.1 Package for GAP
 ===============================
 
 GRAPE is a GAP package for computing with graphs and groups, by 
@@ -8,7 +8,7 @@ Hulpke, Jerry James and Max Horn, and including Brendan McKay's nauty
 (Version 2.8.6) package.
 
 The GRAPE package and the source included with this distribution are
-copyright (C) Leonard Soicher 1992-2022, except for the following:
+copyright (C) Leonard Soicher 1992-2024, except for the following:
 
 - the nauty 2.8.6 package; see the copyright notice in the file
 nauty2_8_6/COPYRIGHT
@@ -26,7 +26,7 @@ Referencing GRAPE
 Please reference your use of the GRAPE package in a published work
 as follows:
 
-L.H. Soicher, The GRAPE package for GAP, Version 4.9.0, 2022,
+L.H. Soicher, The GRAPE package for GAP, Version 4.9.1, 2024,
 <https://gap-packages.github.io/grape>.
 
 Questions, remarks, suggestions, and issues
@@ -45,11 +45,24 @@ for Windows users of GAP. What follows is for Unix users of GRAPE.
 You do not need to download and unpack an archive for GRAPE
 unless you want to install the package separately from your main
 GAP installation or are installing an upgrade of GRAPE to an
-existing installation of GAP.  If you do need to download
-GRAPE, you can find the latest archive .tar.gz file for the 
-package at <https://gap-packages.github.io/grape>.
+existing installation of GAP. 
 
-Installation and testing instructions for the GRAPE package
-can be found in Chapter 1 of the GRAPE manual, available from
-<https://gap-packages.github.io/grape>.
+If you do need to download GRAPE, you can find the latest archive
+.tar.gz file for the package at <https://gap-packages.github.io/grape>.
+The archive file should be downloaded and unpacked in the `pkg`
+subdirectory of an appropriate GAP root directory.
+
+If your GRAPE installation does not already have a compiled binary of
+the nauty/dreadnaut programs included with GRAPE and you do not want
+to use an already installed version of nauty or bliss, you will need to
+perform compilation of the nauty/dreadnaut programs included with GRAPE,
+and to do this in a Unix environment, you should proceed as follows. After
+installing GAP, go to the GRAPE home directory (usually the directory
+`pkg/grape` of the GAP home directory), and run `./configure <path>`,
+where `path` is the path of the GAP home directory. So for example, if
+you install GRAPE in the `pkg` directory of the GAP home directory, run
+`./configure ../..` Then run `make` to complete the installation of GRAPE.
+
+Testing instructions for the GRAPE package can be found in Chapter 1 of
+the GRAPE manual, available from <https://gap-packages.github.io/grape>.
 

_data/package.yml

@@ -1,7 +1,7 @@
 name: GRAPE
-version: "4.9.0"
+version: "4.9.1"
 license: "Apache-2.0 AND GPL-2.0-or-later"
-date: 2022-12-09
+date: 2024-08-30
 description: |
     GRaph Algorithms using PErmutation groups
 
@@ -21,7 +21,7 @@ packageinfo: https://gap-packages.github.io/grape/PackageInfo.g
 
 downloads:
     - name: .tar.gz
-      url: https://github.com/gap-packages/grape/releases/download/v4.9.0/grape-4.9.0.tar.gz
+      url: https://github.com/gap-packages/grape/releases/download/v4.9.1/grape-4.9.1.tar.gz
 
 abstract: |
     <span class="pkgname">GRAPE</span> is a package for computing with graphs and groups, and is primarily designed for constructing and analysing graphs related to groups, finite geometries, and designs.
@@ -33,27 +33,27 @@ keywords: |
     graph, geometry, design.
 citeas: |
     <p class='BibEntry'>
-    [<span class='BibKey'>Soi22</span>]   <b class='BibAuthor'>Soicher, L. H.</b>,
+    [<span class='BibKey'>Soi24</span>]   <b class='BibAuthor'>Soicher, L. H.</b>,
      <i class='BibTitle'>GRAPE, GRaph Algorithms using PErmutation groups,
-             Version 4.9.0</i>
-     (<span class='BibYear'>2022</span>)<br />
-    (<span class='BibNote'>Refereed GAP package</span>),
+             Version 4.9.1</i>
+     (<span class='BibYear'>2024</span>)<br />
+    (<span class='BibNote'>GAP package</span>),
     <span class='BibHowpublished'><a href="https://gap-packages.github.io/grape">https://gap-packages.github.io/grape</a></span>.
     </p>
     
 
 bibtex: |
-    @misc{ GRAPE4.9.0,
+    @misc{ GRAPE,
       author =           {Soicher, L. H.},
       title =            {{GRAPE},  GRaph  Algorithms  using PErmutation groups,
-                          {V}ersion 4.9.0},
-      month =            {Dec},
-      year =             {2022},
-      note =             {Refereed GAP package},
+                          {V}ersion 4.9.1},
+      month =            {Aug},
+      year =             {2024},
+      note =             {GAP package},
       howpublished =     {\href           {https://gap-packages.github.io/grape}
-                          {\texttt{https://gap-packages.github.io/}\discretionary
+                          {\texttt{https://gap\texttt{\symbol{45}}packages.github.io/}\discretionary
                           {}{}{}\texttt{grape}}},
       keywords =         {graph; geometry; design},
-      printedkey =       {Soi22}
+      printedkey =       {Soi24}
     }
 

htm/CHAP001.htm

@@ -11,7 +11,7 @@ <H3>Sections</H3>
 <li> <A HREF="CHAP001.htm#SECT004">Examples of the use of GRAPE</a>
 </ol><p>
 <p>
-This manual describes the GRAPE (Version&nbsp;4.9.0) package for computing
+This manual describes the GRAPE (Version&nbsp;4.9.1) package for computing
 with graphs and groups.
 <p>
 GRAPE is primarily designed for the construction and analysis of
@@ -47,7 +47,7 @@ <H3>Sections</H3>
 If you use GRAPE in a published work, then please reference the
 package as follows:
 <p>
-L.H. Soicher, The GRAPE package for GAP, Version&nbsp;4.9.0, 2022,
+L.H. Soicher, The GRAPE package for GAP, Version&nbsp;4.9.1, 2024,
 <a href="https://gap-packages.github.io/grape">https://gap-packages.github.io/grape</a>.
 <p>
 For questions, remarks, suggestions, and issues, please use the issue
@@ -68,13 +68,13 @@ <h2><a name="SECT001">1.1 Installing the GRAPE Package</a></h2>
 You do not need to download and unpack an archive for GRAPE unless you
 want to install the package separately from your main <font face="Gill Sans,Helvetica,Arial">GAP</font> installation
 or are installing an upgrade of GRAPE to an existing installation
-of <font face="Gill Sans,Helvetica,Arial">GAP</font> (see the main <font face="Gill Sans,Helvetica,Arial">GAP</font> reference section <a href="https://www.gap-system.org/Manuals/doc/ref/chap76.html#X82473E4B8756C6CD">Installing a GAP Package</a>).  If you do need to download GRAPE, you can find the most
+of <font face="Gill Sans,Helvetica,Arial">GAP</font> (see the main <font face="Gill Sans,Helvetica,Arial">GAP</font> reference section <a href="https://docs.gap-system.org/doc/ref/chap76.html#X82473E4B8756C6CD">Installing a GAP Package</a>).  If you do need to download GRAPE, you can find the most
 recent <code>.tar.gz</code> archive at <a href="https://gap-packages.github.io/grape">https://gap-packages.github.io/grape</a>.
 The archive file should be downloaded and unpacked in the <code>pkg</code>
 subdirectory of an appropriate <font face="Gill Sans,Helvetica,Arial">GAP</font> root directory (see the main <font face="Gill Sans,Helvetica,Arial">GAP</font>
-reference section <a href="https://www.gap-system.org/Manuals/doc/ref/chap9.html#X7A4973627A5DB27D">GAP Root Directories</a>).
+reference section <a href="https://docs.gap-system.org/doc/ref/chap9.html#X7A4973627A5DB27D">GAP Root Directories</a>).
 <p>
-If your GRAPE installation does not include a pre-compiled binary of 
+If your GRAPE installation does not include a compiled binary of 
 the nauty/dreadnaut programs included with GRAPE and you do not want 
 to use an already installed version of nauty or bliss, you will 
 need to perform compilation of the nauty/dreadnaut programs included with
@@ -87,29 +87,19 @@ <h2><a name="SECT001">1.1 Installing the GRAPE Package</a></h2>
 <pre>
 ./configure ../..
 </pre>
-This will fetch the name of the architecture for which <font face="Gill Sans,Helvetica,Arial">GAP</font>
-has been most recently configured, and create a <code>Makefile</code>. Now run
+Then run
 <pre>
 make 
 </pre>
-to create the nauty/dreadnaut binary and to put
-it in the appropriate place.  This configuration/make process for
-GRAPE only works for the <strong>last</strong> architecture for which <font face="Gill Sans,Helvetica,Arial">GAP</font> was
-configured. Therefore, you should always follow the above procedure to
-install the nauty/dreadnaut binary immediately after compiling <font face="Gill Sans,Helvetica,Arial">GAP</font>
-for a given configuration, say for a different architecture on a common
-file system. However, if you want to add GRAPE later, you can just run
-<code>./configure</code> again in the <font face="Gill Sans,Helvetica,Arial">GAP</font> home directory for the architecture,
-before performing the GRAPE configure/make process to install the
-nauty/dreadnaut binary for that architecture.
+to complete the installation of GRAPE.
 <p>
 To use GRAPE with a separately installed version of nauty or
 bliss you should proceed as follows. Please note that the nauty
 interface for GRAPE has only been extensively tested with the
 included versions of nauty, and the bliss interface has only
 been tested with Version&nbsp;0.73 of bliss. To use a separately
 installed version of nauty, type the following commands in <font face="Gill Sans,Helvetica,Arial">GAP</font>, or 
-place these commands in your <code>gaprc</code> file (see <a href="https://www.gap-system.org/Manuals/doc/ref/chap3.html#X84D4CF587D437C00">The gaprc file</a>), where
+place these commands in your <code>gaprc</code> file (see <a href="https://docs.gap-system.org/doc/ref/chap3.html#X84D4CF587D437C00">The gaprc file</a>), where
 <code>dreadnaut_or_dreadnautB_executable</code> should be the name of your
 dreadnaut or dreadnautB executable file:
 <pre>
@@ -119,7 +109,7 @@ <h2><a name="SECT001">1.1 Installing the GRAPE Package</a></h2>
 </pre>
 To use a separately installed version of bliss instead of nauty,
 type the following commands in <font face="Gill Sans,Helvetica,Arial">GAP</font>, or place these commands in your
-<code>gaprc</code> file (see <a href="https://www.gap-system.org/Manuals/doc/ref/chap3.html#X84D4CF587D437C00">The gaprc file</a>), where <code>bliss_executable</code> should be
+<code>gaprc</code> file (see <a href="https://docs.gap-system.org/doc/ref/chap3.html#X84D4CF587D437C00">The gaprc file</a>), where <code>bliss_executable</code> should be
 the name of your bliss executable file:
 <pre>
 LoadPackage("grape"); 
@@ -207,7 +197,7 @@ <h2><a name="SECT004">1.4 Examples of the use of GRAPE</a></h2>
 functions used are described in detail in this manual. More
 sophisticated examples of the use of GRAPE can be found in
 chapter <a href="CHAP009.htm#SSEC001.1">Partial Linear Spaces</a>, and also in the references <a href="biblio.htm#Cam99"><cite>Cam99</cite></a>,
-<a href="biblio.htm#CSS99"><cite>CSS99</cite></a>, <a href="biblio.htm#HL99"><cite>HL99</cite></a> and <a href="biblio.htm#Soi06"><cite>Soi06</cite></a>.
+<a href="biblio.htm#CSS99"><cite>CSS99</cite></a>, <a href="biblio.htm#HL99"><cite>HL99</cite></a>, <a href="biblio.htm#Soi06"><cite>Soi06</cite></a> and <a href="biblio.htm#Soi24b"><cite>Soi24b</cite></a>.
 <p>
 In the example here, we construct the Petersen graph <var>P</var>, and its edge
 graph (also called line graph) <var>EP</var>. We compute the global parameters
@@ -247,5 +237,5 @@ <h2><a name="SECT004">1.4 Examples of the use of GRAPE</a></h2>
 <p>
 [<a href = "chapters.htm">Up</a>] [<a href ="CHAP002.htm">Next</a>] [<a href = "theindex.htm">Index</a>]
 <P>
-<address>grape manual<br>December 2022
+<address>grape manual<br>August 2024
 </address></body></html>

htm/CHAP002.htm

@@ -197,7 +197,7 @@ <h2><a name="SECT005">2.5 JohnsonGraph</a></h2>
 The vertices (actually the vertex-names) of <var>gamma</var> are the <var>e</var>-subsets
 of <var>{1,..., <var>n</var>}</var>, with <var>x</var> joined to <var>y</var> if and only if <var>|x capy|
 = <var>e</var>-1</var>.  The group associated with <var>gamma</var> is the image of the symmetric
-group <var>S<sub><</sub>n&gt;</var> acting on the <var>e</var>-subsets of <var>{1,...,<var>n</var>}</var>.
+group <var>S<sub><var>n</var></sub></var> acting on the <var>e</var>-subsets of <var>{1,...,<var>n</var>}</var>.
 <p>
 <pre>
 gap&gt; JohnsonGraph(5,3);
@@ -226,8 +226,8 @@ <h2><a name="SECT006">2.6 HammingGraph</a></h2>
 in <var>{1,...,<var>q</var>}</var>, with <var>x</var> joined to <var>y</var> if and only if <var>x</var> and <var>y</var>
 differ in exactly one coordinate (that is, <var>x</var> and <var>y</var> are at Hamming
 distance&nbsp;1).  The group associated with <var>gamma</var> is the image of the wreath
-product of the symmetric group <var>S<sub><</sub>q&gt;</var> with the symmetric group <var>S<sub><</sub>d&gt;</var>,
-in its product action on the vertices.
+product of the symmetric group <var>S<sub><var>q</var></sub></var> with the symmetric group
+<var>S<sub><var>d</var></sub></var>, in its product action on the vertices.
 <p>
 <pre>
 gap&gt; H:=HammingGraph(3,4);
@@ -465,5 +465,5 @@ <h2><a name="SECT011">2.11 AssignVertexNames</a></h2>
 <p>
 [<a href = "chapters.htm">Up</a>] [<a href ="CHAP001.htm">Previous</a>] [<a href ="CHAP003.htm">Next</a>] [<a href = "theindex.htm">Index</a>]
 <P>
-<address>grape manual<br>December 2022
+<address>grape manual<br>August 2024
 </address></body></html>

htm/CHAP003.htm

@@ -440,5 +440,5 @@ <h2><a name="SECT021">3.21 IsCompleteGraph</a></h2>
 <p>
 [<a href = "chapters.htm">Up</a>] [<a href ="CHAP002.htm">Previous</a>] [<a href ="CHAP004.htm">Next</a>] [<a href = "theindex.htm">Index</a>]
 <P>
-<address>grape manual<br>December 2022
+<address>grape manual<br>August 2024
 </address></body></html>

htm/CHAP004.htm

@@ -284,5 +284,5 @@ <h2><a name="SECT007">4.7 VertexTransitiveDRGs</a></h2>
 <p>
 [<a href = "chapters.htm">Up</a>] [<a href ="CHAP003.htm">Previous</a>] [<a href ="CHAP005.htm">Next</a>] [<a href = "theindex.htm">Index</a>]
 <P>
-<address>grape manual<br>December 2022
+<address>grape manual<br>August 2024
 </address></body></html>

htm/CHAP005.htm

@@ -151,5 +151,5 @@ <h2><a name="SECT006">5.6 IndependentSet</a></h2>
 <p>
 [<a href = "chapters.htm">Up</a>] [<a href ="CHAP004.htm">Previous</a>] [<a href ="CHAP006.htm">Next</a>] [<a href = "theindex.htm">Index</a>]
 <P>
-<address>grape manual<br>December 2022
+<address>grape manual<br>August 2024
 </address></body></html>

htm/CHAP006.htm

@@ -526,5 +526,5 @@ <h2><a name="SECT015">6.15 GraphImage</a></h2>
 <p>
 [<a href = "chapters.htm">Up</a>] [<a href ="CHAP005.htm">Previous</a>] [<a href ="CHAP007.htm">Next</a>] [<a href = "theindex.htm">Index</a>]
 <P>
-<address>grape manual<br>December 2022
+<address>grape manual<br>August 2024
 </address></body></html>

htm/CHAP007.htm

@@ -17,7 +17,8 @@ <H3>Sections</H3>
 The following sections describe functions for (proper) vertex-colouring
 and determining complete subgraphs of a given simple graph. Included are
 functions for determining the chromatic number and the clique number of
-a simple graph.
+a simple graph. The methods used for proper vertex-colouring are described
+in <a href="biblio.htm#Soi24a"><cite>Soi24a</cite></a>.
 <p>
 The function <code>CompleteSubgraphsOfGivenSize</code> can be used to determine
 the complete subgraphs with given vertex-weight sum in a vertex-weighted
@@ -380,5 +381,5 @@ <h2><a name="SECT007">7.7 CliqueNumber</a></h2>
 <p>
 [<a href = "chapters.htm">Up</a>] [<a href ="CHAP006.htm">Previous</a>] [<a href ="CHAP008.htm">Next</a>] [<a href = "theindex.htm">Index</a>]
 <P>
-<address>grape manual<br>December 2022
+<address>grape manual<br>August 2024
 </address></body></html>

htm/CHAP008.htm

@@ -104,7 +104,7 @@ <h2><a name="SECT003">8.3 GraphIsomorphism</a></h2>
 The optional boolean parameter <var>firstunbindcanon</var> determines whether or
 not the <code>canonicalLabelling</code> components of both <var>gamma1</var> and <var>gamma2</var>
 are first unbound before proceeding.  If <var>firstunbindcanon</var> is <code>true</code>
-(the default, safe and possibly slower option) then these components
+(the default, safe and possibly much slower option) then these components
 are first unbound.  If <var>firstunbindcanon</var> is <code>false</code>, then any existing
 <code>canonicalLabelling</code> components are used.  However, since canonical
 labellings can depend on whether nauty or bliss is used, the version
@@ -169,7 +169,7 @@ <h2><a name="SECT004">8.4 IsIsomorphicGraph</a></h2>
 The optional boolean parameter <var>firstunbindcanon</var> determines whether or
 not the <code>canonicalLabelling</code> components of both <var>gamma1</var> and <var>gamma2</var>
 are first unbound before proceeding.  If <var>firstunbindcanon</var> is <code>true</code>
-(the default, safe and possibly slower option) then these components
+(the default, safe and possibly much slower option) then these components
 are first unbound.  If <var>firstunbindcanon</var> is <code>false</code>, then any existing
 <code>canonicalLabelling</code> components are used.  However, since canonical
 labellings can depend on whether nauty or bliss is used, the version
@@ -287,5 +287,5 @@ <h2><a name="SECT005">8.5 GraphIsomorphismClassRepresentatives</a></h2>
 <p>
 [<a href = "chapters.htm">Up</a>] [<a href ="CHAP007.htm">Previous</a>] [<a href ="CHAP009.htm">Next</a>] [<a href = "theindex.htm">Index</a>]
 <P>
-<address>grape manual<br>December 2022
+<address>grape manual<br>August 2024
 </address></body></html>

htm/CHAP009.htm

@@ -1,6 +1,6 @@
 <html><head><title>[grape] 9 Partial Linear Spaces</title></head>
 <body text="#000000" bgcolor="#ffffff">
-[<a href = "chapters.htm">Up</a>] [<a href ="CHAP008.htm">Previous</a>] [<a href = "theindex.htm">Index</a>]
+[<a href = "chapters.htm">Up</a>] [<a href ="CHAP008.htm">Previous</a>] [<a href ="CHAP010.htm">Next</a>] [<a href = "theindex.htm">Index</a>]
 <h1>9 Partial Linear Spaces</h1><p>
 <P>
 <H3>Sections</H3>
@@ -198,7 +198,7 @@ <h2><a name="SECT002">9.2 A research application of PartialLinearSpaces</a></h2>
 1 (0 gens, size 1)
 </pre>
 <p>
-[<a href = "chapters.htm">Up</a>] [<a href ="CHAP008.htm">Previous</a>] [<a href = "theindex.htm">Index</a>]
+[<a href = "chapters.htm">Up</a>] [<a href ="CHAP008.htm">Previous</a>] [<a href ="CHAP010.htm">Next</a>] [<a href = "theindex.htm">Index</a>]
 <P>
-<address>grape manual<br>December 2022
+<address>grape manual<br>August 2024
 </address></body></html>