Merge branch 'main' of https://github.com/DH-RSE/software-citation.git into main

Author: fernandaalvaf

data/JTEI/12_2019-20/jtei-cc-ra-flanders-176-source.xml

@@ -1596,7 +1596,7 @@
                 target="https://www.fon.hum.uva.nl/paul/papers/speakUnspeakPraat_glot2001.pdf"
               />.</bibl>
           </rs>
-          <ptr type="software" xml:id="R226" target="#teimata"/>
+          <ptr type="software" xml:id="R226" target="#teimeta"/>
           <rs type="soft.bib.ref" ref="#R226">
             <bibl xml:id="etienne"><rs type="soft.agent" ref="#R226"><author>Etienne,
                   Carole</author></rs>, <rs type="soft.agent" ref="#R226"><author>Loïc

data/JTEI/13_2020-22/jtei-cc-pn-kuhry-188-source.xml

@@ -530,8 +530,8 @@
                favoring one period or type of document over another, a generic element seems both
                desirable and advisable. The proposed element, as implemented in the TEI_CEI
                   ODD,<note>See the <ref xml:id="ref13" type="bibl" target="#winslowetal2019"
-                     >CEI2TEI <ptr type="software" xml:id="GitHub" target="#GitHub"/><rs
-                        type="soft.name" ref="#GitHub">GitHub</rs> repository, accessed June 25,
+                     >CEI2TEI <ptr type="software" xml:id="R1" target="#github"/><rs
+                        type="soft.name" ref="#R1">GitHub</rs> repository, accessed June 25,
                      2021</ref>, <ptr
                      target="https://github.com/GVogeler/CEI2TEI/blob/master/tei_cei.odd"/>.</note>
                is simple (<ident>attList</ident> items suppressed for brevity: they follow the
@@ -576,8 +576,8 @@
                proposed vocabulary, provided in SKOS (Simple Knowledge Organization System) format
                (as part of the project’s <ref
                   target="https://github.com/GVogeler/CEI2TEI/blob/master/Authentication/authen.skos.ttl">
-                  <ptr type="software" xml:id="GitHub" target="#GitHub"/><rs type="soft.name"
-                     ref="#GitHub">GitHub</rs> repository</ref>,<note>Accessed July 13, 2021, <ptr
+                  <ptr type="software" xml:id="R2" target="#github"/><rs type="soft.name"
+                     ref="#R2">GitHub</rs> repository</ref>,<note>Accessed July 13, 2021, <ptr
                      target="https://github.com/GVogeler/CEI2TEI/blob/master/Authentication/authen.skos.ttl"
                   />.</note> at <ptr
                   target="https://github.com/GVogeler/CEI2TEI/blob/master/Authentication/authen.skos.ttl"

data/JTEI/13_2020-22/jtei-cc-ra-parisse-182-source.xml

@@ -261,11 +261,11 @@
                   text are presented in such a way that the reader is granted more informed access
                   to them.</p>
                <p>The edition will be published online using a specifically tailored version of <ptr
-                     type="software" xml:id="R29" target="#evt"/><rs type="soft.name" ref="R29"
+                     type="software" xml:id="R29" target="#evt"/><rs type="soft.name" ref="#R29"
                      >EVT</rs> (Edition Visualization Technology<note><quote source="#quote1">A
                         light-weight, open source tool specifically designed to create digital
                         editions from XML-encoded texts</quote>
-                     <rs type="soft.bib" ref="R20">(<ref type="bibl" target="#delturco2013"
+                     <rs type="soft.bib" ref="#R20">(<ref type="bibl" target="#delturco2013"
                            xml:id="quote1">Rosselli Del Turco et al. 2013</ref>)</rs>.</note>) and
                   will present, on the one hand, each witness in its continuum from facsimile to
                   multiple levels of normalization and, on the other hand, the three main witnesses
@@ -790,7 +790,7 @@
                      with no manual intervention on the resulting files.</item>
                   <item>The generated editions files will conform to the TEI subset understood by
                         <ptr type="software" xml:id="R30" target="#evt"/><rs type="soft.name"
-                        ref="R30">EVT</rs>.</item>
+                        ref="#R30">EVT</rs>.</item>
                </list>
                <p>Some of these desiderata clash with each other. For instance, the desire to
                   directly edit the XML file makes it hard and error-prone to keep in a single
@@ -855,7 +855,7 @@
                         target="#delturcond">Roberto Rosselli Del Turco (n.d.)</ref>: here two
                      levels of edition are offered, a diplomatic and a more interpretative one. The
                      user can compare the two editions visualizing them synoptically in the <ptr
-                        type="software" xml:id="R31" target="#evt"/><rs type="soft.name" ref="R31"
+                        type="software" xml:id="R31" target="#evt"/><rs type="soft.name" ref="#R31"
                         >EVT</rs> software used for the edition.</p>
                </div>
             </div>
@@ -1474,10 +1474,10 @@
                      version</biblScope>. Accessed <date>October 22, 2021</date>. <ptr
                      target="http://vbd.humnet.unipi.it/beta2/"/>.</bibl>
                <bibl xml:id="delturco2013"><ptr type="software" xml:id="R28" target="#evt"
-                        /><author><rs type="soft.agent" ref="R28">Rosselli Del Turco,
-                     Roberto</rs></author>, et al. <rs type="soft.bib" ref="R28">
+                        /><author><rs type="soft.agent" ref="#R28">Rosselli Del Turco,
+                     Roberto</rs></author>, et al. <rs type="soft.bib" ref="#R28">
                      <date>2013</date>. <title level="m">Edition Visualization Technology</title>.
-                  </rs> Accessed <date>April 19, 2021</date>.<rs type="soft.url" ref="R28"><ptr
+                  </rs> Accessed <date>April 19, 2021</date>.<rs type="soft.url" ref="#R28"><ptr
                         target="http://evt.labcd.unipi.it/"/></rs>.</bibl>
                <bibl xml:id="stella2020"><editor>Stella, Francesco</editor>, ed. <date>2020</date>.
                      <title level="m">Corpus Rhythmorum Musicum.</title> Last modified <date>July

data/JTEI/13_2020-22/jtei-cc-ra-winslow-186-source.xml

@@ -326,9 +326,9 @@
           <head>Presentation of Parla-CLARIN</head>
           <p>Like the TEI Guidelines, the Parla-CLARIN recommendations are available on <ref
               target="https://github.com/clarin-eric/parla-clarin/"><ptr type="software" xml:id="R1"
-                target="#GitHub"/><rs type="soft.name" ref="#R1">GitHub</rs></ref>, as a
+                target="#github"/><rs type="soft.name" ref="#R1">GitHub</rs></ref>, as a
               project<note>Tomaž Erjavec and Andrej Pančur, Parla-CLARIN project <ptr
-                type="software" xml:id="R2" target="#GitHub"/><rs type="soft.name" ref="#R2"
+                type="software" xml:id="R2" target="#github"/><rs type="soft.name" ref="#R2"
                 >GitHub</rs> site, last updated March 17, 2021, <ptr type="software" xml:id="R9"
                 target="#parlaclarinscripts"/><rs type="soft.url" ref="#R9"><ptr
                   target="https://github.com/clarin-eric/parla-clarin/"/></rs>.</note> of the CLARIN
@@ -581,7 +581,7 @@
           and into developing the <ptr type="software" xml:id="R12" target="#parlaclarinscripts"
             /><rs type="soft.name" ref="#R12">conversion from Akoma Ntoso to Parla-CLARIN</rs>. We
           have not included examples of the encoding, as these are readily available on the <ptr
-            type="software" xml:id="R3" target="#GitHub"/><rs type="soft.name" ref="#R3">GitHub</rs>
+            type="software" xml:id="R3" target="#github"/><rs type="soft.name" ref="#R3">GitHub</rs>
           documentation page of the project, and large Parla-CLARIN encoded corpora are openly
           available.</p>
         <p>Apart from the siParl 2.0 corpus mentioned above (<ptr type="crossref"
@@ -632,7 +632,7 @@
           specification from the default ones in the TEI Guidelines to ones taken or adapted from
           the collected parliamentary corpora.</p>
         <p>Second, as we have already done for ParlaMint, we plan to add to the <ptr type="software"
-            xml:id="R4" target="#GitHub"/><rs type="soft.name" ref="#R4">GitHub</rs> Parla-CLARIN
+            xml:id="R4" target="#github"/><rs type="soft.name" ref="#R4">GitHub</rs> Parla-CLARIN
           project more down-conversion scripts with which we would increase the usability of the
           Parla-CLARIN corpora. As mentioned, work also needs to be done to develop a conversion to
           RDF.</p>
@@ -803,7 +803,8 @@
           <bibl xml:id="kilgarriff14"><author>Kilgarriff, Adam</author>, <author>Vít Baisa</author>,
               <author>Jan Bušta</author>, <author>Miloš Jakubíček</author>, <author>Vojtěch
               Kovář</author>, <author>Jan Michelfeit</author>, <author>Pavel Rychlý</author>, and
-              <author>Vít Suchomel</author>. <rs type="soft.bib.ref" ref="ewfew"><date>2014</date>.
+              <author>Vít Suchomel</author>. <ptr type="software" xml:id="R30"
+                target="#sketchengine"/><rs type="soft.name soft.bib.ref" ref="#R30"><date>2014</date>.
                 <title level="a">The Sketch Engine: Ten Years On.</title></rs>
             <title level="j">Lexicography: Journal of ASIALEX</title>
             <biblScope unit="volume">1</biblScope> (<biblScope unit="issue">1</biblScope>):

data/JTEI/14_2021-23/jtei-barabuccietal-196-source.xml

@@ -240,7 +240,7 @@
             </list>. The continuous integration and release are supported by open source Integrated
             Development Environments (IDEs) like <ptr type="software" xml:id="R10" target="#eclipse"/>
             <rs type="soft.name" ref="#R10">Eclipse</rs> or <ptr type="software" xml:id="R11"
-              target="netbeans"/><rs type="soft.name" ref="#R11"> NetBeans</rs> and by a software
+              target="#netbeans"/> <rs type="soft.name" ref="#R11">NetBeans</rs> and by a software
             configuration management tool such as <ptr type="software" xml:id="R13" target="#svn"/>
             <rs type="soft.name" ref="#R13">SVN</rs> or <ptr type="software" xml:id="R12"
               target="#git"/>
@@ -722,7 +722,7 @@
               Environment: Metadata, Vocabularies and Techniques in the Digital Humanities</title>,
             article no. 11. <pubPlace>New York</pubPlace>: <publisher>ACM</publisher>. doi:<idno
               type="doi">10.1145/2517978.2517990</idno>.</bibl>
-          <ptr type="software" xml:id="R39" target="g2a"/>
+          <ptr type="software" xml:id="R39" target="#g2a"/>
           <rs type="soft.ref.bib" ref="#R39">
             <bibl xml:id="bozzi13"><author><rs type="soft.agent" ref="#R39">Bozzi,
                 Andrea</rs></author>. <date>2013</date>. <title level="a">G2A: A Web Application to

data/JTEI/14_2021-23/jtei-cc-pn-erjavec-195-source.xml

@@ -481,7 +481,7 @@
               type="bibl" xml:id="quoteref1" target="#bingenheimer11">p. 271</ref>) consisting of
             biographic data. The interface is realized with a proprietary plug-in built upon the
               <ref target="http://prefuse.org/"><ptr type="software" xml:id="R20" target="#prefuse"
-                /><rs type="soft.name" ref="#R20">Prefus</rs>e</ref><note>UC Berkeley Visualization
+                /><rs type="soft.name" ref="#R20">Prefuse</rs></ref><note>UC Berkeley Visualization
               Lab, <rs type="soft.url" ref="#R20"><ptr target="http://prefuse.org/"/></rs>.</note>
             software library. One of our goals is to implement the aggregations within the digital
             edition, and for this we would like to use web technologies only. The <ref
@@ -675,9 +675,7 @@
               type="doi">10.1093/llc/fqr020</idno>.</bibl>
           <bibl xml:id="leboeuf13"><author>Le Boeuf, Patrick</author>, <author>Martin
             Doerr</author>, <author>Christian Emil Ore</author>, and <author>Stephen Stead</author>.
-              <date>2013</date>. <title level="m">Definition of the CIDOC Conceptual <ptr
-                type="software" xml:id="Reference" target="#Reference"/><rs type="soft.name"
-                ref="#Reference">Reference</rs> Model</title>, version 5.1.2 (October). <ptr
+              <date>2013</date>. <title level="m">Definition of the CIDOC Conceptual Reference Model</title>, version 5.1.2 (October). <ptr
               target="http://www.cidoc-crm.org/docs/cidoc_crm_version_5.1.2.pdf"/>.</bibl>
           <bibl xml:id="myers10"><editor>Myers, Victoria</editor>, <editor>David
               O’Shaughnessy</editor>, and <editor>Mark Philp</editor>, eds. <date>2010</date>.

data/JTEI/8_2014-15/jtei-8-boschetti-source.xml

@@ -190,7 +190,7 @@
           Similarly, Boschetti and Del Grosso describe the design and development of <title
             level="m"><ptr type="software" xml:id="R3" target="#teicophilib"/><rs type="soft.name"
               ref="#R3">TeiCoPhiLib</rs></title>, a library of <ptr type="software" xml:id="R4"
-            target="R4"/><rs type="soft.name" ref="#Java">Java</rs> software components devoted
+            target="#java"/><rs type="soft.name" ref="#R4">Java</rs> software components devoted
           to editing, processing, and visualising TEI documents in the domain of philological
           studies. This tool is particularly suited to fostering collaborative philological work.
           This cluster is closed by Dalmau and Hawkins’s article, the focus of which is not on

data/JTEI/8_2014-15/jtei-8-iglesia-source.xml

@@ -246,7 +246,7 @@
             starting point means that the editor can focus on his work, marking up the transcription
             text, with very little configuration needed to create the edition. This approach also
             allowed us to quickly test XML files belonging to other edition projects, to check if
-              <ptr type="software" xml:id="R108" target="#EVT"/><rs type="soft.name" ref="R108"
+              <ptr type="software" xml:id="R108" target="#evt"/><rs type="soft.name" ref="#R108"
               >EVT</rs> could go beyond being a project-specific tool. The inspiration for these
             changes came from work done in similar projects developed within the TEI community,
             namely <ptr type="software" xml:id="R10" target="#teiboilerplate"/>

data/JTEI/8_2014-15/jtei-8-intro-source.xml

@@ -183,8 +183,8 @@
                   2018</ref>), an initiative launched in 2016 under the auspices of the DARIAH
                Working Group on Lexical Resources, which aims to define a pivot format for the
                integration and querying of heterogeneous TEI-based lexical resources.<note>See the
-                  project’s <ptr type="software" xml:id="GitHub" target="#GitHub"/><rs
-                     type="soft.name" ref="#GitHub">GitHub</rs> repository, accessed June 17, 2022,
+                  project’s <ptr type="software" xml:id="R1" target="#github"/><rs
+                     type="soft.name" ref="#R1">GitHub</rs> repository, accessed June 17, 2022,
                      <ptr target="https://github.com/DARIAH-ERIC/lexicalresources"/>.</note>
             </p>
             <p>The scope of our proposal covers the usage of the following concepts central to
@@ -1179,8 +1179,8 @@
             <p>In the following examples, we have tried to illustrate interesting cases of
                etymological processes that show how TEI Lex-0 Etym can seamlessly take into account
                a variety of situations. All examples have been validated and included in the TEI
-               Lex-0 <ptr type="software" xml:id="GitHub" target="#GitHub"/><rs type="soft.name"
-                  ref="#GitHub">GitHub</rs> environment.</p>
+               Lex-0 <ptr type="software" xml:id="R2" target="#github"/><rs type="soft.name"
+                  ref="#R2">GitHub</rs> environment.</p>
 
             <div xml:id="embeddedsenses">
                <head>Embedded Senses, Metaphor, and Compounding</head>

data/JTEI/8_2014-15/jtei-8-rosselli-source.xml

@@ -1,8 +1,8 @@
-Citation type, abs. frequency (n=119), rel. frequency (in %),ALL / abs. frequency (n=119),ALL / rel. frequency (in %)
-Soft.Bib,1,.84,1,.84
-Soft.Bib.Ref,0,.0,0,.0
-Soft.Name,119,100.0,119,100.0
-Soft.Agent,0,.0,0,.0
-Soft.URL,9,7.56,9,7.56
-Soft.PID,0,.0,0,.0
-Soft.Ver,0,.0,0,.0
+Citation type, abs. frequency (n=234), rel. frequency (in %),ALL / abs. frequency (n=234),ALL / rel. frequency (in %)
+soft.bib,3,1.28,3,1.28
+soft.bib.ref,27,11.54,27,11.54
+soft.name,231,98.72,231,98.72
+soft.agent,35,14.96,35,14.96
+soft.url,86,36.75,86,36.75
+soft.pid,0,.0,0,.0
+soft.ver,4,1.71,4,1.71

data/JTEI/rolling_2022/jtei-teilex-207-source.xml

@@ -12,55 +12,33 @@
     <xsl:output method="text" omit-xml-declaration="yes"/>
 
 
+    <xsl:include href="global-parameters.xsl"/>
+    
+    
     <!-- Keys -->    
     <xsl:key name="rs-by-ref" match="*:rs" use="@ref"/>
     <xsl:key name="ptr-by-target" match="*:ptr" use="@target"/>
 
-    <!-- Global variables -->
-    
-    <!-- directories with TEI files -->
-    <xsl:variable name="collection-dirs" as="xs:string+" select="(  
-        '../../data/JTEI/10_2016-19',
-        '../../data/JTEI/13_2020-22',
-        '../../data/JTEI/7_2014',
-        '../../data/JTEI/rolling_2019',
-        '../../data/JTEI/rolling_2023',
-        '../../data/JTEI/11_2019-20',
-        '../../data/JTEI/12_2019-20',
-        '../../data/JTEI/14_2021-23',
-        '../../data/JTEI/8_2014-15',
-        '../../data/JTEI/rolling_2021',
-        '../../data/JTEI/16_2023_spa',
-        '../../data/JTEI/9_2016-17',
-        '../../data/JTEI/rolling_2022'
-        )"/>
-    
-    <!-- software types -->
-    <xsl:variable name="types" select="document('../../taxonomy/citation-taxonomy.xml')//*:taxonomy/*:category/@xml:id" as="xs:string+"/>
+    <!-- Global variables -->    
+    
 
     <!-- additional columns for predefined filters (applied to file path, compare directory list above for examples) -->
     <!-- could also be ('/deu/', '/eng/', ...) for instance -->
     <!-- could also be ('/2015/', '/2016/', '/2017/', '/2018/', '/2019/', '/2020/') for instance -->
     <xsl:variable name="path-filters" select="''" as="xs:string+"/>
 
-    <!-- character to be used as CSV separator -->
-    <xsl:variable name="csv-separator" select="','" as="xs:string"/>
-    
-    <!-- newline character -->
-    <xsl:variable name="NEWLINE"><xsl:text>
-</xsl:text></xsl:variable>
 
     <!-- instances of one specific software in one text -->
     <xsl:variable name="instances">
-        <xsl:for-each select="$collection-dirs">            
+        <xsl:for-each select="$COLLECTION-DIRS">            
             <xsl:for-each select="collection(concat(., '?select=*.xml;recurse=yes;on-error=warning'))">
                 <xsl:variable name="path" select="base-uri()" as="xs:string"/>
                 <xsl:variable name="doc" select="/"/>
                 <xsl:for-each select="distinct-values($doc//*:ptr[@type='software']/@target)">                
                     <xsl:variable name="current-software-target" select="." as="xs:string"/>
                     <xsl:variable name="rs-for-this-software" select="key('rs-by-ref', key('ptr-by-target', $current-software-target, $doc)/concat('#', @xml:id), $doc)"/>
                     <instance text="{$path}" software="{$current-software-target}">
-                        <xsl:for-each select="$types">
+                        <xsl:for-each select="$SOFTWARE-MENTION-TYPES">
                             <!-- counting frequencies -->
                             <!--<xsl:attribute name="{.}" select="count($rs-with-this-key[contains(lower-case(@ana), lower-case(concat('#',current())))])"/>-->
                             <!-- determining presence -->
@@ -91,7 +69,7 @@
         <xsl:value-of select="$NEWLINE"/>
 
 
-        <xsl:for-each select="$types">
+        <xsl:for-each select="$SOFTWARE-MENTION-TYPES">
             <xsl:variable name="citation-type" select="." as="xs:string"/>
 
             <xsl:value-of select="concat($citation-type, ',')"/>