From f8b39f382c0af5b93bf60325b73c241a8876d8d2 Mon Sep 17 00:00:00 2001
From: shirazos7 <shiraz@zbmath.org>
Date: Thu, 17 Oct 2024 19:17:47 +0200
Subject: [PATCH 1/7] adjusting the xslt for codemeta properties

---
 xslt/software/xslt-software-Codemeta.xslt | 70 ++++++++++++++---------
 1 file changed, 44 insertions(+), 26 deletions(-)

diff --git a/xslt/software/xslt-software-Codemeta.xslt b/xslt/software/xslt-software-Codemeta.xslt
index d067db45..ea59b964 100644
--- a/xslt/software/xslt-software-Codemeta.xslt
+++ b/xslt/software/xslt-software-Codemeta.xslt
@@ -1,9 +1,8 @@
-<!-- XSLT code to transform the zbmath metadata acoording the metadata Scheme of CodeMeta
+<!-- XSLT code to transform the zbmath metadata acoording the metadata Scheme of Datacite
 Made by Shiraz Malla Mohamad member of zbmath Team-->
-<?xml version="1.0" encoding="UTF-8"?>
 <xsl:stylesheet version="1.0"
                 xmlns:xsl="http://www.w3.org/1999/XSL/Transform"
-                xmlns:atom="http://www.w3.org/2005/Atom"
+                xmlns="http://www.w3.org/2005/Atom"
                 xmlns:codemeta="https://doi.org/10.5063/SCHEMA/CODEMETA-2.0"
                 xmlns:swhdeposit="https://www.softwareheritage.org/schema/2018/deposit"
                 xmlns:swh="https://www.softwareheritage.org/schema/2018/deposit"
@@ -12,13 +11,14 @@ Made by Shiraz Malla Mohamad member of zbmath Team-->
      <xsl:template match="/">
         <entry>
 
- <xsl:apply-templates select="root/id"/>
+ <xsl:apply-templates select="root/id" mode="id"/>
 
 <xsl:apply-templates select="root/swhdeposit:deposit"/>
 
  <codemeta:author>
 <xsl:apply-templates select="root/authors"/>
 </codemeta:author>
+
 <xsl:apply-templates select="root/name"/>
 
 <xsl:apply-templates select="root/description"/>
@@ -35,17 +35,23 @@ Made by Shiraz Malla Mohamad member of zbmath Team-->
 
 <xsl:apply-templates select="root/programming_languages"/>
 
+<schema:Identifier>
+<xsl:apply-templates select="root/id" mode="codemeta-identifier"/>
+</schema:Identifier>
+<schema:categoryCode>
 <xsl:apply-templates select="root/classification"/>
+</schema:categoryCode>
 
+<schema:itemList>
 <xsl:apply-templates select="root/articles_count"/>
-
+</schema:itemList>
 <codemeta:supportingData>
 <xsl:apply-templates select="root/related_software"/>
 </codemeta:supportingData>
 
-<codemeta:citation>
+<schema:referencePublication>
 <xsl:apply-templates select="root/standard_articles"/>
-</codemeta:citation>
+</schema:referencePublication>
 
 <xsl:apply-templates select="root/zbmath_url"/>
 
@@ -56,11 +62,11 @@ Made by Shiraz Malla Mohamad member of zbmath Team-->
 
 
 
- <xsl:template match="id">
-        <codemeta:identifier>
+ <xsl:template match="id" mode="id">
+        <id>
             <xsl:text>zbmath-</xsl:text>
             <xsl:value-of select="."/>
-        </codemeta:identifier>
+        </id>
     </xsl:template>
 
 
@@ -101,16 +107,15 @@ Made by Shiraz Malla Mohamad member of zbmath Team-->
 
 
     <xsl:template match="authors">
-        <codemeta:author>
-
+       <codemeta:name>
+        <xsl:value-of select="."/>
+        </codemeta:name>
+           <codemeta:givenName>
+                <xsl:value-of select="normalize-space(substring-after(., ','))"/>
+            </codemeta:givenName>
             <codemeta:familyName>
                 <xsl:value-of select="substring-before(., ',')"/>
             </codemeta:familyName>
-
-            <codemeta:givenName>
-                <xsl:value-of select="normalize-space(substring-after(., ','))"/>
-            </codemeta:givenName>
-        </codemeta:author>
     </xsl:template>
 
      <xsl:template match="description">
@@ -150,9 +155,12 @@ Made by Shiraz Malla Mohamad member of zbmath Team-->
     </xsl:template>
 
      <xsl:template match="orms_id">
-        <codemeta:identifier>
+        <schema:identifier>
+          <codemeta:type>schema:PropertyValue</codemeta:type>
+        <schema:value>
             <xsl:value-of select="."/>
-        </codemeta:identifier>
+        </schema:value>
+        </schema:identifier>
     </xsl:template>
 
 
@@ -162,6 +170,14 @@ Made by Shiraz Malla Mohamad member of zbmath Team-->
         </codemeta:programmingLanguage>
     </xsl:template>
 
+     <xsl:template match="id" mode="codemeta-identifier">
+        <codemeta:type>schema:PropertyValue</codemeta:type>
+        <schema:value>
+            <xsl:text>zbmath-</xsl:text>
+            <xsl:value-of select="."/>
+        </schema:value>
+    </xsl:template>
+
   <xsl:template match="classification">
         <codemeta:inCodeSet>
             <xsl:value-of select="."/>
@@ -169,9 +185,9 @@ Made by Shiraz Malla Mohamad member of zbmath Team-->
     </xsl:template>
 
   <xsl:template match="articles_count">
-        <codemeta:itemList>
+            <schema:numberofItems>
             <xsl:value-of select="."/>
-        </codemeta:itemList>
+            </schema:numberofItems>
     </xsl:template>
 
 
@@ -191,19 +207,21 @@ Made by Shiraz Malla Mohamad member of zbmath Team-->
 
      <xsl:template match="standard_articles">
 
-            <codemeta:author>
-                <xsl:value-of select="authors"/>
-            </codemeta:author>
+           <xsl:if test="normalize-space(authors) != ''">
+             <codemeta:author>
+            <xsl:value-of select="authors"/>
+             </codemeta:author>
+            </xsl:if>
 
                <codemeta:identifier>
 
                 <xsl:value-of select="id"/>
             </codemeta:identifier>
 
-          <codemeta:hasSource>
+          <codemeta:citation>
 
                 <xsl:value-of select="source"/>
-            </codemeta:hasSource>
+            </codemeta:citation>
 
                 <codemeta:headline>
                 <xsl:value-of select="title"/>

From fa317f8bb898b17294c21898b6fa210a465a38bd Mon Sep 17 00:00:00 2001
From: shirazos7 <shiraz@zbmath.org>
Date: Thu, 17 Oct 2024 19:35:30 +0200
Subject: [PATCH 2/7]  adjusting some templates

---
 xslt/software/xslt-software-Codemeta.xslt | 8 ++++----
 1 file changed, 4 insertions(+), 4 deletions(-)

diff --git a/xslt/software/xslt-software-Codemeta.xslt b/xslt/software/xslt-software-Codemeta.xslt
index ea59b964..4b535886 100644
--- a/xslt/software/xslt-software-Codemeta.xslt
+++ b/xslt/software/xslt-software-Codemeta.xslt
@@ -179,9 +179,9 @@ Made by Shiraz Malla Mohamad member of zbmath Team-->
     </xsl:template>
 
   <xsl:template match="classification">
-        <codemeta:inCodeSet>
+        <schema:inCodeSet>
             <xsl:value-of select="."/>
-        </codemeta:inCodeSet>
+        </schema:inCodeSet>
     </xsl:template>
 
   <xsl:template match="articles_count">
@@ -223,9 +223,9 @@ Made by Shiraz Malla Mohamad member of zbmath Team-->
                 <xsl:value-of select="source"/>
             </codemeta:citation>
 
-                <codemeta:headline>
+                <schema:headline>
                 <xsl:value-of select="title"/>
-            </codemeta:headline>
+            </schema:headline>
 
             <codemeta:datePublished >
 

From 4250617d181ead666e30e13f3f5395ce2bbba6ca Mon Sep 17 00:00:00 2001
From: shirazos7 <shiraz@zbmath.org>
Date: Thu, 17 Oct 2024 20:03:28 +0200
Subject: [PATCH 3/7] adding new template

---
 xslt/software/xslt-software-Codemeta.xslt | 7 +++++++
 1 file changed, 7 insertions(+)

diff --git a/xslt/software/xslt-software-Codemeta.xslt b/xslt/software/xslt-software-Codemeta.xslt
index 4b535886..10313eb5 100644
--- a/xslt/software/xslt-software-Codemeta.xslt
+++ b/xslt/software/xslt-software-Codemeta.xslt
@@ -27,6 +27,8 @@ Made by Shiraz Malla Mohamad member of zbmath Team-->
 
 <xsl:apply-templates select="root/source_code"/>
 
+<xsl:apply-templates select="root/license_terms"/>
+
 <xsl:apply-templates select="root/keywords"/>
 
  <xsl:apply-templates select="root/operating_systems"/>
@@ -135,6 +137,11 @@ Made by Shiraz Malla Mohamad member of zbmath Team-->
             <xsl:value-of select="."/>
         </codemeta:codeRepository>
     </xsl:template>
+  <xsl:template match="license_terms">
+        <codemeta:license>
+            <xsl:value-of select="."/>
+        </codemeta:license>
+    </xsl:template>
 
      <xsl:template match="keywords">
         <codemeta:keywords>

From bc03e26a290a92d42921c065f9eb8405f69646c4 Mon Sep 17 00:00:00 2001
From: shirazos7 <shiraz@zbmath.org>
Date: Thu, 17 Oct 2024 20:05:10 +0200
Subject: [PATCH 4/7] adjusting the encoding of the outputfile

---
 src/zbmath_rest2oai/restApi_software_Json.py | 8 ++++----
 1 file changed, 4 insertions(+), 4 deletions(-)

diff --git a/src/zbmath_rest2oai/restApi_software_Json.py b/src/zbmath_rest2oai/restApi_software_Json.py
index 1ceaae33..b2aced0e 100644
--- a/src/zbmath_rest2oai/restApi_software_Json.py
+++ b/src/zbmath_rest2oai/restApi_software_Json.py
@@ -51,13 +51,13 @@ def process_metadata(csv_file_path, api_url, output_path=None):
 
         #  Save the modified JSON data to a file
         output_json_filename = 'output_with_swhid.json'
-        with open(output_path, 'w') as json_file:
+        with open(output_path, 'w',encoding='utf-8') as json_file:
             json.dump(data, json_file, indent=4 , ensure_ascii=False)
         print(f"Data successfully saved to {output_json_filename}")
 
         #  Save the output log to a file
        # output_log_filename = 'process_log.txt'
-        with open(output_log_filename, 'w') as log_file:
+        with open(output_log_filename, 'w', encoding='utf-8') as log_file:
             for log_entry in output_log:
                 log_file.write(log_entry + '\n')
         print(f"Log successfully saved to {output_log_filename}")
@@ -67,7 +67,7 @@ def process_metadata(csv_file_path, api_url, output_path=None):
 
 
 csv_file_path = '../../test/data/software/swh_swmath.csv'  # Path to your CSV file
-api_url = 'https://api.zbmath.org/v1/software/825'  # API URL, can be generalized for any software ID
-output_path = '../../test/data/software/software_with_swhid.json'
+api_url = 'https://api.zbmath.org/v1/software/4532'  # API URL, can be generalized for any software ID
+output_path = '../../test/data/software/software_with_swhid_2.json'
 output_log_filename = '../../test/data/software/logfile.txt'
 process_metadata(csv_file_path, api_url , output_path)
\ No newline at end of file

From 273bcd91a88417d158aaf0784d9db8435615f62d Mon Sep 17 00:00:00 2001
From: shirazos7 <shiraz@zbmath.org>
Date: Thu, 17 Oct 2024 20:06:38 +0200
Subject: [PATCH 5/7] another result from the rest api for software metadata

---
 test/data/software/software_with_swhid_2.json | 143 ++++++++++++++++++
 1 file changed, 143 insertions(+)
 create mode 100644 test/data/software/software_with_swhid_2.json

diff --git a/test/data/software/software_with_swhid_2.json b/test/data/software/software_with_swhid_2.json
new file mode 100644
index 00000000..6aaeffa4
--- /dev/null
+++ b/test/data/software/software_with_swhid_2.json
@@ -0,0 +1,143 @@
+{
+    "result": {
+        "articles_count": 150,
+        "authors": [
+            "Jr, Frank E Harrell"
+        ],
+        "classification": [
+            "62",
+            "65",
+            "68",
+            "91",
+            "92",
+            "00",
+            "20",
+            "37",
+            "41",
+            "60",
+            "81",
+            "82",
+            "83",
+            "86",
+            "90",
+            "93",
+            "94"
+        ],
+        "dependencies": "R; Hmisc (≥ 3.7), survival (≥ 2.36-3)",
+        "description": "zbMATH Open Web Interface contents unavailable due to conflicting licenses.",
+        "homepage": "http://cran.r-project.org/web/packages/rms/",
+        "id": 4532,
+        "keywords": [],
+        "license_terms": "GPL (≥ 2)",
+        "name": "rms",
+        "operating_systems": null,
+        "orms_id": null,
+        "programming_languages": null,
+        "related_software": [
+            {
+                "id": 771,
+                "name": "R"
+            },
+            {
+                "id": 6377,
+                "name": "SAS"
+            },
+            {
+                "id": 4364,
+                "name": "survival"
+            },
+            {
+                "id": 8159,
+                "name": "glmnet"
+            },
+            {
+                "id": 6029,
+                "name": "Stata"
+            },
+            {
+                "id": 4490,
+                "name": "VGAM"
+            },
+            {
+                "id": 11049,
+                "name": "ElemStatLearn"
+            },
+            {
+                "id": 4557,
+                "name": "ggplot2"
+            },
+            {
+                "id": 12561,
+                "name": "ordinal"
+            },
+            {
+                "id": 18788,
+                "name": "SAS/STAT"
+            },
+            {
+                "id": 11008,
+                "name": "BayesDA"
+            },
+            {
+                "id": 19105,
+                "name": "bootstrap"
+            },
+            {
+                "id": 19099,
+                "name": "brms"
+            },
+            {
+                "id": 2892,
+                "name": "S-PLUS"
+            },
+            {
+                "id": 4479,
+                "name": "MASS (R)"
+            },
+            {
+                "id": 4074,
+                "name": "UCI-ml"
+            },
+            {
+                "id": 8068,
+                "name": "timereg"
+            },
+            {
+                "id": 4586,
+                "name": "KernSmooth"
+            },
+            {
+                "id": 4351,
+                "name": "CRAN"
+            },
+            {
+                "id": 20527,
+                "name": "ordinalNet"
+            }
+        ],
+        "source_code": "https://github.com/cran/rms",
+        "standard_articles": [],
+        "zbmath_url": "https://zbmath.org/software/4532"
+    },
+    "status": {
+        "execution": "successful request",
+        "execution_bool": true,
+        "internal_code": "ok",
+        "last_id": null,
+        "nr_total_results": 1,
+        "nr_request_results": 1,
+        "query_execution_time_in_seconds": 0.10137176513671875,
+        "status_code": 200,
+        "time_stamp": "2024-10-17T17:48:07Z"
+    },
+    "swhdeposit:deposit": {
+        "swhdeposit:reference": {
+            "swhdeposit:object": {
+                "@swhid": "swh:1:snp:3f97c8fa7714065b16fa022ae54522c6b783e3a3"
+            }
+        },
+        "swhdeposit:metadata-provenance": {
+            "schema:url": "https://staging.swmath.org/"
+        }
+    }
+}
\ No newline at end of file

From 614d57eb1fd641bbe5109ab2c2873194e19df87a Mon Sep 17 00:00:00 2001
From: shirazos7 <shiraz@zbmath.org>
Date: Thu, 17 Oct 2024 20:07:23 +0200
Subject: [PATCH 6/7] the xml file of another software metadata including its
 swhid

---
 test/data/software/software_with_swhid_2.xml | 121 +++++++++++++++++++
 1 file changed, 121 insertions(+)
 create mode 100644 test/data/software/software_with_swhid_2.xml

diff --git a/test/data/software/software_with_swhid_2.xml b/test/data/software/software_with_swhid_2.xml
new file mode 100644
index 00000000..b8b13d8d
--- /dev/null
+++ b/test/data/software/software_with_swhid_2.xml
@@ -0,0 +1,121 @@
+<?xml version='1.0' encoding='utf-8'?>
+<root xmlns:swhdeposit="https://www.softwareheritage.org/schema/2018/deposit" xmlns:swh="https://www.softwareheritage.org/schema/2018/deposit" xmlns:schema="https://schema.org/">
+  <articles_count>150</articles_count>
+  <authors>Jr, Frank E Harrell</authors>
+  <classification>62</classification>
+  <classification>65</classification>
+  <classification>68</classification>
+  <classification>91</classification>
+  <classification>92</classification>
+  <classification>00</classification>
+  <classification>20</classification>
+  <classification>37</classification>
+  <classification>41</classification>
+  <classification>60</classification>
+  <classification>81</classification>
+  <classification>82</classification>
+  <classification>83</classification>
+  <classification>86</classification>
+  <classification>90</classification>
+  <classification>93</classification>
+  <classification>94</classification>
+  <swhdeposit:deposit>
+    <swhdeposit:reference>
+      <swhdeposit:object swhid="swh:1:snp:3f97c8fa7714065b16fa022ae54522c6b783e3a3" />
+    </swhdeposit:reference>
+    <swhdeposit:metadata-provenance>
+      <schema:url>https://staging.swmath.org/</schema:url>
+    </swhdeposit:metadata-provenance>
+  </swhdeposit:deposit>
+  <dependencies>R; Hmisc (≥ 3.7), survival (≥ 2.36-3)</dependencies>
+  <description>zbMATH Open Web Interface contents unavailable due to conflicting licenses.</description>
+  <homepage>http://cran.r-project.org/web/packages/rms/</homepage>
+  <id>4532</id>
+  <license_terms>GPL (≥ 2)</license_terms>
+  <name>rms</name>
+  <operating_systems>None</operating_systems>
+  <orms_id>None</orms_id>
+  <programming_languages>None</programming_languages>
+  <related_software>
+    <id>771</id>
+    <name>R</name>
+  </related_software>
+  <related_software>
+    <id>6377</id>
+    <name>SAS</name>
+  </related_software>
+  <related_software>
+    <id>4364</id>
+    <name>survival</name>
+  </related_software>
+  <related_software>
+    <id>8159</id>
+    <name>glmnet</name>
+  </related_software>
+  <related_software>
+    <id>6029</id>
+    <name>Stata</name>
+  </related_software>
+  <related_software>
+    <id>4490</id>
+    <name>VGAM</name>
+  </related_software>
+  <related_software>
+    <id>11049</id>
+    <name>ElemStatLearn</name>
+  </related_software>
+  <related_software>
+    <id>4557</id>
+    <name>ggplot2</name>
+  </related_software>
+  <related_software>
+    <id>12561</id>
+    <name>ordinal</name>
+  </related_software>
+  <related_software>
+    <id>18788</id>
+    <name>SAS/STAT</name>
+  </related_software>
+  <related_software>
+    <id>11008</id>
+    <name>BayesDA</name>
+  </related_software>
+  <related_software>
+    <id>19105</id>
+    <name>bootstrap</name>
+  </related_software>
+  <related_software>
+    <id>19099</id>
+    <name>brms</name>
+  </related_software>
+  <related_software>
+    <id>2892</id>
+    <name>S-PLUS</name>
+  </related_software>
+  <related_software>
+    <id>4479</id>
+    <name>MASS (R)</name>
+  </related_software>
+  <related_software>
+    <id>4074</id>
+    <name>UCI-ml</name>
+  </related_software>
+  <related_software>
+    <id>8068</id>
+    <name>timereg</name>
+  </related_software>
+  <related_software>
+    <id>4586</id>
+    <name>KernSmooth</name>
+  </related_software>
+  <related_software>
+    <id>4351</id>
+    <name>CRAN</name>
+  </related_software>
+  <related_software>
+    <id>20527</id>
+    <name>ordinalNet</name>
+  </related_software>
+  <source_code>https://github.com/cran/rms</source_code>
+  <zbmath_url>https://zbmath.org/software/4532</zbmath_url>
+</root>

From cae54723240ffeffeeb3d451c54832457fecdef6 Mon Sep 17 00:00:00 2001
From: shirazos7 <shiraz@zbmath.org>
Date: Thu, 17 Oct 2024 20:16:32 +0200
Subject: [PATCH 7/7] adjusting the transformation of metadata

---
 test/data/software/Test_Result_Codemeta.xml | 225 ++++++++++----------
 1 file changed, 112 insertions(+), 113 deletions(-)

diff --git a/test/data/software/Test_Result_Codemeta.xml b/test/data/software/Test_Result_Codemeta.xml
index a5a7a05f..61fe74d8 100644
--- a/test/data/software/Test_Result_Codemeta.xml
+++ b/test/data/software/Test_Result_Codemeta.xml
@@ -1,9 +1,10 @@
-<entry xmlns:atom="http://www.w3.org/2005/Atom"
+<?xml version="1.0"?>
+<entry xmlns="http://www.w3.org/2005/Atom"
        xmlns:codemeta="https://doi.org/10.5063/SCHEMA/CODEMETA-2.0"
        xmlns:swhdeposit="https://www.softwareheritage.org/schema/2018/deposit"
        xmlns:swh="https://www.softwareheritage.org/schema/2018/deposit"
        xmlns:schema="https://schema.org/">
-   <codemeta:identifier>zbmath-825</codemeta:identifier>
+   <id>zbmath-825</id>
    <swhdeposit:deposit>
       <swhdeposit:reference>
          <swhdeposit:object swhid="swh:1:snp:5132188cdf169d8ffcf2e44f41ad30734ecbf685"/>
@@ -12,31 +13,25 @@
          <schema:url>https://staging.swmath.org/</schema:url>
       </swhdeposit:metadata-provenance>
    </swhdeposit:deposit>
-   <codemeta:author>
-      <codemeta:author>
-         <codemeta:familyName>Developers</codemeta:familyName>
-         <codemeta:givenName>The Sage</codemeta:givenName>
-      </codemeta:author>
-      <codemeta:author>
-         <codemeta:familyName>Stein</codemeta:familyName>
-         <codemeta:givenName>William</codemeta:givenName>
-      </codemeta:author>
-      <codemeta:author>
-         <codemeta:familyName>Joyner</codemeta:familyName>
-         <codemeta:givenName>David</codemeta:givenName>
-      </codemeta:author>
-      <codemeta:author>
-         <codemeta:familyName>Kohel</codemeta:familyName>
-         <codemeta:givenName>David</codemeta:givenName>
-      </codemeta:author>
-      <codemeta:author>
-         <codemeta:familyName>Cremona</codemeta:familyName>
-         <codemeta:givenName>John</codemeta:givenName>
-      </codemeta:author>
-      <codemeta:author>
-         <codemeta:familyName>Eröcal</codemeta:familyName>
-         <codemeta:givenName>Burçin</codemeta:givenName>
-      </codemeta:author>
+  <codemeta:author>
+      <codemeta:name>Developers, The Sage</codemeta:name>
+      <codemeta:givenName>The Sage</codemeta:givenName>
+      <codemeta:familyName>Developers</codemeta:familyName>
+      <codemeta:name>Stein, William</codemeta:name>
+      <codemeta:givenName>William</codemeta:givenName>
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