From c0936aea74122ea225966b2a353a59a174b2a7b7 Mon Sep 17 00:00:00 2001
From: Munyoki Kilyungi
Date: Thu, 17 Oct 2024 14:06:50 +0300
Subject: Add new transform for table schema.

Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
---
 examples/schema.scm | 70 +++++++++++++++++++++++++++++++++++++++++++++++++++++
 1 file changed, 70 insertions(+)
 create mode 100755 examples/schema.scm

(limited to 'examples')

diff --git a/examples/schema.scm b/examples/schema.scm
new file mode 100755
index 0000000..50cfd6a
--- /dev/null
+++ b/examples/schema.scm
@@ -0,0 +1,70 @@
+#! /usr/bin/env guile
+!#
+
+(use-modules (ice-9 getopt-long)
+             (transform triples)
+             (transform schema)
+             (transform special-forms)
+             (transform sql)
+             (transform table))
+
+(define (call-with-genenetwork-database connection-settings proc)
+  (call-with-database "mysql" (string-join
+                               (list (assq-ref connection-settings 'sql-username)
+                                     (assq-ref connection-settings 'sql-password)
+                                     (assq-ref connection-settings 'sql-database)
+                                     "tcp"
+                                     (assq-ref connection-settings 'sql-host)
+                                     (number->string
+                                      (assq-ref connection-settings 'sql-port)))
+                               ":")
+                      proc))
+
+(define (transform-table-schema connection-settings db)
+  (let ((tables (tables connection-settings db)))
+    (for-each (lambda (table)
+                (let ((table-id (string->identifier
+                                 "table"
+                                 ;; We downcase table names in
+                                 ;; identifiers. So, we distinguish
+                                 ;; between the user and User tables.
+                                 (if (string=? (table-name table) "User")
+                                     "user2"
+                                     (table-name table)))))
+                  (triple table-id 'rdf:type 'gn:sqlTable)
+                  (triple table-id 'gn:name (table-name table))
+                  (triple table-id 'gn:hasSize (string->symbol (format #f "~a" (table-size table))))
+                  (for-each (lambda (column)
+                              (let ((column-id (column-id (table-name table)
+                                                          (column-name column))))
+                                (triple column-id 'rdf:type 'gn:sqlTableField)
+                                (triple column-id 'gn:name (column-name column))
+                                (triple column-id 'gn:sqlFieldType (column-type column))
+                                (triple table-id 'gn:hasField column-id)))
+                            (table-columns table))))
+              tables)))
+
+
+(let* ((option-spec
+        '((settings (single-char #\s) (value #t))
+          (output (single-char #\o) (value #t))
+          (documentation (single-char #\d) (value #t))))
+       (options (getopt-long (command-line) option-spec))
+       (settings (option-ref options 'settings #f))
+       (output (option-ref options 'output #f))
+       (documentation (option-ref options 'documentation #f))
+       (%connection-settings (call-with-input-file settings read)))
+  (call-with-genenetwork-database
+   %connection-settings
+   (lambda (db)
+     (with-output-to-file output
+       (lambda ()
+         (prefix "rdf:" "<http://www.w3.org/1999/02/22-rdf-syntax-ns#>")
+         (prefix "rdfs:" "<http://www.w3.org/2000/01/rdf-schema#>")
+         (prefix "gn:" "<http://genenetwork.org/id/>")
+         (prefix "gnc:" "<http://genenetwork.org/category/>")
+         (prefix "gnt:" "<http://genenetwork.org/term/>")
+         (prefix "xsd:" "<http://www.w3.org/2001/XMLSchema#>")
+         (prefix "owl:" "<http://www.w3.org/2002/07/owl#>")
+         (newline)
+         (transform-table-schema %connection-settings db))))))
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