From c96e9640c9f0dd0b30267e8cd02db8085c542f6e Mon Sep 17 00:00:00 2001
From: Samuel ORTION <samuel.ortion@orange.fr>
Date: Sun, 18 Sep 2022 13:38:43 +0200
Subject: [PATCH] First Medicine request successful on API-Plateform auto
 generated doc

---
 api/data/bdpm/.gitkeep                       |   0
 api/data/database.links.txt                  |   8 +
 api/data/utils/fill_database.php             |  20 ++
 api/data/utils/get_database.sh               |  12 +
 api/migrations/.gitignore                    |   1 +
 api/src/Entity/MedicineAdministrationWay.php |  50 ++++
 api/src/Entity/MedicineHolder.php            |  67 +++++
 api/src/Entity/MedicineSpeciality.php        | 295 +++++++++++++++++++
 8 files changed, 453 insertions(+)
 create mode 100644 api/data/bdpm/.gitkeep
 create mode 100644 api/data/database.links.txt
 create mode 100644 api/data/utils/fill_database.php
 create mode 100755 api/data/utils/get_database.sh
 create mode 100644 api/src/Entity/MedicineAdministrationWay.php
 create mode 100644 api/src/Entity/MedicineHolder.php
 create mode 100644 api/src/Entity/MedicineSpeciality.php

diff --git a/api/data/bdpm/.gitkeep b/api/data/bdpm/.gitkeep
new file mode 100644
index 0000000..e69de29
diff --git a/api/data/database.links.txt b/api/data/database.links.txt
new file mode 100644
index 0000000..5fd8d04
--- /dev/null
+++ b/api/data/database.links.txt
@@ -0,0 +1,8 @@
+CIS_bdpm.txt
+CIS_CIP_bdpm.txt
+CIS_COMPO_bdpm.txt
+CIS_HAS_SMR_bdpm.txt
+CIS_HAS_ASMR_bdpm.txt
+HAS_LiensPageCT_bdpm.txt
+CIS_CPD_bdpm.txt
+CIS_InfoImportantes.txt
\ No newline at end of file
diff --git a/api/data/utils/fill_database.php b/api/data/utils/fill_database.php
new file mode 100644
index 0000000..455e86e
--- /dev/null
+++ b/api/data/utils/fill_database.php
@@ -0,0 +1,20 @@
+<?php
+
+/**
+ * Fill API backend SQL database with data from government open data.
+ */
+
+// CIS_bdpm.txt
+// This database holds the list of medicines with status, holder, name, etc.
+
+$URL = "http://localhost/";
+
+function post($url, $data) {
+    $ch = curl_init($url);
+    curl_setopt($ch, CURLOPT_POST, true);
+    curl_setopt($ch, CURLOPT_POSTFIELDS, $data);
+    curl_setopt($ch, CURLOPT_RETURNTRANSFER, true);
+    $response = curl_exec($ch);
+    curl_close($ch);
+    return $response;
+}
diff --git a/api/data/utils/get_database.sh b/api/data/utils/get_database.sh
new file mode 100755
index 0000000..78ab85d
--- /dev/null
+++ b/api/data/utils/get_database.sh
@@ -0,0 +1,12 @@
+#! /usr/bin/env bash
+set -e
+
+DATABASE_DOWNLOAD_ENDPOINT="https://base-donnees-publique.medicaments.gouv.fr/telechargement.php?fichier="
+
+for file in $(cat ./data/database.links.txt); do
+    if [[ -z "$file" ]]; then
+        continue
+    fi
+    echo "Downloading $file"
+    wget -O "./data/bdpm/${file}" "${DATABASE_DOWNLOAD_ENDPOINT}${file}"
+done
\ No newline at end of file
diff --git a/api/migrations/.gitignore b/api/migrations/.gitignore
index e69de29..f59ec20 100644
--- a/api/migrations/.gitignore
+++ b/api/migrations/.gitignore
@@ -0,0 +1 @@
+*
\ No newline at end of file
diff --git a/api/src/Entity/MedicineAdministrationWay.php b/api/src/Entity/MedicineAdministrationWay.php
new file mode 100644
index 0000000..cf42cef
--- /dev/null
+++ b/api/src/Entity/MedicineAdministrationWay.php
@@ -0,0 +1,50 @@
+<?php
+
+namespace App\Entity;
+
+use ApiPlatform\Metadata\ApiResource;
+use ApiPlatform\Metadata\Link;
+use Doctrine\Common\Collections\ArrayCollection;
+use Doctrine\ORM\Mapping as ORM;
+
+/**
+ * A medicine administration way.
+ * i.e. "comprime secable voie orale" for instance
+ */
+#[ORM\Entity]
+class MedicineAdministrationWay
+{
+    #[ORM\Id, ORM\Column,ORM\GeneratedValue]
+    private ?int $id = null;
+
+    /**
+     * This CIS (Code Identifiant de Spécialité) id is the unique identifier of the medicine.
+     */
+    #[ORM\Column]
+    private ?string $CIS = null;
+
+    /** The medicine that is admnistrate this way. */
+    #[ORM\ManyToOne(inversedBy: 'ways')]
+    public ?MedicineSpeciality $medicine = null;
+
+    /**
+     * The drug administration way
+     */
+    #[ORM\Column]
+    private ?string $administration_way = null;
+
+    public function getId(): ?int
+    {
+        return $this->id;
+    }
+
+    public function getCIS(): ?string
+    {
+        return $this->CIS;
+    }
+
+    public function getAdministrationWay(): ?string
+    {
+        return $this->administration_way;
+    }
+}
diff --git a/api/src/Entity/MedicineHolder.php b/api/src/Entity/MedicineHolder.php
new file mode 100644
index 0000000..fa16052
--- /dev/null
+++ b/api/src/Entity/MedicineHolder.php
@@ -0,0 +1,67 @@
+<?php
+
+namespace App\Entity;
+
+use ApiPlatform\Metadata\ApiResource;
+use ApiPlatform\Metadata\Link;
+use Doctrine\ORM\Mapping as ORM;
+
+/**
+ * A medicine holder (titulaire of an AMM).
+ */
+#[ORM\Entity]
+class MedicineHolder
+{
+    #[ORM\Id]
+    #[ORM\GeneratedValue]
+    #[ORM\Column(type: 'integer')]
+    private ?int $id = null;
+
+    /**
+     * This CIS (Code Identifiant de Spécialité) id is the unique identifier of the medicine.
+     */
+    #[ORM\Column(type: 'string', length: 11)]
+    private ?string $CIS = null;
+
+    #[ORM\Column]
+    private string $name = '';
+
+    /** The medicament this entity holds */
+    #[ORM\ManyToOne(inversedBy: 'holders')]
+    private ?MedicineSpeciality $medicine;
+
+    public function getId(): ?int
+    {
+        return $this->id;
+    }
+
+    public function getCIS(): ?string
+    {
+        return $this->CIS;
+    }
+
+    public function getName(): ?string
+    {
+        return $this->name;
+    }
+
+
+    public function setCIS(string $CIS): self
+    {
+        $this->CIS = $CIS;
+
+        return $this;
+    }
+
+    public function setName(string $name): self
+    {
+        $this->name = $name;
+
+        return $this;
+    }
+
+    public function __toString(): string
+    {
+        return $this->name;
+    }
+}
diff --git a/api/src/Entity/MedicineSpeciality.php b/api/src/Entity/MedicineSpeciality.php
new file mode 100644
index 0000000..399fca2
--- /dev/null
+++ b/api/src/Entity/MedicineSpeciality.php
@@ -0,0 +1,295 @@
+<?php
+
+namespace App\Entity;
+
+use ApiPlatform\Metadata\ApiResource;
+use ApiPlatform\Metadata\ApiProperty;
+use ApiPlatform\Metadata\Link;
+use Doctrine\Common\Collections\ArrayCollection;
+use Doctrine\ORM\Mapping as ORM;
+
+/**
+ * A medicine speciality.
+ *
+ * Medicine that is in the commercial distribution or that has been in commercial distribution since less than three years.
+ *
+ * From CIS_bdpm.txt
+ * @see https://base-donnees-publique.medicaments.gouv.fr/telechargement.php
+ */
+#[ORM\Entity]
+#[ApiResource]
+// #[ApiResource(
+//     uriTemplate: '/medicine/'
+// )]
+// #[ApiResource(
+//     uriTemplate: '/medicine/{CIS}',
+//     uriVariables: [
+//         'CIS' => new Link(fromClass: MedicineSpeciality::class, fromProperty: 'CIS'),
+//     ]
+// )]
+// #[ApiResource(
+//     uriTemplate: '/medicine/{CIS}/holder',
+//     uriVariables: [
+//         'CIS' => new Link(fromClass: MedicineSpeciality::class, fromProperty: 'CIS'),
+//     ]
+// )]
+// #[ApiResource(
+//     uriTemplate: '/medicine/{CIS}/holder/{id}',
+//     uriVariables: [
+//         'CIS' => new Link(fromClass: MedicineSpeciality::class, fromProperty: 'CIS'),
+//         'id' => new Link(fromClass: MedicineHolder::class, fromProperty: 'id'),
+//     ]
+// )]
+// #[ApiResource(
+//     uriTemplate: '/medicine/{CIS}/way',
+//     uriVariables: [
+//         'CIS' => new Link(fromClass: MedicineSpeciality::class, fromProperty: 'CIS'),
+//     ]
+// )]
+// #[ApiResource(
+//     uriTemplate: '/medicine/{CIS}/way/{id}',
+//     uriVariables: [
+//         'CIS' => new Link(fromClass: MedicineSpeciality::class, fromProperty: 'CIS'),
+//         'id' => new Link(fromClass: MedicineAdministrationWay::class, fromProperty: 'id'),
+//     ]
+// )]
+class MedicineSpeciality
+{
+
+    #[ORM\Id, ORM\Column,ORM\GeneratedValue]
+    private ?int $id = null;
+
+    /**
+     * This CIS (Code Identifiant de Spécialité) id is the unique identifier of the medicine.
+     */
+    #[ORM\Column]
+    #[ApiProperty(identifier: true)]
+    private ?int $CIS = null;
+
+    /**
+     * Name of the medicine.
+     */
+    #[ORM\Column]
+    private ?string $denomination = null;
+
+    /**
+     * Pharmaceutical form of the medicine.
+     *
+     *
+     */
+    #[ORM\Column]
+    private ?string $form = null;
+
+    /**
+     * Ways of drug administration of the medicine.
+     * @var medicineAdministrationWay[] Available administration routes for this medicine.
+     */
+    #[ORM\OneToMany(mappedBy: 'medicine', targetEntity: MedicineAdministrationWay::class)]
+    public iterable $ways;
+
+    /**
+     * Administrative state of medicine's market authorization (AMM).
+     */
+    #[ORM\Column]
+    private ?string $market_auth_status = null;
+
+    /**
+     * Type of medicine market authorization process
+     */
+    #[ORM\Column]
+    private ?string $market_auth_process_type = null;
+
+    /**
+     * Date of medicine market authorization (AMM - * Autorisation de Mise sur le Marché)
+     */
+    #[ORM\Column(type: 'date')]
+    private ?\DateTimeInterface $market_auth_date = null;
+
+    /**
+     * Market status
+     *
+     * State of medicine commercialization.
+     */
+    #[ORM\Column]
+    private ?string $market_status = null;
+
+    /**
+     * Bdm status
+     *
+     * either "alerte", "warning disponibilité"
+     */
+    #[ORM\Column]
+    private ?string $bdm_status = null;
+
+    /**
+     * European authorization code
+     */
+    #[ORM\Column]
+    private ?int $european_auth_code = null;
+
+    /**
+     * Holders(s)
+     *
+     * @var MedicineHolder[] Holders of the medicine market authorization (AMM)
+     */
+    #[ORM\OneToMany(mappedBy: 'medicine', targetEntity: MedicineHolder::class, cascade: ['persist', 'remove'])]
+    public iterable $holders;
+
+    /**
+     * Enforced surveillance
+     *
+     * either 'Oui' or 'Non'
+     */
+    #[ORM\Column]
+    private ?string $enforced_surveillance = null;
+
+    public function __construct()
+    {
+        $this->holders = new ArrayCollection();
+        $this->ways = new ArrayCollection();
+    }
+
+    public function getCIS(): ?int
+    {
+        return $this->CIS;
+    }
+
+    public function getDenomination(): ?string
+    {
+        return $this->denomination;
+    }
+
+    public function getForm(): ?string
+    {
+        return $this->form;
+    }
+
+    public function getMarketAuthStatus(): ?string
+    {
+        return $this->market_auth_status;
+    }
+
+    public function getMarketAuthProcessType(): ?string
+    {
+        return $this->market_auth_process_type;
+    }
+
+    public function getMarketAuthDate(): ?\DateTimeInterface
+    {
+        return $this->market_auth_date;
+    }
+
+    public function getMarketStatus(): ?string
+    {
+        return $this->market_status;
+    }
+
+    public function getBdmStatus(): ?string
+    {
+        return $this->bdm_status;
+    }
+
+    public function getEuropeanAuthCode(): ?int
+    {
+        return $this->european_auth_code;
+    }
+
+    public function getEnforcedSurveillance(): ?string
+    {
+        return $this->enforced_surveillance;
+    }
+
+    public function getWays(): iterable
+    {
+        return $this->ways;
+    }
+
+    public function getHolders(): iterable
+    {
+        return $this->holders;
+    }
+
+    public function setCIS(?int $CIS): self
+    {
+        $this->CIS = $CIS;
+
+        return $this;
+    }
+
+    public function setDenomination(?string $denomination): self
+    {
+        $this->denomination = $denomination;
+
+        return $this;
+    }
+
+    public function setForm(?string $form): self
+    {
+        $this->form = $form;
+
+        return $this;
+    }
+
+    public function setMarketAuthStatus(?string $market_auth_status): self
+    {
+        $this->market_auth_status = $market_auth_status;
+
+        return $this;
+    }
+
+    public function setMarketAuthProcessType(?string $market_auth_process_type): self
+    {
+        $this->market_auth_process_type = $market_auth_process_type;
+
+        return $this;
+    }
+
+    public function setMarketAuthDate(?\DateTimeInterface $market_auth_date): self
+    {
+        $this->market_auth_date = $market_auth_date;
+
+        return $this;
+    }
+
+    public function setMarketStatus(?string $market_status): self
+    {
+        $this->market_status = $market_status;
+
+        return $this;
+    }
+
+    public function setBdmStatus(?string $bdm_status): self
+    {
+        $this->bdm_status = $bdm_status;
+
+        return $this;
+    }
+
+    public function setEuropeanAuthCode(?int $european_auth_code): self
+    {
+        $this->european_auth_code = $european_auth_code;
+
+        return $this;
+    }
+
+    public function setEnforcedSurveillance(?string $enforced_surveillance): self
+    {
+        $this->enforced_surveillance = $enforced_surveillance;
+
+        return $this;
+    }
+
+    public function setWays(iterable $ways): self
+    {
+        $this->ways = $ways;
+
+        return $this;
+    }
+
+    public function setHolders(iterable $holders): self
+    {
+        $this->holders = $holders;
+
+        return $this;
+    }
+}