Install Orthanc in Centos 7

First, download and extract orthanc.

$ wget -O Orthanc-1.5.7.tar.gz https://www.orthanc-server.com/downloads/get.php?path=/orthanc/Orthanc-1.5.7.tar.gz

$ tar xvf Orthanc-1.5.7.tar.gz

$ cd Orthanc-1.5.7

Check the LinuxCompilation.txt in the source root directory and follow it.

$ mkdir ~\orthanc

$ cd ~

$  wget https://github.com/Kitware/CMake/releases/download/v3.15.4/cmake-3.15.4-Linux-x86_64.sh

$ sh cmake-3.15.4-Linux-x86_64.sh

Type y to accept the license when prompted.

$ sudo su

vim ~/.bashrc and add the below lines.


export CXX=/home/pkathi2/cmake-3.15.4-Linux-x86_64/bin

export PATH=$PATH:$CXX



Save and exit.


$ source ~/.bashrc

$ sudo chmod 777 -R /home/pkathi2/cmake-3.15.4-Linux-x86_64/bin/

$ sudo su

$ cmake -DSTATIC_BUILD=ON -DCMAKE_BUILD_TYPE=Release /opt/localdrive/Orthanc-1.5.7

Add additional context to SELinux

In this post we quickly look into how we add context for SELinux on our Orthanc binary storage.
$ sudo semanage fcontext -a -t etc_t -s system_u /opt/localdrive/orthancstorage

$ sudo restorecon -R -v /opt/localdrive/orthancstorage

Now we confirm it by the below command:
$ cat /etc/selinux/targeted/contexts/files/file_contexts.local
# This file is auto-generated by libsemanage
# Do not edit directly.

/opt/localdrive/postgres(/.*)?    system_u:object_r:postgresql_db_t:s0
/opt/localdrive/orthancstorage    system_u:object_r:etc_t:s0

Confirm the updates
$ ls -laZ /opt/localdrive/orthancstorage

Configuring Orthanc with Postgres backend with a network data directory

So we hve configured Orthanc with a Postgres backend. To support a large-scale data store, we mapped a network directory as the data directory of Postgres. Then we configured Orthanc to have Postgres as its backend data store, instead of its default SQLite backend, using the Postgres plugin. There is also an option for a MySQL/MariaDB backend, which we found not stable with MySQL in a network directory.

However, since we have the configured Postgres in a network directory, we have to make sure everything is running fine. Unfortunately, when we reboot, often the network directory does not mount on its own. Therefore, despite our configuration to start Postgres and Orthanc at the boot time, they both fail.

Data directory unaccessible → Postgres fails to start. Postgres failed to start → Orthanc fails to start.

We have to configure the below services in Centos, following the same order.

1) Postgresql

$ sudo systemctl start postgresql

$ sudo systemctl enable postgresql

$ sudo systemctl status postgresql

● postgresql.service - PostgreSQL database server

   Loaded: loaded (/usr/lib/systemd/system/postgresql.service; enabled; vendor preset: disabled)

   Active: active (running) since Mon 2018-09-17 14:46:41 EDT; 11min ago

 Main PID: 2655 (postgres)

   CGroup: /system.slice/postgresql.service

           ├─2655 /usr/bin/postgres -D /opt/pacs/postgres -p 5432

           ├─2657 postgres: logger process

           ├─2701 postgres: checkpointer process

           ├─2702 postgres: writer process

           ├─2703 postgres: wal writer process

           ├─2704 postgres: autovacuum launcher process

           ├─2705 postgres: stats collector process

           ├─2754 postgres: postgres orthanc ::1(48534) idle

           └─2755 postgres: postgres orthanc ::1(48536) idle

Sep 17 14:45:59 HOST.NAME systemd[1]: Starting PostgreSQL database server...

Sep 17 14:45:59 HOST.NAME pg_ctl[2652]: pg_ctl: another server might be running; trying to start server anyway

Sep 17 14:46:41 HOST.NAME systemd[1]: Started PostgreSQL database server.

2) Orthanc

$ sudo systemctl start orthanc

$ sudo systemctl enable orthanc

$ sudo systemctl status orthanc

● orthanc.service - Orthanc DICOM server

   Loaded: loaded (/usr/lib/systemd/system/orthanc.service; enabled; vendor preset: disabled)

   Active: active (running) since Mon 2018-09-17 14:47:14 EDT; 8min ago

     Docs: man:Orthanc(1)

           http://www.orthanc-server.com/

 Main PID: 2753 (Orthanc)

   CGroup: /system.slice/orthanc.service

           └─2753 /usr/sbin/Orthanc /etc/orthanc/orthanc.json

Sep 17 14:47:15 HOST.NAME Orthanc[2753]: W0917 14:47:15.399045 ServerContext.cpp:167] Reloading the jobs from the last execution of Orthanc

Sep 17 14:47:15 HOST.NAME Orthanc[2753]: W0917 14:47:15.399776 JobsEngine.cpp:281] The jobs engine has started with 2 threads

Sep 17 14:47:15 HOST.NAME Orthanc[2753]: W0917 14:47:15.400023 ServerContext.cpp:293] Disk compression is disabled

Sep 17 14:47:15 HOST.NAME Orthanc[2753]: W0917 14:47:15.400050 ServerIndex.cpp:1437] No limit on the number of stored patients

Sep 17 14:47:15 HOST.NAME Orthanc[2753]: W0917 14:47:15.400490 ServerIndex.cpp:1454] No limit on the size of the storage area

Sep 17 14:47:15 HOST.NAME Orthanc[2753]: W0917 14:47:15.400995 LuaContext.cpp:103] Lua says: Lua toolbox installed

Sep 17 14:47:15 HOST.NAME Orthanc[2753]: W0917 14:47:15.403966 main.cpp:848] DICOM server listening with AET BMIPACS on port: 4242

Sep 17 14:47:15 HOST.NAME Orthanc[2753]: W0917 14:47:15.404382 MongooseServer.cpp:1087] HTTP compression is enabled

Sep 17 14:47:15 HOST.NAME Orthanc[2753]: W0917 14:47:15.405872 MongooseServer.cpp:1001] HTTP server listening on port: 8042 (HTTPS encryption is disabled, remote access is allowed)

Sep 17 14:47:15 HOST.NAME Orthanc[2753]: W0917 14:47:15.405915 main.cpp:667] Orthanc has started

To clean the data from Orthanc entirely

 

The easy way is to drop the Orthanc database.

First connect to the postgres client:
$ psql -U postgres
Password for user postgres:
psql (9.2.24)
Type "help" for help.


postgres-# \l
                                 List of databases
   Name    |  Owner   | Encoding |  Collate   |   Ctype    |   Access privileges
-----------+----------+----------+------------+------------+-----------------------
 dcm4chee  | dcm4chee | UTF8     | en_US.utf8 | en_US.utf8 |
 mytest    | postgres | UTF8     | en_US.utf8 | en_US.utf8 |
 orthanc   | postgres | UTF8     | en_US.utf8 | en_US.utf8 |
 postgres  | postgres | UTF8     | en_US.utf8 | en_US.utf8 |
 template0 | postgres | UTF8     | en_US.utf8 | en_US.utf8 | =c/postgres          +
           |          |          |            |            | postgres=CTc/postgres
 template1 | postgres | UTF8     | en_US.utf8 | en_US.utf8 | =c/postgres          +
           |          |          |            |            | postgres=CTc/postgres
 testtest  | postgres | UTF8     | en_US.utf8 | en_US.utf8 |
(7 rows)

Then go to another database to be able to drop the Orthanc database
orthanc=# \c mytest
You are now connected to database "mytest" as user "postgres".

mytest=# drop database orthanc;
ERROR:  database "orthanc" is being accessed by other users
DETAIL:  There are 2 other sessions using the database.

Yes, first we need to stop Orthanc!

[root@researchpacs postgres]# systemctl stop orthanc

Now drop the database. 

mytest=# drop database orthanc;
DROP DATABASE
mytest=#

Create the database again.

mytest=# create database orthanc;
CREATE DATABASE

Now you may start Orthanc again!

[root@researchpacs postgres]# systemctl start orthanc



You can also access your data via a browser, using the HTTP Port:

http://HOST.NAME:8042/app/explorer.html