data/docker/README_Oracle.md

VCell Database Notes

database installation and data migration

• data dump from retired 11g/Windows
• build Oracle 19.3.0 Docker image
• configure database host
• import database dump

database user and roles creation

• Create vcell_role to access VCELL schema
• Create service users with role vcell_role
• add triggers to set default schema upon login

database user management

• Unlock user vcell
• Reset password for user vcell
• reset system passwords (if needed)
• review password policy
• review vcell user account status
• review system account status

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data dump from retired 11g/Windows

• VCell-db.cam.uchc.edu, windows 2008
• Oracle 11g enterprise
• character set is WE8MSWIN1252
• in vcell-db database, named directory E_DATA_PUMP_DIR maps to e:\db

to get a snapshot, we need a scn (system change number) from the database. scn = 1430710053 (compute from sql below)

select current_scn from v$database

using this scn, export the vcell schema

expdp system/<<password>>@vcelldborcl directory=E_DATA_PUMP_DIR dumpfile=vcelldb_dump_2023_08_19.dmp logfile=vcelldb_dump_2023_08_19.log schemas=vcell flashback_scn=1430710053

build Oracle 19.3.0 Docker image

1. check out github repo for oracle docker containers

2. download LINUX.X64_193000_db_home.zip and install in ./19.3.0/ directory

3. build the container (from docker-images/OracleDatabase/SingleInstance/)

   ./buildContainerImage.sh -s -v 19.3.0 -o '--build-arg SLIMMING=false'
   

4. tag and push image to container repository

   docker tag <<image name>> ghcr.io/virtualcell/oracle-database:19.3.0-se2
   docker push ghcr.io/virtualcell/oracle-database:19.3.0-se2
   

configure database host

1. create /data/oradata, /data/backup directories and set permissions to allow container oracle/dba rw access.

2. first time - run the container on host (e.g. vcell-oracle)

   sudo docker run --detach --restart=always \
       --name oracle-database \
       -p 1521:1521 -p 5500:5500 \
       --ulimit nofile=1024:65536 --ulimit nproc=2047:16384 --ulimit stack=10485760:33554432 --ulimit memlock=3221225472 \
       -e ORACLE_SID=ORCLCDB \
       -e ORACLE_PDB=ORCLPDB1 \
       -e ORACLE_PWD=<<password>> \
       -e INIT_CPU_COUNT=4 \
       -e ORACLE_EDITION=standard \
       -e ENABLE_TCPS=false \
       -e ORACLE_CHARACTERSET=WE8MSWIN1252 \
       -e ENABLE_ARCHIVELOG=true \
       -v /data/oradata:/opt/oracle/oradata \
       -v /data/backup:/opt/oracle/backup \
       ghcr.io/virtualcell/oracle-database:19.3.0-se2
   

   check logs

   sudo docker logs -f oracle-database
   

3. register directory object EXT_DATA_PUMP_DIR for /opt/oracle/backup (host /data/backup)

   create or replace directory EXT_DATA_PUMP_DIR as '/opt/oracle/backup';
   

4. add user vcell (Command?)

5. set up the datapump directory for imports/exports

   sqlplus system/<<password>>@ORCLPDB1
   

   then in sqlplus:

   create directory EXT_DATA_PUMP_DIR as '/opt/oracle/backup';
   

import database dump

docker exec -it oracle-database /bin/bash

then bash impdp system/<<password>>@ORCLPDB1 schemas=vcell \ table_exists_action=REPLACE directory=EXT_DATA_PUMP_DIR \ dumpfile=FRMDEV2ORCL_VCELL_2023_08_19_17_05_08.DMP \ logfile=FRMDEV2ORCL_VCELL_2023_08_19_17_05_08.log

Database user and roles creation

Create vcell_role to access VCELL schema

from within the container

sqlplus / as sysdba

then

ALTER SESSION SET CONTAINER = ORCLPDB1;

CREATE ROLE vcell_role;

BEGIN

FOR r IN (SELECT table_name FROM all_tables WHERE owner = 'VCELL') LOOP
    EXECUTE IMMEDIATE 'GRANT SELECT, INSERT, UPDATE, DELETE ON VCELL.' || r.table_name || ' TO vcell_role';
END LOOP;

FOR r IN (SELECT object_name FROM all_procedures WHERE owner = 'VCELL' AND object_type IN ('PROCEDURE', 'FUNCTION', 'PACKAGE', 'PACKAGE BODY')) LOOP
BEGIN
EXECUTE IMMEDIATE 'GRANT EXECUTE ON VCELL.' || r.object_name || ' TO vcell_role';
EXCEPTION
      WHEN OTHERS THEN
        DBMS_OUTPUT.PUT_LINE('Error granting EXECUTE on ' || r.object_name || ': ' || SQLERRM);
END;
END LOOP;

FOR r IN (SELECT sequence_name FROM all_sequences WHERE sequence_owner = 'VCELL') LOOP
BEGIN
EXECUTE IMMEDIATE 'GRANT SELECT ON VCELL.' || r.sequence_name || ' TO VCELL_ROLE';
EXECUTE IMMEDIATE 'GRANT USAGE ON VCELL.' || r.sequence_name || ' TO VCELL_ROLE';
EXCEPTION WHEN OTHERS THEN
            DBMS_OUTPUT.PUT_LINE('Error granting access to sequence ' || r.sequence_name || ': ' || SQLERRM);
END;
END LOOP;

END;
/

GRANT CREATE SESSION TO vcell_role;

Create service and dev users with role vcell_role

from within the container

sqlplus / as sysdba

then

ALTER SESSION SET CONTAINER = ORCLPDB1;

CREATE USER vcell_service IDENTIFIED BY strong_password_1;
ALTER USER vcell_service QUOTA UNLIMITED ON USERS;
GRANT vcell_role TO vcell_service;

CREATE USER vcell_dev IDENTIFIED BY strong_password_2;
ALTER USER vcell_dev QUOTA UNLIMITED ON USERS;
GRANT vcell_role TO vcell_dev;

-- not sure if need to commit
commit;  

add triggers to set default schema upon login

from within the container

sqlplus / as sysdba

then

CREATE OR REPLACE TRIGGER set_vcell_service_schema
AFTER LOGON ON vcell_service.SCHEMA
BEGIN
EXECUTE IMMEDIATE 'ALTER SESSION SET CURRENT_SCHEMA = VCELL';
END;
/

CREATE OR REPLACE TRIGGER set_vcell_dev_schema
AFTER LOGON ON vcell_dev.SCHEMA
BEGIN
EXECUTE IMMEDIATE 'ALTER SESSION SET CURRENT_SCHEMA = VCELL';
END;
/

Database user maintenance

Unlock user vcell

from within the container

sqlplus / as sysdba

then

ALTER SESSION SET CONTAINER = ORCLPDB1;
ALTER USER vcell ACCOUNT UNLOCK;

Reset password for user vcell

from within the container

sqlplus / as sysdba

then

ALTER SESSION SET CONTAINER = ORCLPDB1;
ALTER USER vcell IDENTIFIED BY <<new password>>;

reset system passwords (if needed)

from within the container

sqlplus / as sysdba

then

ALTER USER sys IDENTIFIED BY <<new password>>;
ALTER USER system IDENTIFIED BY <<new password>>;

review password policy

from within the container

sqlplus / as sysdba

then

SELECT PROFILE, RESOURCE_NAME, LIMIT from DBA_PROFILES WHERE RESOURCE_NAME like 'PASSWORD%' order by PROFILE;

note that 'DEFAULT' profile is for regular users like 'vcell' and 'ORA_STIG_PROFILE' is for system users like 'SYS' and 'SYSTEM'

review vcell user account status

from within the container

sqlplus / as sysdba

then

ALTER SESSION SET CONTAINER = ORCLPDB1;
SELECT ACCOUNT_STATUS, EXPIRY_DATE FROM DBA_USERS WHERE USERNAME = 'VCELL';

review system account status

from within the container

sqlplus / as sysdba

then

SELECT ACCOUNT_STATUS, EXPIRY_DATE from DBA_USERS where USERNAME = 'SYSTEM' or USERNAME = 'SYS';