add yaml

yaml/bind.yml

+apiVersion: rbac.authorization.k8s.io/v1
+kind: ClusterRoleBinding
+metadata:
+  name: cbio-api
+subjects:
+- kind: ServiceAccount
+  name: cbio-api
+  namespace: cbio-on-demand
+roleRef:
+  kind: ClusterRole
+  name: cbio-api
+  apiGroup: rbac.authorization.k8s.io
+
+
+---
+
+apiVersion: rbac.authorization.k8s.io/v1beta1
+kind: ClusterRoleBinding
+metadata:
+  name: fabric8-rbac
+subjects:
+  - kind: ServiceAccount
+    # Reference to upper's `metadata.name`
+    name: cbio-api
+    # Reference to upper's `metadata.namespace`
+    namespace: cbio-on-demand
+roleRef:
+  kind: ClusterRole
+  name: cluster-admin
+  apiGroup: rbac.authorization.k8s.io

yaml/clusterRole.yml

+kind: ClusterRole
+apiVersion: rbac.authorization.k8s.io/v1
+metadata:
+  name: cbio-api
+rules:
+- apiGroups: [""]
+  resources: ["identifiers"]
+  verbs: ["VerbAll"]

yaml/config.yml

+apiVersion: v1
+kind: ConfigMap
+metadata:
+  name: mysql-cbio-db
+  namespace: cbio-on-demand
+data:
+  mysql.conf: "# Copyright (c) 2014, 2016, Oracle and/or its affiliates. All rights
+    reserved.\n#\n# This program is free software; you can redistribute it and/or
+    modify\n# it under the terms of the GNU General Public License as published
+    by\n# the Free Software Foundation; version 2 of the License.\n#\n# This program
+    is distributed in the hope that it will be useful,\n# but WITHOUT ANY WARRANTY;
+    without even the implied warranty of\n# MERCHANTABILITY or FITNESS FOR A PARTICULAR
+    PURPOSE.  See the\n# GNU General Public License for more details.\n#\n# You
+    should have received a copy of the GNU General Public License\n# along with
+    this program; if not, write to the Free Software\n# Foundation, Inc., 51 Franklin
+    St, Fifth Floor, Boston, MA  02110-1301 USA\n\n#\n# The MySQL  Server configuration
+    file.\n#\n# For explanations see\n# http://dev.mysql.com/doc/mysql/en/server-system-variables.html\n\n[mysqld]\npid-file\t=
+    /var/run/mysqld/mysqld.pid\nsocket\t\t= /var/run/mysqld/mysqld.sock\ndatadir\t\t=
+    /var/lib/mysql\n#log-error\t= /var/log/mysql/error.log\n# By default we only
+    accept connections from localhost\n#bind-address\t= 127.0.0.1\n# Disabling symbolic-links
+    is recommended to prevent assorted security risks\nsymbolic-links=0\n\n#\n#
+    * Fine Tuning\n#\n\nkey_buffer_size         = 4G\nmax_heap_table_size     =
+    512M\ntmp_table_size          = 512M\nmax_allowed_packet      = 256M\nthread_stack
+    \           = 256K\nthread_cache_size       = 20\n# This replaces the startup
+    script and checks MyISAM tables if needed\n# the first time they are touched\nmyisam-recover-options
+    \ = BACKUP\nmax_connections        = 214\n#table_cache            = 64\n#thread_concurrency
+    \    = 10\n#\n# * Query Cache Configuration\n#\nquery_cache_limit       = 1M\nquery_cache_size
+    \       = 0\nquery_cache_type        = 0\n\n\njoin_buffer_size = 16M\ntable_open_cache
+    = 400\n"

yaml/configMap.yml

+apiVersion: v1
+kind: ConfigMap
+metadata:
+  name: mysql-cbio-db
+  namespace: cbio-on-demand
+data:
+  mysql.conf: "# Copyright (c) 2014, 2016, Oracle and/or its affiliates. All rights
+    reserved.\n#\n# This program is free software; you can redistribute it and/or
+    modify\n# it under the terms of the GNU General Public License as published
+    by\n# the Free Software Foundation; version 2 of the License.\n#\n# This program
+    is distributed in the hope that it will be useful,\n# but WITHOUT ANY WARRANTY;
+    without even the implied warranty of\n# MERCHANTABILITY or FITNESS FOR A PARTICULAR
+    PURPOSE.  See the\n# GNU General Public License for more details.\n#\n# You
+    should have received a copy of the GNU General Public License\n# along with
+    this program; if not, write to the Free Software\n# Foundation, Inc., 51 Franklin
+    St, Fifth Floor, Boston, MA  02110-1301 USA\n\n#\n# The MySQL  Server configuration
+    file.\n#\n# For explanations see\n# http://dev.mysql.com/doc/mysql/en/server-system-variables.html\n\n[mysqld]\npid-file\t=
+    /var/run/mysqld/mysqld.pid\nsocket\t\t= /var/run/mysqld/mysqld.sock\ndatadir\t\t=
+    /var/lib/mysql\n#log-error\t= /var/log/mysql/error.log\n# By default we only
+    accept connections from localhost\n#bind-address\t= 127.0.0.1\n# Disabling symbolic-links
+    is recommended to prevent assorted security risks\nsymbolic-links=0\n\n#\n#
+    * Fine Tuning\n#\n\nkey_buffer_size         = 4G\nmax_heap_table_size     =
+    512M\ntmp_table_size          = 512M\nmax_allowed_packet      = 256M\nthread_stack
+    \           = 256K\nthread_cache_size       = 20\n# This replaces the startup
+    script and checks MyISAM tables if needed\n# the first time they are touched\nmyisam-recover-options
+    \ = BACKUP\nmax_connections        = 214\n#table_cache            = 64\n#thread_concurrency
+    \    = 10\n#\n# * Query Cache Configuration\n#\nquery_cache_limit       = 1M\nquery_cache_size
+    \       = 0\nquery_cache_type        = 0\n\n\njoin_buffer_size = 16M\ntable_open_cache
+    = 400\n"

yaml/crd.yml

+apiVersion: apiextensions.k8s.io/v1beta1
+kind: CustomResourceDefinition
+metadata:
+  name: identifiers.example.com
+  annotations:
+    maintainer: Luboslav Pivarc <456130@muni.cz>
+spec:
+  scope: Namespaced
+  group: example.com
+  version: v1beta1
+  names:
+    kind: identifier
+    singular: identifier
+    plural: identifiers

yaml/ingress-api.yml

+apiVersion: extensions/v1beta1
+kind: Ingress
+metadata:
+  name: cbio
+  namespace: cbio-on-demand
+spec:
+  rules:
+  - http:
+      paths:
+      - path: /api
+        backend:
+          serviceName: cbio-api
+          servicePort: 80

yaml/ingress-proxy.yml

+apiVersion: extensions/v1beta1
+kind: Ingress
+metadata:
+  name: cbio-proxy
+  namespace: cbio-on-demand
+  annotations:
+    nginx.ingress.kubernetes.io/rewrite-target: /
+spec:
+  tls:
+  - hosts:
+    - cbiood.edirex.ics.muni.cz
+    secretName: ingress
+  rules:
+  - host: cbiood.edirex.ics.muni.cz
+    http:
+      paths:
+      - path: /
+        backend:
+          serviceName: cbio-proxy
+          servicePort: 80
+      - path: /api
+        backend:
+          serviceName: cbio-api
+          servicePort: 80

yaml/namespace.yml

+apiVersion: v1
+kind: Namespace
+metadata:
+  name: cbio-on-demand

yaml/secret-db.yml

+apiVersion: v1
+kind: Secret
+metadata:
+  name: mysql-env
+  namespace: cbio-on-demand
+data:
+  .env: TVlTUUxfUk9PVF9QQVNTV09SRD1QQHNzd29yZDEKTVlTUUxfVVNFUj1jYmlvCk1ZU1FMX1BBU1NXT1JEPVBAc3N3b3JkMQpNWVNRTF9EQVRBQkFTRT1jYmlvcG9ydGFsCgo=
+type: Opaque

yaml/secret.yml

+apiVersion: v1
+kind: Secret
+metadata:
+  name: mysql-env
+  namespace: cbio-on-demand
+data:
+  .env: TVlTUUxfUk9PVF9QQVNTV09SRD1QQHNzd29yZDEKTVlTUUxfVVNFUj1jYmlvCk1ZU1FMX1BBU1NXT1JEPVBAc3N3b3JkMQpNWVNRTF9EQVRBQkFTRT1jYmlvcG9ydGFsCgo=
+type: Opaque

yaml/serviceAccount.yml

+apiVersion: v1
+kind: ServiceAccount
+metadata:
+  name: cbio-api
+  namespace: cbio-on-demand