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Posted to commits@airavata.apache.org by sm...@apache.org on 2022/09/12 17:16:47 UTC
[airavata-sandbox] 22/26: modified files
This is an automated email from the ASF dual-hosted git repository.
smarru pushed a commit to branch master
in repository https://gitbox.apache.org/repos/asf/airavata-sandbox.git
commit cabce699a7277ab6b2bda2356f12ac9ffed0bc52
Author: Bhavesh Asanabada <bh...@Bhavesh-MacBook.local>
AuthorDate: Mon Sep 12 13:43:11 2022 +0530
modified files
---
.../DjangoMiddleware/DjangoMiddleware/__init__.py | 0
.../__pycache__/__init__.cpython-38.pyc | Bin 159 -> 0 bytes
.../__pycache__/settings.cpython-38.pyc | Bin 2513 -> 0 bytes
.../__pycache__/urls.cpython-38.pyc | Bin 998 -> 0 bytes
.../__pycache__/wsgi.cpython-38.pyc | Bin 580 -> 0 bytes
.../DjangoMiddleware/DjangoMiddleware/asgi.py | 16 -
.../DjangoMiddleware/DjangoMiddleware/settings.py | 130 -
.../DjangoMiddleware/DjangoMiddleware/urls.py | 22 -
.../DjangoMiddleware/DjangoMiddleware/wsgi.py | 16 -
.../__pycache__/calc_info_pb2.cpython-38.pyc | Bin 1596 -> 0 bytes
.../__pycache__/calc_info_pb2_grpc.cpython-38.pyc | Bin 4065 -> 0 bytes
.../smilesdb/DjangoMiddleware/calc_info_pb2.py | 47 -
.../DjangoMiddleware/calc_info_pb2_grpc.py | 165 -
.../DjangoMiddleware/calc_properties_pb2.py | 56 -
.../DjangoMiddleware/calc_properties_pb2_grpc.py | 165 -
.../smilesdb/DjangoMiddleware/calc_topology_pb2.py | 54 -
.../DjangoMiddleware/calc_topology_pb2_grpc.py | 165 -
.../smilesdb/DjangoMiddleware/calcinfo/__init__.py | 0
.../calcinfo/__pycache__/__init__.cpython-38.pyc | Bin 151 -> 0 bytes
.../calcinfo/__pycache__/admin.cpython-38.pyc | Bin 192 -> 0 bytes
.../calcinfo/__pycache__/apps.cpython-38.pyc | Bin 431 -> 0 bytes
.../calcinfo/__pycache__/models.cpython-38.pyc | Bin 189 -> 0 bytes
.../calcinfo/__pycache__/urls.cpython-38.pyc | Bin 274 -> 0 bytes
.../calcinfo/__pycache__/views.cpython-38.pyc | Bin 1294 -> 0 bytes
.../smilesdb/DjangoMiddleware/calcinfo/admin.py | 3 -
.../smilesdb/DjangoMiddleware/calcinfo/apps.py | 6 -
.../calcinfo/migrations/__init__.py | 0
.../migrations/__pycache__/__init__.cpython-38.pyc | Bin 162 -> 0 bytes
.../smilesdb/DjangoMiddleware/calcinfo/models.py | 3 -
.../smilesdb/DjangoMiddleware/calcinfo/tests.py | 3 -
.../smilesdb/DjangoMiddleware/calcinfo/urls.py | 7 -
.../smilesdb/DjangoMiddleware/calcinfo/views.py | 40 -
gsoc2022/smilesdb/DjangoMiddleware/db.sqlite3 | Bin 131072 -> 0 bytes
gsoc2022/smilesdb/DjangoMiddleware/manage.py | 22 -
gsoc2022/smilesdb/DjangoMiddleware/molecule_pb2.py | 48 -
.../smilesdb/DjangoMiddleware/molecule_pb2_grpc.py | 165 -
.../DjangoMiddleware/protos/calc_info.proto | 40 -
gsoc2022/smilesdb/DjangoMiddleware/requirements | 11 -
gsoc2022/smilesdb/Server/pom.xml | 41 +-
.../src/main/java/com/smiles/CalcInfoImpl.java | 204 +
.../src/main/java/com/smiles/MoleculeImpl.java | 372 +
.../main/java/com/smiles/ServerApplication.java | 24 -
.../src/main/java/com/smiles/SpringContext.java | 21 -
.../java/com/smiles/SpringServerApplication.java | 36 +
.../java/com/smiles/calcinfo/CalcInfoEntity.java | 94 -
.../java/com/smiles/calcinfo/CalcInfoImpl.java | 89 -
.../java/com/smiles/calcinfo/CalcInfoRepo.java | 13 -
.../java/com/smiles/calcprops/CalcPropsEntity.java | 618 -
.../java/com/smiles/calcprops/CalcPropsImpl.java | 154 -
.../java/com/smiles/calcprops/CalcPropsRepo.java | 10 -
.../smiles/calctopology/CalcTopologyEntity.java | 123 -
.../com/smiles/calctopology/CalcTopologyImpl.java | 56 -
.../com/smiles/calctopology/CalcTopologyRepo.java | 11 -
.../java/com/smiles/molData/MoleculeEntity.java | 761 -
.../main/java/com/smiles/molData/MoleculeImpl.java | 175 -
.../main/java/com/smiles/molData/MoleculeRepo.java | 8 -
.../smilesdb/Server/src/main/proto/calc_info.proto | 112 +-
.../Server/src/main/proto/calc_properties.proto | 117 -
.../Server/src/main/proto/calc_topology.proto | 53 -
.../smilesdb/Server/src/main/proto/molecule.proto | 214 +-
.../src/main/resources/application.properties | 2 -
...ests.java => SpringServerApplicationTests.java} | 10 +-
gsoc2022/smilesdb/smiles_dashboard/.gitignore | 23 -
gsoc2022/smilesdb/smiles_dashboard/README.md | 24 -
gsoc2022/smilesdb/smiles_dashboard/babel.config.js | 5 -
gsoc2022/smilesdb/smiles_dashboard/jsconfig.json | 19 -
.../smilesdb/smiles_dashboard/package-lock.json | 19858 -------------------
gsoc2022/smilesdb/smiles_dashboard/package.json | 46 -
.../smilesdb/smiles_dashboard/public/index.html | 17 -
gsoc2022/smilesdb/smiles_dashboard/src/App.vue | 26 -
.../smiles_dashboard/src/assets/architect.png | Bin 487800 -> 0 bytes
.../smilesdb/smiles_dashboard/src/assets/logo.png | Bin 6849 -> 0 bytes
.../smiles_dashboard/src/assets/molecule_bg1.jpeg | Bin 852281 -> 0 bytes
.../smiles_dashboard/src/components/CalcInfo.vue | 42 -
.../smiles_dashboard/src/components/LoginPage.vue | 115 -
.../smiles_dashboard/src/components/SEAGrid.vue | 86 -
gsoc2022/smilesdb/smiles_dashboard/src/main.js | 11 -
gsoc2022/smilesdb/smiles_dashboard/src/routers.js | 33 -
gsoc2022/smilesdb/smiles_dashboard/vue.config.js | 4 -
79 files changed, 832 insertions(+), 23979 deletions(-)
diff --git a/gsoc2022/smilesdb/DjangoMiddleware/DjangoMiddleware/__init__.py b/gsoc2022/smilesdb/DjangoMiddleware/DjangoMiddleware/__init__.py
deleted file mode 100644
index e69de29b..00000000
diff --git a/gsoc2022/smilesdb/DjangoMiddleware/DjangoMiddleware/__pycache__/__init__.cpython-38.pyc b/gsoc2022/smilesdb/DjangoMiddleware/DjangoMiddleware/__pycache__/__init__.cpython-38.pyc
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diff --git a/gsoc2022/smilesdb/DjangoMiddleware/DjangoMiddleware/__pycache__/settings.cpython-38.pyc b/gsoc2022/smilesdb/DjangoMiddleware/DjangoMiddleware/__pycache__/settings.cpython-38.pyc
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diff --git a/gsoc2022/smilesdb/DjangoMiddleware/DjangoMiddleware/__pycache__/urls.cpython-38.pyc b/gsoc2022/smilesdb/DjangoMiddleware/DjangoMiddleware/__pycache__/urls.cpython-38.pyc
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diff --git a/gsoc2022/smilesdb/DjangoMiddleware/DjangoMiddleware/__pycache__/wsgi.cpython-38.pyc b/gsoc2022/smilesdb/DjangoMiddleware/DjangoMiddleware/__pycache__/wsgi.cpython-38.pyc
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index 409a6dc4..00000000
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diff --git a/gsoc2022/smilesdb/DjangoMiddleware/DjangoMiddleware/asgi.py b/gsoc2022/smilesdb/DjangoMiddleware/DjangoMiddleware/asgi.py
deleted file mode 100644
index a8c4d0c7..00000000
--- a/gsoc2022/smilesdb/DjangoMiddleware/DjangoMiddleware/asgi.py
+++ /dev/null
@@ -1,16 +0,0 @@
-"""
-ASGI config for DjangoMiddleware project.
-
-It exposes the ASGI callable as a module-level variable named ``application``.
-
-For more information on this file, see
-https://docs.djangoproject.com/en/4.0/howto/deployment/asgi/
-"""
-
-import os
-
-from django.core.asgi import get_asgi_application
-
-os.environ.setdefault('DJANGO_SETTINGS_MODULE', 'DjangoMiddleware.settings')
-
-application = get_asgi_application()
diff --git a/gsoc2022/smilesdb/DjangoMiddleware/DjangoMiddleware/settings.py b/gsoc2022/smilesdb/DjangoMiddleware/DjangoMiddleware/settings.py
deleted file mode 100644
index 3a82e38b..00000000
--- a/gsoc2022/smilesdb/DjangoMiddleware/DjangoMiddleware/settings.py
+++ /dev/null
@@ -1,130 +0,0 @@
-"""
-Django settings for DjangoMiddleware project.
-
-Generated by 'django-admin startproject' using Django 4.0.5.
-
-For more information on this file, see
-https://docs.djangoproject.com/en/4.0/topics/settings/
-
-For the full list of settings and their values, see
-https://docs.djangoproject.com/en/4.0/ref/settings/
-"""
-
-from pathlib import Path
-
-# Build paths inside the project like this: BASE_DIR / 'subdir'.
-BASE_DIR = Path(__file__).resolve().parent.parent
-
-
-# Quick-start development settings - unsuitable for production
-# See https://docs.djangoproject.com/en/4.0/howto/deployment/checklist/
-
-# SECURITY WARNING: keep the secret key used in production secret!
-SECRET_KEY = 'django-insecure-*9z-hk$3agvu#3y=fcvu5u%q+-zzwlc^a4k3zu#lan23-neq@6'
-
-# SECURITY WARNING: don't run with debug turned on in production!
-DEBUG = True
-
-ALLOWED_HOSTS = []
-
-
-# Application definition
-
-INSTALLED_APPS = [
- 'django.contrib.admin',
- 'django.contrib.auth',
- 'django.contrib.contenttypes',
- 'django.contrib.sessions',
- 'django.contrib.messages',
- 'django.contrib.staticfiles',
- 'calcinfo',
- 'rest_framework',
- 'corsheaders',
-]
-
-MIDDLEWARE = [
- 'django.middleware.security.SecurityMiddleware',
- 'django.contrib.sessions.middleware.SessionMiddleware',
- 'corsheaders.middleware.CorsMiddleware',
- 'django.middleware.common.CommonMiddleware',
- 'django.middleware.csrf.CsrfViewMiddleware',
- 'django.contrib.auth.middleware.AuthenticationMiddleware',
- 'django.contrib.messages.middleware.MessageMiddleware',
- 'django.middleware.clickjacking.XFrameOptionsMiddleware',
-]
-
-ROOT_URLCONF = 'DjangoMiddleware.urls'
-
-TEMPLATES = [
- {
- 'BACKEND': 'django.template.backends.django.DjangoTemplates',
- 'DIRS': [BASE_DIR / 'templates']
- ,
- 'APP_DIRS': True,
- 'OPTIONS': {
- 'context_processors': [
- 'django.template.context_processors.debug',
- 'django.template.context_processors.request',
- 'django.contrib.auth.context_processors.auth',
- 'django.contrib.messages.context_processors.messages',
- ],
- },
- },
-]
-
-WSGI_APPLICATION = 'DjangoMiddleware.wsgi.application'
-
-
-# Database
-# https://docs.djangoproject.com/en/4.0/ref/settings/#databases
-
-DATABASES = {
- 'default': {
- 'ENGINE': 'django.db.backends.sqlite3',
- 'NAME': BASE_DIR / 'db.sqlite3',
- }
-}
-
-
-# Password validation
-# https://docs.djangoproject.com/en/4.0/ref/settings/#auth-password-validators
-
-AUTH_PASSWORD_VALIDATORS = [
- {
- 'NAME': 'django.contrib.auth.password_validation.UserAttributeSimilarityValidator',
- },
- {
- 'NAME': 'django.contrib.auth.password_validation.MinimumLengthValidator',
- },
- {
- 'NAME': 'django.contrib.auth.password_validation.CommonPasswordValidator',
- },
- {
- 'NAME': 'django.contrib.auth.password_validation.NumericPasswordValidator',
- },
-]
-
-
-# Internationalization
-# https://docs.djangoproject.com/en/4.0/topics/i18n/
-
-LANGUAGE_CODE = 'en-us'
-
-TIME_ZONE = 'UTC'
-
-USE_I18N = True
-
-USE_TZ = True
-
-
-# Static files (CSS, JavaScript, Images)
-# https://docs.djangoproject.com/en/4.0/howto/static-files/
-
-STATIC_URL = 'static/'
-
-# Default primary key field type
-# https://docs.djangoproject.com/en/4.0/ref/settings/#default-auto-field
-
-DEFAULT_AUTO_FIELD = 'django.db.models.BigAutoField'
-
-CORS_ALLOW_ALL_ORIGINS = True
diff --git a/gsoc2022/smilesdb/DjangoMiddleware/DjangoMiddleware/urls.py b/gsoc2022/smilesdb/DjangoMiddleware/DjangoMiddleware/urls.py
deleted file mode 100644
index e9f80ab3..00000000
--- a/gsoc2022/smilesdb/DjangoMiddleware/DjangoMiddleware/urls.py
+++ /dev/null
@@ -1,22 +0,0 @@
-"""DjangoMiddleware URL Configuration
-
-The `urlpatterns` list routes URLs to views. For more information please see:
- https://docs.djangoproject.com/en/4.0/topics/http/urls/
-Examples:
-Function views
- 1. Add an import: from my_app import views
- 2. Add a URL to urlpatterns: path('', views.home, name='home')
-Class-based views
- 1. Add an import: from other_app.views import Home
- 2. Add a URL to urlpatterns: path('', Home.as_view(), name='home')
-Including another URLconf
- 1. Import the include() function: from django.urls import include, path
- 2. Add a URL to urlpatterns: path('blog/', include('blog.urls'))
-"""
-from django.contrib import admin
-from django.urls import path, include
-
-urlpatterns = [
- path('admin/', admin.site.urls),
- path('api/', include('calcinfo.urls')),
-]
diff --git a/gsoc2022/smilesdb/DjangoMiddleware/DjangoMiddleware/wsgi.py b/gsoc2022/smilesdb/DjangoMiddleware/DjangoMiddleware/wsgi.py
deleted file mode 100644
index 9bd00239..00000000
--- a/gsoc2022/smilesdb/DjangoMiddleware/DjangoMiddleware/wsgi.py
+++ /dev/null
@@ -1,16 +0,0 @@
-"""
-WSGI config for DjangoMiddleware project.
-
-It exposes the WSGI callable as a module-level variable named ``application``.
-
-For more information on this file, see
-https://docs.djangoproject.com/en/4.0/howto/deployment/wsgi/
-"""
-
-import os
-
-from django.core.wsgi import get_wsgi_application
-
-os.environ.setdefault('DJANGO_SETTINGS_MODULE', 'DjangoMiddleware.settings')
-
-application = get_wsgi_application()
diff --git a/gsoc2022/smilesdb/DjangoMiddleware/__pycache__/calc_info_pb2.cpython-38.pyc b/gsoc2022/smilesdb/DjangoMiddleware/__pycache__/calc_info_pb2.cpython-38.pyc
deleted file mode 100644
index b2615b19..00000000
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diff --git a/gsoc2022/smilesdb/DjangoMiddleware/__pycache__/calc_info_pb2_grpc.cpython-38.pyc b/gsoc2022/smilesdb/DjangoMiddleware/__pycache__/calc_info_pb2_grpc.cpython-38.pyc
deleted file mode 100644
index 23bf8f2d..00000000
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diff --git a/gsoc2022/smilesdb/DjangoMiddleware/calc_info_pb2.py b/gsoc2022/smilesdb/DjangoMiddleware/calc_info_pb2.py
deleted file mode 100644
index 37a1074a..00000000
--- a/gsoc2022/smilesdb/DjangoMiddleware/calc_info_pb2.py
+++ /dev/null
@@ -1,47 +0,0 @@
-# -*- coding: utf-8 -*-
-# Generated by the protocol buffer compiler. DO NOT EDIT!
-# source: calc_info.proto
-"""Generated protocol buffer code."""
-from google.protobuf import descriptor as _descriptor
-from google.protobuf import descriptor_pool as _descriptor_pool
-from google.protobuf import message as _message
-from google.protobuf import reflection as _reflection
-from google.protobuf import symbol_database as _symbol_database
-# @@protoc_insertion_point(imports)
-
-_sym_db = _symbol_database.Default()
-
-
-
-
-DESCRIPTOR = _descriptor_pool.Default().AddSerializedFile(b'\n\x0f\x63\x61lc_info.proto\x12\ncom.smiles\"u\n\x08\x43\x61lcInfo\x12\x0e\n\x06nbasis\x18\x01 \x01(\x03\x12\x0b\n\x03nmo\x18\x02 \x01(\x03\x12\x0e\n\x06nalpha\x18\x03 \x01(\x03\x12\r\n\x05nbeta\x18\x04 \x01(\x03\x12\r\n\x05natom\x18\x05 \x01(\x03\x12\x0e\n\x06\x65nergy\x18\x06 \x01(\x01\x12\x0e\n\x06SMILES\x18\x07 \x01(\t\"P\n\x0f\x43\x61lcInfoRequest\x12\x15\n\rcalcInfoQuery\x18\x01 \x01(\t\x12&\n\x08\x63\x61lcInfo\x18\x02 \x0 [...]
-
-
-
-_CALCINFO = DESCRIPTOR.message_types_by_name['CalcInfo']
-_CALCINFOREQUEST = DESCRIPTOR.message_types_by_name['CalcInfoRequest']
-CalcInfo = _reflection.GeneratedProtocolMessageType('CalcInfo', (_message.Message,), {
- 'DESCRIPTOR' : _CALCINFO,
- '__module__' : 'calc_info_pb2'
- # @@protoc_insertion_point(class_scope:com.smiles.CalcInfo)
- })
-_sym_db.RegisterMessage(CalcInfo)
-
-CalcInfoRequest = _reflection.GeneratedProtocolMessageType('CalcInfoRequest', (_message.Message,), {
- 'DESCRIPTOR' : _CALCINFOREQUEST,
- '__module__' : 'calc_info_pb2'
- # @@protoc_insertion_point(class_scope:com.smiles.CalcInfoRequest)
- })
-_sym_db.RegisterMessage(CalcInfoRequest)
-
-_CALCINFOSERVICE = DESCRIPTOR.services_by_name['CalcInfoService']
-if _descriptor._USE_C_DESCRIPTORS == False:
-
- DESCRIPTOR._options = None
- _CALCINFO._serialized_start=31
- _CALCINFO._serialized_end=148
- _CALCINFOREQUEST._serialized_start=150
- _CALCINFOREQUEST._serialized_end=230
- _CALCINFOSERVICE._serialized_start=233
- _CALCINFOSERVICE._serialized_end=531
-# @@protoc_insertion_point(module_scope)
diff --git a/gsoc2022/smilesdb/DjangoMiddleware/calc_info_pb2_grpc.py b/gsoc2022/smilesdb/DjangoMiddleware/calc_info_pb2_grpc.py
deleted file mode 100644
index dcb4a1b5..00000000
--- a/gsoc2022/smilesdb/DjangoMiddleware/calc_info_pb2_grpc.py
+++ /dev/null
@@ -1,165 +0,0 @@
-# Generated by the gRPC Python protocol compiler plugin. DO NOT EDIT!
-"""Client and server classes corresponding to protobuf-defined services."""
-import grpc
-
-import calc_info_pb2 as calc__info__pb2
-
-
-class CalcInfoServiceStub(object):
- """Missing associated documentation comment in .proto file."""
-
- def __init__(self, channel):
- """Constructor.
-
- Args:
- channel: A grpc.Channel.
- """
- self.GetCalcInfo = channel.unary_unary(
- '/com.smiles.CalcInfoService/GetCalcInfo',
- request_serializer=calc__info__pb2.CalcInfoRequest.SerializeToString,
- response_deserializer=calc__info__pb2.CalcInfo.FromString,
- )
- self.CreateCalcInfo = channel.unary_unary(
- '/com.smiles.CalcInfoService/CreateCalcInfo',
- request_serializer=calc__info__pb2.CalcInfoRequest.SerializeToString,
- response_deserializer=calc__info__pb2.CalcInfo.FromString,
- )
- self.UpdateCalcInfo = channel.unary_unary(
- '/com.smiles.CalcInfoService/UpdateCalcInfo',
- request_serializer=calc__info__pb2.CalcInfoRequest.SerializeToString,
- response_deserializer=calc__info__pb2.CalcInfo.FromString,
- )
- self.DeleteCalcInfo = channel.unary_unary(
- '/com.smiles.CalcInfoService/DeleteCalcInfo',
- request_serializer=calc__info__pb2.CalcInfoRequest.SerializeToString,
- response_deserializer=calc__info__pb2.CalcInfo.FromString,
- )
-
-
-class CalcInfoServiceServicer(object):
- """Missing associated documentation comment in .proto file."""
-
- def GetCalcInfo(self, request, context):
- """Missing associated documentation comment in .proto file."""
- context.set_code(grpc.StatusCode.UNIMPLEMENTED)
- context.set_details('Method not implemented!')
- raise NotImplementedError('Method not implemented!')
-
- def CreateCalcInfo(self, request, context):
- """Missing associated documentation comment in .proto file."""
- context.set_code(grpc.StatusCode.UNIMPLEMENTED)
- context.set_details('Method not implemented!')
- raise NotImplementedError('Method not implemented!')
-
- def UpdateCalcInfo(self, request, context):
- """Missing associated documentation comment in .proto file."""
- context.set_code(grpc.StatusCode.UNIMPLEMENTED)
- context.set_details('Method not implemented!')
- raise NotImplementedError('Method not implemented!')
-
- def DeleteCalcInfo(self, request, context):
- """Missing associated documentation comment in .proto file."""
- context.set_code(grpc.StatusCode.UNIMPLEMENTED)
- context.set_details('Method not implemented!')
- raise NotImplementedError('Method not implemented!')
-
-
-def add_CalcInfoServiceServicer_to_server(servicer, server):
- rpc_method_handlers = {
- 'GetCalcInfo': grpc.unary_unary_rpc_method_handler(
- servicer.GetCalcInfo,
- request_deserializer=calc__info__pb2.CalcInfoRequest.FromString,
- response_serializer=calc__info__pb2.CalcInfo.SerializeToString,
- ),
- 'CreateCalcInfo': grpc.unary_unary_rpc_method_handler(
- servicer.CreateCalcInfo,
- request_deserializer=calc__info__pb2.CalcInfoRequest.FromString,
- response_serializer=calc__info__pb2.CalcInfo.SerializeToString,
- ),
- 'UpdateCalcInfo': grpc.unary_unary_rpc_method_handler(
- servicer.UpdateCalcInfo,
- request_deserializer=calc__info__pb2.CalcInfoRequest.FromString,
- response_serializer=calc__info__pb2.CalcInfo.SerializeToString,
- ),
- 'DeleteCalcInfo': grpc.unary_unary_rpc_method_handler(
- servicer.DeleteCalcInfo,
- request_deserializer=calc__info__pb2.CalcInfoRequest.FromString,
- response_serializer=calc__info__pb2.CalcInfo.SerializeToString,
- ),
- }
- generic_handler = grpc.method_handlers_generic_handler(
- 'com.smiles.CalcInfoService', rpc_method_handlers)
- server.add_generic_rpc_handlers((generic_handler,))
-
-
- # This class is part of an EXPERIMENTAL API.
-class CalcInfoService(object):
- """Missing associated documentation comment in .proto file."""
-
- @staticmethod
- def GetCalcInfo(request,
- target,
- options=(),
- channel_credentials=None,
- call_credentials=None,
- insecure=False,
- compression=None,
- wait_for_ready=None,
- timeout=None,
- metadata=None):
- return grpc.experimental.unary_unary(request, target, '/com.smiles.CalcInfoService/GetCalcInfo',
- calc__info__pb2.CalcInfoRequest.SerializeToString,
- calc__info__pb2.CalcInfo.FromString,
- options, channel_credentials,
- insecure, call_credentials, compression, wait_for_ready, timeout, metadata)
-
- @staticmethod
- def CreateCalcInfo(request,
- target,
- options=(),
- channel_credentials=None,
- call_credentials=None,
- insecure=False,
- compression=None,
- wait_for_ready=None,
- timeout=None,
- metadata=None):
- return grpc.experimental.unary_unary(request, target, '/com.smiles.CalcInfoService/CreateCalcInfo',
- calc__info__pb2.CalcInfoRequest.SerializeToString,
- calc__info__pb2.CalcInfo.FromString,
- options, channel_credentials,
- insecure, call_credentials, compression, wait_for_ready, timeout, metadata)
-
- @staticmethod
- def UpdateCalcInfo(request,
- target,
- options=(),
- channel_credentials=None,
- call_credentials=None,
- insecure=False,
- compression=None,
- wait_for_ready=None,
- timeout=None,
- metadata=None):
- return grpc.experimental.unary_unary(request, target, '/com.smiles.CalcInfoService/UpdateCalcInfo',
- calc__info__pb2.CalcInfoRequest.SerializeToString,
- calc__info__pb2.CalcInfo.FromString,
- options, channel_credentials,
- insecure, call_credentials, compression, wait_for_ready, timeout, metadata)
-
- @staticmethod
- def DeleteCalcInfo(request,
- target,
- options=(),
- channel_credentials=None,
- call_credentials=None,
- insecure=False,
- compression=None,
- wait_for_ready=None,
- timeout=None,
- metadata=None):
- return grpc.experimental.unary_unary(request, target, '/com.smiles.CalcInfoService/DeleteCalcInfo',
- calc__info__pb2.CalcInfoRequest.SerializeToString,
- calc__info__pb2.CalcInfo.FromString,
- options, channel_credentials,
- insecure, call_credentials, compression, wait_for_ready, timeout, metadata)
diff --git a/gsoc2022/smilesdb/DjangoMiddleware/calc_properties_pb2.py b/gsoc2022/smilesdb/DjangoMiddleware/calc_properties_pb2.py
deleted file mode 100644
index 3dfebd95..00000000
--- a/gsoc2022/smilesdb/DjangoMiddleware/calc_properties_pb2.py
+++ /dev/null
@@ -1,56 +0,0 @@
-# -*- coding: utf-8 -*-
-# Generated by the protocol buffer compiler. DO NOT EDIT!
-# source: calc_properties.proto
-"""Generated protocol buffer code."""
-from google.protobuf import descriptor as _descriptor
-from google.protobuf import descriptor_pool as _descriptor_pool
-from google.protobuf import message as _message
-from google.protobuf import reflection as _reflection
-from google.protobuf import symbol_database as _symbol_database
-# @@protoc_insertion_point(imports)
-
-_sym_db = _symbol_database.Default()
-
-
-
-
-DESCRIPTOR = _descriptor_pool.Default().AddSerializedFile(b'\n\x15\x63\x61lc_properties.proto\x12\ncom.smiles\"\x95\x08\n\tCalcProps\x12\r\n\x05InChI\x18\x01 \x01(\t\x12\x10\n\x08InChIKey\x18\x02 \x01(\t\x12\x0e\n\x06SMILES\x18\x03 \x01(\t\x12\x17\n\x0f\x43\x61nonicalSMILES\x18\x04 \x01(\t\x12\x0b\n\x03PDB\x18\x05 \x01(\t\x12\x0b\n\x03SDF\x18\x06 \x01(\t\x12\x10\n\x08ParsedBy\x18\x07 \x01(\t\x12\x0f\n\x07\x46ormula\x18\x08 \x01(\t\x12\x0e\n\x06\x43harge\x18\t \x01(\x03\x12\x14\n\x0cMulti [...]
-
-
-
-_CALCPROPS = DESCRIPTOR.message_types_by_name['CalcProps']
-_CALCPROPSREQUEST = DESCRIPTOR.message_types_by_name['CalcPropsRequest']
-CalcProps = _reflection.GeneratedProtocolMessageType('CalcProps', (_message.Message,), {
- 'DESCRIPTOR' : _CALCPROPS,
- '__module__' : 'calc_properties_pb2'
- # @@protoc_insertion_point(class_scope:com.smiles.CalcProps)
- })
-_sym_db.RegisterMessage(CalcProps)
-
-CalcPropsRequest = _reflection.GeneratedProtocolMessageType('CalcPropsRequest', (_message.Message,), {
- 'DESCRIPTOR' : _CALCPROPSREQUEST,
- '__module__' : 'calc_properties_pb2'
- # @@protoc_insertion_point(class_scope:com.smiles.CalcPropsRequest)
- })
-_sym_db.RegisterMessage(CalcPropsRequest)
-
-_CALCPROPSSERVICE = DESCRIPTOR.services_by_name['CalcPropsService']
-if _descriptor._USE_C_DESCRIPTORS == False:
-
- DESCRIPTOR._options = None
- DESCRIPTOR._serialized_options = b'P\001'
- _CALCPROPS.fields_by_name['Homos']._options = None
- _CALCPROPS.fields_by_name['Homos']._serialized_options = b'\020\001'
- _CALCPROPS.fields_by_name['ScfEnergies']._options = None
- _CALCPROPS.fields_by_name['ScfEnergies']._serialized_options = b'\020\001'
- _CALCPROPS.fields_by_name['MoEnergies']._options = None
- _CALCPROPS.fields_by_name['MoEnergies']._serialized_options = b'\020\001'
- _CALCPROPS.fields_by_name['AtomCoords']._options = None
- _CALCPROPS.fields_by_name['AtomCoords']._serialized_options = b'\020\001'
- _CALCPROPS._serialized_start=38
- _CALCPROPS._serialized_end=1083
- _CALCPROPSREQUEST._serialized_start=1085
- _CALCPROPSREQUEST._serialized_end=1168
- _CALCPROPSSERVICE._serialized_start=1171
- _CALCPROPSSERVICE._serialized_end=1482
-# @@protoc_insertion_point(module_scope)
diff --git a/gsoc2022/smilesdb/DjangoMiddleware/calc_properties_pb2_grpc.py b/gsoc2022/smilesdb/DjangoMiddleware/calc_properties_pb2_grpc.py
deleted file mode 100644
index 08a13ca0..00000000
--- a/gsoc2022/smilesdb/DjangoMiddleware/calc_properties_pb2_grpc.py
+++ /dev/null
@@ -1,165 +0,0 @@
-# Generated by the gRPC Python protocol compiler plugin. DO NOT EDIT!
-"""Client and server classes corresponding to protobuf-defined services."""
-import grpc
-
-import calc_properties_pb2 as calc__properties__pb2
-
-
-class CalcPropsServiceStub(object):
- """Missing associated documentation comment in .proto file."""
-
- def __init__(self, channel):
- """Constructor.
-
- Args:
- channel: A grpc.Channel.
- """
- self.GetCalcProps = channel.unary_unary(
- '/com.smiles.CalcPropsService/GetCalcProps',
- request_serializer=calc__properties__pb2.CalcPropsRequest.SerializeToString,
- response_deserializer=calc__properties__pb2.CalcProps.FromString,
- )
- self.CreateCalcProps = channel.unary_unary(
- '/com.smiles.CalcPropsService/CreateCalcProps',
- request_serializer=calc__properties__pb2.CalcPropsRequest.SerializeToString,
- response_deserializer=calc__properties__pb2.CalcProps.FromString,
- )
- self.UpdateCalcProps = channel.unary_unary(
- '/com.smiles.CalcPropsService/UpdateCalcProps',
- request_serializer=calc__properties__pb2.CalcPropsRequest.SerializeToString,
- response_deserializer=calc__properties__pb2.CalcProps.FromString,
- )
- self.DeleteCalcProps = channel.unary_unary(
- '/com.smiles.CalcPropsService/DeleteCalcProps',
- request_serializer=calc__properties__pb2.CalcPropsRequest.SerializeToString,
- response_deserializer=calc__properties__pb2.CalcProps.FromString,
- )
-
-
-class CalcPropsServiceServicer(object):
- """Missing associated documentation comment in .proto file."""
-
- def GetCalcProps(self, request, context):
- """Missing associated documentation comment in .proto file."""
- context.set_code(grpc.StatusCode.UNIMPLEMENTED)
- context.set_details('Method not implemented!')
- raise NotImplementedError('Method not implemented!')
-
- def CreateCalcProps(self, request, context):
- """Missing associated documentation comment in .proto file."""
- context.set_code(grpc.StatusCode.UNIMPLEMENTED)
- context.set_details('Method not implemented!')
- raise NotImplementedError('Method not implemented!')
-
- def UpdateCalcProps(self, request, context):
- """Missing associated documentation comment in .proto file."""
- context.set_code(grpc.StatusCode.UNIMPLEMENTED)
- context.set_details('Method not implemented!')
- raise NotImplementedError('Method not implemented!')
-
- def DeleteCalcProps(self, request, context):
- """Missing associated documentation comment in .proto file."""
- context.set_code(grpc.StatusCode.UNIMPLEMENTED)
- context.set_details('Method not implemented!')
- raise NotImplementedError('Method not implemented!')
-
-
-def add_CalcPropsServiceServicer_to_server(servicer, server):
- rpc_method_handlers = {
- 'GetCalcProps': grpc.unary_unary_rpc_method_handler(
- servicer.GetCalcProps,
- request_deserializer=calc__properties__pb2.CalcPropsRequest.FromString,
- response_serializer=calc__properties__pb2.CalcProps.SerializeToString,
- ),
- 'CreateCalcProps': grpc.unary_unary_rpc_method_handler(
- servicer.CreateCalcProps,
- request_deserializer=calc__properties__pb2.CalcPropsRequest.FromString,
- response_serializer=calc__properties__pb2.CalcProps.SerializeToString,
- ),
- 'UpdateCalcProps': grpc.unary_unary_rpc_method_handler(
- servicer.UpdateCalcProps,
- request_deserializer=calc__properties__pb2.CalcPropsRequest.FromString,
- response_serializer=calc__properties__pb2.CalcProps.SerializeToString,
- ),
- 'DeleteCalcProps': grpc.unary_unary_rpc_method_handler(
- servicer.DeleteCalcProps,
- request_deserializer=calc__properties__pb2.CalcPropsRequest.FromString,
- response_serializer=calc__properties__pb2.CalcProps.SerializeToString,
- ),
- }
- generic_handler = grpc.method_handlers_generic_handler(
- 'com.smiles.CalcPropsService', rpc_method_handlers)
- server.add_generic_rpc_handlers((generic_handler,))
-
-
- # This class is part of an EXPERIMENTAL API.
-class CalcPropsService(object):
- """Missing associated documentation comment in .proto file."""
-
- @staticmethod
- def GetCalcProps(request,
- target,
- options=(),
- channel_credentials=None,
- call_credentials=None,
- insecure=False,
- compression=None,
- wait_for_ready=None,
- timeout=None,
- metadata=None):
- return grpc.experimental.unary_unary(request, target, '/com.smiles.CalcPropsService/GetCalcProps',
- calc__properties__pb2.CalcPropsRequest.SerializeToString,
- calc__properties__pb2.CalcProps.FromString,
- options, channel_credentials,
- insecure, call_credentials, compression, wait_for_ready, timeout, metadata)
-
- @staticmethod
- def CreateCalcProps(request,
- target,
- options=(),
- channel_credentials=None,
- call_credentials=None,
- insecure=False,
- compression=None,
- wait_for_ready=None,
- timeout=None,
- metadata=None):
- return grpc.experimental.unary_unary(request, target, '/com.smiles.CalcPropsService/CreateCalcProps',
- calc__properties__pb2.CalcPropsRequest.SerializeToString,
- calc__properties__pb2.CalcProps.FromString,
- options, channel_credentials,
- insecure, call_credentials, compression, wait_for_ready, timeout, metadata)
-
- @staticmethod
- def UpdateCalcProps(request,
- target,
- options=(),
- channel_credentials=None,
- call_credentials=None,
- insecure=False,
- compression=None,
- wait_for_ready=None,
- timeout=None,
- metadata=None):
- return grpc.experimental.unary_unary(request, target, '/com.smiles.CalcPropsService/UpdateCalcProps',
- calc__properties__pb2.CalcPropsRequest.SerializeToString,
- calc__properties__pb2.CalcProps.FromString,
- options, channel_credentials,
- insecure, call_credentials, compression, wait_for_ready, timeout, metadata)
-
- @staticmethod
- def DeleteCalcProps(request,
- target,
- options=(),
- channel_credentials=None,
- call_credentials=None,
- insecure=False,
- compression=None,
- wait_for_ready=None,
- timeout=None,
- metadata=None):
- return grpc.experimental.unary_unary(request, target, '/com.smiles.CalcPropsService/DeleteCalcProps',
- calc__properties__pb2.CalcPropsRequest.SerializeToString,
- calc__properties__pb2.CalcProps.FromString,
- options, channel_credentials,
- insecure, call_credentials, compression, wait_for_ready, timeout, metadata)
diff --git a/gsoc2022/smilesdb/DjangoMiddleware/calc_topology_pb2.py b/gsoc2022/smilesdb/DjangoMiddleware/calc_topology_pb2.py
deleted file mode 100644
index 80f2eb9f..00000000
--- a/gsoc2022/smilesdb/DjangoMiddleware/calc_topology_pb2.py
+++ /dev/null
@@ -1,54 +0,0 @@
-# -*- coding: utf-8 -*-
-# Generated by the protocol buffer compiler. DO NOT EDIT!
-# source: calc_topology.proto
-"""Generated protocol buffer code."""
-from google.protobuf import descriptor as _descriptor
-from google.protobuf import descriptor_pool as _descriptor_pool
-from google.protobuf import message as _message
-from google.protobuf import reflection as _reflection
-from google.protobuf import symbol_database as _symbol_database
-# @@protoc_insertion_point(imports)
-
-_sym_db = _symbol_database.Default()
-
-
-
-
-DESCRIPTOR = _descriptor_pool.Default().AddSerializedFile(b'\n\x13\x63\x61lc_topology.proto\x12\ncom.smiles\"\xdc\x01\n\x0c\x43\x61lcTopology\x12\x0f\n\x07symbols\x18\x01 \x03(\t\x12\x10\n\x08geometry\x18\x02 \x03(\t\x12\x12\n\nmol_charge\x18\x03 \x01(\x01\x12\x18\n\x10mol_multiplicity\x18\x04 \x01(\x03\x12\x0c\n\x04name\x18\x05 \x01(\t\x12\x0f\n\x07\x63omment\x18\x06 \x01(\t\x12\x18\n\x0cmass_numbers\x18\x07 \x03(\x03\x42\x02\x10\x01\x12\x12\n\x06masses\x18\x08 \x03(\x01\x42\x02\x10\x01 [...]
-
-
-
-_CALCTOPOLOGY = DESCRIPTOR.message_types_by_name['CalcTopology']
-_CALCTOPOLOGYREQUEST = DESCRIPTOR.message_types_by_name['CalcTopologyRequest']
-CalcTopology = _reflection.GeneratedProtocolMessageType('CalcTopology', (_message.Message,), {
- 'DESCRIPTOR' : _CALCTOPOLOGY,
- '__module__' : 'calc_topology_pb2'
- # @@protoc_insertion_point(class_scope:com.smiles.CalcTopology)
- })
-_sym_db.RegisterMessage(CalcTopology)
-
-CalcTopologyRequest = _reflection.GeneratedProtocolMessageType('CalcTopologyRequest', (_message.Message,), {
- 'DESCRIPTOR' : _CALCTOPOLOGYREQUEST,
- '__module__' : 'calc_topology_pb2'
- # @@protoc_insertion_point(class_scope:com.smiles.CalcTopologyRequest)
- })
-_sym_db.RegisterMessage(CalcTopologyRequest)
-
-_CALCTOPOLOGYSERVICE = DESCRIPTOR.services_by_name['CalcTopologyService']
-if _descriptor._USE_C_DESCRIPTORS == False:
-
- DESCRIPTOR._options = None
- DESCRIPTOR._serialized_options = b'P\001'
- _CALCTOPOLOGY.fields_by_name['mass_numbers']._options = None
- _CALCTOPOLOGY.fields_by_name['mass_numbers']._serialized_options = b'\020\001'
- _CALCTOPOLOGY.fields_by_name['masses']._options = None
- _CALCTOPOLOGY.fields_by_name['masses']._serialized_options = b'\020\001'
- _CALCTOPOLOGY.fields_by_name['atomic_number']._options = None
- _CALCTOPOLOGY.fields_by_name['atomic_number']._serialized_options = b'\020\001'
- _CALCTOPOLOGY._serialized_start=36
- _CALCTOPOLOGY._serialized_end=256
- _CALCTOPOLOGYREQUEST._serialized_start=258
- _CALCTOPOLOGYREQUEST._serialized_end=354
- _CALCTOPOLOGYSERVICE._serialized_start=357
- _CALCTOPOLOGYSERVICE._serialized_end=707
-# @@protoc_insertion_point(module_scope)
diff --git a/gsoc2022/smilesdb/DjangoMiddleware/calc_topology_pb2_grpc.py b/gsoc2022/smilesdb/DjangoMiddleware/calc_topology_pb2_grpc.py
deleted file mode 100644
index 7f5e965b..00000000
--- a/gsoc2022/smilesdb/DjangoMiddleware/calc_topology_pb2_grpc.py
+++ /dev/null
@@ -1,165 +0,0 @@
-# Generated by the gRPC Python protocol compiler plugin. DO NOT EDIT!
-"""Client and server classes corresponding to protobuf-defined services."""
-import grpc
-
-import calc_topology_pb2 as calc__topology__pb2
-
-
-class CalcTopologyServiceStub(object):
- """Missing associated documentation comment in .proto file."""
-
- def __init__(self, channel):
- """Constructor.
-
- Args:
- channel: A grpc.Channel.
- """
- self.GetCalcTopology = channel.unary_unary(
- '/com.smiles.CalcTopologyService/GetCalcTopology',
- request_serializer=calc__topology__pb2.CalcTopologyRequest.SerializeToString,
- response_deserializer=calc__topology__pb2.CalcTopology.FromString,
- )
- self.CreateCalcTopology = channel.unary_unary(
- '/com.smiles.CalcTopologyService/CreateCalcTopology',
- request_serializer=calc__topology__pb2.CalcTopologyRequest.SerializeToString,
- response_deserializer=calc__topology__pb2.CalcTopology.FromString,
- )
- self.UpdateCalcTopology = channel.unary_unary(
- '/com.smiles.CalcTopologyService/UpdateCalcTopology',
- request_serializer=calc__topology__pb2.CalcTopologyRequest.SerializeToString,
- response_deserializer=calc__topology__pb2.CalcTopology.FromString,
- )
- self.DeleteCalcTopology = channel.unary_unary(
- '/com.smiles.CalcTopologyService/DeleteCalcTopology',
- request_serializer=calc__topology__pb2.CalcTopologyRequest.SerializeToString,
- response_deserializer=calc__topology__pb2.CalcTopology.FromString,
- )
-
-
-class CalcTopologyServiceServicer(object):
- """Missing associated documentation comment in .proto file."""
-
- def GetCalcTopology(self, request, context):
- """Missing associated documentation comment in .proto file."""
- context.set_code(grpc.StatusCode.UNIMPLEMENTED)
- context.set_details('Method not implemented!')
- raise NotImplementedError('Method not implemented!')
-
- def CreateCalcTopology(self, request, context):
- """Missing associated documentation comment in .proto file."""
- context.set_code(grpc.StatusCode.UNIMPLEMENTED)
- context.set_details('Method not implemented!')
- raise NotImplementedError('Method not implemented!')
-
- def UpdateCalcTopology(self, request, context):
- """Missing associated documentation comment in .proto file."""
- context.set_code(grpc.StatusCode.UNIMPLEMENTED)
- context.set_details('Method not implemented!')
- raise NotImplementedError('Method not implemented!')
-
- def DeleteCalcTopology(self, request, context):
- """Missing associated documentation comment in .proto file."""
- context.set_code(grpc.StatusCode.UNIMPLEMENTED)
- context.set_details('Method not implemented!')
- raise NotImplementedError('Method not implemented!')
-
-
-def add_CalcTopologyServiceServicer_to_server(servicer, server):
- rpc_method_handlers = {
- 'GetCalcTopology': grpc.unary_unary_rpc_method_handler(
- servicer.GetCalcTopology,
- request_deserializer=calc__topology__pb2.CalcTopologyRequest.FromString,
- response_serializer=calc__topology__pb2.CalcTopology.SerializeToString,
- ),
- 'CreateCalcTopology': grpc.unary_unary_rpc_method_handler(
- servicer.CreateCalcTopology,
- request_deserializer=calc__topology__pb2.CalcTopologyRequest.FromString,
- response_serializer=calc__topology__pb2.CalcTopology.SerializeToString,
- ),
- 'UpdateCalcTopology': grpc.unary_unary_rpc_method_handler(
- servicer.UpdateCalcTopology,
- request_deserializer=calc__topology__pb2.CalcTopologyRequest.FromString,
- response_serializer=calc__topology__pb2.CalcTopology.SerializeToString,
- ),
- 'DeleteCalcTopology': grpc.unary_unary_rpc_method_handler(
- servicer.DeleteCalcTopology,
- request_deserializer=calc__topology__pb2.CalcTopologyRequest.FromString,
- response_serializer=calc__topology__pb2.CalcTopology.SerializeToString,
- ),
- }
- generic_handler = grpc.method_handlers_generic_handler(
- 'com.smiles.CalcTopologyService', rpc_method_handlers)
- server.add_generic_rpc_handlers((generic_handler,))
-
-
- # This class is part of an EXPERIMENTAL API.
-class CalcTopologyService(object):
- """Missing associated documentation comment in .proto file."""
-
- @staticmethod
- def GetCalcTopology(request,
- target,
- options=(),
- channel_credentials=None,
- call_credentials=None,
- insecure=False,
- compression=None,
- wait_for_ready=None,
- timeout=None,
- metadata=None):
- return grpc.experimental.unary_unary(request, target, '/com.smiles.CalcTopologyService/GetCalcTopology',
- calc__topology__pb2.CalcTopologyRequest.SerializeToString,
- calc__topology__pb2.CalcTopology.FromString,
- options, channel_credentials,
- insecure, call_credentials, compression, wait_for_ready, timeout, metadata)
-
- @staticmethod
- def CreateCalcTopology(request,
- target,
- options=(),
- channel_credentials=None,
- call_credentials=None,
- insecure=False,
- compression=None,
- wait_for_ready=None,
- timeout=None,
- metadata=None):
- return grpc.experimental.unary_unary(request, target, '/com.smiles.CalcTopologyService/CreateCalcTopology',
- calc__topology__pb2.CalcTopologyRequest.SerializeToString,
- calc__topology__pb2.CalcTopology.FromString,
- options, channel_credentials,
- insecure, call_credentials, compression, wait_for_ready, timeout, metadata)
-
- @staticmethod
- def UpdateCalcTopology(request,
- target,
- options=(),
- channel_credentials=None,
- call_credentials=None,
- insecure=False,
- compression=None,
- wait_for_ready=None,
- timeout=None,
- metadata=None):
- return grpc.experimental.unary_unary(request, target, '/com.smiles.CalcTopologyService/UpdateCalcTopology',
- calc__topology__pb2.CalcTopologyRequest.SerializeToString,
- calc__topology__pb2.CalcTopology.FromString,
- options, channel_credentials,
- insecure, call_credentials, compression, wait_for_ready, timeout, metadata)
-
- @staticmethod
- def DeleteCalcTopology(request,
- target,
- options=(),
- channel_credentials=None,
- call_credentials=None,
- insecure=False,
- compression=None,
- wait_for_ready=None,
- timeout=None,
- metadata=None):
- return grpc.experimental.unary_unary(request, target, '/com.smiles.CalcTopologyService/DeleteCalcTopology',
- calc__topology__pb2.CalcTopologyRequest.SerializeToString,
- calc__topology__pb2.CalcTopology.FromString,
- options, channel_credentials,
- insecure, call_credentials, compression, wait_for_ready, timeout, metadata)
diff --git a/gsoc2022/smilesdb/DjangoMiddleware/calcinfo/__init__.py b/gsoc2022/smilesdb/DjangoMiddleware/calcinfo/__init__.py
deleted file mode 100644
index e69de29b..00000000
diff --git a/gsoc2022/smilesdb/DjangoMiddleware/calcinfo/__pycache__/__init__.cpython-38.pyc b/gsoc2022/smilesdb/DjangoMiddleware/calcinfo/__pycache__/__init__.cpython-38.pyc
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index 4c472c74..00000000
Binary files a/gsoc2022/smilesdb/DjangoMiddleware/calcinfo/__pycache__/models.cpython-38.pyc and /dev/null differ
diff --git a/gsoc2022/smilesdb/DjangoMiddleware/calcinfo/__pycache__/urls.cpython-38.pyc b/gsoc2022/smilesdb/DjangoMiddleware/calcinfo/__pycache__/urls.cpython-38.pyc
deleted file mode 100644
index 5a694a9a..00000000
Binary files a/gsoc2022/smilesdb/DjangoMiddleware/calcinfo/__pycache__/urls.cpython-38.pyc and /dev/null differ
diff --git a/gsoc2022/smilesdb/DjangoMiddleware/calcinfo/__pycache__/views.cpython-38.pyc b/gsoc2022/smilesdb/DjangoMiddleware/calcinfo/__pycache__/views.cpython-38.pyc
deleted file mode 100644
index a73553fa..00000000
Binary files a/gsoc2022/smilesdb/DjangoMiddleware/calcinfo/__pycache__/views.cpython-38.pyc and /dev/null differ
diff --git a/gsoc2022/smilesdb/DjangoMiddleware/calcinfo/admin.py b/gsoc2022/smilesdb/DjangoMiddleware/calcinfo/admin.py
deleted file mode 100644
index 8c38f3f3..00000000
--- a/gsoc2022/smilesdb/DjangoMiddleware/calcinfo/admin.py
+++ /dev/null
@@ -1,3 +0,0 @@
-from django.contrib import admin
-
-# Register your models here.
diff --git a/gsoc2022/smilesdb/DjangoMiddleware/calcinfo/apps.py b/gsoc2022/smilesdb/DjangoMiddleware/calcinfo/apps.py
deleted file mode 100644
index 54cff088..00000000
--- a/gsoc2022/smilesdb/DjangoMiddleware/calcinfo/apps.py
+++ /dev/null
@@ -1,6 +0,0 @@
-from django.apps import AppConfig
-
-
-class RestApiConfig(AppConfig):
- default_auto_field = 'django.db.models.BigAutoField'
- name = 'calcinfo'
diff --git a/gsoc2022/smilesdb/DjangoMiddleware/calcinfo/migrations/__init__.py b/gsoc2022/smilesdb/DjangoMiddleware/calcinfo/migrations/__init__.py
deleted file mode 100644
index e69de29b..00000000
diff --git a/gsoc2022/smilesdb/DjangoMiddleware/calcinfo/migrations/__pycache__/__init__.cpython-38.pyc b/gsoc2022/smilesdb/DjangoMiddleware/calcinfo/migrations/__pycache__/__init__.cpython-38.pyc
deleted file mode 100644
index 1a89496c..00000000
Binary files a/gsoc2022/smilesdb/DjangoMiddleware/calcinfo/migrations/__pycache__/__init__.cpython-38.pyc and /dev/null differ
diff --git a/gsoc2022/smilesdb/DjangoMiddleware/calcinfo/models.py b/gsoc2022/smilesdb/DjangoMiddleware/calcinfo/models.py
deleted file mode 100644
index 71a83623..00000000
--- a/gsoc2022/smilesdb/DjangoMiddleware/calcinfo/models.py
+++ /dev/null
@@ -1,3 +0,0 @@
-from django.db import models
-
-# Create your models here.
diff --git a/gsoc2022/smilesdb/DjangoMiddleware/calcinfo/tests.py b/gsoc2022/smilesdb/DjangoMiddleware/calcinfo/tests.py
deleted file mode 100644
index 7ce503c2..00000000
--- a/gsoc2022/smilesdb/DjangoMiddleware/calcinfo/tests.py
+++ /dev/null
@@ -1,3 +0,0 @@
-from django.test import TestCase
-
-# Create your tests here.
diff --git a/gsoc2022/smilesdb/DjangoMiddleware/calcinfo/urls.py b/gsoc2022/smilesdb/DjangoMiddleware/calcinfo/urls.py
deleted file mode 100644
index b3a3c591..00000000
--- a/gsoc2022/smilesdb/DjangoMiddleware/calcinfo/urls.py
+++ /dev/null
@@ -1,7 +0,0 @@
-from django.urls import path
-
-from . import views
-
-urlpatterns = [
- path('calcinfo/', views.calcinfo),
-]
diff --git a/gsoc2022/smilesdb/DjangoMiddleware/calcinfo/views.py b/gsoc2022/smilesdb/DjangoMiddleware/calcinfo/views.py
deleted file mode 100644
index 7db42976..00000000
--- a/gsoc2022/smilesdb/DjangoMiddleware/calcinfo/views.py
+++ /dev/null
@@ -1,40 +0,0 @@
-from django.shortcuts import render
-
-# parsing data from the client
-from rest_framework.parsers import JSONParser
-# To bypass having a CSRF token
-from django.views.decorators.csrf import csrf_exempt
-
-# for sending response to the client
-from django.http import HttpResponse, JsonResponse
-
-import calc_info_pb2
-import calc_info_pb2_grpc
-import grpc
-import json
-
-
-def getCalcInfo(channel) :
- stub = calc_info_pb2_grpc.CalcInfoServiceStub(channel)
- response = stub.GetCalcInfo(calc_info_pb2.CalcInfoRequest(calcInfoQuery="TEST1", calcInfo=calc_info_pb2.CalcInfo(nbasis=1001, nmo=1001, nalpha=1001, nbeta=1001, natom=1001, energy=1001, SMILES="TEST1001")))
- data = {'SMILES': response.SMILES,
- 'nbasis': response.nbasis,
- 'nmo': response.nmo,
- 'nalpha': response.nalpha,
- 'nbeta': response.nbeta,
- 'natom': response.natom,
- 'energy': response.energy
- }
- return json.dumps(data)
-
-
-
-@csrf_exempt
-def calcinfo(request):
- if request.method == 'GET':
- print(request)
- with grpc.insecure_channel('localhost:7594') as channel:
- return JsonResponse(getCalcInfo(channel), safe=False)
- elif request.method == 'POST':
- # parse the incoming information
- return JsonResponse("errors", status=400)
diff --git a/gsoc2022/smilesdb/DjangoMiddleware/db.sqlite3 b/gsoc2022/smilesdb/DjangoMiddleware/db.sqlite3
deleted file mode 100644
index 341f8bcf..00000000
Binary files a/gsoc2022/smilesdb/DjangoMiddleware/db.sqlite3 and /dev/null differ
diff --git a/gsoc2022/smilesdb/DjangoMiddleware/manage.py b/gsoc2022/smilesdb/DjangoMiddleware/manage.py
deleted file mode 100755
index 50044f97..00000000
--- a/gsoc2022/smilesdb/DjangoMiddleware/manage.py
+++ /dev/null
@@ -1,22 +0,0 @@
-#!/usr/bin/env python
-"""Django's command-line utility for administrative tasks."""
-import os
-import sys
-
-
-def main():
- """Run administrative tasks."""
- os.environ.setdefault('DJANGO_SETTINGS_MODULE', 'DjangoMiddleware.settings')
- try:
- from django.core.management import execute_from_command_line
- except ImportError as exc:
- raise ImportError(
- "Couldn't import Django. Are you sure it's installed and "
- "available on your PYTHONPATH environment variable? Did you "
- "forget to activate a virtual environment?"
- ) from exc
- execute_from_command_line(sys.argv)
-
-
-if __name__ == '__main__':
- main()
diff --git a/gsoc2022/smilesdb/DjangoMiddleware/molecule_pb2.py b/gsoc2022/smilesdb/DjangoMiddleware/molecule_pb2.py
deleted file mode 100644
index ab734a32..00000000
--- a/gsoc2022/smilesdb/DjangoMiddleware/molecule_pb2.py
+++ /dev/null
@@ -1,48 +0,0 @@
-# -*- coding: utf-8 -*-
-# Generated by the protocol buffer compiler. DO NOT EDIT!
-# source: molecule.proto
-"""Generated protocol buffer code."""
-from google.protobuf import descriptor as _descriptor
-from google.protobuf import descriptor_pool as _descriptor_pool
-from google.protobuf import message as _message
-from google.protobuf import reflection as _reflection
-from google.protobuf import symbol_database as _symbol_database
-# @@protoc_insertion_point(imports)
-
-_sym_db = _symbol_database.Default()
-
-
-
-
-DESCRIPTOR = _descriptor_pool.Default().AddSerializedFile(b'\n\x0emolecule.proto\x12\ncom.smiles\"\x94\n\n\x08Molecule\x12\x0e\n\x06\x63\x61s_nr\x18\x01 \x01(\t\x12\x0e\n\x06smiles\x18\x02 \x01(\t\x12\x15\n\rsmiles_stereo\x18\x03 \x01(\t\x12\r\n\x05inchi\x18\x04 \x01(\t\x12\x1b\n\x13molfile_blob_source\x18\x06 \x01(\t\x12\x13\n\x0b\x65mp_formula\x18\x07 \x01(\t\x12\x18\n\x10\x65mp_formula_sort\x18\x08 \x01(\t\x12\x1a\n\x12\x65mp_formula_source\x18\t \x01(\t\x12\n\n\x02mw\x18\n \x01(\x01\ [...]
-
-
-
-_MOLECULE = DESCRIPTOR.message_types_by_name['Molecule']
-_MOLECULEREQUEST = DESCRIPTOR.message_types_by_name['MoleculeRequest']
-Molecule = _reflection.GeneratedProtocolMessageType('Molecule', (_message.Message,), {
- 'DESCRIPTOR' : _MOLECULE,
- '__module__' : 'molecule_pb2'
- # @@protoc_insertion_point(class_scope:com.smiles.Molecule)
- })
-_sym_db.RegisterMessage(Molecule)
-
-MoleculeRequest = _reflection.GeneratedProtocolMessageType('MoleculeRequest', (_message.Message,), {
- 'DESCRIPTOR' : _MOLECULEREQUEST,
- '__module__' : 'molecule_pb2'
- # @@protoc_insertion_point(class_scope:com.smiles.MoleculeRequest)
- })
-_sym_db.RegisterMessage(MoleculeRequest)
-
-_MOLECULESERVICE = DESCRIPTOR.services_by_name['MoleculeService']
-if _descriptor._USE_C_DESCRIPTORS == False:
-
- DESCRIPTOR._options = None
- DESCRIPTOR._serialized_options = b'P\001'
- _MOLECULE._serialized_start=31
- _MOLECULE._serialized_end=1331
- _MOLECULEREQUEST._serialized_start=1333
- _MOLECULEREQUEST._serialized_end=1413
- _MOLECULESERVICE._serialized_start=1416
- _MOLECULESERVICE._serialized_end=1706
-# @@protoc_insertion_point(module_scope)
diff --git a/gsoc2022/smilesdb/DjangoMiddleware/molecule_pb2_grpc.py b/gsoc2022/smilesdb/DjangoMiddleware/molecule_pb2_grpc.py
deleted file mode 100644
index 47231686..00000000
--- a/gsoc2022/smilesdb/DjangoMiddleware/molecule_pb2_grpc.py
+++ /dev/null
@@ -1,165 +0,0 @@
-# Generated by the gRPC Python protocol compiler plugin. DO NOT EDIT!
-"""Client and server classes corresponding to protobuf-defined services."""
-import grpc
-
-import molecule_pb2 as molecule__pb2
-
-
-class MoleculeServiceStub(object):
- """Missing associated documentation comment in .proto file."""
-
- def __init__(self, channel):
- """Constructor.
-
- Args:
- channel: A grpc.Channel.
- """
- self.GetMolecule = channel.unary_unary(
- '/com.smiles.MoleculeService/GetMolecule',
- request_serializer=molecule__pb2.MoleculeRequest.SerializeToString,
- response_deserializer=molecule__pb2.Molecule.FromString,
- )
- self.CreateMolecule = channel.unary_unary(
- '/com.smiles.MoleculeService/CreateMolecule',
- request_serializer=molecule__pb2.MoleculeRequest.SerializeToString,
- response_deserializer=molecule__pb2.Molecule.FromString,
- )
- self.UpdateMolecule = channel.unary_unary(
- '/com.smiles.MoleculeService/UpdateMolecule',
- request_serializer=molecule__pb2.MoleculeRequest.SerializeToString,
- response_deserializer=molecule__pb2.Molecule.FromString,
- )
- self.DeleteMolecule = channel.unary_unary(
- '/com.smiles.MoleculeService/DeleteMolecule',
- request_serializer=molecule__pb2.MoleculeRequest.SerializeToString,
- response_deserializer=molecule__pb2.Molecule.FromString,
- )
-
-
-class MoleculeServiceServicer(object):
- """Missing associated documentation comment in .proto file."""
-
- def GetMolecule(self, request, context):
- """Missing associated documentation comment in .proto file."""
- context.set_code(grpc.StatusCode.UNIMPLEMENTED)
- context.set_details('Method not implemented!')
- raise NotImplementedError('Method not implemented!')
-
- def CreateMolecule(self, request, context):
- """Missing associated documentation comment in .proto file."""
- context.set_code(grpc.StatusCode.UNIMPLEMENTED)
- context.set_details('Method not implemented!')
- raise NotImplementedError('Method not implemented!')
-
- def UpdateMolecule(self, request, context):
- """Missing associated documentation comment in .proto file."""
- context.set_code(grpc.StatusCode.UNIMPLEMENTED)
- context.set_details('Method not implemented!')
- raise NotImplementedError('Method not implemented!')
-
- def DeleteMolecule(self, request, context):
- """Missing associated documentation comment in .proto file."""
- context.set_code(grpc.StatusCode.UNIMPLEMENTED)
- context.set_details('Method not implemented!')
- raise NotImplementedError('Method not implemented!')
-
-
-def add_MoleculeServiceServicer_to_server(servicer, server):
- rpc_method_handlers = {
- 'GetMolecule': grpc.unary_unary_rpc_method_handler(
- servicer.GetMolecule,
- request_deserializer=molecule__pb2.MoleculeRequest.FromString,
- response_serializer=molecule__pb2.Molecule.SerializeToString,
- ),
- 'CreateMolecule': grpc.unary_unary_rpc_method_handler(
- servicer.CreateMolecule,
- request_deserializer=molecule__pb2.MoleculeRequest.FromString,
- response_serializer=molecule__pb2.Molecule.SerializeToString,
- ),
- 'UpdateMolecule': grpc.unary_unary_rpc_method_handler(
- servicer.UpdateMolecule,
- request_deserializer=molecule__pb2.MoleculeRequest.FromString,
- response_serializer=molecule__pb2.Molecule.SerializeToString,
- ),
- 'DeleteMolecule': grpc.unary_unary_rpc_method_handler(
- servicer.DeleteMolecule,
- request_deserializer=molecule__pb2.MoleculeRequest.FromString,
- response_serializer=molecule__pb2.Molecule.SerializeToString,
- ),
- }
- generic_handler = grpc.method_handlers_generic_handler(
- 'com.smiles.MoleculeService', rpc_method_handlers)
- server.add_generic_rpc_handlers((generic_handler,))
-
-
- # This class is part of an EXPERIMENTAL API.
-class MoleculeService(object):
- """Missing associated documentation comment in .proto file."""
-
- @staticmethod
- def GetMolecule(request,
- target,
- options=(),
- channel_credentials=None,
- call_credentials=None,
- insecure=False,
- compression=None,
- wait_for_ready=None,
- timeout=None,
- metadata=None):
- return grpc.experimental.unary_unary(request, target, '/com.smiles.MoleculeService/GetMolecule',
- molecule__pb2.MoleculeRequest.SerializeToString,
- molecule__pb2.Molecule.FromString,
- options, channel_credentials,
- insecure, call_credentials, compression, wait_for_ready, timeout, metadata)
-
- @staticmethod
- def CreateMolecule(request,
- target,
- options=(),
- channel_credentials=None,
- call_credentials=None,
- insecure=False,
- compression=None,
- wait_for_ready=None,
- timeout=None,
- metadata=None):
- return grpc.experimental.unary_unary(request, target, '/com.smiles.MoleculeService/CreateMolecule',
- molecule__pb2.MoleculeRequest.SerializeToString,
- molecule__pb2.Molecule.FromString,
- options, channel_credentials,
- insecure, call_credentials, compression, wait_for_ready, timeout, metadata)
-
- @staticmethod
- def UpdateMolecule(request,
- target,
- options=(),
- channel_credentials=None,
- call_credentials=None,
- insecure=False,
- compression=None,
- wait_for_ready=None,
- timeout=None,
- metadata=None):
- return grpc.experimental.unary_unary(request, target, '/com.smiles.MoleculeService/UpdateMolecule',
- molecule__pb2.MoleculeRequest.SerializeToString,
- molecule__pb2.Molecule.FromString,
- options, channel_credentials,
- insecure, call_credentials, compression, wait_for_ready, timeout, metadata)
-
- @staticmethod
- def DeleteMolecule(request,
- target,
- options=(),
- channel_credentials=None,
- call_credentials=None,
- insecure=False,
- compression=None,
- wait_for_ready=None,
- timeout=None,
- metadata=None):
- return grpc.experimental.unary_unary(request, target, '/com.smiles.MoleculeService/DeleteMolecule',
- molecule__pb2.MoleculeRequest.SerializeToString,
- molecule__pb2.Molecule.FromString,
- options, channel_credentials,
- insecure, call_credentials, compression, wait_for_ready, timeout, metadata)
diff --git a/gsoc2022/smilesdb/DjangoMiddleware/protos/calc_info.proto b/gsoc2022/smilesdb/DjangoMiddleware/protos/calc_info.proto
deleted file mode 100644
index 04e7bfff..00000000
--- a/gsoc2022/smilesdb/DjangoMiddleware/protos/calc_info.proto
+++ /dev/null
@@ -1,40 +0,0 @@
-syntax = "proto3";
-
-package com.smiles;
-
-message CalcInfo{
- //QcSchema-Properties_Info
- int64 nbasis = 1; // The number of basis functions for the computation. number
- int64 nmo = 2; // The number of molecular orbitals for the computation. number
- int64 nalpha = 3;// The number of alpha electrons in the computation. number
- int64 nbeta = 4;// The number of beta electrons in the computation. number
- int64 natom = 5; // The number of atoms in the computation. number
- double energy = 6;// The energy of the requested method, identical to return_value for energy computations. number
- string SMILES =7;
-}
-
-message CalcInfoRequest {
- string calcInfoQuery=1;
- CalcInfo calcInfo=2;
-}
-
-service CalcInfoService {
- rpc GetCalcInfo( CalcInfoRequest ) returns (CalcInfo) {}
- rpc CreateCalcInfo( CalcInfoRequest ) returns (CalcInfo) {}
- rpc UpdateCalcInfo( CalcInfoRequest ) returns (CalcInfo) {}
- rpc DeleteCalcInfo( CalcInfoRequest ) returns (CalcInfo) {}
-}
-
-
-
-//python -m grpc_tools.protoc -I ./protos --python_out=. --grpc_python_out=. ./protos/calc_info.proto
-
-
-
-
-
-
-
-
-
-
diff --git a/gsoc2022/smilesdb/DjangoMiddleware/requirements b/gsoc2022/smilesdb/DjangoMiddleware/requirements
deleted file mode 100644
index 30b851db..00000000
--- a/gsoc2022/smilesdb/DjangoMiddleware/requirements
+++ /dev/null
@@ -1,11 +0,0 @@
-asgiref==3.5.2
-backports.zoneinfo==0.2.1
-Django==4.0.5
-django-cors-headers==3.13.0
-djangorestframework==3.13.1
-grpcio==1.47.0
-grpcio-tools==1.47.0
-protobuf==3.20.1
-pytz==2022.1
-six==1.16.0
-sqlparse==0.4.2
diff --git a/gsoc2022/smilesdb/Server/pom.xml b/gsoc2022/smilesdb/Server/pom.xml
index cdf8e940..d98958dd 100644
--- a/gsoc2022/smilesdb/Server/pom.xml
+++ b/gsoc2022/smilesdb/Server/pom.xml
@@ -5,14 +5,14 @@
<parent>
<groupId>org.springframework.boot</groupId>
<artifactId>spring-boot-starter-parent</artifactId>
- <version>2.7.0</version>
+ <version>2.7.2</version>
<relativePath/> <!-- lookup parent from repository -->
</parent>
<groupId>com.smiles</groupId>
- <artifactId>Server</artifactId>
+ <artifactId>SpringServer</artifactId>
<version>0.0.1-SNAPSHOT</version>
- <name>Server</name>
- <description>Server</description>
+ <name>SpringServer</name>
+ <description>SpringServer</description>
<properties>
<java.version>18</java.version>
</properties>
@@ -21,11 +21,13 @@
<groupId>org.springframework.boot</groupId>
<artifactId>spring-boot-starter</artifactId>
</dependency>
+
<dependency>
<groupId>org.springframework.boot</groupId>
<artifactId>spring-boot-starter-test</artifactId>
<scope>test</scope>
</dependency>
+
<dependency>
<groupId>org.springframework.boot</groupId>
<artifactId>spring-boot-starter-data-mongodb</artifactId>
@@ -33,18 +35,18 @@
<dependency>
<groupId>io.grpc</groupId>
<artifactId>grpc-netty-shaded</artifactId>
- <version>1.47.0</version>
+ <version>1.48.0</version>
<scope>runtime</scope>
</dependency>
<dependency>
<groupId>io.grpc</groupId>
<artifactId>grpc-protobuf</artifactId>
- <version>1.47.0</version>
+ <version>1.48.0</version>
</dependency>
<dependency>
<groupId>io.grpc</groupId>
<artifactId>grpc-stub</artifactId>
- <version>1.47.0</version>
+ <version>1.48.0</version>
</dependency>
<dependency> <!-- necessary for Java 9+ -->
<groupId>org.apache.tomcat</groupId>
@@ -52,6 +54,30 @@
<version>6.0.53</version>
<scope>provided</scope>
</dependency>
+
+ <dependency>
+ <groupId>org.mongodb</groupId>
+ <artifactId>mongo-java-driver</artifactId>
+ <version>3.11.0</version>
+ </dependency>
+
+ <dependency>
+ <groupId>org.mongodb</groupId>
+ <artifactId>mongo-java-driver</artifactId>
+ <version>3.11.0</version>
+ </dependency>
+ <dependency>
+ <groupId>org.jetbrains</groupId>
+ <artifactId>annotations</artifactId>
+ <version>13.0</version>
+ <scope>compile</scope>
+ </dependency>
+ <dependency>
+ <groupId>org.jetbrains</groupId>
+ <artifactId>annotations</artifactId>
+ <version>13.0</version>
+ <scope>compile</scope>
+ </dependency>
</dependencies>
<build>
@@ -62,6 +88,7 @@
<version>1.6.2</version>
</extension>
</extensions>
+
<plugins>
<plugin>
<groupId>org.springframework.boot</groupId>
diff --git a/gsoc2022/smilesdb/Server/src/main/java/com/smiles/CalcInfoImpl.java b/gsoc2022/smilesdb/Server/src/main/java/com/smiles/CalcInfoImpl.java
new file mode 100644
index 00000000..3a2664a4
--- /dev/null
+++ b/gsoc2022/smilesdb/Server/src/main/java/com/smiles/CalcInfoImpl.java
@@ -0,0 +1,204 @@
+package com.smiles;
+
+import com.mongodb.client.MongoClient;
+import com.mongodb.client.MongoClients;
+import com.mongodb.client.MongoCollection;
+import com.mongodb.client.MongoDatabase;
+import com.mongodb.client.model.Filters;
+import io.grpc.Status;
+import io.grpc.stub.StreamObserver;
+import org.bson.Document;
+import org.bson.types.ObjectId;
+
+public class CalcInfoImpl extends CalcInfoServiceGrpc.CalcInfoServiceImplBase {
+
+ /* >>>>>>>> Connecting to MongoDB (the BSON document) >>>>>>>>>>>
+ * MongoDB Hierarchy: Database -> Collection -> Record
+ * Connecting port: localhost:27017 (default port)
+ * Database name: SMILESDataModels
+ * Collection name: InfoDataModel
+ * >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>*/
+ private final MongoClient mongoClient = MongoClients.create("mongodb://localhost:27017");
+ private final MongoDatabase mongoDatabase = mongoClient.getDatabase("smilesDB");
+ private final MongoCollection<org.bson.Document> mongoCollection = mongoDatabase.getCollection("calcInfo");
+ /* <<<<<<<<<<< End of MongoDB connection parameters <<<<<<<<<<<<<*/
+
+
+ /* Writing CRUD operation to retrieve the data from Database
+ * Emoji representation: ✅ Built Success, 🔅 On progress/Failed, ❌ Not started.
+ * ✅ CREATE/PUT operation.
+ * ✅ READ/GET operation, show the data by ID provided.
+ * ❌ UPDATE operation.
+ * ❌ DELETE operation.
+ * ✅ LIST operation, show the available data in collection, iteration.
+ * NOTE: Only the LIST method is essential for displaying the data from record.*/
+
+
+ // Implementing the CREATE operation method
+ // ✅ Built Success
+ @Override
+ public void createCalcinfo(CreateInfoRequest request, StreamObserver<CreateInfoResponse> responseObserver) {
+
+ System.out.println(" \n\n ----------- INSERT OPERATION ---------- ");
+ System.out.println("Received request for indexing a data to MongoDB");
+ CalcInfo calcInfo = request.getCalcInfo();
+
+ System.out.println("Running INSERT operation");
+ // calcinfo_id is not passed in CREATE method
+ Document document = new Document("calcinfo_id", calcInfo.getCalcinfoId())
+ .append("smiles", calcInfo.getSmiles())
+ .append("nbasis", calcInfo.getNbasis())
+ .append("nmo", calcInfo.getNmo())
+ .append("nalpha", calcInfo.getNalpha())
+ .append("nbeta", calcInfo.getNbeta())
+ .append("natom", calcInfo.getNatom())
+ .append("energy", calcInfo.getEnergy());
+
+ // Command to insert a document into a database -> collection
+ mongoCollection.insertOne(document);
+ System.out.println("Inserted an entity to mongoDB record");
+
+ // Get the ID from MongoDb
+ String id = document.getObjectId("_id").toString();
+ System.out.println("Entity ID: " + id);
+ System.out.println("----------------------------------------");
+
+ // Create MongoResponse
+ CreateInfoResponse infoResponse = CreateInfoResponse.newBuilder().setCalcInfo(
+// CalcInfo.newBuilder()
+// .setCalcinfoId(calcInfo.getCalcinfoId())
+// .setSmiles(calcInfo.getSmiles())
+// .setNbasis(calcInfo.getNbasis())
+// .setNmo(calcInfo.getNmo())
+// .setNalpha(calcInfo.getNalpha())
+// .setNbeta(calcInfo.getNbeta())
+// .setNatom(calcInfo.getNatom())
+// .setEnergy(calcInfo.getEnergy())
+ calcInfo.toBuilder().setCalcinfoId(id).build()
+ )
+ .build();
+ responseObserver.onNext(infoResponse);
+ responseObserver.onCompleted();
+ }
+
+
+ // Implementing the READ/GET operation method
+ // ✅ Built Success
+ @Override
+ public void readCalcInfo(ReadInfoRequest request, StreamObserver<ReadInfoResponse> responseObserver) {
+
+// System.out.println(" \n\n ----------- GET/POST OPERATION ---------- ");
+// System.out.println("Received READ CalcInfo Request");
+
+// // Get CalcInfo ID
+// String infoId = request.getId();
+
+// Document document = null;
+// try {
+// // Find collection: Implement Filters.eq()
+// document = (Document) mongoCollection.find(eq("_id", new ObjectId(infoId))).first();
+// // from the LIST, fetch the first one
+// }catch (Exception e){
+// // e.printStackTrace();
+// responseObserver.onError(Status.NOT_FOUND
+// .withDescription("CalcInfo is not found for ID: " + infoId)
+// .augmentDescription(e.getLocalizedMessage())
+// .asRuntimeException());
+// }
+
+// System.out.println("Searching for document");
+// if (document == null){
+// // Since document is not available
+// System.out.println("Info Data is not found");
+// responseObserver.onError(Status.NOT_FOUND
+// .withDescription("Info is not found for ID: " + infoId)
+// .asRuntimeException());
+// }else {
+// System.out.println("Info Data is found");
+
+// CalcInfo calcInfo = documentToCalcInfo(document);
+// responseObserver.onNext(
+// ReadInfoResponse.newBuilder()
+// .setCalcInfo(calcInfo).build());
+// System.out.println("Sent the Response");
+
+// responseObserver.onCompleted();
+// System.out.println("Server Job Done");
+// System.out.println("----------------------------------------");
+// }
+
+
+ System.out.println("Received request for Fetching a Blog from MongoDB.");
+
+ Document fetchedDocFromMongo =
+ mongoCollection.find(Filters.eq("_id", new ObjectId(request.getId()))).first();
+
+ if (fetchedDocFromMongo == null) {
+ responseObserver
+ .onError(Status.NOT_FOUND.withDescription("No blog exists with this Id.").asRuntimeException());
+ } else {
+ ReadInfoResponse fetchedBlogResponse = ReadInfoResponse.newBuilder()
+ .setCalcInfo(CalcInfo.newBuilder()
+ .setSmiles(fetchedDocFromMongo.getString("smiles"))
+ .setCalcinfoId(String.valueOf(fetchedDocFromMongo.getObjectId("_id")))
+ .setNbasis(Long.parseLong(String.valueOf(fetchedDocFromMongo.getLong("nbasis"))))
+ .setNmo(Long.parseLong(String.valueOf(fetchedDocFromMongo.getLong("nmo"))))
+ .setNalpha(fetchedDocFromMongo.getLong("nalpha"))
+ .setNbeta(fetchedDocFromMongo.getLong("nbeta"))
+ .setNatom(fetchedDocFromMongo.getLong("natom"))
+ .setEnergy(fetchedDocFromMongo.getDouble("energy"))
+ .build())
+ .build();
+
+ responseObserver.onNext(fetchedBlogResponse);
+ }
+ responseObserver.onCompleted();
+ }
+
+
+ private CalcInfo documentToCalcInfo(Document document) {
+ return CalcInfo.newBuilder()
+ .setSmiles(document.getString("smiles"))
+ .setCalcinfoId(String.valueOf(document.getObjectId("_id")))
+ .setNbasis(Long.parseLong(String.valueOf(document.getString("nbasis"))==""?"0":""))
+// .setNbasis(Long.parseLong(String.valueOf(document.getString("nbasis").equals("")?document.getString("nbasis"):"0")))
+// .setNbasis(document.getLong("nbasis")==null?-344:document.getLong("nbasis"))
+ .setNmo(Long.parseLong(String.valueOf(document.getLong("nmo"))))
+ .setNalpha(document.getLong("nalpha"))
+ .setNbeta(document.getLong("nbeta"))
+ .setNatom(document.getLong("natom"))
+ .setEnergy(document.getDouble("energy"))
+ .build();
+ }
+
+
+ @Override
+ public void updateCalcInfo(UpdateInfoRequest request, StreamObserver<UpdateInfoResponse> responseObserver) {
+ super.updateCalcInfo(request, responseObserver);
+ }
+
+ @Override
+ public void deleteCalcInfo(DeleteInfoRequest request, StreamObserver<DeleteInfoResponse> responseObserver) {
+ super.deleteCalcInfo(request, responseObserver);
+ }
+
+
+ // Implementing the LIST operation method
+ // ✅ Built Success
+ @Override
+ public void listCalcInfo(ListInfoRequest request, StreamObserver<ListInfoResponse> responseObserver) {
+ System.out.println(" \n\n ----------- LIST OPERATION ---------- ");
+ System.out.println("Received a request to LIST the Info data.");
+
+ // Searching for the data from mongo collection (iteration: document by document)
+ mongoCollection.find().iterator().forEachRemaining(document -> responseObserver.onNext(
+ ListInfoResponse.newBuilder()
+ .setCalcInfo(documentToCalcInfo(document)).build()
+ ));
+
+ System.out.println("Successfully displayed the Info Data from Mongo Collection");
+ System.out.println("----------------------------------------");
+ responseObserver.onCompleted();
+ }
+
+}
\ No newline at end of file
diff --git a/gsoc2022/smilesdb/Server/src/main/java/com/smiles/MoleculeImpl.java b/gsoc2022/smilesdb/Server/src/main/java/com/smiles/MoleculeImpl.java
new file mode 100644
index 00000000..619737e6
--- /dev/null
+++ b/gsoc2022/smilesdb/Server/src/main/java/com/smiles/MoleculeImpl.java
@@ -0,0 +1,372 @@
+package com.smiles;
+
+import com.mongodb.client.MongoClient;
+import com.mongodb.client.MongoClients;
+import com.mongodb.client.MongoCollection;
+import com.mongodb.client.MongoDatabase;
+import io.grpc.Status;
+import io.grpc.stub.StreamObserver;
+import org.bson.Document;
+import org.bson.types.ObjectId;
+import org.jetbrains.annotations.NotNull;
+
+import static com.mongodb.client.model.Filters.eq;
+
+public class MoleculeImpl extends MoleculeServiceGrpc.MoleculeServiceImplBase {
+
+ /* >>>>>>>> Connecting to MongoDB (the BSON document) >>>>>>>>>>>
+ * MongoDB Hierarchy: Database -> Collection -> Record
+ * Connecting port: localhost:27017 (default port)
+ * Database name: SMILESDataModels
+ * Collection name: InfoDataModel
+ * >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>*/
+
+ private final MongoClient mongoClient = MongoClients.create("mongodb://localhost:27017");
+ private final MongoDatabase mongoDatabase = mongoClient.getDatabase("smilesDB");
+ // private final MongoDatabase mongoDatabase = mongoClient.getDatabase("smilestest1");
+ private final MongoCollection<org.bson.Document> mongoCollection = mongoDatabase.getCollection("molecule");
+ // private final MongoCollection<org.bson.Document> mongoCollection = mongoDatabase.getCollection("molecule");
+ /* <<<<<<<<<<< End of MongoDB connection parameters <<<<<<<<<<<<<*/
+
+ /* Writing CRUD operation to retrieve the data from Database
+ * Emoji representation: ✅ Built Success, 🔅 On progress/Failed, ❌ Not started.
+ * ✅ CREATE/PUT operation.
+ * ✅ READ/GET operation, show the data by ID provided.
+ * ❌ UPDATE operation.
+ * ❌ DELETE operation.
+ * ✅ LIST operation, show the available data in collection, iteration.
+ * NOTE: Only the LIST method is essential for displaying the data from record.*/
+
+
+ // Implementing the CREATE operation method
+ // ✅ Built Success
+ @Override
+ public void createMolecule(CreateMoleculeRequest request, StreamObserver<CreateMoleculeResponse> responseObserver) {
+
+ System.out.println(" \n\n ----------- INSERT OPERATION ---------- ");
+ System.out.println("Received request for indexing a data to MongoDB");
+ Molecule molecule = request.getMolecule();
+
+ System.out.println("Running INSERT operation");
+ Document document = new Document("mol_id", molecule.getMolId())
+ .append("cas_nr", molecule.getCasNr())
+ .append("smiles", molecule.getSmiles())
+ .append("smiles_stereo", molecule.getSmilesStereo())
+ .append("inchi", molecule.getInchi())
+ .append("molfile_blob_source", molecule.getMolfileBlobSource())
+ .append("emp_formula", molecule.getEmpFormula())
+ .append("emp_formula_sort", molecule.getEmpFormulaSort())
+ .append("emp_formula_source", molecule.getEmpFormulaSource())
+ .append("mw", molecule.getMw())
+ .append("mw_monoiso", molecule.getMwMonoiso())
+ .append("rdb", molecule.getRdb())
+ .append("mw_source", molecule.getMwSource())
+ .append("validated_by", molecule.getValidatedBy())
+ .append("journal", molecule.getJournal())
+ .append("auth_of_intr", molecule.getAuthOfIntr())
+ .append("jour_cit", molecule.getJourCit())
+ .append("year_publ", molecule.getYearPubl())
+ .append("doi_link", molecule.getDoiLink())
+ .append("comp_class", molecule.getCompClass())
+ .append("cuniq", molecule.getCuniq())
+ .append("calc_perf", molecule.getCalcPerf())
+ .append("org_met", molecule.getOrgMet())
+ .append("mol_chrg", molecule.getMolChrg())
+ .append("state_ofmat", molecule.getStateOfmat())
+ .append("color_white", molecule.getColorWhite())
+ .append("color_uv", molecule.getColorUv())
+ .append("absorb_max", molecule.getAbsorbMax())
+ .append("solvent_ae", molecule.getSolventAe())
+ .append("absorb", molecule.getAbsorb())
+ .append("conc", molecule.getConc())
+ .append("extinc", molecule.getExtinc())
+ .append("emis_max", molecule.getEmisMax())
+ .append("temp_abs", molecule.getTempAbs())
+ .append("emis_qy", molecule.getEmisQy())
+ .append("temp_ems", molecule.getTempEms())
+ .append("lifetime", molecule.getLifetime())
+ .append("temp_cv", molecule.getTempCv())
+ .append("reduc_pot", molecule.getReducPot())
+ .append("hw_or_pk_rp", molecule.getHwOrPkRp())
+ .append("oxid_pot", molecule.getOxidPot())
+ .append("hw_or_pk_op", molecule.getHwOrPkOp())
+ .append("solvent_cv", molecule.getSolventCv())
+ .append("electrolyte", molecule.getElectrolyte())
+ .append("ref_electrd", molecule.getRefElectrd())
+ .append("inter_thngs", molecule.getInterThngs())
+ .append("density_20", molecule.getDensity20())
+ .append("density_20_source", molecule.getDensity20Source())
+ .append("default_warn_level", molecule.getDefaultWarnLevel())
+ .append("n_20", molecule.getN20())
+ .append("n_20_source", molecule.getN20Source())
+ .append("mp_low", molecule.getMpLow())
+ .append("mp_high", molecule.getMpHigh())
+ .append("mp_source", molecule.getMpSource())
+ .append("bp_low", molecule.getBpLow())
+ .append("bp_high", molecule.getBpHigh())
+ .append("bp_press", molecule.getBpPress())
+ .append("press_unit", molecule.getPressUnit())
+ .append("bp_source", molecule.getBpSource())
+ .append("safety_r", molecule.getSafetyR())
+ .append("safety_h", molecule.getSafetyH())
+ .append("safety_s", molecule.getSafetyS())
+ .append("safety_p", molecule.getSafetyP())
+ .append("safety_text", molecule.getSafetyText())
+ .append("safety_sym", molecule.getSafetySym())
+ .append("safety_sym_ghs", molecule.getSafetySymGhs())
+ .append("safety_source", molecule.getSafetySource())
+ .append("comment_mol", molecule.getCommentMol());
+
+ // Command to insert a document into a database -> collection
+ mongoCollection.insertOne(document);
+ System.out.println("Inserted an entity to MongoDB record");
+
+ //Get the ID from MongoDB
+ String id = document.getObjectId("_id").toString();
+ System.out.println("Entity ID:" + id);
+ System.out.println("----------------------------------------");
+
+ // Create Mongo Response
+ CreateMoleculeResponse moleculeResponse = CreateMoleculeResponse.newBuilder().setMolecule(
+ molecule.toBuilder().setMolId(id).build()
+ ).build();
+ responseObserver.onNext(moleculeResponse);
+ responseObserver.onCompleted();
+ }
+
+ // Implementing the READ/GET operation method
+ // ✅ Built Success
+ @Override
+ public void readMolecule(ReadMoleculeRequest request, StreamObserver<ReadMoleculeResponse> responseObserver) {
+
+// System.out.println(" \n\n ----------- GET/POST OPERATION ---------- ");
+// System.out.println("Received READ Molecule Request");
+//
+// // Get Molecule ID
+// String molId = request.getId();
+//
+// Document document = null;
+// try{
+// document = (Document) mongoCollection.find(eq("_id", new ObjectId(molId))).first();
+// }catch (Exception e){
+// responseObserver.onError(Status.NOT_FOUND
+// .withDescription("Molecule is not found for ID: " + molId)
+// .augmentDescription(e.getLocalizedMessage())
+// .asRuntimeException());
+// }
+// System.out.println("Searching for document");
+// if (document == null){
+// System.out.println("Molecule is not found");
+// responseObserver.onError(Status.NOT_FOUND
+// .withDescription("Molecule is not found for ID: " + molId)
+// .asRuntimeException());
+// }else {
+// System.out.println("Molecule is found");
+//
+// Molecule molecule = documentToMolecule(document);
+// responseObserver.onNext(
+// ReadMoleculeResponse.newBuilder()
+// .setMolecule(molecule).build());
+// System.out.println("Sent the Response");
+//
+// responseObserver.onCompleted();
+// System.out.println("Server Job Done");
+// System.out.println("----------------------------------------");
+// }
+
+ System.out.println("Received request for Fetching a Blog from MongoDB.");
+
+ Document fetchedDocFromMongo =
+ mongoCollection.find(eq("_id", new ObjectId(request.getId()))).first();
+
+ if (fetchedDocFromMongo == null) {
+ responseObserver
+ .onError(Status.NOT_FOUND.withDescription("No blog exists with this Id.").asRuntimeException());
+ } else {
+ System.out.println("Found the Data");
+ ReadMoleculeResponse fetchedBlogResponse = ReadMoleculeResponse.newBuilder()
+ .setMolecule(Molecule.newBuilder()
+ .setMolId(String.valueOf(fetchedDocFromMongo.getObjectId("_id")))
+ .setCasNr(fetchedDocFromMongo.getString("cas_nr"))
+ .setSmiles(fetchedDocFromMongo.getString("smiles"))
+ .setSmilesStereo(fetchedDocFromMongo.getString("smiles_stereo"))
+ .setInchi(fetchedDocFromMongo.getString("inchi"))
+ .setMolfileBlobSource(fetchedDocFromMongo.getString("molfile_blob_source"))
+ .setEmpFormula(fetchedDocFromMongo.getString("emp_formula"))
+ .setEmpFormulaSort(fetchedDocFromMongo.getString("emp_formula_sort"))
+ .setEmpFormulaSource(fetchedDocFromMongo.getString("emp_formula_source"))
+ .setMw(fetchedDocFromMongo.getDouble("mw") == null ? -99 : fetchedDocFromMongo.getDouble("mw"))
+ .setMwMonoiso(fetchedDocFromMongo.getDouble("mw_monoiso") == null ? -99 : fetchedDocFromMongo.getDouble("mw_monoiso"))
+ .setRdb(fetchedDocFromMongo.getDouble("rdb") == null ? -99 : fetchedDocFromMongo.getDouble("rdb"))
+ .setRdb(fetchedDocFromMongo.getDouble("rdb") == null ? -99 : fetchedDocFromMongo.getDouble("rdb"))
+ .setMwSource(fetchedDocFromMongo.getString("mw_source"))
+ .setValidatedBy(fetchedDocFromMongo.getString("validated_by"))
+ .setJournal(fetchedDocFromMongo.getString("journal"))
+ .setAuthOfIntr(fetchedDocFromMongo.getString("auth_of_intr"))
+ .setJourCit(fetchedDocFromMongo.getString("jour_cit"))
+ .setYearPubl(fetchedDocFromMongo.getString("year_publ"))
+ .setDoiLink(fetchedDocFromMongo.getString("doi_link"))
+ .setCompClass(fetchedDocFromMongo.getString("comp_class"))
+ .setCuniq(fetchedDocFromMongo.getString("cuniq"))
+ .setCalcPerf(fetchedDocFromMongo.getString("calc_perf"))
+ .setOrgMet(fetchedDocFromMongo.getString("org_met"))
+ .setMolChrg(fetchedDocFromMongo.getLong("mol_chrg") == null ? -99 : fetchedDocFromMongo.getLong("mol_chrg"))
+ .setStateOfmat(fetchedDocFromMongo.getString("state_ofmat"))
+ .setColorWhite(fetchedDocFromMongo.getString("color_white"))
+ .setColorUv(fetchedDocFromMongo.getString("color_uv"))
+ .setAbsorbMax(fetchedDocFromMongo.getDouble("absorb_max") == null ? -99 : fetchedDocFromMongo.getDouble("absorb_max"))
+ .setSolventAe(fetchedDocFromMongo.getString("solvent_ae"))
+ .setAbsorb(fetchedDocFromMongo.getDouble("absorb") == null ? -99 : fetchedDocFromMongo.getDouble("absorb"))
+ .setConc(fetchedDocFromMongo.getDouble("conc") == null ? -99 : fetchedDocFromMongo.getDouble("conc"))
+ .setExtinc(fetchedDocFromMongo.getDouble("extinc") == null ? -99 : fetchedDocFromMongo.getDouble("extinc"))
+ .setEmisMax(fetchedDocFromMongo.getDouble("emis_max") == null ? -99 : fetchedDocFromMongo.getDouble("emis_max"))
+ .setTempAbs(fetchedDocFromMongo.getDouble("temp_abs") == null ? -99 : fetchedDocFromMongo.getDouble("temp_abs"))
+ .setEmisQy(fetchedDocFromMongo.getDouble("emis_qy") == null ? -99 : fetchedDocFromMongo.getDouble("emis_qy"))
+ .setTempEms(fetchedDocFromMongo.getDouble("temp_ems") == null ? -99 : fetchedDocFromMongo.getDouble("temp_ems"))
+ .setLifetime(fetchedDocFromMongo.getDouble("lifetime") == null ? -99 : fetchedDocFromMongo.getDouble("lifetime"))
+ .setTempCv(fetchedDocFromMongo.getDouble("temp_cv") == null ? -99 : fetchedDocFromMongo.getDouble("temp_cv"))
+ .setReducPot(fetchedDocFromMongo.getDouble("reduc_pot") == null ? -99 : fetchedDocFromMongo.getDouble("reduc_pot"))
+ .setHwOrPkRp(fetchedDocFromMongo.getString("hw_or_pk_rp"))
+ .setOxidPot(fetchedDocFromMongo.getDouble("oxid_pot") == null ? -99 : fetchedDocFromMongo.getDouble("oxid_pot"))
+ .setHwOrPkOp(fetchedDocFromMongo.getString("hw_or_pk_op"))
+ .setSolventCv(fetchedDocFromMongo.getString("solvent_cv"))
+ .setElectrolyte(fetchedDocFromMongo.getString("electrolyte"))
+ .setRefElectrd(fetchedDocFromMongo.getString("ref_electrd"))
+ .setInterThngs(fetchedDocFromMongo.getString("inter_thngs"))
+ .setDensity20(fetchedDocFromMongo.getDouble("density_20") == null ? -99 : fetchedDocFromMongo.getDouble("density_20"))
+ .setDensity20Source(fetchedDocFromMongo.getString("density_20_source"))
+ .setDefaultWarnLevel(fetchedDocFromMongo.getDouble("default_warn_level") == null ? -99 : fetchedDocFromMongo.getDouble("default_warn_level"))
+ .setN20(fetchedDocFromMongo.getDouble("n_20") == null ? -99 : fetchedDocFromMongo.getDouble("n_20"))
+ .setN20Source(fetchedDocFromMongo.getString("n_20_source"))
+ .setMpLow(fetchedDocFromMongo.getDouble("mp_low") == null ? -99 : fetchedDocFromMongo.getDouble("mp_low"))
+ .setMpHigh(fetchedDocFromMongo.getDouble("mp_high") == null ? -99 : fetchedDocFromMongo.getDouble("mp_high"))
+ .setMpSource(fetchedDocFromMongo.getString("mp_source"))
+ .setBpLow(fetchedDocFromMongo.getDouble("bp_low") == null ? -99 : fetchedDocFromMongo.getDouble("bp_low"))
+ .setBpHigh(fetchedDocFromMongo.getDouble("bp_high") == null ? -99 : fetchedDocFromMongo.getDouble("bp_high"))
+ .setBpPress(fetchedDocFromMongo.getDouble("bp_press") == null ? -99 : fetchedDocFromMongo.getDouble("bp_press"))
+ .setPressUnit(fetchedDocFromMongo.getString("press_unit"))
+ .setBpSource(fetchedDocFromMongo.getString("bp_source"))
+ .setSafetyR(fetchedDocFromMongo.getString("safety_r"))
+ .setSafetyH(fetchedDocFromMongo.getString("safety_h"))
+ .setSafetyS(fetchedDocFromMongo.getString("safety_s"))
+ .setSafetyP(fetchedDocFromMongo.getString("safety_p"))
+ .setSafetyText(fetchedDocFromMongo.getString("safety_text"))
+ .setSafetySym(fetchedDocFromMongo.getString("safety_sym"))
+ .setSafetySymGhs(fetchedDocFromMongo.getString("safety_sym_ghs"))
+ .setSafetySource(fetchedDocFromMongo.getString("safety_source"))
+ .setCommentMol(fetchedDocFromMongo.getString("comment_mol"))
+ .build())
+ .build();
+ responseObserver.onNext(fetchedBlogResponse);
+ }
+ responseObserver.onCompleted();
+ }
+
+ private Molecule documentToMolecule(Document document) {
+ return Molecule.newBuilder()
+ .setMolId(String.valueOf(document.getObjectId("_id")))
+ .setCasNr(document.getString("cas_nr"))
+ .setSmiles(document.getString("smiles"))
+ .setSmilesStereo(document.getString("smiles_stereo"))
+ .setInchi(document.getString("inchi"))
+ .setMolfileBlobSource(document.getString("molfile_blob_source"))
+ .setEmpFormula(document.getString("emp_formula"))
+ .setEmpFormulaSort(document.getString("emp_formula_sort"))
+ .setEmpFormulaSource(document.getString("emp_formula_source"))
+ .setMw(document.getDouble("mw"))
+ .setMwMonoiso(document.getDouble("mw_monoiso"))
+ .setRdb(document.getDouble("rdb"))
+ .setMwSource(document.getString("mw_source"))
+ .setValidatedBy(document.getString("validated_by"))
+ .setJournal(document.getString("journal"))
+ .setAuthOfIntr(document.getString("auth_of_intr"))
+ .setJourCit(document.getString("jour_cit"))
+ .setYearPubl(document.getString("year_publ"))
+ .setDoiLink(document.getString("doi_link"))
+ .setCompClass(document.getString("comp_class"))
+ .setCuniq(document.getString("cuniq"))
+ .setCalcPerf(document.getString("calc_perf"))
+ .setOrgMet(document.getString("org_met"))
+// .setMolChrg(Long.parseLong(document.getString("mol_chrg").equals("")?"9999999":document.getString("mol_chrg")))
+ .setStateOfmat(document.getString("state_ofmat"))
+ .setColorWhite(document.getString("color_white"))
+ .setColorUv(document.getString("color_uv"))
+ .setAbsorbMax(document.getDouble("absorb_max"))
+ .setSolventAe(document.getString("solvent_ae"))
+ .setAbsorb(document.getDouble("absorb"))
+ .setConc(document.getDouble("conc"))
+ .setExtinc(document.getDouble("extinc"))
+ .setEmisMax(document.getDouble("emis_max"))
+ .setTempAbs(document.getDouble("temp_abs"))
+ .setEmisQy(document.getDouble("emis_qy"))
+ .setTempEms(document.getDouble("temp_ems"))
+ .setLifetime(document.getDouble("lifetime"))
+ .setTempCv(document.getDouble("temp_cv"))
+ .setReducPot(document.getDouble("reduc_pot"))
+ .setHwOrPkRp(document.getString("hw_or_pk_rp"))
+ .setOxidPot(document.getDouble("oxid_pot"))
+ .setHwOrPkOp(document.getString("hw_or_pk_op"))
+ .setSolventCv(document.getString("solvent_cv"))
+ .setElectrolyte(document.getString("electrolyte"))
+ .setRefElectrd(document.getString("ref_electrd"))
+ .setInterThngs(document.getString("inter_thngs"))
+ .setDensity20(document.getDouble("density_20"))
+ .setDensity20Source(document.getString("density_20_source"))
+ .setDefaultWarnLevel(document.getDouble("default_warn_level"))
+ .setN20(document.getDouble("n_20"))
+ .setN20Source(document.getString("n_20_source"))
+ .setMpLow(document.getDouble("mp_low"))
+ .setMpHigh(document.getDouble("mp_high"))
+ .setMpSource(document.getString("mp_source"))
+ .setBpLow(document.getDouble("bp_low"))
+ .setBpHigh(document.getDouble("bp_high"))
+ .setBpPress(document.getDouble("bp_press"))
+ .setPressUnit(document.getString("press_unit"))
+ .setBpSource(document.getString("bp_source"))
+ .setSafetyR(document.getString("safety_r"))
+ .setSafetyH(document.getString("safety_h"))
+ .setSafetyS(document.getString("safety_s"))
+ .setSafetyP(document.getString("safety_p"))
+ .setSafetyText(document.getString("safety_text"))
+ .setSafetySym(document.getString("safety_sym"))
+ .setSafetySymGhs(document.getString("safety_sym_ghs"))
+ .setSafetySource(document.getString("safety_source"))
+ .setCommentMol(document.getString("comment_mol"))
+ .build();
+ }
+
+ @Override
+ public void updateMolecule(UpdateMoleculeRequest request, StreamObserver<UpdateMoleculeResponse> responseObserver) {
+ super.updateMolecule(request, responseObserver);
+ }
+
+ @Override
+ public void deleteMolecule(DeleteMoleculeRequest request, StreamObserver<DeleteMoleculeResponse> responseObserver) {
+ super.deleteMolecule(request, responseObserver);
+ }
+
+ @Override
+ public void listMolecule(ListMoleculeRequest request, StreamObserver<ListMoleculeResponse> responseObserver) {
+ System.out.println(" \n\n ----------- LIST OPERATION ---------- ");
+ System.out.println("Received a request to LIST Molecule data.");
+
+// Searching for the data from mongo collection(iteration:document by document)
+ mongoCollection.find().iterator().forEachRemaining(document -> responseObserver.onNext(
+ ListMoleculeResponse.newBuilder()
+ .setMolecule(documentToMolecule(document)).build()
+ ));
+ System.out.println("Successfully retrieved the Info Data from Mongo Collection");
+ System.out.println("----------------------------------------");
+ responseObserver.onCompleted();
+ }
+
+ @Override
+ public int hashCode() {
+ return super.hashCode();
+ }
+
+ @Override
+ public String toString() {
+ return super.toString();
+ }
+}
diff --git a/gsoc2022/smilesdb/Server/src/main/java/com/smiles/ServerApplication.java b/gsoc2022/smilesdb/Server/src/main/java/com/smiles/ServerApplication.java
deleted file mode 100644
index 1636b3dd..00000000
--- a/gsoc2022/smilesdb/Server/src/main/java/com/smiles/ServerApplication.java
+++ /dev/null
@@ -1,24 +0,0 @@
-package com.smiles;
-
-import com.smiles.calcinfo.CalcInfoImpl;
-import io.grpc.Server;
-import io.grpc.ServerBuilder;
-import org.springframework.boot.SpringApplication;
-import org.springframework.boot.autoconfigure.SpringBootApplication;
-
-import java.io.IOException;
-
-@SpringBootApplication
-public class ServerApplication {
-
- public static void main(String[] args) throws IOException, InterruptedException {
-
- SpringApplication.run(ServerApplication.class, args);
-
- Server server = ServerBuilder.forPort(7594)
- .addService(new CalcInfoImpl()).build();
- server.start();
- System.out.println("\n Server running successfully");
- server.awaitTermination();
- }
-}
diff --git a/gsoc2022/smilesdb/Server/src/main/java/com/smiles/SpringContext.java b/gsoc2022/smilesdb/Server/src/main/java/com/smiles/SpringContext.java
deleted file mode 100644
index 7c0903bd..00000000
--- a/gsoc2022/smilesdb/Server/src/main/java/com/smiles/SpringContext.java
+++ /dev/null
@@ -1,21 +0,0 @@
-package com.smiles;
-
-import org.springframework.beans.BeansException;
-import org.springframework.context.ApplicationContext;
-import org.springframework.context.ApplicationContextAware;
-import org.springframework.stereotype.Component;
-
-@Component
-public class SpringContext implements ApplicationContextAware {
-
- private static ApplicationContext context;
-
- public static <T extends Object> T getBean(Class<T> beanClass) {
- return context.getBean(beanClass);
- }
-
- @Override
- public void setApplicationContext(ApplicationContext context) throws BeansException {
- SpringContext.context = context;
- }
-}
diff --git a/gsoc2022/smilesdb/Server/src/main/java/com/smiles/SpringServerApplication.java b/gsoc2022/smilesdb/Server/src/main/java/com/smiles/SpringServerApplication.java
new file mode 100644
index 00000000..1a53ff91
--- /dev/null
+++ b/gsoc2022/smilesdb/Server/src/main/java/com/smiles/SpringServerApplication.java
@@ -0,0 +1,36 @@
+package com.smiles;
+
+import io.grpc.Server;
+import io.grpc.ServerBuilder;
+import org.springframework.boot.SpringApplication;
+import org.springframework.boot.autoconfigure.SpringBootApplication;
+
+import java.io.IOException;
+
+@SpringBootApplication
+public class SpringServerApplication {
+
+ public static void main(String[] args) throws IOException, InterruptedException {
+ int localport = 50051;
+
+ SpringApplication.run(SpringServerApplication.class, args);
+ System.out.println("TomCat is Running Successfully");
+ System.out.println("Starting the gRPC services for SMILES Data Models");
+ Server server = ServerBuilder.forPort(localport)
+ .addService(new CalcInfoImpl())
+ .addService(new MoleculeImpl())
+// .addService(new GreeterImpl())
+ .build();
+ server.start();
+
+ System.out.println("Started gRPC services at port: localhost: "+ localport);
+
+ Runtime.getRuntime().addShutdownHook(new Thread(() -> {
+ System.out.println("Received Shutdown Request");
+ ((Server) server).shutdown();
+ System.out.println("Successfully stopped the server");
+ }));
+
+ server.awaitTermination();
+ }
+}
diff --git a/gsoc2022/smilesdb/Server/src/main/java/com/smiles/calcinfo/CalcInfoEntity.java b/gsoc2022/smilesdb/Server/src/main/java/com/smiles/calcinfo/CalcInfoEntity.java
deleted file mode 100644
index 94dd8abd..00000000
--- a/gsoc2022/smilesdb/Server/src/main/java/com/smiles/calcinfo/CalcInfoEntity.java
+++ /dev/null
@@ -1,94 +0,0 @@
-package com.smiles.calcinfo;
-
-import org.springframework.data.annotation.Id;
-import org.springframework.data.mongodb.core.mapping.Document;
-
-@Document("calcInfo")
-public class CalcInfoEntity {
-
- @Id
- private String id;
- private long nbasis;
- private long nmo;
- private long nalpha;
- private long nbeta;
- private long natom;
- private double energy;
- private String SMILES;
-
- public CalcInfoEntity(long nbasis, long nmo, long nalpha, long nbeta, long natom, double energy, String SMILES) {
- this.nbasis = nbasis;
- this.nmo = nmo;
- this.nalpha = nalpha;
- this.nbeta = nbeta;
- this.natom = natom;
- this.energy = energy;
- this.SMILES = SMILES;
- }
-
- public String getId() {
- return id;
- }
-
- public void setId(String id) {
- this.id = id;
- }
-
- public long getNbasis() {
- return nbasis;
- }
-
- public void setNbasis(long nbasis) {
- this.nbasis = nbasis;
- }
-
- public long getNmo() {
- return nmo;
- }
-
- public void setNmo(long nmo) {
- this.nmo = nmo;
- }
-
- public long getNalpha() {
- return nalpha;
- }
-
- public void setNalpha(long nalpha) {
- this.nalpha = nalpha;
- }
-
- public long getNbeta() {
- return nbeta;
- }
-
- public void setNbeta(long nbeta) {
- this.nbeta = nbeta;
- }
-
- public long getNatom() {
- return natom;
- }
-
- public void setNatom(long natom) {
- this.natom = natom;
- }
-
- public double getEnergy() {
- return energy;
- }
-
- public void setEnergy(double energy) {
- this.energy = energy;
- }
-
- public String getSMILES() {
- return SMILES;
- }
-
- public void setSMILES(String SMILES) {
- this.SMILES = SMILES;
- }
-
-
-}
diff --git a/gsoc2022/smilesdb/Server/src/main/java/com/smiles/calcinfo/CalcInfoImpl.java b/gsoc2022/smilesdb/Server/src/main/java/com/smiles/calcinfo/CalcInfoImpl.java
deleted file mode 100644
index 221bf9cc..00000000
--- a/gsoc2022/smilesdb/Server/src/main/java/com/smiles/calcinfo/CalcInfoImpl.java
+++ /dev/null
@@ -1,89 +0,0 @@
-package com.smiles.calcinfo;
-
-import com.mongodb.client.MongoClient;
-import com.mongodb.client.MongoClients;
-import com.mongodb.client.MongoCollection;
-import com.mongodb.client.MongoDatabase;
-import com.smiles.*;
-import com.smiles.CalcInfoServiceGrpc;
-import io.grpc.stub.StreamObserver;
-import org.bson.Document;
-
-public class CalcInfoImpl extends CalcInfoServiceGrpc.CalcInfoServiceImplBase {
-
- CalcInfoRepo repo = SpringContext.getBean(CalcInfoRepo.class);
-
- @Override
- public void getCalcInfo(CalcInfoRequest request, StreamObserver<CalcInfo> responseObserver) {
-
- System.out.println(request.getAllFields());
- repo.deleteAll();
- CalcInfoEntity c1 = new CalcInfoEntity(1, 1, 1, 1, 1, 1.0, "TEST1");
- repo.save(c1);
- CalcInfoEntity c2 = new CalcInfoEntity(2, 2, 2, 2, 2, 2.0, "TEST2");
- repo.save(c2);
- // Reply the values
-
- // String query = request.getCalcInfoQuery()
-
- //CalcInfoEntity calcInfo = repo.findByNalpha(request.getCalcInfoQuery());
- CalcInfoEntity calcInfo = repo.findBySMILES(request.getCalcInfoQuery());
- System.out.println(calcInfo.toString());
-
- CalcInfo reply = CalcInfo.newBuilder().setNbeta(calcInfo.getNbeta())
- .setNmo(calcInfo.getNmo())
- .setEnergy(calcInfo.getEnergy())
- .setNalpha(calcInfo.getNalpha())
- .setNatom(calcInfo.getNatom())
- .setSMILES(calcInfo.getSMILES()).build();
- responseObserver.onNext(reply);
- responseObserver.onCompleted();
- }
-
- @Override
- public void createCalcInfo(com.smiles.CalcInfoRequest request,
- io.grpc.stub.StreamObserver<com.smiles.CalcInfo> responseObserver) {
-
- CalcInfo calcInfo = request.getCalcInfo();
- System.out.println(request.getAllFields());
- CalcInfoEntity c1001 = new CalcInfoEntity(calcInfo.getNbasis(),
- calcInfo.getNmo(),
- calcInfo.getNalpha(),
- calcInfo.getNbeta(),
- calcInfo.getNatom(),
- calcInfo.getEnergy(),
- calcInfo.getSMILES());
- repo.save(c1001);
- responseObserver.onNext(calcInfo);
- responseObserver.onCompleted();
- }
-
- @Override
- public void updateCalcInfo(com.smiles.CalcInfoRequest request,
- io.grpc.stub.StreamObserver<com.smiles.CalcInfo> responseObserver) {
- CalcInfo calcInfo = request.getCalcInfo();
- System.out.println(request.getAllFields());
- CalcInfoEntity c1001 = (CalcInfoEntity) repo.findBySMILES(calcInfo.getSMILES());
- System.out.println(c1001.getId());
- c1001.setNbasis(calcInfo.getNbasis());
- c1001.setNmo(calcInfo.getNmo());
- c1001.setNalpha(calcInfo.getNalpha());
- c1001.setNbeta(calcInfo.getNbeta());
- c1001.setNatom(calcInfo.getNatom());
- c1001.setEnergy(calcInfo.getEnergy());
- c1001.setSMILES(calcInfo.getSMILES());
- repo.save(c1001);
- responseObserver.onNext(calcInfo);
- responseObserver.onCompleted();
- }
-
- @Override
- public void deleteCalcInfo(com.smiles.CalcInfoRequest request,
- io.grpc.stub.StreamObserver<com.smiles.CalcInfo> responseObserver) {
- CalcInfo calcInfo = request.getCalcInfo();
- CalcInfoEntity c1001 = (CalcInfoEntity) repo.findBySMILES(calcInfo.getSMILES());
- repo.delete(c1001);
- responseObserver.onNext(calcInfo);
- responseObserver.onCompleted();
- }
-}
diff --git a/gsoc2022/smilesdb/Server/src/main/java/com/smiles/calcinfo/CalcInfoRepo.java b/gsoc2022/smilesdb/Server/src/main/java/com/smiles/calcinfo/CalcInfoRepo.java
deleted file mode 100644
index 2abe1fb0..00000000
--- a/gsoc2022/smilesdb/Server/src/main/java/com/smiles/calcinfo/CalcInfoRepo.java
+++ /dev/null
@@ -1,13 +0,0 @@
-package com.smiles.calcinfo;
-
-import org.springframework.data.mongodb.repository.MongoRepository;
-
-public interface CalcInfoRepo extends MongoRepository<CalcInfoEntity, String> {
-
-// public CalcInfoEntity findByNalpha(long nalpha);
-
- public CalcInfoEntity findBySMILES(String SMILES);
-
-// public CalcInfoEntity findCalcInfoEntitiesBySMILES(String SMILES);
-
-}
diff --git a/gsoc2022/smilesdb/Server/src/main/java/com/smiles/calcprops/CalcPropsEntity.java b/gsoc2022/smilesdb/Server/src/main/java/com/smiles/calcprops/CalcPropsEntity.java
deleted file mode 100644
index dbcbb1bd..00000000
--- a/gsoc2022/smilesdb/Server/src/main/java/com/smiles/calcprops/CalcPropsEntity.java
+++ /dev/null
@@ -1,618 +0,0 @@
-package com.smiles.calcprops;
-
-import org.springframework.data.annotation.Id;
-import org.springframework.data.mongodb.core.mapping.Document;
-
-import java.lang.reflect.Array;
-import java.util.ArrayList;
-import java.util.List;
-
-@Document("calcProps")
-public class CalcPropsEntity {
-
- @Id
- private String id;
- private String InChI;
- private String InChIKey;
- private String SMILES;
- private String CanonicalSMILES;
- private String PDB;
- private String SDF;
- private String ParsedBy;
- private String Formula;
- private long Charge;
- private long Multiplicity;
- private String Keywords;
- private String CalcType;
- private String Methods;
- private String Basis;
- private long NumBasis;
- private long NumFC;
- private long NumVirt;
- private String JobStatus;
- private String FinTime;
- private String InitGeom;
- private String FinalGeom;
- private String PG;
- private String ElecSym;
- private long NImag;
- private double Energy;
- private double EnergyKcal;
- private double ZPE;
- private double ZPEKcal;
- private double HF;
- private double HFKcal;
- private double Thermal;
- private double ThermalKcal;
- private double Enthalpy;
- private double EnthalpyKcal;
- private double Entropy;
- private double EntropyKcal;
- private double Gibbs;
- private double GibbsKcal;
- private String OrgSym;
- private double Dipole;
- private double Freq;
- private double AtomWeigh;
- private double S2;
- private String CodeVersion;
- private String CalcMachine;
- private String CalcBy;
- private String MemCost;
- private String TimeCost;
- private String CPUTime;
- private String Convergenece;
- private String Otherinfo;
- private String Comments;
- private long NAtom;
- private List<Double> Homos;
- private List<Double> ScfEnergies;
- private List<Double> MoEnergies;
- private List<Double> AtomCoords;
- private long Nmo;
- private long NBasis;
-
-
- public CalcPropsEntity(String inChI, String InChIKey, String SMILES, String canonicalSMILES, String PDB, String SDF, String parsedBy, String formula, long charge, long multiplicity, String keywords, String calcType, String methods, String basis, long numBasis, long numFC, long numVirt, String jobStatus, String finTime, String initGeom, String finalGeom, String PG, String elecSym, long NImag, double energy, double energyKcal, double ZPE, double ZPEKcal, double HF, double HFKcal, doubl [...]
- this.InChI = inChI;
- this.InChIKey = InChIKey;
- this.SMILES = SMILES;
- this.CanonicalSMILES = canonicalSMILES;
- this.PDB = PDB;
- this.SDF = SDF;
- this.ParsedBy = parsedBy;
- this.Formula = formula;
- this.Charge = charge;
- this.Multiplicity = multiplicity;
- this.Keywords = keywords;
- this.CalcType = calcType;
- this.Methods = methods;
- this.Basis = basis;
- this.NumBasis = numBasis;
- this.NumFC = numFC;
- this.NumVirt = numVirt;
- this.JobStatus = jobStatus;
- this.FinTime = finTime;
- this.InitGeom = initGeom;
- this.FinalGeom = finalGeom;
- this.PG = PG;
- this.ElecSym = elecSym;
- this.NImag = NImag;
- this.Energy = energy;
- this.EnergyKcal = energyKcal;
- this.ZPE = ZPE;
- this.ZPEKcal = ZPEKcal;
- this.HF = HF;
- this.HFKcal = HFKcal;
- this.Thermal = thermal;
- this.ThermalKcal = thermalKcal;
- this.Enthalpy = enthalpy;
- this.EnthalpyKcal = enthalpyKcal;
- this.Entropy = entropy;
- this.EntropyKcal = entropyKcal;
- this.Gibbs = gibbs;
- this.GibbsKcal = gibbsKcal;
- this.OrgSym = orgSym;
- this.Dipole = dipole;
- this.Freq = freq;
- this.AtomWeigh = atomWeigh;
- this.S2 = s2;
- this.CodeVersion = codeVersion;
- this.CalcMachine = calcMachine;
- this.CalcBy = calcBy;
- this.MemCost = memCost;
- this.TimeCost = timeCost;
- this.CPUTime = CPUTime;
- this.Convergenece = convergenece;
- this.Otherinfo = otherinfo;
- this.Comments = comments;
- this.NAtom = NAtom;
- this.Homos = homos;
- this.ScfEnergies = scfEnergies;
- this.MoEnergies = moEnergies;
- this.AtomCoords = atomCoords;
- this.Nmo = nmo;
- this.NBasis = NBasis;
- }
-
- public String getId() {
- return id;
- }
-
- public void setId(String id) {
- this.id = id;
- }
-
- public String getInChI() {
- return InChI;
- }
-
- public void setInChI(String inChI) {
- InChI = inChI;
- }
-
- public String getInChIKey() {
- return InChIKey;
- }
-
- public CalcPropsEntity setInChIKey(String inChIKey) {
- InChIKey = inChIKey;
- return this;
- }
-
- public String getSMILES() {
- return SMILES;
- }
-
- public void setSMILES(String SMILES) {
- this.SMILES = SMILES;
- }
-
- public String getCanonicalSMILES() {
- return CanonicalSMILES;
- }
-
- public void setCanonicalSMILES(String canonicalSMILES) {
- CanonicalSMILES = canonicalSMILES;
- }
-
- public String getPDB() {
- return PDB;
- }
-
- public void setPDB(String PDB) {
- this.PDB = PDB;
- }
-
- public String getSDF() {
- return SDF;
- }
-
- public void setSDF(String SDF) {
- this.SDF = SDF;
- }
-
- public String getParsedBy() {
- return ParsedBy;
- }
-
- public void setParsedBy(String parsedBy) {
- ParsedBy = parsedBy;
- }
-
- public String getFormula() {
- return Formula;
- }
-
- public void setFormula(String formula) {
- Formula = formula;
- }
-
- public long getCharge() {
- return Charge;
- }
-
- public void setCharge(long charge) {
- Charge = charge;
- }
-
- public long getMultiplicity() {
- return Multiplicity;
- }
-
- public void setMultiplicity(long multiplicity) {
- Multiplicity = multiplicity;
- }
-
- public String getKeywords() {
- return Keywords;
- }
-
- public void setKeywords(String keywords) {
- Keywords = keywords;
- }
-
- public String getCalcType() {
- return CalcType;
- }
-
- public void setCalcType(String calcType) {
- CalcType = calcType;
- }
-
- public String getMethods() {
- return Methods;
- }
-
- public void setMethods(String methods) {
- Methods = methods;
- }
-
- public String getBasis() {
- return Basis;
- }
-
- public void setBasis(String basis) {
- Basis = basis;
- }
-
- public long getNumBasis() {
- return NumBasis;
- }
-
- public void setNumBasis(long numBasis) {
- NumBasis = numBasis;
- }
-
- public long getNumFC() {
- return NumFC;
- }
-
- public void setNumFC(long numFC) {
- NumFC = numFC;
- }
-
- public long getNumVirt() {
- return NumVirt;
- }
-
- public void setNumVirt(long numVirt) {
- NumVirt = numVirt;
- }
-
- public String getJobStatus() {
- return JobStatus;
- }
-
- public void setJobStatus(String jobStatus) {
- JobStatus = jobStatus;
- }
-
- public String getFinTime() {
- return FinTime;
- }
-
- public void setFinTime(String finTime) {
- FinTime = finTime;
- }
-
- public String getInitGeom() {
- return InitGeom;
- }
-
- public void setInitGeom(String initGeom) {
- InitGeom = initGeom;
- }
-
- public String getFinalGeom() {
- return FinalGeom;
- }
-
- public void setFinalGeom(String finalGeom) {
- FinalGeom = finalGeom;
- }
-
- public String getPG() {
- return PG;
- }
-
- public void setPG(String PG) {
- this.PG = PG;
- }
-
- public String getElecSym() {
- return ElecSym;
- }
-
- public void setElecSym(String elecSym) {
- ElecSym = elecSym;
- }
-
- public long getNImag() {
- return NImag;
- }
-
- public void setNImag(long NImag) {
- this.NImag = NImag;
- }
-
- public double getEnergy() {
- return Energy;
- }
-
- public void setEnergy(double energy) {
- Energy = energy;
- }
-
- public double getEnergyKcal() {
- return EnergyKcal;
- }
-
- public void setEnergyKcal(double energyKcal) {
- EnergyKcal = energyKcal;
- }
-
- public double getZPE() {
- return ZPE;
- }
-
- public void setZPE(double ZPE) {
- this.ZPE = ZPE;
- }
-
- public double getZPEKcal() {
- return ZPEKcal;
- }
-
- public void setZPEKcal(double ZPEKcal) {
- this.ZPEKcal = ZPEKcal;
- }
-
- public double getHF() {
- return HF;
- }
-
- public void setHF(double HF) {
- this.HF = HF;
- }
-
- public double getHFKcal() {
- return HFKcal;
- }
-
- public void setHFKcal(double HFKcal) {
- this.HFKcal = HFKcal;
- }
-
- public double getThermal() {
- return Thermal;
- }
-
- public void setThermal(double thermal) {
- Thermal = thermal;
- }
-
- public double getThermalKcal() {
- return ThermalKcal;
- }
-
- public void setThermalKcal(double thermalKcal) {
- ThermalKcal = thermalKcal;
- }
-
- public double getEnthalpy() {
- return Enthalpy;
- }
-
- public void setEnthalpy(double enthalpy) {
- Enthalpy = enthalpy;
- }
-
- public double getEnthalpyKcal() {
- return EnthalpyKcal;
- }
-
- public void setEnthalpyKcal(double enthalpyKcal) {
- EnthalpyKcal = enthalpyKcal;
- }
-
- public double getEntropy() {
- return Entropy;
- }
-
- public void setEntropy(double entropy) {
- Entropy = entropy;
- }
-
- public double getEntropyKcal() {
- return EntropyKcal;
- }
-
- public void setEntropyKcal(double entropyKcal) {
- EntropyKcal = entropyKcal;
- }
-
- public double getGibbs() {
- return Gibbs;
- }
-
- public void setGibbs(double gibbs) {
- Gibbs = gibbs;
- }
-
- public double getGibbsKcal() {
- return GibbsKcal;
- }
-
- public void setGibbsKcal(double gibbsKcal) {
- GibbsKcal = gibbsKcal;
- }
-
- public String getOrgSym() {
- return OrgSym;
- }
-
- public void setOrgSym(String orgSym) {
- OrgSym = orgSym;
- }
-
- public double getDipole() {
- return Dipole;
- }
-
- public void setDipole(double dipole) {
- Dipole = dipole;
- }
-
- public double getFreq() {
- return Freq;
- }
-
- public void setFreq(double freq) {
- Freq = freq;
- }
-
- public double getAtomWeigh() {
- return AtomWeigh;
- }
-
- public void setAtomWeigh(double atomWeigh) {
- AtomWeigh = atomWeigh;
- }
-
- public double getS2() {
- return S2;
- }
-
- public void setS2(double s2) {
- S2 = s2;
- }
-
- public String getCodeVersion() {
- return CodeVersion;
- }
-
- public void setCodeVersion(String codeVersion) {
- CodeVersion = codeVersion;
- }
-
- public String getCalcMachine() {
- return CalcMachine;
- }
-
- public void setCalcMachine(String calcMachine) {
- CalcMachine = calcMachine;
- }
-
- public String getCalcBy() {
- return CalcBy;
- }
-
- public void setCalcBy(String calcBy) {
- CalcBy = calcBy;
- }
-
- public String getMemCost() {
- return MemCost;
- }
-
- public void setMemCost(String memCost) {
- MemCost = memCost;
- }
-
- public String getTimeCost() {
- return TimeCost;
- }
-
- public void setTimeCost(String timeCost) {
- TimeCost = timeCost;
- }
-
- public String getCPUTime() {
- return CPUTime;
- }
-
- public void setCPUTime(String CPUTime) {
- this.CPUTime = CPUTime;
- }
-
- public String getConvergenece() {
- return Convergenece;
- }
-
- public void setConvergenece(String convergenece) {
- Convergenece = convergenece;
- }
-
- public String getOtherinfo() {
- return Otherinfo;
- }
-
- public void setOtherinfo(String otherinfo) {
- Otherinfo = otherinfo;
- }
-
- public String getComments() {
- return Comments;
- }
-
- public void setComments(String comments) {
- Comments = comments;
- }
-
- public long getNAtom() {
- return NAtom;
- }
-
- public void setNAtom(long NAtom) {
- this.NAtom = NAtom;
- }
-
- public List<Double> getHomos() {
- return Homos;
- }
-
- public void setHomos(List<Double> homos) {
- Homos = homos;
- }
-
- public List<Double> getScfEnergies() {
- return ScfEnergies;
- }
-
- public void setScfEnergies(List<Double> scfEnergies) {
- ScfEnergies = scfEnergies;
- }
-
- public List<Double> getMoEnergies() {
- return MoEnergies;
- }
-
- public void setMoEnergies(List<Double> moEnergies) {
- MoEnergies = moEnergies;
- }
-
- public List<Double> getAtomCoords() {
- return AtomCoords;
- }
-
- public void setAtomCoords(List<Double> atomCoords) {
- AtomCoords = atomCoords;
- }
-
- public long getNmo() {
- return Nmo;
- }
-
- public void setNmo(long nmo) {
- Nmo = nmo;
- }
-
- public long getNBasis() {
- return NBasis;
- }
-
- public void setNBasis(long NBasis) {
- this.NBasis = NBasis;
- }
-}
diff --git a/gsoc2022/smilesdb/Server/src/main/java/com/smiles/calcprops/CalcPropsImpl.java b/gsoc2022/smilesdb/Server/src/main/java/com/smiles/calcprops/CalcPropsImpl.java
deleted file mode 100644
index 47ca39c7..00000000
--- a/gsoc2022/smilesdb/Server/src/main/java/com/smiles/calcprops/CalcPropsImpl.java
+++ /dev/null
@@ -1,154 +0,0 @@
-package com.smiles.calcprops;
-
-import com.smiles.CalcProps;
-import com.smiles.CalcPropsRequest;
-import com.smiles.CalcPropsServiceGrpc;
-import com.smiles.SpringContext;
-import com.smiles.calcinfo.CalcInfoEntity;
-import io.grpc.stub.StreamObserver;
-
-public class CalcPropsImpl extends CalcPropsServiceGrpc.CalcPropsServiceImplBase {
-
- CalcPropsRepo repo1 = SpringContext.getBean(CalcPropsRepo.class);
-
- @Override
- public void getCalcProps(CalcPropsRequest request, StreamObserver<CalcProps> responseObserver) {
-// super.getCalcInfo(request, responseObserver);
-
- CalcPropsEntity calcProps = repo1.findBySMILES(request.getCalcPropsQuery());
- System.out.println(calcProps.toString());
-
- CalcProps reply = CalcProps.newBuilder()
- .setInChI(calcProps.getInChI())
- .setInChIKey(calcProps.getInChIKey())
- .setSMILES(calcProps.getSMILES())
- .setCanonicalSMILES(calcProps.getCanonicalSMILES())
- .setPDB(calcProps.getPDB())
- .setSDF(calcProps.getSDF())
- .setParsedBy(calcProps.getParsedBy())
- .setFormula(calcProps.getFormula())
- .setCharge(calcProps.getCharge())
- .setMultiplicity(calcProps.getMultiplicity())
- .setKeywords(calcProps.getKeywords())
- .setCalcType(calcProps.getCalcType())
- .setMethods(calcProps.getMethods())
- .setBasis(calcProps.getBasis())
- .setNumBasis(calcProps.getNumBasis())
- .setNumFC(calcProps.getNumFC())
- .setNumVirt(calcProps.getNumVirt())
- .setJobStatus(calcProps.getJobStatus())
- .setFinTime(calcProps.getFinTime())
- .setInitGeom(calcProps.getInitGeom())
- .setFinalGeom(calcProps.getFinalGeom())
- .setPG(calcProps.getPG()).build();
- responseObserver.onNext(reply);
- responseObserver.onCompleted();
- }
-
- @Override
- public void createCalcProps(CalcPropsRequest request, StreamObserver<CalcProps> responseObserver) {
-// super.createCalcProps(request, responseObserver);
- CalcProps calcProps = request.getCalcProp();
- System.out.println(request.getAllFields());
- CalcPropsEntity c2001 = new CalcPropsEntity(calcProps.getInChI(),
- calcProps.getInChIKey(), calcProps.getSMILES(), calcProps.getCanonicalSMILES(),
- calcProps.getPDB(), calcProps.getSDF(), calcProps.getParsedBy(),
- calcProps.getFormula(), calcProps.getCharge(), calcProps.getMultiplicity(),
- calcProps.getKeywords(), calcProps.getCalcType(), calcProps.getMethods(),
- calcProps.getBasis(), calcProps.getNumBasis(), calcProps.getNumFC(),
- calcProps.getNumVirt(), calcProps.getJobStatus(), calcProps.getFinTime(),
- calcProps.getInitGeom(), calcProps.getFinalGeom(), calcProps.getPG(),
- calcProps.getElecSym(), calcProps.getNImag(), calcProps.getEnergy(),
- calcProps.getEnergyKcal(), calcProps.getZPE(), calcProps.getZPEKcal(),
- calcProps.getHF(), calcProps.getHFKcal(), calcProps.getThermal(), calcProps.getThermalKcal(),
- calcProps.getEnthalpy(), calcProps.getEnthalpyKcal(), calcProps.getEntropy(),
- calcProps.getEntropyKcal(), calcProps.getGibbs(), calcProps.getGibbsKcal(),
- calcProps.getOrbSym(), calcProps.getDipole(), calcProps.getFreq(), calcProps.getAtomWeigh(),
- calcProps.getS2(), calcProps.getCodeVersion(), calcProps.getCalcMachine(), calcProps.getCalcBy(),
- calcProps.getMemCost(), calcProps.getTimeCost(), calcProps.getCPUTime(), calcProps.getConvergenece(),
- calcProps.getOtherinfo(), calcProps.getComments(), calcProps.getNAtom(),
- calcProps.getHomosList(), calcProps.getScfEnergiesList(), calcProps.getMoEnergiesList(),
- calcProps.getAtomCoordsList(), calcProps.getNmo(), calcProps.getNBasis());
- repo1.save(c2001);
- responseObserver.onNext(calcProps);
- responseObserver.onCompleted();
- }
-
- @Override
- public void updateCalcProps(CalcPropsRequest request, StreamObserver<CalcProps> responseObserver) {
-// super.updateCalcProps(request, responseObserver);
- CalcProps calcProps = request.getCalcProp();
- System.out.println(request.getAllFields());
- CalcPropsEntity c2001 = (CalcPropsEntity) repo1.findBySMILES(calcProps.getSMILES());
- System.out.println(c2001.getId());
- c2001.setInChI(calcProps.getInChI());
- c2001.setInChIKey(calcProps.getInChIKey());
- c2001.setSMILES(calcProps.getSMILES());
- c2001.setCanonicalSMILES(calcProps.getCanonicalSMILES());
- c2001.setPDB(calcProps.getPDB());
- c2001.setSDF(calcProps.getSDF());
- c2001.setParsedBy(calcProps.getParsedBy());
- c2001.setFormula(calcProps.getFormula());
- c2001.setCharge(calcProps.getCharge());
- c2001.setMultiplicity(calcProps.getMultiplicity());
- c2001.setKeywords(calcProps.getKeywords());
- c2001.setCalcType(calcProps.getCalcType());
- c2001.setMethods(calcProps.getMethods());
- c2001.setBasis(calcProps.getBasis());
- c2001.setNBasis(calcProps.getNumBasis());
- c2001.setNumFC(calcProps.getNumFC());
- c2001.setNumVirt(calcProps.getNumVirt());
- c2001.setJobStatus(calcProps.getJobStatus());
- c2001.setFinTime(calcProps.getFinTime());
- c2001.setInitGeom(calcProps.getInitGeom());
- c2001.setFinalGeom(calcProps.getFinalGeom());
- c2001.setPG(calcProps.getPG());
- c2001.setElecSym(calcProps.getElecSym());
- c2001.setNImag(calcProps.getNImag());
- c2001.setEnergy(calcProps.getEnergy());
- c2001.setEnergyKcal(calcProps.getEnergyKcal());
- c2001.setZPE(calcProps.getZPE());
- c2001.setZPEKcal(calcProps.getZPEKcal());
- c2001.setHF(calcProps.getHF());
- c2001.setHFKcal(calcProps.getHFKcal());
- c2001.setThermal(calcProps.getThermal());
- c2001.setThermalKcal(calcProps.getThermalKcal());
- c2001.setEnthalpy(calcProps.getEnthalpy());
- c2001.setEnthalpyKcal(calcProps.getEnthalpyKcal());
- c2001.setEntropy(calcProps.getEntropy());
- c2001.setEntropyKcal(calcProps.getEntropyKcal());
- c2001.setGibbs(calcProps.getGibbs());
- c2001.setGibbsKcal(calcProps.getGibbsKcal());
- c2001.setOrgSym(calcProps.getOrbSym());
- c2001.setDipole(calcProps.getDipole());
- c2001.setFreq(calcProps.getFreq());
- c2001.setAtomWeigh(calcProps.getAtomWeigh());
- c2001.setS2(calcProps.getS2());
- c2001.setCodeVersion(calcProps.getCodeVersion());
- c2001.setCalcMachine(calcProps.getCalcMachine());
- c2001.setCalcBy(calcProps.getCalcBy());
- c2001.setMemCost(calcProps.getMemCost());
- c2001.setTimeCost(calcProps.getTimeCost());
- c2001.setCPUTime(calcProps.getCPUTime());
- c2001.setConvergenece(calcProps.getConvergenece());
- c2001.setOtherinfo(calcProps.getOtherinfo());
- c2001.setComments(calcProps.getComments());
- c2001.setNAtom(calcProps.getNAtom());
- c2001.setNmo(calcProps.getNmo());
- c2001.setNBasis(calcProps.getNBasis());
- repo1.save(c2001);
- responseObserver.onNext(calcProps);
- responseObserver.onCompleted();
- }
-
- @Override
- public void deleteCalcProps(CalcPropsRequest request, StreamObserver<CalcProps> responseObserver) {
-// super.deleteCalcProps(request, responseObserver);
- CalcProps calcProps = request.getCalcProp();
- CalcPropsEntity c2001 = (CalcPropsEntity) repo1.findBySMILES(calcProps.getSMILES());
- repo1.delete(c2001);
- responseObserver.onNext(calcProps);
- responseObserver.onCompleted();
- }
-
-}
diff --git a/gsoc2022/smilesdb/Server/src/main/java/com/smiles/calcprops/CalcPropsRepo.java b/gsoc2022/smilesdb/Server/src/main/java/com/smiles/calcprops/CalcPropsRepo.java
deleted file mode 100644
index ef71a7e6..00000000
--- a/gsoc2022/smilesdb/Server/src/main/java/com/smiles/calcprops/CalcPropsRepo.java
+++ /dev/null
@@ -1,10 +0,0 @@
-package com.smiles.calcprops;
-
-import org.springframework.data.mongodb.repository.MongoRepository;
-
-public interface CalcPropsRepo extends MongoRepository<CalcPropsEntity, String> {
-
-// public CalcPropsEntity findByPDB(String PDB);
- public CalcPropsEntity findBySMILES(String SMILES);
-
-}
diff --git a/gsoc2022/smilesdb/Server/src/main/java/com/smiles/calctopology/CalcTopologyEntity.java b/gsoc2022/smilesdb/Server/src/main/java/com/smiles/calctopology/CalcTopologyEntity.java
deleted file mode 100644
index 2de9c1ea..00000000
--- a/gsoc2022/smilesdb/Server/src/main/java/com/smiles/calctopology/CalcTopologyEntity.java
+++ /dev/null
@@ -1,123 +0,0 @@
-package com.smiles.calctopology;
-
-import org.springframework.data.annotation.Id;
-
-import java.util.List;
-
-public class CalcTopologyEntity {
- @Id
- private String id;
- private List<String> symbols;
- private List<String> geometry;
- private double mol_charge;
- private long mol_multiplicity;
- private String name;
- private String comment;
- private List<Long> mass_numbers;
- private List<Double> masses;
- private List<Double> atomic_number;
- private List<String> atomic_labels;
-
- public CalcTopologyEntity(List<String> symbols, List<String> geometry, double mol_charge, long mol_multiplicity, String name, String comment, List<Long> mass_numbers, List<Double> masses, List<Double> atomic_number, List<String> atomic_labels) {
- this.symbols = symbols;
- this.geometry = geometry;
- this.mol_charge = mol_charge;
- this.mol_multiplicity = mol_multiplicity;
- this.name = name;
- this.comment = comment;
- this.mass_numbers = mass_numbers;
- this.masses = masses;
- this.atomic_number = atomic_number;
- this.atomic_labels = atomic_labels;
- }
-
- public List<String> getSymbols() {
- return symbols;
- }
-
- public CalcTopologyEntity setSymbols(List<String> symbols) {
- this.symbols = symbols;
- return this;
- }
-
- public List<String> getGeometry() {
- return geometry;
- }
-
- public CalcTopologyEntity setGeometry(List<String> geometry) {
- this.geometry = geometry;
- return this;
- }
-
- public double getMol_charge() {
- return mol_charge;
- }
-
- public CalcTopologyEntity setMol_charge(double mol_charge) {
- this.mol_charge = mol_charge;
- return this;
- }
-
- public long getMol_multiplicity() {
- return mol_multiplicity;
- }
-
- public CalcTopologyEntity setMol_multiplicity(long mol_multiplicity) {
- this.mol_multiplicity = mol_multiplicity;
- return this;
- }
-
- public String getName() {
- return name;
- }
-
- public CalcTopologyEntity setName(String name) {
- this.name = name;
- return this;
- }
-
- public String getComment() {
- return comment;
- }
-
- public CalcTopologyEntity setComment(String comment) {
- this.comment = comment;
- return this;
- }
-
- public List<Long> getMass_numbers() {
- return mass_numbers;
- }
-
- public CalcTopologyEntity setMass_numbers(List<Long> mass_numbers) {
- this.mass_numbers = mass_numbers;
- return this;
- }
-
- public List<Double> getMasses() {
- return masses;
- }
-
- public CalcTopologyEntity setMasses(List<Double> masses) {
- this.masses = masses;
- return this;
- }
-
- public List<Double> getAtomic_number() {
- return atomic_number;
- }
-
- public CalcTopologyEntity setAtomic_number(List<Double> atomic_number) {
- this.atomic_number = atomic_number;
- return this;
- }
-
- public List<String> getAtomic_labels() {
- return atomic_labels;
- }
-
- public CalcTopologyEntity setAtomic_labels(List<String> atomic_labels) {
- this.atomic_labels = atomic_labels;
- return this;
- }
-}
diff --git a/gsoc2022/smilesdb/Server/src/main/java/com/smiles/calctopology/CalcTopologyImpl.java b/gsoc2022/smilesdb/Server/src/main/java/com/smiles/calctopology/CalcTopologyImpl.java
deleted file mode 100644
index 22fa6ec2..00000000
--- a/gsoc2022/smilesdb/Server/src/main/java/com/smiles/calctopology/CalcTopologyImpl.java
+++ /dev/null
@@ -1,56 +0,0 @@
-package com.smiles.calctopology;
-
-import com.smiles.CalcTopology;
-import com.smiles.CalcTopologyRequest;
-import com.smiles.CalcTopologyServiceGrpc;
-import com.smiles.SpringContext;
-import io.grpc.stub.StreamObserver;
-
-import javax.swing.*;
-import java.util.ArrayList;
-
-public class CalcTopologyImpl extends CalcTopologyServiceGrpc.CalcTopologyServiceImplBase {
-
- CalcTopologyRepo repo = SpringContext.getBean((CalcTopologyRepo.class));
- @Override
- public void getCalcTopology(CalcTopologyRequest request, StreamObserver<CalcTopology> responseObserver) {
-// super.getCalcTopology(request, responseObserver);
- System.out.println(request.getAllFields());
-
- ArrayList<String> input = new ArrayList<String>();
- input.add(request.getCalcTopologyQuery());
- CalcTopologyEntity calcTopology = repo.findBySymbols(input);
- System.out.println(calcTopology.toString());
-
- CalcTopology reply = CalcTopology.newBuilder()
- .addAllSymbols(calcTopology.getSymbols())
- .addAllGeometry(calcTopology.getGeometry())
- .setMolCharge(calcTopology.getMol_charge())
- .setMolMultiplicity(calcTopology.getMol_multiplicity())
- .setName(calcTopology.getName())
- .setComment(calcTopology.getComment())
- .addAllMassNumbers(calcTopology.getMass_numbers())
- .addAllMasses(calcTopology.getMasses())
- .addAllAtomicNumber(calcTopology.getAtomic_number())
- .addAllAtomLabels(calcTopology.getAtomic_labels()).build();
-
- }
-
- @Override
- public void createCalcTopology(CalcTopologyRequest request, StreamObserver<CalcTopology> responseObserver) {
-// super.createCalcTopology(request, responseObserver);
- CalcTopology calcTopology = request.getCalcTopology();
- System.out.println(request.getAllFields());
-
- }
-
- @Override
- public void updateCalcTopology(CalcTopologyRequest request, StreamObserver<CalcTopology> responseObserver) {
- super.updateCalcTopology(request, responseObserver);
- }
-
- @Override
- public void deleteCalcTopology(CalcTopologyRequest request, StreamObserver<CalcTopology> responseObserver) {
- super.deleteCalcTopology(request, responseObserver);
- }
-}
diff --git a/gsoc2022/smilesdb/Server/src/main/java/com/smiles/calctopology/CalcTopologyRepo.java b/gsoc2022/smilesdb/Server/src/main/java/com/smiles/calctopology/CalcTopologyRepo.java
deleted file mode 100644
index 2efbebea..00000000
--- a/gsoc2022/smilesdb/Server/src/main/java/com/smiles/calctopology/CalcTopologyRepo.java
+++ /dev/null
@@ -1,11 +0,0 @@
-package com.smiles.calctopology;
-
-import org.springframework.data.mongodb.repository.MongoRepository;
-
-import java.util.List;
-
-public interface CalcTopologyRepo extends MongoRepository<CalcTopologyEntity, String> {
-
- public CalcTopologyEntity findBySymbols(List<String> symbols);
-
-}
diff --git a/gsoc2022/smilesdb/Server/src/main/java/com/smiles/molData/MoleculeEntity.java b/gsoc2022/smilesdb/Server/src/main/java/com/smiles/molData/MoleculeEntity.java
deleted file mode 100644
index 4ed2b8d8..00000000
--- a/gsoc2022/smilesdb/Server/src/main/java/com/smiles/molData/MoleculeEntity.java
+++ /dev/null
@@ -1,761 +0,0 @@
-package com.smiles.molData;
-
-import org.springframework.data.annotation.Id;
-import org.springframework.data.mongodb.core.mapping.Document;
-
-@Document("molecule")
-public class MoleculeEntity {
-
- @Id
- private String id;
- private String cas_nr;
- private String smiles;
- private String smiles_stereo;
- private String inchi;
- private String molfile_blob_source;
- private String emp_formula;
- private String emp_formula_sort;
- private String emp_formula_source;
- private Double mw;
- private Double mw_monoiso;
- private Double rdb;
- private String mw_source;
- private String validated_by;
- private String journal;
- private String auth_of_intr;
-
- private String jour_cit;
- private String year_publ;
- private String doi_link;
- private String comp_class;
- private String cuniq;
- private String calc_perf;
- private String org_met;
- private long mol_chrg;
- private String state_ofmat;
- private String color_white;
- private String color_uv;
- private Double absorb_max;
- private String solvent_ae;
- private Double absorb;
- private Double conc;
- private Double extinc;
- private Double emis_max;
- private Double temp_abs;
- private Double emis_qy;
- private Double temp_ems;
- private Double lifetime;
- private Double temp_cv;
- private Double reduc_pot;
- private String hw_or_pk_rp;
- private Double oxid_pot;
- private String hw_or_pk_op;
- private String solvent_cv;
- private String electrolyte;
- private String ref_electrd;
- private String inter_thngs;
- private Double density_20;
- private String density_20_source;
- private Double default_warn_level;
- private Double n_20;
- private String n_20_source;
- private Double mp_low;
- private Double mp_high;
- private String mp_source;
- private Double bp_low;
- private Double bp_high;
- private Double bp_press;
- private String press_unit;
- private String bp_source;
- private String safety_r;
- private String safety_h;
- private String safety_s;
- private String safety_p;
- private String safety_text;
- private String safety_sym;
- private String safety_sym_ghs;
- private String safety_source;
- private String comment_mol;
-
- public MoleculeEntity(String cas_nr, String smiles, String smiles_stereo, String inchi, String molfile_blob_source, String emp_formula, String emp_formula_sort, String emp_formula_source, Double mw, Double mw_monoiso, Double rdb, String mw_source, String validated_by, String journal, String auth_of_intr, String jour_cit, String year_publ, String doi_link, String comp_class, String cuniq, String calc_perf, String org_met, long mol_chrg, String state_ofmat, String color_white, String c [...]
- this.cas_nr = cas_nr;
- this.smiles = smiles;
- this.smiles_stereo = smiles_stereo;
- this.inchi = inchi;
- this.molfile_blob_source = molfile_blob_source;
- this.emp_formula = emp_formula;
- this.emp_formula_sort = emp_formula_sort;
- this.emp_formula_source = emp_formula_source;
- this.mw = mw;
- this.mw_monoiso = mw_monoiso;
- this.rdb = rdb;
- this.mw_source = mw_source;
- this.validated_by = validated_by;
- this.journal = journal;
- this.auth_of_intr = auth_of_intr;
- this.jour_cit = jour_cit;
- this.year_publ = year_publ;
- this.doi_link = doi_link;
- this.comp_class = comp_class;
- this.cuniq = cuniq;
- this.calc_perf = calc_perf;
- this.org_met = org_met;
- this.mol_chrg = mol_chrg;
- this.state_ofmat = state_ofmat;
- this.color_white = color_white;
- this.color_uv = color_uv;
- this.absorb_max = absorb_max;
- this.solvent_ae = solvent_ae;
- this.absorb = absorb;
- this.conc = conc;
- this.extinc = extinc;
- this.emis_max = emis_max;
- this.temp_abs = temp_abs;
- this.emis_qy = emis_qy;
- this.temp_ems = temp_ems;
- this.lifetime = lifetime;
- this.temp_cv = temp_cv;
- this.reduc_pot = reduc_pot;
- this.hw_or_pk_rp = hw_or_pk_rp;
- this.oxid_pot = oxid_pot;
- this.hw_or_pk_op = hw_or_pk_op;
- this.solvent_cv = solvent_cv;
- this.electrolyte = electrolyte;
- this.ref_electrd = ref_electrd;
- this.inter_thngs = inter_thngs;
- this.density_20 = density_20;
- this.density_20_source = density_20_source;
- this.default_warn_level = default_warn_level;
- this.n_20 = n_20;
- this.n_20_source = n_20_source;
- this.mp_low = mp_low;
- this.mp_high = mp_high;
- this.mp_source = mp_source;
- this.bp_low = bp_low;
- this.bp_high = bp_high;
- this.bp_press = bp_press;
- this.press_unit = press_unit;
- this.bp_source = bp_source;
- this.safety_r = safety_r;
- this.safety_h = safety_h;
- this.safety_s = safety_s;
- this.safety_p = safety_p;
- this.safety_text = safety_text;
- this.safety_sym = safety_sym;
- this.safety_sym_ghs = safety_sym_ghs;
- this.safety_source = safety_source;
- this.comment_mol = comment_mol;
- }
-
- public String getId() {
- return id;
- }
-
- public MoleculeEntity setId(String id) {
- this.id = id;
- return this;
- }
-
- public String getCas_nr() {
- return cas_nr;
- }
-
- public MoleculeEntity setCas_nr(String cas_nr) {
- this.cas_nr = cas_nr;
- return this;
- }
-
- public String getSmiles() {
- return smiles;
- }
-
- public MoleculeEntity setSmiles(String smiles) {
- this.smiles = smiles;
- return this;
- }
-
- public String getSmiles_stereo() {
- return smiles_stereo;
- }
-
- public MoleculeEntity setSmiles_stereo(String smiles_stereo) {
- this.smiles_stereo = smiles_stereo;
- return this;
- }
-
- public String getInchi() {
- return inchi;
- }
-
- public MoleculeEntity setInchi(String inchi) {
- this.inchi = inchi;
- return this;
- }
-
- public String getMolfile_blob_source() {
- return molfile_blob_source;
- }
-
- public MoleculeEntity setMolfile_blob_source(String molfile_blob_source) {
- this.molfile_blob_source = molfile_blob_source;
- return this;
- }
-
- public String getEmp_formula() {
- return emp_formula;
- }
-
- public MoleculeEntity setEmp_formula(String emp_formula) {
- this.emp_formula = emp_formula;
- return this;
- }
-
- public String getEmp_formula_sort() {
- return emp_formula_sort;
- }
-
- public MoleculeEntity setEmp_formula_sort(String emp_formula_sort) {
- this.emp_formula_sort = emp_formula_sort;
- return this;
- }
-
- public String getEmp_formula_source() {
- return emp_formula_source;
- }
-
- public MoleculeEntity setEmp_formula_source(String emp_formula_source) {
- this.emp_formula_source = emp_formula_source;
- return this;
- }
-
- public Double getMw() {
- return mw;
- }
-
- public MoleculeEntity setMw(Double mw) {
- this.mw = mw;
- return this;
- }
-
- public Double getMw_monoiso() {
- return mw_monoiso;
- }
-
- public MoleculeEntity setMw_monoiso(Double mw_monoiso) {
- this.mw_monoiso = mw_monoiso;
- return this;
- }
-
- public Double getRdb() {
- return rdb;
- }
-
- public MoleculeEntity setRdb(Double rdb) {
- this.rdb = rdb;
- return this;
- }
-
- public String getMw_source() {
- return mw_source;
- }
-
- public MoleculeEntity setMw_source(String mw_source) {
- this.mw_source = mw_source;
- return this;
- }
-
- public String getValidated_by() {
- return validated_by;
- }
-
- public MoleculeEntity setValidated_by(String validated_by) {
- this.validated_by = validated_by;
- return this;
- }
-
- public String getJournal() {
- return journal;
- }
-
- public MoleculeEntity setJournal(String journal) {
- this.journal = journal;
- return this;
- }
-
- public String getAuth_of_intr() {
- return auth_of_intr;
- }
-
- public MoleculeEntity setAuth_of_intr(String auth_of_intr) {
- this.auth_of_intr = auth_of_intr;
- return this;
- }
-
- public String getJour_cit() {
- return jour_cit;
- }
-
- public MoleculeEntity setJour_cit(String jour_cit) {
- this.jour_cit = jour_cit;
- return this;
- }
-
- public String getYear_publ() {
- return year_publ;
- }
-
- public MoleculeEntity setYear_publ(String year_publ) {
- this.year_publ = year_publ;
- return this;
- }
-
- public String getDoi_link() {
- return doi_link;
- }
-
- public MoleculeEntity setDoi_link(String doi_link) {
- this.doi_link = doi_link;
- return this;
- }
-
- public String getComp_class() {
- return comp_class;
- }
-
- public MoleculeEntity setComp_class(String comp_class) {
- this.comp_class = comp_class;
- return this;
- }
-
- public String getCuniq() {
- return cuniq;
- }
-
- public MoleculeEntity setCuniq(String cuniq) {
- this.cuniq = cuniq;
- return this;
- }
-
- public String getCalc_perf() {
- return calc_perf;
- }
-
- public MoleculeEntity setCalc_perf(String calc_perf) {
- this.calc_perf = calc_perf;
- return this;
- }
-
- public String getOrg_met() {
- return org_met;
- }
-
- public MoleculeEntity setOrg_met(String org_met) {
- this.org_met = org_met;
- return this;
- }
-
- public long getMol_chrg() {
- return mol_chrg;
- }
-
- public MoleculeEntity setMol_chrg(long mol_chrg) {
- this.mol_chrg = mol_chrg;
- return this;
- }
-
- public String getState_ofmat() {
- return state_ofmat;
- }
-
- public MoleculeEntity setState_ofmat(String state_ofmat) {
- this.state_ofmat = state_ofmat;
- return this;
- }
-
- public String getColor_white() {
- return color_white;
- }
-
- public MoleculeEntity setColor_white(String color_white) {
- this.color_white = color_white;
- return this;
- }
-
- public String getColor_uv() {
- return color_uv;
- }
-
- public MoleculeEntity setColor_uv(String color_uv) {
- this.color_uv = color_uv;
- return this;
- }
-
- public Double getAbsorb_max() {
- return absorb_max;
- }
-
- public MoleculeEntity setAbsorb_max(Double absorb_max) {
- this.absorb_max = absorb_max;
- return this;
- }
-
- public String getSolvent_ae() {
- return solvent_ae;
- }
-
- public MoleculeEntity setSolvent_ae(String solvent_ae) {
- this.solvent_ae = solvent_ae;
- return this;
- }
-
- public Double getAbsorb() {
- return absorb;
- }
-
- public MoleculeEntity setAbsorb(Double absorb) {
- this.absorb = absorb;
- return this;
- }
-
- public Double getConc() {
- return conc;
- }
-
- public MoleculeEntity setConc(Double conc) {
- this.conc = conc;
- return this;
- }
-
- public Double getExtinc() {
- return extinc;
- }
-
- public MoleculeEntity setExtinc(Double extinc) {
- this.extinc = extinc;
- return this;
- }
-
- public Double getEmis_max() {
- return emis_max;
- }
-
- public MoleculeEntity setEmis_max(Double emis_max) {
- this.emis_max = emis_max;
- return this;
- }
-
- public Double getTemp_abs() {
- return temp_abs;
- }
-
- public MoleculeEntity setTemp_abs(Double temp_abs) {
- this.temp_abs = temp_abs;
- return this;
- }
-
- public Double getEmis_qy() {
- return emis_qy;
- }
-
- public MoleculeEntity setEmis_qy(Double emis_qy) {
- this.emis_qy = emis_qy;
- return this;
- }
-
- public Double getTemp_ems() {
- return temp_ems;
- }
-
- public MoleculeEntity setTemp_ems(Double temp_ems) {
- this.temp_ems = temp_ems;
- return this;
- }
-
- public Double getLifetime() {
- return lifetime;
- }
-
- public MoleculeEntity setLifetime(Double lifetime) {
- this.lifetime = lifetime;
- return this;
- }
-
- public Double getTemp_cv() {
- return temp_cv;
- }
-
- public MoleculeEntity setTemp_cv(Double temp_cv) {
- this.temp_cv = temp_cv;
- return this;
- }
-
- public Double getReduc_pot() {
- return reduc_pot;
- }
-
- public MoleculeEntity setReduc_pot(Double reduc_pot) {
- this.reduc_pot = reduc_pot;
- return this;
- }
-
- public String getHw_or_pk_rp() {
- return hw_or_pk_rp;
- }
-
- public MoleculeEntity setHw_or_pk_rp(String hw_or_pk_rp) {
- this.hw_or_pk_rp = hw_or_pk_rp;
- return this;
- }
-
- public Double getOxid_pot() {
- return oxid_pot;
- }
-
- public MoleculeEntity setOxid_pot(Double oxid_pot) {
- this.oxid_pot = oxid_pot;
- return this;
- }
-
- public String getHw_or_pk_op() {
- return hw_or_pk_op;
- }
-
- public MoleculeEntity setHw_or_pk_op(String hw_or_pk_op) {
- this.hw_or_pk_op = hw_or_pk_op;
- return this;
- }
-
- public String getSolvent_cv() {
- return solvent_cv;
- }
-
- public MoleculeEntity setSolvent_cv(String solvent_cv) {
- this.solvent_cv = solvent_cv;
- return this;
- }
-
- public String getElectrolyte() {
- return electrolyte;
- }
-
- public MoleculeEntity setElectrolyte(String electrolyte) {
- this.electrolyte = electrolyte;
- return this;
- }
-
- public String getRef_electrd() {
- return ref_electrd;
- }
-
- public MoleculeEntity setRef_electrd(String ref_electrd) {
- this.ref_electrd = ref_electrd;
- return this;
- }
-
- public String getInter_thngs() {
- return inter_thngs;
- }
-
- public MoleculeEntity setInter_thngs(String inter_thngs) {
- this.inter_thngs = inter_thngs;
- return this;
- }
-
- public Double getDensity_20() {
- return density_20;
- }
-
- public MoleculeEntity setDensity_20(Double density_20) {
- this.density_20 = density_20;
- return this;
- }
-
- public String getDensity_20_source() {
- return density_20_source;
- }
-
- public MoleculeEntity setDensity_20_source(String density_20_source) {
- this.density_20_source = density_20_source;
- return this;
- }
-
- public Double getDefault_warn_level() {
- return default_warn_level;
- }
-
- public MoleculeEntity setDefault_warn_level(Double default_warn_level) {
- this.default_warn_level = default_warn_level;
- return this;
- }
-
- public Double getN_20() {
- return n_20;
- }
-
- public MoleculeEntity setN_20(Double n_20) {
- this.n_20 = n_20;
- return this;
- }
-
- public String getN_20_source() {
- return n_20_source;
- }
-
- public MoleculeEntity setN_20_source(String n_20_source) {
- this.n_20_source = n_20_source;
- return this;
- }
-
- public Double getMp_low() {
- return mp_low;
- }
-
- public MoleculeEntity setMp_low(Double mp_low) {
- this.mp_low = mp_low;
- return this;
- }
-
- public Double getMp_high() {
- return mp_high;
- }
-
- public MoleculeEntity setMp_high(Double mp_high) {
- this.mp_high = mp_high;
- return this;
- }
-
- public String getMp_source() {
- return mp_source;
- }
-
- public MoleculeEntity setMp_source(String mp_source) {
- this.mp_source = mp_source;
- return this;
- }
-
- public Double getBp_low() {
- return bp_low;
- }
-
- public MoleculeEntity setBp_low(Double bp_low) {
- this.bp_low = bp_low;
- return this;
- }
-
- public Double getBp_high() {
- return bp_high;
- }
-
- public MoleculeEntity setBp_high(Double bp_high) {
- this.bp_high = bp_high;
- return this;
- }
-
- public Double getBp_press() {
- return bp_press;
- }
-
- public MoleculeEntity setBp_press(Double bp_press) {
- this.bp_press = bp_press;
- return this;
- }
-
- public String getPress_unit() {
- return press_unit;
- }
-
- public MoleculeEntity setPress_unit(String press_unit) {
- this.press_unit = press_unit;
- return this;
- }
-
- public String getBp_source() {
- return bp_source;
- }
-
- public MoleculeEntity setBp_source(String bp_source) {
- this.bp_source = bp_source;
- return this;
- }
-
- public String getSafety_r() {
- return safety_r;
- }
-
- public MoleculeEntity setSafety_r(String safety_r) {
- this.safety_r = safety_r;
- return this;
- }
-
- public String getSafety_h() {
- return safety_h;
- }
-
- public MoleculeEntity setSafety_h(String safety_h) {
- this.safety_h = safety_h;
- return this;
- }
-
- public String getSafety_s() {
- return safety_s;
- }
-
- public MoleculeEntity setSafety_s(String safety_s) {
- this.safety_s = safety_s;
- return this;
- }
-
- public String getSafety_p() {
- return safety_p;
- }
-
- public MoleculeEntity setSafety_p(String safety_p) {
- this.safety_p = safety_p;
- return this;
- }
-
- public String getSafety_text() {
- return safety_text;
- }
-
- public MoleculeEntity setSafety_text(String safety_text) {
- this.safety_text = safety_text;
- return this;
- }
-
- public String getSafety_sym() {
- return safety_sym;
- }
-
- public MoleculeEntity setSafety_sym(String safety_sym) {
- this.safety_sym = safety_sym;
- return this;
- }
-
- public String getSafety_sym_ghs() {
- return safety_sym_ghs;
- }
-
- public MoleculeEntity setSafety_sym_ghs(String safety_sym_ghs) {
- this.safety_sym_ghs = safety_sym_ghs;
- return this;
- }
-
- public String getSafety_source() {
- return safety_source;
- }
-
- public MoleculeEntity setSafety_source(String safety_source) {
- this.safety_source = safety_source;
- return this;
- }
-
- public String getComment_mol() {
- return comment_mol;
- }
-
- public MoleculeEntity setComment_mol(String comment_mol) {
- this.comment_mol = comment_mol;
- return this;
- }
-}
diff --git a/gsoc2022/smilesdb/Server/src/main/java/com/smiles/molData/MoleculeImpl.java b/gsoc2022/smilesdb/Server/src/main/java/com/smiles/molData/MoleculeImpl.java
deleted file mode 100644
index 1b961a1a..00000000
--- a/gsoc2022/smilesdb/Server/src/main/java/com/smiles/molData/MoleculeImpl.java
+++ /dev/null
@@ -1,175 +0,0 @@
-package com.smiles.molData;
-
-import com.smiles.Molecule;
-import com.smiles.MoleculeRequest;
-import com.smiles.MoleculeServiceGrpc;
-import com.smiles.SpringContext;
-import io.grpc.stub.StreamObserver;
-
-public class MoleculeImpl extends MoleculeServiceGrpc.MoleculeServiceImplBase {
- MoleculeRepo repo = SpringContext.getBean(MoleculeRepo.class);
-
- @Override
- public void getMolecule(MoleculeRequest request, StreamObserver<Molecule> responseObserver) {
-// super.getMolecule(request, responseObserver);
- MoleculeEntity molecule = repo.findBySmiles(request.getMoleculeQuery());
- System.out.println(molecule.toString());
- Molecule reply = Molecule.newBuilder().setCasNr(molecule.getCas_nr())
- .setSmiles(molecule.getSmiles()).setSmilesStereo(molecule.getSmiles_stereo())
- .setInchi(molecule.getInchi()).setMolfileBlobSource(molecule.getMolfile_blob_source())
- .setEmpFormula(molecule.getEmp_formula()).setEmpFormulaSort(molecule.getEmp_formula_sort())
- .setMw(molecule.getMw()).setMwMonoiso(molecule.getMw_monoiso())
- .setRdb(molecule.getRdb()).setMwSource(molecule.getMw_source())
- .setValidatedBy(molecule.getValidated_by()).setJournal(molecule.getJournal())
- .setAuthOfIntr(molecule.getAuth_of_intr()).setJourCit(molecule.getJour_cit())
- .setYearPubl(molecule.getYear_publ()).setDoiLink(molecule.getDoi_link())
- .setCompClass(molecule.getComp_class()).setCuniq(molecule.getCuniq())
- .setCalcPerf(molecule.getCalc_perf()).setOrgMet(molecule.getOrg_met())
- .setMolChrg(molecule.getMol_chrg()).setStateOfmat(molecule.getState_ofmat())
- .setColorWhite(molecule.getColor_white()).setColorUv(molecule.getColor_uv())
- .setAbsorbMax(molecule.getAbsorb_max()).setSolventAe(molecule.getSolvent_ae())
- .setAbsorb(molecule.getAbsorb()).setConc(molecule.getConc()).setExtinc(molecule.getExtinc())
- .setEmisMax(molecule.getEmis_max()).setTempAbs(molecule.getTemp_abs())
- .setEmisQy(molecule.getEmis_qy()).setLifetime(molecule.getLifetime())
- .setTempCv(molecule.getTemp_cv()).setReducPot(molecule.getReduc_pot())
- .setHwOrPkRp(molecule.getHw_or_pk_rp()).setSolventCv(molecule.getSolvent_cv())
- .setElectrolyte(molecule.getElectrolyte()).setRefElectrd(molecule.getRef_electrd())
- .setInterThngs(molecule.getInter_thngs()).setDensity20(molecule.getDensity_20())
- .setDensity20Source(molecule.getDensity_20_source()).setDefaultWarnLevel(molecule.getDefault_warn_level())
- .setN20(molecule.getN_20()).setN20Source(molecule.getN_20_source())
- .setMpLow(molecule.getMp_low()).setMpHigh(molecule.getMp_high())
- .setMpSource(molecule.getMp_source()).setBpLow(molecule.getBp_low())
- .setBpHigh(molecule.getBp_high()).setBpPress(molecule.getBp_press())
- .setPressUnit(molecule.getPress_unit()).setBpSource(molecule.getBp_source())
- .setSafetyR(molecule.getSafety_r()).setSafetyH(molecule.getSafety_h())
- .setSafetyS(molecule.getSafety_s()).setSafetyP(molecule.getSafety_p())
- .setSafetyText(molecule.getSafety_text()).setSafetySym(molecule.getSafety_sym())
- .setSafetySymGhs(molecule.getSafety_sym_ghs()).setSafetySource(molecule.getSafety_source())
- .setCommentMol(molecule.getComment_mol()).build();
- responseObserver.onNext(reply);
- responseObserver.onCompleted();
- }
-
- @Override
- public void createMolecule(MoleculeRequest request, StreamObserver<Molecule> responseObserver) {
-// super.createMolecule(request, responseObserver);
- Molecule molecule = request.getMolecule();
- System.out.println(request.getAllFields());
- MoleculeEntity moleculeEntity = new MoleculeEntity(molecule.getCasNr(),
- molecule.getSmiles(), molecule.getSmilesStereo(),
- molecule.getInchi(), molecule.getMolfileBlobSource(),
- molecule.getEmpFormula(), molecule.getEmpFormulaSort(),
- molecule.getEmpFormulaSource(), molecule.getMw(), molecule.getMwMonoiso(),
- molecule.getRdb(), molecule.getMwSource(), molecule.getValidatedBy(),
- molecule.getJournal(), molecule.getAuthOfIntr(), molecule.getJourCit(),
- molecule.getYearPubl(), molecule.getDoiLink(), molecule.getCompClass(),
- molecule.getCuniq(), molecule.getCalcPerf(), molecule.getOrgMet(),
- molecule.getMolChrg(), molecule.getStateOfmat(), molecule.getColorWhite(),
- molecule.getColorUv(), molecule.getAbsorbMax(), molecule.getSolventAe(),
- molecule.getAbsorb(), molecule.getConc(), molecule.getExtinc(), molecule.getEmisMax(),
- molecule.getTempAbs(), molecule.getEmisQy(), molecule.getTempEms(), molecule.getLifetime(),
- molecule.getTempCv(), molecule.getReducPot(), molecule.getHwOrPkRp(),
- molecule.getOxidPot(), molecule.getHwOrPkOp(), molecule.getSolventCv(),
- molecule.getElectrolyte(), molecule.getRefElectrd(), molecule.getInterThngs(),
- molecule.getDensity20(), molecule.getDensity20Source(), molecule.getDefaultWarnLevel(),
- molecule.getN20(), molecule.getN20Source(), molecule.getMpLow(),
- molecule.getMpHigh(), molecule.getMpSource(), molecule.getBpLow(),
- molecule.getBpHigh(), molecule.getBpPress(), molecule.getPressUnit(),
- molecule.getBpSource(), molecule.getSafetyR(), molecule.getSafetyH(), molecule.getSafetyS(),
- molecule.getSafetyP(), molecule.getSafetyText(), molecule.getSafetySym(),
- molecule.getSafetySymGhs(), molecule.getSafetySource(), molecule.getCommentMol());
- repo.save(moleculeEntity);
- responseObserver.onNext(molecule);
- responseObserver.onCompleted();
-
-
- }
-
- @Override
- public void updateMolecule(MoleculeRequest request, StreamObserver<Molecule> responseObserver) {
-// super.updateMolecule(request, responseObserver);
- Molecule molecule = request.getMolecule();
- System.out.println(request.getAllFields());
- MoleculeEntity moleculeEntity = (MoleculeEntity) repo.findBySmiles(molecule.getSmiles());
- System.out.println(moleculeEntity.getId());
- moleculeEntity.setCas_nr(molecule.getCasNr());
- moleculeEntity.setSmiles(molecule.getSmiles());
- moleculeEntity.setSmiles_stereo(molecule.getSmilesStereo());
- moleculeEntity.setInchi(molecule.getInchi());
- moleculeEntity.setMolfile_blob_source(molecule.getMolfileBlobSource());
- moleculeEntity.setEmp_formula(molecule.getEmpFormula());
- moleculeEntity.setEmp_formula_sort(molecule.getEmpFormulaSort());
- moleculeEntity.setEmp_formula_source(molecule.getEmpFormulaSource());
- moleculeEntity.setMw(molecule.getMw());
- moleculeEntity.setMw_monoiso(molecule.getMwMonoiso());
- moleculeEntity.setRdb(molecule.getRdb());
- moleculeEntity.setMw_source(molecule.getMwSource());
- moleculeEntity.setValidated_by(molecule.getValidatedBy());
- moleculeEntity.setJournal(molecule.getJournal());
- moleculeEntity.setAuth_of_intr(molecule.getAuthOfIntr());
- moleculeEntity.setJour_cit(molecule.getJourCit());
- moleculeEntity.setYear_publ(molecule.getYearPubl());
- moleculeEntity.setDoi_link(molecule.getDoiLink());
- moleculeEntity.setComp_class(molecule.getCompClass());
- moleculeEntity.setCuniq(molecule.getCuniq());
- moleculeEntity.setCalc_perf(molecule.getCalcPerf());
- moleculeEntity.setOrg_met(molecule.getOrgMet());
- moleculeEntity.setMol_chrg(molecule.getMolChrg());
- moleculeEntity.setState_ofmat(molecule.getStateOfmat());
- moleculeEntity.setColor_white(molecule.getColorWhite());
- moleculeEntity.setColor_uv(molecule.getColorUv());
- moleculeEntity.setAbsorb_max(molecule.getAbsorbMax());
- moleculeEntity.setSolvent_ae(molecule.getSolventAe());
- moleculeEntity.setAbsorb(molecule.getAbsorb());
- moleculeEntity.setConc(molecule.getConc());
- moleculeEntity.setExtinc(molecule.getExtinc());
- moleculeEntity.setEmis_max(molecule.getEmisMax());
- moleculeEntity.setTemp_abs(molecule.getTempAbs());
- moleculeEntity.setEmis_qy(molecule.getEmisQy());
- moleculeEntity.setTemp_ems(molecule.getTempEms());
- moleculeEntity.setLifetime(molecule.getLifetime());
- moleculeEntity.setTemp_cv(molecule.getTempCv());
- moleculeEntity.setReduc_pot(molecule.getReducPot());
- moleculeEntity.setHw_or_pk_rp(molecule.getHwOrPkRp());
- moleculeEntity.setOxid_pot(molecule.getOxidPot());
- moleculeEntity.setHw_or_pk_op(molecule.getHwOrPkOp());
- moleculeEntity.setSolvent_cv(molecule.getSolventCv());
- moleculeEntity.setElectrolyte(molecule.getElectrolyte());
- moleculeEntity.setRef_electrd(molecule.getRefElectrd());
- moleculeEntity.setInter_thngs(molecule.getInterThngs());
- moleculeEntity.setDensity_20(molecule.getDensity20());
- moleculeEntity.setDensity_20_source(molecule.getDensity20Source());
- moleculeEntity.setDefault_warn_level(molecule.getDefaultWarnLevel());
- moleculeEntity.setN_20(molecule.getN20());
- moleculeEntity.setN_20_source(molecule.getN20Source());
- moleculeEntity.setMp_low(molecule.getMpLow());
- moleculeEntity.setMp_high(molecule.getMpHigh());
- moleculeEntity.setMp_source(molecule.getMpSource());
- moleculeEntity.setBp_low(molecule.getBpLow());
- moleculeEntity.setBp_high(molecule.getBpHigh());
- moleculeEntity.setBp_press(molecule.getBpPress());
- moleculeEntity.setPress_unit(molecule.getPressUnit());
- moleculeEntity.setBp_source(molecule.getBpSource());
- moleculeEntity.setSafety_r(molecule.getSafetyR());
- moleculeEntity.setSafety_h(molecule.getSafetyH());
- moleculeEntity.setSafety_s(molecule.getSafetyS());
- moleculeEntity.setSafety_p(molecule.getSafetyP());
- moleculeEntity.setSafety_text(molecule.getSafetyText());
- moleculeEntity.setSafety_sym(molecule.getSafetySym());
- moleculeEntity.setSafety_sym_ghs(molecule.getSafetySymGhs());
- moleculeEntity.setComment_mol(molecule.getCommentMol());
- repo.save(moleculeEntity);
- responseObserver.onNext(molecule);
- responseObserver.onCompleted();
- }
-
- @Override
- public void deleteMolecule(MoleculeRequest request, StreamObserver<Molecule> responseObserver) {
-// super.deleteMolecule(request, responseObserver);
- Molecule molecule = request.getMolecule();
- MoleculeEntity moleculeEntity = (MoleculeEntity) repo.findBySmiles(molecule.getSmiles());
- repo.delete(moleculeEntity);
- responseObserver.onNext(molecule);
- responseObserver.onCompleted();
- }
-}
diff --git a/gsoc2022/smilesdb/Server/src/main/java/com/smiles/molData/MoleculeRepo.java b/gsoc2022/smilesdb/Server/src/main/java/com/smiles/molData/MoleculeRepo.java
deleted file mode 100644
index 028b4fb5..00000000
--- a/gsoc2022/smilesdb/Server/src/main/java/com/smiles/molData/MoleculeRepo.java
+++ /dev/null
@@ -1,8 +0,0 @@
-package com.smiles.molData;
-
-import org.springframework.data.mongodb.repository.MongoRepository;
-
-public interface MoleculeRepo extends MongoRepository<MoleculeEntity, String> {
-
- MoleculeEntity findBySmiles(String smiles);
-}
diff --git a/gsoc2022/smilesdb/Server/src/main/proto/calc_info.proto b/gsoc2022/smilesdb/Server/src/main/proto/calc_info.proto
index 9f77a90a..9292156f 100644
--- a/gsoc2022/smilesdb/Server/src/main/proto/calc_info.proto
+++ b/gsoc2022/smilesdb/Server/src/main/proto/calc_info.proto
@@ -1,49 +1,85 @@
-/*
- * Licensed to the Apache Software Foundation (ASF) under one
- * or more contributor license agreements. See the NOTICE file
- * distributed with this work for additional information
- * regarding copyright ownership. The ASF licenses this file
- * to you under the Apache License, Version 2.0 (the
- * "License"); you may not use this file except in compliance
- * with the License. You may obtain a copy of the License at
- *
- * http://www.apache.org/licenses/LICENSE-2.0
- *
- * Unless required by applicable law or agreed to in writing,
- * software distributed under the License is distributed on an
- * "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY
- * KIND, either express or implied. See the License for the
- * specific language governing permissions and limitations
- * under the License.
- *
- */
-
syntax = "proto3";
+package calcInfo;
-package com.smiles;
+option java_package = "com.smiles";
option java_multiple_files = true;
message CalcInfo{
- //QcSchema-Properties_Info
- string id = 8;
- int64 nbasis = 1; // The number of basis functions for the computation. number
- int64 nmo = 2; // The number of molecular orbitals for the computation. number
- int64 nalpha = 3;// The number of alpha electrons in the computation. number
- int64 nbeta = 4;// The number of beta electrons in the computation. number
- int64 natom = 5; // The number of atoms in the computation. number
- double energy = 6;// The energy of the requested method, identical to return_value for energy computations. number
- string SMILES = 7;
+ // System generated key
+ string calcinfo_id = 1;
+ // Primary key
+ string smiles = 2;
+ // The number of basis functions for the computation. number
+ int64 nbasis = 3;
+ // The number of molecular orbitals for the computation. number
+ int64 nmo = 4;
+ // The number of alpha electrons in the computation. number
+ int64 nalpha = 5;
+ // The number of beta electrons in the computation. number
+ int64 nbeta = 6;
+ // The number of atoms in the computation. number
+ int64 natom = 7;
+ // The energy of the requested method, identical to return_value for energy computations. number
+ double energy = 8;
+
}
-message CalcInfoRequest {
- string calcInfoQuery=1;
- CalcInfo calcInfo = 2;
+
+message CreateInfoRequest {
+ CalcInfo calcInfo = 1;
}
+message CreateInfoResponse {
+ CalcInfo calcInfo = 1;
+}
-service CalcInfoService {
- rpc GetCalcInfo(CalcInfoRequest) returns (CalcInfo) {}
- rpc CreateCalcInfo(CalcInfoRequest) returns (CalcInfo){}
- rpc UpdateCalcInfo(CalcInfoRequest) returns (CalcInfo){}
- rpc DeleteCalcInfo(CalcInfoRequest) returns (CalcInfo){}
+message ReadInfoRequest {
+ string id = 1;
+}
+
+message ReadInfoResponse {
+ CalcInfo calcInfo = 1;
+}
+
+message UpdateInfoRequest {
+ CalcInfo calcInfo = 1;
}
+
+message UpdateInfoResponse {
+ CalcInfo calcInfo = 1;
+}
+
+message DeleteInfoRequest {
+ string calcInfo_id = 1;
+}
+
+message DeleteInfoResponse {
+ string calcInfo_id = 1;
+}
+
+message ListInfoRequest {
+
+}
+
+message ListInfoResponse {
+ CalcInfo calcInfo = 1;
+}
+
+
+service CalcInfoService {
+ // rpc call to create a calcInfo data or to insert the calcInfo data into MongoDB
+ rpc CreateCalcinfo (CreateInfoRequest) returns (CreateInfoResponse) {
+ };
+ // rpc call to read the calcInfo data from MongoDB
+ rpc ReadCalcInfo (ReadInfoRequest) returns (ReadInfoResponse) {
+ };
+ // rpc call to update the calcInfo record in MongoDB
+ rpc UpdateCalcInfo (UpdateInfoRequest) returns (UpdateInfoResponse) {
+ };
+ // rpc call to delete the calcInfo data from MongoDB
+ rpc DeleteCalcInfo (DeleteInfoRequest) returns (DeleteInfoResponse) {
+ };
+ // rpc call to list all the calcInfo data records from MongoDB
+ rpc ListCalcInfo (ListInfoRequest) returns (stream ListInfoResponse) {
+ };
+}
\ No newline at end of file
diff --git a/gsoc2022/smilesdb/Server/src/main/proto/calc_properties.proto b/gsoc2022/smilesdb/Server/src/main/proto/calc_properties.proto
deleted file mode 100644
index 1c7bb386..00000000
--- a/gsoc2022/smilesdb/Server/src/main/proto/calc_properties.proto
+++ /dev/null
@@ -1,117 +0,0 @@
-
-syntax = "proto3";
-
-package com.smiles;
-option java_multiple_files = true;
-
-message CalcProps{
- //CCLib-Properties
- string InChI = 1;
- string InChIKey = 2;
- string SMILES = 3;
- string CanonicalSMILES = 4;
- string PDB = 5;
- string SDF = 6;
- string ParsedBy = 7;
- string Formula = 8;
- int64 Charge = 9;
- int64 Multiplicity = 10;
- string Keywords = 11;
- string CalcType = 12;
- string Methods = 13;
- string Basis = 14;
- int64 NumBasis = 15;
-
- int64 NumFC = 16;
- int64 NumVirt = 17;
- string JobStatus = 18;
- string FinTime = 19;
- string InitGeom = 20;
- string FinalGeom = 21;
- string PG = 22;
- string ElecSym = 23;
- int64 NImag = 24;
- double Energy = 25;
- double EnergyKcal = 26;
- double ZPE = 27;
- double ZPEKcal = 28;
- double HF = 29;
- double HFKcal = 30;
- double Thermal = 31;
- double ThermalKcal = 32;
- double Enthalpy = 33;
- double EnthalpyKcal = 34;
- double Entropy = 35;
- double EntropyKcal = 36;
- double Gibbs = 37;
- double GibbsKcal = 38;
- string OrbSym = 39;
- double Dipole = 40;
- double Freq = 41;
- double AtomWeigh = 42;
-
- // TODO: Fix the data types
- // Conditions;
- // ReacGeom;
- // ProdGeom;
- // MulCharge;
- // NatCharge;
-
-
- double S2 = 43;
- string CodeVersion = 44;
- string CalcMachine = 45;
- string CalcBy = 46;
- string MemCost = 47;
- string TimeCost = 48;
- string CPUTime = 49;
- string Convergenece = 50;
-
- // TODO: Fix the data types
- // FullPath;
- // InputButGeom;
-
-
- string Otherinfo = 51;
- string Comments = 52;
- int64 NAtom = 53;
-
- // TODO: Confirm with the data type (the double array)
- // double[] Homos = 54;
- repeated double Homos = 54 [packed = true];
-
- // TODO: Confirm with the data type (the double array)
- // double[] ScfEnergies;
- repeated double ScfEnergies = 55 [packed = true];
-
- // TODO: Fix the data types
- // CoreElectrons;
-
- // TODO: Confirm with the data type (the double array)
- // double[] MoEnergies;
- repeated double MoEnergies = 56[packed = true];
-
- // TODO: Confirm with the data type (the double array)
- // double[] AtomCoords;
- repeated double AtomCoords = 57[packed = true];
-
- // TODO: Fix the data type
- // ScfTargets;
-
- int64 Nmo = 58;
- int64 NBasis = 59;
-
- // TODO: Fix the data type
- //AtomNos;
-}
-message CalcPropsRequest {
- string calcPropsQuery=1;
- CalcProps calcProp = 2;
-}
-
-service CalcPropsService {
- rpc GetCalcProps(CalcPropsRequest) returns (CalcProps) {}
- rpc CreateCalcProps(CalcPropsRequest) returns (CalcProps){}
- rpc UpdateCalcProps(CalcPropsRequest) returns (CalcProps) {}
- rpc DeleteCalcProps(CalcPropsRequest) returns (CalcProps) {}
-}
\ No newline at end of file
diff --git a/gsoc2022/smilesdb/Server/src/main/proto/calc_topology.proto b/gsoc2022/smilesdb/Server/src/main/proto/calc_topology.proto
deleted file mode 100644
index c09f04b8..00000000
--- a/gsoc2022/smilesdb/Server/src/main/proto/calc_topology.proto
+++ /dev/null
@@ -1,53 +0,0 @@
-syntax = "proto3";
-package com.smiles;
-option java_multiple_files = true;
-
-message CalcTopology{
-
- //QcSchema-Topology
- // string[] symbols; //(nat, ) atom symbols in title case.
- repeated string symbols = 1;
- // double [] geometry; // (3 * nat, ) vector of XYZ coordinates [a0] of the atoms.
- repeated string geometry = 2;
- double mol_charge = 3; //The overall charge of the molecule.
- int64 mol_multiplicity = 4; //The overall multiplicity of the molecule.
- string name = 5; //The name of the molecule.
- string comment = 6; //Any additional comment one would attach to the molecule.
- // int[] mass_numbers; //(nat, ) mass numbers for atoms, if known isotope, else -1.
- repeated int64 mass_numbers = 7 [packed = true];
- // double[] masses; //(nat, ) atom masses [u]; canonical weights assumed if not given.
- repeated double masses = 8 [packed = true];
- // double[] atomic_numbers; //(nat, ) atomic numbers, nuclear charge for atoms. Ghostedness should be indicated through ‘real’ field, not zeros here.
- repeated double atomic_number = 9 [packed = true];
- // string[] atom_labels; //(nat, ) atom labels with any user tagging information.
- repeated string atom_labels = 10;
- // atomic_numbers
-
-}
-
-message CalcTopologyRequest{
- string calcTopologyQuery = 1;
- CalcTopology calcTopology = 2;
-}
-
-service CalcTopologyService{
- rpc GetCalcTopology(CalcTopologyRequest) returns (CalcTopology){}
- rpc CreateCalcTopology(CalcTopologyRequest) returns (CalcTopology){}
- rpc UpdateCalcTopology(CalcTopologyRequest) returns (CalcTopology){}
- rpc DeleteCalcTopology(CalcTopologyRequest) returns (CalcTopology){}
-}
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
diff --git a/gsoc2022/smilesdb/Server/src/main/proto/molecule.proto b/gsoc2022/smilesdb/Server/src/main/proto/molecule.proto
index 7da9dd5d..1de29242 100644
--- a/gsoc2022/smilesdb/Server/src/main/proto/molecule.proto
+++ b/gsoc2022/smilesdb/Server/src/main/proto/molecule.proto
@@ -1,119 +1,119 @@
-/*
- * Licensed to the Apache Software Foundation (ASF) under one
- * or more contributor license agreements. See the NOTICE file
- * distributed with this work for additional information
- * regarding copyright ownership. The ASF licenses this file
- * to you under the Apache License, Version 2.0 (the
- * "License"); you may not use this file except in compliance
- * with the License. You may obtain a copy of the License at
- *
- * http://www.apache.org/licenses/LICENSE-2.0
- *
- * Unless required by applicable law or agreed to in writing,
- * software distributed under the License is distributed on an
- * "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY
- * KIND, either express or implied. See the License for the
- * specific language governing permissions and limitations
- * under the License.
- *
- */
-//Complier: protoc --java_out=java/src/main/java proto_files\theater.proto
+syntax="proto3";
+package molecule;
+option java_package = "com.smiles";
+option java_multiple_files=true;
+message Molecule {
+ string mol_id = 1;
+ string cas_nr = 2;
+ string smiles = 3;
+ string smiles_stereo = 4;
+ string inchi = 5;
+ string molfile_blob_source = 6;
+ string emp_formula = 7;
+ string emp_formula_sort = 8;
+ string emp_formula_source = 9;
+ double mw = 10;
+ double mw_monoiso = 11;
+ double rdb = 12;
+ string mw_source = 13;
+ string validated_by = 14;
+ string journal = 15;
+ string auth_of_intr = 16;
+ string jour_cit = 17;
+ string year_publ = 18;
+ string doi_link = 19;
+ string comp_class = 20;
+ string cuniq = 21;
+ string calc_perf = 22;
+ string org_met = 23;
+ int64 mol_chrg = 24;
+ string state_ofmat = 25;
+ string color_white = 26;
+ string color_uv = 27;
+ double absorb_max = 28;
+ string solvent_ae = 29;
+ double absorb = 30;
+ double conc = 31;
+ double extinc = 32;
+ double emis_max = 33;
+ double temp_abs = 34;
+ double emis_qy = 35;
+ double temp_ems = 36;
+ double lifetime = 37;
+ double temp_cv = 38;
+ double reduc_pot = 39;
+ string hw_or_pk_rp = 40;
+ double oxid_pot = 41;
+ string hw_or_pk_op = 42;
+ string solvent_cv = 43;
+ string electrolyte = 44;
+ string ref_electrd = 45;
+ string inter_thngs = 46;
+ double density_20 = 47;
+ string density_20_source = 48;
+ double default_warn_level = 49;
+ double n_20 = 50;
+ string n_20_source = 51;
+ double mp_low = 52;
+ double mp_high = 53;
+ string mp_source = 54;
+ double bp_low = 55;
+ double bp_high = 56;
+ double bp_press = 57;
+ string press_unit = 58;
+ string bp_source = 59;
+ string safety_r = 60;
+ string safety_h = 61;
+ string safety_s = 62;
+ string safety_p = 63;
+ string safety_text = 64;
+ string safety_sym = 65;
+ string safety_sym_ghs = 66;
+ string safety_source = 67;
+ string comment_mol = 68;
+}
+message CreateMoleculeRequest{
+ Molecule molecule = 1;
+}
+message CreateMoleculeResponse{
+ Molecule molecule = 1;
+}
-syntax="proto3";
-package com.smiles;
-option java_multiple_files=true;
-//option java_multiple_files = true;
-//package org.apache.custos.user.profile.service;
-//option go_package = "./pb";
+message ReadMoleculeRequest{
+ string id = 1;
+}
+message ReadMoleculeResponse{
+ Molecule molecule = 1;
+}
-message Molecule {
- string cas_nr = 1 ; //tinytext
- string smiles = 2 ; //text. // Include
- string smiles_stereo = 3; // text
- string inchi = 4 ; //text. // Include
- //???? molfile_blob ; //medium-blob
- //??? molecule_serialized ; //mediumblob
- string molfile_blob_source = 6; //tiny-text
- string emp_formula = 7; //tinytext // Include
- string emp_formula_sort = 8; //tinytext
- string emp_formula_source = 9; //tinytext
- double mw = 10; // double unsigned // Include
- double mw_monoiso = 11; // double unsigned
- double rdb = 12; // double unsigned
- string mw_source = 13 ; // tinytext
- string validated_by = 14 ; // text // Include
- string journal = 15 ; // text
- string auth_of_intr = 16 ; // text
- string jour_cit = 17 ; //text // Include
- string year_publ = 18; // text // Include
- string doi_link = 19 ; //text
- //?????? chemdraw ; //mediumblob
- //??? xyz_coords ; //mediumblob
- string comp_class = 20 ; //text // Include
- string cuniq = 21 ; //text
- string calc_perf = 22 ; // text // Include //important link to comp db
- string org_met = 23 ; // text // Include
- int64 mol_chrg = 24 ; //int(11) // Include
- string state_ofmat = 25 ; // text // Include
- string color_white = 26 ; // text // Include
- string color_uv = 27; // text // Include
- double absorb_max = 28 ; // double
- string solvent_ae = 29 ; // text. // Include
- double absorb = 30 ; // double
- double conc = 31 ; // double
- double extinc = 32 ; // double // Include
- double emis_max = 33 ; // double// Include
- double temp_abs = 34 ; // double // Include
- double emis_qy = 35 ; // double // Include
- double temp_ems = 36; // double // Include
- double lifetime = 37 ; // double // Include
- double temp_cv = 38 ; // double // Include
- double reduc_pot = 39 ; // double // Include
- string hw_or_pk_rp = 40 ; // tinytext
- double oxid_pot = 41; // double // Include
- string hw_or_pk_op = 42; // tinytext
- string solvent_cv = 43; // text // Include
- string electrolyte = 44; // text // Include
- string ref_electrd = 45; // text // Include
- string inter_thngs = 46 ; // text
- double density_20 = 47; // double
- string density_20_source = 48; // tinytext
- double default_warn_level = 49; //double
+message UpdateMoleculeRequest{
+ Molecule molecule = 1;
+}
+message UpdateMoleculeResponse{
+ Molecule molecule = 1;
+}
+
+message DeleteMoleculeRequest{
+ string molecule_id = 1;
+}
+message DeleteMoleculeResponse{
+ string molecule_id = 1;
+}
- double n_20 = 50 ; //double
- string n_20_source = 51; // tinytext
- double mp_low = 52 ; // double
- double mp_high = 53 ; // double
- string mp_source = 54 ; // tinytext
- double bp_low = 55 ; // double
- double bp_high = 56 ; // double
- double bp_press = 57 ; // double
- string press_unit = 58 ; // tinytext
- string bp_source = 59 ; // tinytext
- string safety_r = 60 ; // tinytext
- string safety_h = 61 ; // tinytext
- string safety_s = 62 ; // tinytext
- string safety_p = 63 ; // tinytext
- string safety_text = 64 ; // tinytext
- string safety_sym = 65 ; // tinytext
- string safety_sym_ghs = 66 ; // tinytext
- string safety_source = 67; // tinytext
- //??? gif_file ; //mediumblob
- //??? svg_file ; //mediumblob
- string comment_mol = 68; // text
+message ListMoleculeRequest{
}
-message MoleculeRequest{
- string moleculeQuery = 1;
- Molecule molecule=2;
+message ListMoleculeResponse{
+ Molecule molecule = 1;
}
service MoleculeService{
- rpc GetMolecule(MoleculeRequest) returns (Molecule);
- rpc CreateMolecule(MoleculeRequest) returns (Molecule);
- rpc UpdateMolecule(MoleculeRequest) returns (Molecule);
- rpc DeleteMolecule(MoleculeRequest) returns (Molecule);
+ rpc CreateMolecule(CreateMoleculeRequest) returns (CreateMoleculeResponse){};
+ rpc ReadMolecule(ReadMoleculeRequest) returns (ReadMoleculeResponse){};
+ rpc UpdateMolecule(UpdateMoleculeRequest) returns (UpdateMoleculeResponse){};
+ rpc DeleteMolecule(DeleteMoleculeRequest) returns (DeleteMoleculeResponse){};
+ rpc ListMolecule(ListMoleculeRequest) returns (stream ListMoleculeResponse){};
}
diff --git a/gsoc2022/smilesdb/Server/src/main/resources/application.properties b/gsoc2022/smilesdb/Server/src/main/resources/application.properties
index 84082450..e69de29b 100644
--- a/gsoc2022/smilesdb/Server/src/main/resources/application.properties
+++ b/gsoc2022/smilesdb/Server/src/main/resources/application.properties
@@ -1,2 +0,0 @@
-spring.data.mongodb.uri=mongodb://localhost:27017/smiles
-spring.data.mongodb.database=smiles
diff --git a/gsoc2022/smilesdb/Server/src/test/java/com/smiles/ServerApplicationTests.java b/gsoc2022/smilesdb/Server/src/test/java/com/smiles/SpringServerApplicationTests.java
similarity index 62%
rename from gsoc2022/smilesdb/Server/src/test/java/com/smiles/ServerApplicationTests.java
rename to gsoc2022/smilesdb/Server/src/test/java/com/smiles/SpringServerApplicationTests.java
index 329f5e46..efb2f4e5 100644
--- a/gsoc2022/smilesdb/Server/src/test/java/com/smiles/ServerApplicationTests.java
+++ b/gsoc2022/smilesdb/Server/src/test/java/com/smiles/SpringServerApplicationTests.java
@@ -4,10 +4,10 @@ import org.junit.jupiter.api.Test;
import org.springframework.boot.test.context.SpringBootTest;
@SpringBootTest
-class ServerApplicationTests {
-//
-// @Test
-// void contextLoads() {
-// }
+class SpringServerApplicationTests {
+
+ @Test
+ void contextLoads() {
+ }
}
diff --git a/gsoc2022/smilesdb/smiles_dashboard/.gitignore b/gsoc2022/smilesdb/smiles_dashboard/.gitignore
deleted file mode 100644
index 403adbc1..00000000
--- a/gsoc2022/smilesdb/smiles_dashboard/.gitignore
+++ /dev/null
@@ -1,23 +0,0 @@
-.DS_Store
-node_modules
-/dist
-
-
-# local env files
-.env.local
-.env.*.local
-
-# Log files
-npm-debug.log*
-yarn-debug.log*
-yarn-error.log*
-pnpm-debug.log*
-
-# Editor directories and files
-.idea
-.vscode
-*.suo
-*.ntvs*
-*.njsproj
-*.sln
-*.sw?
diff --git a/gsoc2022/smilesdb/smiles_dashboard/README.md b/gsoc2022/smilesdb/smiles_dashboard/README.md
deleted file mode 100644
index dae5c5e4..00000000
--- a/gsoc2022/smilesdb/smiles_dashboard/README.md
+++ /dev/null
@@ -1,24 +0,0 @@
-# smiles_dashboard
-
-## Project setup
-```
-npm install
-```
-
-### Compiles and hot-reloads for development
-```
-npm run serve
-```
-
-### Compiles and minifies for production
-```
-npm run build
-```
-
-### Lints and fixes files
-```
-npm run lint
-```
-
-### Customize configuration
-See [Configuration Reference](https://cli.vuejs.org/config/).
diff --git a/gsoc2022/smilesdb/smiles_dashboard/babel.config.js b/gsoc2022/smilesdb/smiles_dashboard/babel.config.js
deleted file mode 100644
index e9558405..00000000
--- a/gsoc2022/smilesdb/smiles_dashboard/babel.config.js
+++ /dev/null
@@ -1,5 +0,0 @@
-module.exports = {
- presets: [
- '@vue/cli-plugin-babel/preset'
- ]
-}
diff --git a/gsoc2022/smilesdb/smiles_dashboard/jsconfig.json b/gsoc2022/smilesdb/smiles_dashboard/jsconfig.json
deleted file mode 100644
index 4aafc5f6..00000000
--- a/gsoc2022/smilesdb/smiles_dashboard/jsconfig.json
+++ /dev/null
@@ -1,19 +0,0 @@
-{
- "compilerOptions": {
- "target": "es5",
- "module": "esnext",
- "baseUrl": "./",
- "moduleResolution": "node",
- "paths": {
- "@/*": [
- "src/*"
- ]
- },
- "lib": [
- "esnext",
- "dom",
- "dom.iterable",
- "scripthost"
- ]
- }
-}
diff --git a/gsoc2022/smilesdb/smiles_dashboard/package-lock.json b/gsoc2022/smilesdb/smiles_dashboard/package-lock.json
deleted file mode 100644
index a8eb268b..00000000
--- a/gsoc2022/smilesdb/smiles_dashboard/package-lock.json
+++ /dev/null
@@ -1,19858 +0,0 @@
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