(airavata-cerebrum) branch main updated: Create .asf.yaml

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 new 302dafb  Create .asf.yaml
302dafb is described below

commit 302dafb6ca2178e89f5cbaf96f28b2810f7b4d4a
Author: Suresh Marru 
AuthorDate: Tue Jan 23 18:51:44 2024 -0500

Create .asf.yaml

Triggering issues and projects
---
 .asf.yaml | 42 ++
 1 file changed, 42 insertions(+)

diff --git a/.asf.yaml b/.asf.yaml
new file mode 100644
index 000..24a6fc5
--- /dev/null
+++ b/.asf.yaml
@@ -0,0 +1,42 @@
+#
+# 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.
+#
+notifications:
+  commits:  commits@airavata.apache.org
+  # Send all issue emails (new, closed, comments) to issues@
+  issues:   iss...@airavata.apache.org
+  # Send new/closed PR notifications to dev@
+  pullrequests_status:  iss...@airavata.apache.org
+  # Send individual PR comments/reviews to issues@
+  pullrequests_comment: iss...@airavata.apache.org
+
+github:
+  description: "Apache Airavata Cerebrum"
+  homepage: https://airavata.apache.org/custos
+  labels:
+- airavata
+- apache
+- cerebrum
+- neuroscience
+- brain atlases
+- computational
+
+  features:
+wiki: false
+issues: true
+projects: true

(airavata-cerebrum) branch main created (now 4ac068b)

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  at 4ac068b  bootstrapping the repo

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(airavata-cerebrum) 01/01: bootstrapping the repo

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commit 4ac068b5dc84a432d6602936763dcd8ae9ad9991
Author: Suresh Marru 
AuthorDate: Tue Nov 28 08:24:52 2023 -0500

bootstrapping the repo

Intro readme
---
 README.md | 12 
 1 file changed, 12 insertions(+)

diff --git a/README.md b/README.md
new file mode 100644
index 000..a720ab6
--- /dev/null
+++ b/README.md
@@ -0,0 +1,12 @@
+# Apache Airavata Cerebrum, an Integrated Neuroscience Computational Framework
+
+## Introduction
+
+Welcome to the Apache Airavata Cerebrum repository for the Integrated 
Neuroscience Computational Framework. This project aims to revolutionize how we 
understand and model the human brain by integrating cellular-level brain 
atlases with advanced computational tools. Our goal is to create a cohesive, 
open-source framework that allows for the seamless application of existing 
tools within a streamlined, lightweight environment.
+
+## Features
+
+- **Integration of Brain Atlases**: Merging publicly available cellular-level 
brain atlases into a single, accessible platform.
+- **Comprehensive Modeling Tools**: Incorporating computational tools designed 
for modeling the entire brain.
+- **Open-Source Framework**: Developing a user-friendly, open-source 
environment for neuroscience research.
+- **Streamlined Environment**: Ensuring a lightweight, efficient framework for 
both beginners and advanced users.

[airavata] branch master updated: Adding Citation Info

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 new 03175bd669 Adding Citation Info
03175bd669 is described below

commit 03175bd669150b83a6869327dcfd3d7afadddeaa
Author: Suresh Marru 
AuthorDate: Mon Mar 20 06:33:56 2023 -0400

Adding Citation Info

Addressing issue #AIRAVATA-3690
---
 CITATION.cff | 56 
 1 file changed, 56 insertions(+)

diff --git a/CITATION.cff b/CITATION.cff
new file mode 100644
index 00..92f4e125cc
--- /dev/null
+++ b/CITATION.cff
@@ -0,0 +1,56 @@
+# This CITATION.cff file was generated with cffinit.
+# Visit https://bit.ly/cffinit to generate yours today!
+
+cff-version: 1.2.0
+title: Apache Airavata
+message: >-
+  If you use this software, please cite it using the
+  metadata from this file.
+type: software
+authors:
+  - given-names: Airavata
+family-names: Apache
+email: d...@airavata.apache.org
+repository-code: 'https://github.com/apache/airavata'
+url: 'https://airavata.apache.org/'
+license: Apache-2.0
+preferred-citation:
+  type: proceedings
+  authors:
+  - family-names: "Marru"
+given-names: "Suresh"
+  - family-names: "Gunathilake"
+given-names: "Lahiru"
+  - family-names: "Herath"
+given-names: "Chathura"
+  - family-names: "Tangchaisin"
+given-names: "Patanachai"
+  - family-names: "Pierce"
+given-names: "Marlon"
+  - family-names: "Mattmann"
+given-names: "Chris"
+  - family-names: "Singh"
+given-names: "Raminder"
+  - family-names: "Gunarathne"
+given-names: "Thilina"
+  - family-names: "Chinthaka"
+given-names: "Eran"
+  - family-names: "Gardler"
+given-names: "Ross"
+  - family-names: "Slominski"
+given-names: "Aleksander"
+  - family-names: "Douma"
+given-names: "Ate"
+  - family-names: "Perera"
+given-names: "Srinath"
+  - family-names: "Weerawarana"
+given-names: "Sanjiva"
+  doi: "10.1145/2110486.2110490"
+  journal: "Proceedings of the 2011 ACM workshop on Gateway computing 
environments"
+  month: 11
+  start: 1 # 21
+  end: 10 # 28
+  title: "Apache airavata: a framework for distributed applications and 
computational workflows"
+  issue: 1
+  volume: 1
+  year: 2011

[airavata-data-catalog] branch main updated: Adding the mandatory LICENSE and NOTICE files

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The following commit(s) were added to refs/heads/main by this push:
 new 0265694  Adding the mandatory LICENSE and NOTICE files
0265694 is described below

commit 0265694ad0eaa3098c358e12ac534e20bd6f031d
Author: Suresh Marru 
AuthorDate: Thu Feb 2 11:47:15 2023 -0500

Adding the mandatory LICENSE and NOTICE files
---
 LICENSE | 202 
 NOTICE  |   5 ++
 2 files changed, 207 insertions(+)

diff --git a/LICENSE b/LICENSE
new file mode 100644
index 000..7a4a3ea
--- /dev/null
+++ b/LICENSE
@@ -0,0 +1,202 @@
+
+ Apache License
+   Version 2.0, January 2004
+http://www.apache.org/licenses/
+
+   TERMS AND CONDITIONS FOR USE, REPRODUCTION, AND DISTRIBUTION
+
+   1. Definitions.
+
+  "License" shall mean the terms and conditions for use, reproduction,
+  and distribution as defined by Sections 1 through 9 of this document.
+
+  "Licensor" shall mean the copyright owner or entity authorized by
+  the copyright owner that is granting the License.
+
+  "Legal Entity" shall mean the union of the acting entity and all
+  other entities that control, are controlled by, or are under common
+  control with that entity. For the purposes of this definition,
+  "control" means (i) the power, direct or indirect, to cause the
+  direction or management of such entity, whether by contract or
+  otherwise, or (ii) ownership of fifty percent (50%) or more of the
+  outstanding shares, or (iii) beneficial ownership of such entity.
+
+  "You" (or "Your") shall mean an individual or Legal Entity
+  exercising permissions granted by this License.
+
+  "Source" form shall mean the preferred form for making modifications,
+  including but not limited to software source code, documentation
+  source, and configuration files.
+
+  "Object" form shall mean any form resulting from mechanical
+  transformation or translation of a Source form, including but
+  not limited to compiled object code, generated documentation,
+  and conversions to other media types.
+
+  "Work" shall mean the work of authorship, whether in Source or
+  Object form, made available under the License, as indicated by a
+  copyright notice that is included in or attached to the work
+  (an example is provided in the Appendix below).
+
+  "Derivative Works" shall mean any work, whether in Source or Object
+  form, that is based on (or derived from) the Work and for which the
+  editorial revisions, annotations, elaborations, or other modifications
+  represent, as a whole, an original work of authorship. For the purposes
+  of this License, Derivative Works shall not include works that remain
+  separable from, or merely link (or bind by name) to the interfaces of,
+  the Work and Derivative Works thereof.
+
+  "Contribution" shall mean any work of authorship, including
+  the original version of the Work and any modifications or additions
+  to that Work or Derivative Works thereof, that is intentionally
+  submitted to Licensor for inclusion in the Work by the copyright owner
+  or by an individual or Legal Entity authorized to submit on behalf of
+  the copyright owner. For the purposes of this definition, "submitted"
+  means any form of electronic, verbal, or written communication sent
+  to the Licensor or its representatives, including but not limited to
+  communication on electronic mailing lists, source code control systems,
+  and issue tracking systems that are managed by, or on behalf of, the
+  Licensor for the purpose of discussing and improving the Work, but
+  excluding communication that is conspicuously marked or otherwise
+  designated in writing by the copyright owner as "Not a Contribution."
+
+  "Contributor" shall mean Licensor and any individual or Legal Entity
+  on behalf of whom a Contribution has been received by Licensor and
+  subsequently incorporated within the Work.
+
+   2. Grant of Copyright License. Subject to the terms and conditions of
+  this License, each Contributor hereby grants to You a perpetual,
+  worldwide, non-exclusive, no-charge, royalty-free, irrevocable
+  copyright license to reproduce, prepare Derivative Works of,
+  publicly display, publicly perform, sublicense, and distribute the
+  Work and such Derivative Works in Source or Object form.
+
+   3. Grant of Patent License. Subject to the terms and conditions of
+  this License, each 

[airavata-mft] branch master updated: Adding NOTICE file

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The following commit(s) were added to refs/heads/master by this push:
 new 899f3ad  Adding NOTICE file
899f3ad is described below

commit 899f3adb31c1fa89106da74d2a59ac95f6f73ddc
Author: Suresh Marru 
AuthorDate: Thu Feb 2 11:40:51 2023 -0500

Adding NOTICE file
---
 NOTICE | 5 +
 1 file changed, 5 insertions(+)

diff --git a/NOTICE b/NOTICE
new file mode 100644
index 000..1204a42
--- /dev/null
+++ b/NOTICE
@@ -0,0 +1,5 @@
+Apache Airavata MFT
+Copyright 2023 The Apache Software Foundation
+
+This product includes software developed at
+The Apache Software Foundation (http://www.apache.org/).
\ No newline at end of file

[airavata-mft] branch master updated: removing travis build

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The following commit(s) were added to refs/heads/master by this push:
 new 06dcc30  removing travis build
06dcc30 is described below

commit 06dcc304160b3c2e5b0af50f83d9582e17ea9017
Author: Suresh Marru 
AuthorDate: Tue Jan 31 09:55:56 2023 -0500

removing travis build
---
 README.md | 3 ---
 1 file changed, 3 deletions(-)

diff --git a/README.md b/README.md
index 1249f35..5b0b0b1 100755
--- a/README.md
+++ b/README.md
@@ -17,9 +17,6 @@ specific language governing permissions and limitations
 under the License.
 -->
 
-[![Build 
Status](https://travis-ci.org/apache/airavata-mft.svg?branch=master)](https://travis-ci.org/apache/airavata-mft)
-
-
 # Airavata Managed File Transfers (MFT)
 
 Apache Airavata MFT is a high-performance, multi-protocol data transfer engine 
to orchestrate data movement and operations across most cloud and On-premises 
storages. MFT aims to abstract the complexity of heterogenous storages by 
providing a unified and simple interface for users to seamlessly access and 
move data across any storage endpoint. To accomplish this goal, MFT provides 
simple but highly-performing tools to access most cloud and on-premise storages 
as seamlessly as they access [...]

[airavata-mft] branch master updated: word smithing readme

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 new 5543fbe  word smithing readme
5543fbe is described below

commit 5543fbe0f0e8084f25b41a0826a508fcf97d453b
Author: Suresh Marru 
AuthorDate: Tue Jan 31 09:52:21 2023 -0500

word smithing readme
---
 README.md | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/README.md b/README.md
index ee2ab52..1249f35 100755
--- a/README.md
+++ b/README.md
@@ -22,9 +22,9 @@ under the License.
 
 # Airavata Managed File Transfers (MFT)
 
-Apache Airavata MFT is a high-performance, multi-protocol data transfer engine 
to orchestrate data movement and operations across most cloud and legacy 
storage endpoints. Airavata MFT provides simple but highly-performing tools to 
access most cloud and on-premise storages as seamlessly as they access local 
files in their workstations. 
+Apache Airavata MFT is a high-performance, multi-protocol data transfer engine 
to orchestrate data movement and operations across most cloud and On-premises 
storages. MFT aims to abstract the complexity of heterogenous storages by 
providing a unified and simple interface for users to seamlessly access and 
move data across any storage endpoint. To accomplish this goal, MFT provides 
simple but highly-performing tools to access most cloud and on-premise storages 
as seamlessly as they access [...]
 
-Airavata MFT abstracts out the complexity of each storage type and provides a 
unified and simple interface for users to access and move data across any 
endpoint seamlessly. Airavata MFT bundles easily deployable agents which auto 
determine optimum network path with additional multi-channel, parallel data 
paths to optimize the transfer performance to gain the maximum throughput 
between storage endpoints. MFT utilizes parallel Agents to transfer data 
between endpoints to gain the advantage [...]
+Apache Airavata MFT bundles easily deployable agents that auto determine 
optimum network path with additional multi-channel, parallel data paths to 
optimize the transfer performance to gain the maximum throughput between 
storage endpoints. MFT utilizes parallel Agents to transfer data between 
endpoints to gain the advantage of multiple network links.
 
 # Try Airavata MFT
 MFT requires Java 11+ and python3.10+  to install Airavata MFT in your 
environment. MFT currently supports Linux and MacOS operating systems. 
Contributions to support Windows are welcome!!. 

[airavata-mft] branch master updated: README improvements

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The following commit(s) were added to refs/heads/master by this push:
 new b44a1bc  README improvements
b44a1bc is described below

commit b44a1bc6c32dd3f9ec7622569a648462aa75763c
Author: Suresh Marru 
AuthorDate: Mon Jan 30 17:27:41 2023 -0500

README improvements
---
 README.md | 6 +++---
 1 file changed, 3 insertions(+), 3 deletions(-)

diff --git a/README.md b/README.md
index 52b3bb2..ee2ab52 100755
--- a/README.md
+++ b/README.md
@@ -22,12 +22,12 @@ under the License.
 
 # Airavata Managed File Transfers (MFT)
 
-Airavata MFT is a high-performance, multi-protocol data transfer engine 
developed for orchestrating data movement and operations across most of the 
cloud and legacy storage endpoints. Through Airavata MFT, our vision is to 
provide simple but highly performing tools for users to access any cloud or 
on-premise storage endpoint just as they access local files in their 
workstations. 
+Apache Airavata MFT is a high-performance, multi-protocol data transfer engine 
to orchestrate data movement and operations across most cloud and legacy 
storage endpoints. Airavata MFT provides simple but highly-performing tools to 
access most cloud and on-premise storages as seamlessly as they access local 
files in their workstations. 
 
-Airavata MFT abstracts out the complexity of each storage type and provides a 
unified and simple interface for users to access and move data across any 
endpoint seamlessly. To gain the maximum throughput between storage endpoints, 
Airavata MFT utilizes Agents installed between the optimum network path with 
additional multi-channel, parallel data paths to further optimize the transfer 
performance. In addition to that, MFT can utilize parallel Agents to transfer 
data between endpoints to g [...]
+Airavata MFT abstracts out the complexity of each storage type and provides a 
unified and simple interface for users to access and move data across any 
endpoint seamlessly. Airavata MFT bundles easily deployable agents which auto 
determine optimum network path with additional multi-channel, parallel data 
paths to optimize the transfer performance to gain the maximum throughput 
between storage endpoints. MFT utilizes parallel Agents to transfer data 
between endpoints to gain the advantage [...]
 
 # Try Airavata MFT
-You need to have Java 11+ and python3.10+ installed to install Airavata MFT in 
your environment. We currently only support Linux and MacOS operating systems 
and plan to support Windows in future. 
+MFT requires Java 11+ and python3.10+  to install Airavata MFT in your 
environment. MFT currently supports Linux and MacOS operating systems. 
Contributions to support Windows are welcome!!. 
 
 ### Download and Install
 

[airavata-mft] branch master updated (374b82b -> a3e1f9d)

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from 374b82b  missing license headers
 add a3e1f9d  adding auto-generated changelog

No new revisions were added by this update.

Summary of changes:
 CHANGELOG.md  | 71 +++
 pom.xml   |  5 --
 python-sdk/samples/sample.py  | 18 ++
 python-sdk/setup.cfg  | 16 +
 python-sdk/src/airavata_mft_sdk/generate-stubs.sh | 17 ++
 5 files changed, 122 insertions(+), 5 deletions(-)
 create mode 100644 CHANGELOG.md

[airavata-mft] branch master updated: missing license headers

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The following commit(s) were added to refs/heads/master by this push:
 new 374b82b  missing license headers
374b82b is described below

commit 374b82ba6f0d1738a1b088b092662b802878ac85
Author: Suresh Marru 
AuthorDate: Thu Jan 26 11:04:47 2023 -0500

missing license headers
---
 .../airavata/mft/command/line/CommandLineUtil.java  | 17 +
 .../airavata/mft/command/line/MainRunner.java   | 17 +
 .../mft/command/line/sub/s3/S3SubCommand.java   | 17 +
 .../line/sub/s3/storage/S3StorageAddSubCommand.java | 17 +
 .../line/sub/s3/storage/S3StorageSubCommand.java| 17 +
 .../command/line/sub/swift/SwiftAddSubCommand.java  | 17 +
 .../line/sub/swift/SwiftRemoteSubCommand.java   | 17 +
 .../mft/command/line/sub/swift/SwiftSubCommand.java | 17 +
 .../line/sub/transfer/SubmitTransferSubCommand.java | 17 +
 .../line/sub/transfer/TransferStateSubCommand.java  | 17 +
 .../line/sub/transfer/TransferSubCommand.java   | 17 +
 .../airavata/mft/controller/RequestBuilder.java | 17 +
 .../mft/resource/client/StorageServiceClient.java   | 17 +
 .../client/StorageServiceClientBuilder.java | 17 +
 .../backend/sql/entity/GenericResourceEntity.java   | 17 +
 .../backend/sql/entity/LocalStorageEntity.java  | 17 +
 .../server/backend/sql/entity/S3StorageEntity.java  | 17 +
 .../backend/sql/entity/StorageSecretEntity.java | 17 +
 .../sql/repository/GenericResourceRepository.java   | 17 +
 .../sql/repository/LocalStorageRepository.java  | 17 +
 .../backend/sql/repository/S3StorageRepository.java | 17 +
 .../sql/repository/StorageSecretRepository.java | 17 +
 .../src/main/resources/applicationContext.xml   | 21 +
 .../distribution/conf/applicationContext.xml| 21 +
 .../server/backend/sql/entity/S3SecretEntity.java   | 17 +
 .../backend/sql/repository/S3SecretRepository.java  | 17 +
 .../secret/server/handler/SwiftServiceHandler.java  | 17 +
 .../src/main/resources/applicationContext.xml   | 21 +
 .../distribution/conf/applicationContext.xml| 21 +
 .../server/src/main/resources/secrets.json.template | 16 
 .../server/StandaloneServiceApplication.java| 17 +
 .../src/main/resources/application.properties   | 17 -
 .../gcp/GCSOutgoingStreamingConnector.java  | 17 +
 .../src/main/resources/application.properties   | 17 -
 transport/local-transport/pom.xml   | 21 +
 .../mft/transport/s3/S3IncomingConnector.java   | 17 +
 .../mft/transport/s3/S3OutgoingConnector.java   | 17 +
 transport/swift-transport/pom.xml   | 21 +
 38 files changed, 667 insertions(+), 2 deletions(-)

diff --git 
a/command-line/src/main/java/org/apache/airavata/mft/command/line/CommandLineUtil.java
 
b/command-line/src/main/java/org/apache/airavata/mft/command/line/CommandLineUtil.java
index 44efeb5..9a8446c 100644
--- 
a/command-line/src/main/java/org/apache/airavata/mft/command/line/CommandLineUtil.java
+++ 
b/command-line/src/main/java/org/apache/airavata/mft/command/line/CommandLineUtil.java
@@ -1,3 +1,20 @@
+/*
+ * 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.
+ */
+
 package org.apache.airavata.mft.command.line;
 
 public final class CommandLineUtil {
diff --git 
a/command-line/src/main/java/org/apache/airavata/mft/command/line/MainRunner.java
 
b/command-line/src/main/java/org/apache/airavata/mft/command/line/MainRunner.java
index 0a6764b..355acb8 100644
--- 
a/comman

[airavata-mft] branch master updated (a6ec115 -> 55681df)

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from a6ec115  adding git ignore
 add 55681df  adding missing license headers

No new revisions were added by this update.

Summary of changes:
 .github/ISSUE_TEMPLATE/bug_report.md| 19 +++
 .github/ISSUE_TEMPLATE/cleanup_request.md   | 18 ++
 .github/ISSUE_TEMPLATE/feature_request.md   | 19 +++
 agent/stub/pom.xml  | 21 +
 api/stub/src/main/proto/MFTTransferApi.proto| 17 +
 common/mft-common-proto/pom.xml | 21 +
 common/pom.xml  |  2 +-
 .../airavata/mft/core/DoubleStreamingBuffer.java| 17 +
 .../airavata/mft/core/api/BasicConnector.java   | 17 +
 .../airavata/mft/core/api/ConnectorConfig.java  | 17 +
 .../mft/core/api/IncomingChunkedConnector.java  | 17 +
 .../mft/core/api/OutgoingChunkedConnector.java  | 17 +
 .../mft/core/CircularStreamingBufferTest2.java  | 17 +
 pom.xml |  5 +
 python-cli/mft_cli/README.md| 19 +++
 python-cli/mft_cli/airavata_mft_cli/__init__.py | 18 ++
 python-cli/mft_cli/airavata_mft_cli/base.py | 18 ++
 python-cli/mft_cli/airavata_mft_cli/bootstrap.py| 18 ++
 python-cli/mft_cli/airavata_mft_cli/main.py | 18 ++
 python-cli/mft_cli/airavata_mft_cli/operations.py   | 18 ++
 .../mft_cli/airavata_mft_cli/storage/__init__.py| 18 ++
 .../mft_cli/airavata_mft_cli/storage/azure.py   | 18 ++
 python-cli/mft_cli/airavata_mft_cli/storage/s3.py   | 18 ++
 23 files changed, 386 insertions(+), 1 deletion(-)

[airavata-mft] branch master updated: adding git ignore

[smarru]

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smarru pushed a commit to branch master
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The following commit(s) were added to refs/heads/master by this push:
 new a6ec115  adding git ignore
a6ec115 is described below

commit a6ec1155d3fe02a1a0206990316017715d7cd7a4
Author: Suresh Marru 
AuthorDate: Tue Jan 24 23:42:43 2023 -0500

adding git ignore
---
 .gitignore | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/.gitignore b/.gitignore
index d43a85d..9729373 100644
--- a/.gitignore
+++ b/.gitignore
@@ -78,7 +78,7 @@ dkms.conf
 
 ### Code ###
 .vscode/*
-!.vscode/settings.json
+.vscode/settings.json
 !.vscode/tasks.json
 !.vscode/launch.json
 !.vscode/extensions.json

[airavata] branch develop updated: Reming travis file as we move to github actions

[smarru]

This is an automated email from the ASF dual-hosted git repository.

smarru pushed a commit to branch develop
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The following commit(s) were added to refs/heads/develop by this push:
 new 2feb3e2485 Reming travis file as we move to github actions
2feb3e2485 is described below

commit 2feb3e2485857e9833682227ebc342f7d36536b5
Author: Suresh Marru 
AuthorDate: Wed Jan 25 17:08:11 2023 -0500

Reming travis file as we move to github actions
---
 .travis.yml | 37 -
 1 file changed, 37 deletions(-)

diff --git a/.travis.yml b/.travis.yml
deleted file mode 100644
index 21894a577f..00
--- a/.travis.yml
+++ /dev/null
@@ -1,37 +0,0 @@
-#
-#
-# 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.
-#
-
-language: java
-
-sudo: false
-
-notifications:
-  email:
-on_success: change
-on_failure: always
-
-jdk:
-  - oraclejdk11
-
-script: mvn clean install
-
-# Git-describe Maven plugin needs the full history
-git:
-  depth: false

[airavata-mft] branch master updated: more license headers

[smarru]

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smarru pushed a commit to branch master
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The following commit(s) were added to refs/heads/master by this push:
 new 16c2bf0  more license headers
16c2bf0 is described below

commit 16c2bf0382d5208bed056357be509052c9087025
Author: Suresh Marru 
AuthorDate: Tue Jan 24 23:40:37 2023 -0500

more license headers
---
 docker/Dockerfile | 18 ++
 docker/docker-compose.yml | 18 ++
 python-cli/mft_cli/pyproject.toml | 20 +++-
 python-sdk/pyproject.toml | 18 ++
 4 files changed, 73 insertions(+), 1 deletion(-)

diff --git a/docker/Dockerfile b/docker/Dockerfile
index 9d29348..6faf10e 100644
--- a/docker/Dockerfile
+++ b/docker/Dockerfile
@@ -1,3 +1,21 @@
+#
+# 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.
+
 FROM maven:3.8.6-jdk-11
 
 RUN apt-get update -y
diff --git a/docker/docker-compose.yml b/docker/docker-compose.yml
index 3e12e93..124b730 100644
--- a/docker/docker-compose.yml
+++ b/docker/docker-compose.yml
@@ -1,3 +1,21 @@
+#
+# 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.
+
 version: '3.8'
 
 services:
diff --git a/python-cli/mft_cli/pyproject.toml 
b/python-cli/mft_cli/pyproject.toml
index 3bf7e17..149b192 100644
--- a/python-cli/mft_cli/pyproject.toml
+++ b/python-cli/mft_cli/pyproject.toml
@@ -1,8 +1,26 @@
+#
+# 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.
+
 [tool.poetry]
 name = "airavata-mft-cli"
 version = "0.1.3"
 description = "Command Line Client for Airavata MFT data transfer framework"
-authors = ["Dimuthu Wannipurage "]
+authors = ["Apache Airavata 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.
+
 [build-system]
 requires = ["setuptools>=42", "grpcio==1.46.3", "grpcio-tools==1.46.3"]
 build-backend = "setuptools.build_meta"
\ No newline at end of file

[airavata-mft] 01/02: Removing the accidental file commit

[smarru]

This is an automated email from the ASF dual-hosted git repository.

smarru pushed a commit to branch master
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commit 127e9b74acdbdbd25fc3be00a1b62058ab68a492
Author: Suresh Marru 
AuthorDate: Tue Jan 24 22:12:15 2023 -0500

Removing the accidental file commit
---
 .vscode/settings.json | 3 ---
 1 file changed, 3 deletions(-)

diff --git a/.vscode/settings.json b/.vscode/settings.json
deleted file mode 100644
index e0f15db..000
--- a/.vscode/settings.json
+++ /dev/null
@@ -1,3 +0,0 @@
-{
-"java.configuration.updateBuildConfiguration": "automatic"
-}
\ No newline at end of file

[airavata-mft] branch master updated (9a5ff34 -> 006b108)

[smarru]

This is an automated email from the ASF dual-hosted git repository.

smarru pushed a change to branch master
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from 9a5ff34  rat plugin to check for ASF release complaince
 new 127e9b7  Removing the accidental file commit
 new 006b108  adding license headers

The 2 revisions listed above as "new" are entirely new to this
repository and will be described in separate emails.  The revisions
listed as "add" were already present in the repository and have only
been added to this reference.


Summary of changes:
 .vscode/settings.json|  3 ---
 README.md| 19 +++
 docker/Readme.md | 19 +++
 python-cli/README.md | 19 +++
 python-sdk/README.md | 19 +++
 python-sdk/samples/README.md | 19 +++
 6 files changed, 95 insertions(+), 3 deletions(-)
 delete mode 100644 .vscode/settings.json

[airavata-mft] 02/02: adding license headers

[smarru]

This is an automated email from the ASF dual-hosted git repository.

smarru pushed a commit to branch master
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commit 006b108a98dc2f32c03a3b9016e1d8b5a6d3483f
Author: Suresh Marru 
AuthorDate: Tue Jan 24 22:31:23 2023 -0500

adding license headers
---
 README.md| 19 +++
 docker/Readme.md | 19 +++
 python-cli/README.md | 19 +++
 python-sdk/README.md | 19 +++
 python-sdk/samples/README.md | 19 +++
 5 files changed, 95 insertions(+)

diff --git a/README.md b/README.md
index 646e8cc..9b8ee37 100755
--- a/README.md
+++ b/README.md
@@ -1,3 +1,22 @@
+
+
 [![Build 
Status](https://travis-ci.org/apache/airavata-mft.svg?branch=master)](https://travis-ci.org/apache/airavata-mft)
 
 
diff --git a/docker/Readme.md b/docker/Readme.md
index 912dca7..3083f7d 100644
--- a/docker/Readme.md
+++ b/docker/Readme.md
@@ -1,3 +1,22 @@
+
+
 ## Build and run airavata-mft as a docker container
 
 Build the docker image from the directory containing the Dockerfile:
diff --git a/python-cli/README.md b/python-cli/README.md
index 7973f73..b941fe5 100644
--- a/python-cli/README.md
+++ b/python-cli/README.md
@@ -1,3 +1,22 @@
+
+
 ### MFT-Cli Build Instructions
 
 Install Poetry
diff --git a/python-sdk/README.md b/python-sdk/README.md
index e927fcd..bb23034 100644
--- a/python-sdk/README.md
+++ b/python-sdk/README.md
@@ -1,3 +1,22 @@
+
+
 ### Generate Protobuf / Grpc sources
 
 ```
diff --git a/python-sdk/samples/README.md b/python-sdk/samples/README.md
index ba74dae..9065b23 100644
--- a/python-sdk/samples/README.md
+++ b/python-sdk/samples/README.md
@@ -1,3 +1,22 @@
+
+
 ### Instructions to run samples
 
 * Start MFT Components

[airavata-mft] branch master updated (1244f23 -> 9a5ff34)

[smarru]

This is an automated email from the ASF dual-hosted git repository.

smarru pushed a change to branch master
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from 1244f23  Bootstrapping MFT from command line with standalone mode
 add 9a5ff34  rat plugin to check for ASF release complaince

No new revisions were added by this update.

Summary of changes:
 .vscode/settings.json |  3 +++
 pom.xml   | 15 ++-
 2 files changed, 13 insertions(+), 5 deletions(-)
 create mode 100644 .vscode/settings.json

[airavata-django-portal] branch master updated: adding metadata file

[smarru]

This is an automated email from the ASF dual-hosted git repository.

smarru pushed a commit to branch master
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The following commit(s) were added to refs/heads/master by this push:
 new c5041512 adding metadata file
c5041512 is described below

commit c5041512fab88e12ee70e9815650aeff2aa004e2
Author: Suresh Marru 
AuthorDate: Sat Jan 7 03:05:58 2023 -0500

adding metadata file
---
 .asf.yaml | 40 
 1 file changed, 40 insertions(+)

diff --git a/.asf.yaml b/.asf.yaml
new file mode 100644
index ..efb24e39
--- /dev/null
+++ b/.asf.yaml
@@ -0,0 +1,40 @@
+#
+# 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.
+#
+notifications:
+  commits:  commits@airavata.apache.org
+  # Send all issue emails (new, closed, comments) to issues@
+  issues:   iss...@airavata.apache.org
+  # Send new/closed PR notifications to dev@
+  pullrequests_status:  cus...@airavata.apache.org
+  # Send individual PR comments/reviews to issues@
+  pullrequests_comment: iss...@airavata.apache.org
+  
+github:
+  description: "Apache Airavata Django Portal Framework"
+  homepage: https://airavata.apache.org/
+  labels:
+- airavata
+- sciencegateways
+- gateways
+- cloudnative
+- microservices
+- java
+- workfloworchestrator
+- workflow
+- bigdata

[airavata-sandbox] branch master updated: adding ASF metadata file

[smarru]

This is an automated email from the ASF dual-hosted git repository.

smarru pushed a commit to branch master
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The following commit(s) were added to refs/heads/master by this push:
 new 4c749577 adding ASF metadata file
4c749577 is described below

commit 4c749577d18235632d5e2f15126360fc624cb5f8
Author: Suresh Marru 
AuthorDate: Thu Jan 5 22:38:02 2023 -0500

adding ASF metadata file
---
 .asf.yaml | 41 +
 1 file changed, 41 insertions(+)

diff --git a/.asf.yaml b/.asf.yaml
new file mode 100644
index ..48a8ed1f
--- /dev/null
+++ b/.asf.yaml
@@ -0,0 +1,41 @@
+
+#
+# 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.
+#
+notifications:
+  commits:  commits@airavata.apache.org
+  # Send all issue emails (new, closed, comments) to issues@
+  issues:   iss...@airavata.apache.org
+  # Send new/closed PR notifications to dev@
+  pullrequests_status:  cus...@airavata.apache.org
+  # Send individual PR comments/reviews to issues@
+  pullrequests_comment: iss...@airavata.apache.org
+  
+github:
+  description: "Sanbox repository for explaratory Apache Airavata features"
+  homepage: https://airavata.apache.org/
+  labels:
+- airavata
+- sciencegateways
+- gateways
+- cloudnative
+- microservices
+- java
+- workfloworchestrator
+- workflow
+- bigdata

[airavata-mft] branch master updated: changing PR to issues list

[smarru]

This is an automated email from the ASF dual-hosted git repository.

smarru pushed a commit to branch master
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The following commit(s) were added to refs/heads/master by this push:
 new 60a7e65  changing PR to issues list
60a7e65 is described below

commit 60a7e655ad71c4ef9ec49a7aa167080b00d53971
Author: Suresh Marru 
AuthorDate: Thu Jan 5 22:35:46 2023 -0500

changing PR to issues list
---
 .asf.yaml | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/.asf.yaml b/.asf.yaml
index 72ee268..9c8e056 100644
--- a/.asf.yaml
+++ b/.asf.yaml
@@ -21,7 +21,7 @@ notifications:
   # Send all issue emails (new, closed, comments) to issues@
   issues:   iss...@airavata.apache.org
   # Send new/closed PR notifications to dev@
-  pullrequests_status:  d...@airavata.apache.org
+  pullrequests_status:  iss...@airavata.apache.org
   # Send individual PR comments/reviews to issues@
   pullrequests_comment: iss...@airavata.apache.org
 

[airavata] branch master updated: Changing PR to issues list

[smarru]

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smarru pushed a commit to branch master
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The following commit(s) were added to refs/heads/master by this push:
 new c1370b241e Changing PR to issues list
c1370b241e is described below

commit c1370b241e98dcc9cd6a5aa700183d4e49b01028
Author: Suresh Marru 
AuthorDate: Thu Jan 5 22:34:55 2023 -0500

Changing PR to issues list
---
 .asf.yaml | 30 +-
 1 file changed, 29 insertions(+), 1 deletion(-)

diff --git a/.asf.yaml b/.asf.yaml
index 0fabe218bf..d4a5f2f815 100644
--- a/.asf.yaml
+++ b/.asf.yaml
@@ -1,3 +1,31 @@
+
+#
+# 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.
+#
+notifications:
+  commits:  commits@airavata.apache.org
+  # Send all issue emails (new, closed, comments) to issues@
+  issues:   iss...@airavata.apache.org
+  # Send new/closed PR notifications to dev@
+  pullrequests_status:  cus...@airavata.apache.org
+  # Send individual PR comments/reviews to issues@
+  pullrequests_comment: iss...@airavata.apache.org
+  
 github:
   description: "A general purpose Distributed Systems Framework"
   homepage: https://airavata.apache.org/
@@ -10,4 +38,4 @@ github:
 - java
 - workfloworchestrator
 - workflow
-- bigdata
\ No newline at end of file
+- bigdata

[airavata] branch master updated: Updating new Zabbix Server Location

[smarru]

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.git


The following commit(s) were added to refs/heads/master by this push:
 new a1846c1014 Updating new Zabbix Server Location
a1846c1014 is described below

commit a1846c10145668007575bf408084cc091a89c404
Author: Suresh Marru 
AuthorDate: Fri Dec 9 10:34:08 2022 -0500

Updating new Zabbix Server Location
---
 dev-tools/ansible/inventories/scigap/production/group_vars/all/vars.yml | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git 
a/dev-tools/ansible/inventories/scigap/production/group_vars/all/vars.yml 
b/dev-tools/ansible/inventories/scigap/production/group_vars/all/vars.yml
index c3aae31f9b..d7c1d065b0 100644
--- a/dev-tools/ansible/inventories/scigap/production/group_vars/all/vars.yml
+++ b/dev-tools/ansible/inventories/scigap/production/group_vars/all/vars.yml
@@ -234,4 +234,4 @@ zabbix_subnets: "{{ iu_subnets }}"
 monitoring_subnets: "{{ iu_subnets }}"
 
 # Zabbix
-zabbix_server: "rt-watch.uits.indiana.edu"
+zabbix_server: "rt-monitor.uits.iu.edu"

[airavata-sandbox] 19/26: updated README

[smarru]

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 d2260bb531df5d904b5048f8dc9606544414bc1c
Author: Bhavesh Asanabada 
AuthorDate: Mon Jul 25 11:58:02 2022 +0530

updated README
---
 gsoc2022/smilesdb/README.md | 95 +
 1 file changed, 52 insertions(+), 43 deletions(-)

diff --git a/gsoc2022/smilesdb/README.md b/gsoc2022/smilesdb/README.md
index 44208696..22ef8948 100644
--- a/gsoc2022/smilesdb/README.md
+++ b/gsoc2022/smilesdb/README.md
@@ -1,7 +1,7 @@
 # Small Molecule Ionic Lattices (SMILES) Data Models
-
+![Local Build](https://img.shields.io/badge/local%20build-successful%20-green)
 ![GitHub last 
commit](https://img.shields.io/github/last-commit/bhavesh-asana/airavata-sandbox)
-![GitHub commit activity 
(branch)](https://img.shields.io/github/commit-activity/w/bhavesh-asana/airavata-sandbox/master)
+![GitHub commit activity 
(branch)](https://img.shields.io/github/commit-activity/m/bhavesh-asana/airavata-sandbox/master)
 ![GitHub code size in 
bytes](https://img.shields.io/github/languages/code-size/bhavesh-asana/airavata-sandbox)
 
 
@@ -12,7 +12,7 @@ embedded with the new features and advanced data 
visualization techniques.
 **DEVELOPMENT GOALS**
 1. Create a robust database to reduce the latency.
 2. Redesigning the data models.
-3. Synchronising the data with a user dashboard.
+3. Synchronising the data with a user dashboard on performing experiment 
successfully.
 
 # Table of Contents
 
@@ -23,10 +23,9 @@ embedded with the new features and advanced data 
visualization techniques.
   * [Server Initialization](#server-initialization)
   * [Middleware (Django Application)](#middleware-django-application)
   * [Client Initialization](#client-initialization)
-  * [Database](#database)
+  * [Database Management](#database-management)
 * [Mongo Compass GUI](#visualize-the-data-with-mongo-compass-gui)
-* [Mongo Shell](#visualize-with-mongo-shell)
-  * [Test Data](#test-data)
+* [Mongo CLI](#visualize-with-mongo-cli)
 * [References](#references)
 * [The Team](#the-team)
 
@@ -54,7 +53,6 @@ embedded with the new features and advanced data 
visualization techniques.
```commandline
 git init
 git clone https://github.com/bhavesh-asana/airavata-sandbox.git
-cd ~/airavata-sandbox/gsoc2022/smilesdb/
 ```
 
 # How to run the project
@@ -67,40 +65,51 @@ Google Remote Procedure Call (gRPC) stub is implemented in 
Java, which
 acts as a server and helps to transfer the data effectively with the
 connected clients across the distributed systems.
 
-Open the **Server** directory in IntelliJ and follow the steps to run the
-server application.
-
-1. Open the terminal in IntelliJ and ensure you are in the **Server** path.
-2. Run the following commands to build the maven project. 
+1. Before initializing the server, make sure the MongoDB is installed and the 
instance 
+   is running locally. 
```commandline
-   mvn clean compile install
-   ```
-3. In the target folder, make the following directories as a source root.
-1. target/classes
-2. target/generated-sources/protobuf/grpc-java
-3. target/generated-sources/protobuf/java
-4. Run the **ServerApplication** to initialise the server.
-5. On successful build, you can find the following message in the 
terminal.
-   **message:** Server running successfully
-   This ensures that the server is listening at the local port 7594.
+   mongo --port 27017
+```
+   This command ensure the Mongo instance is running locally and connected the 
instance to the port 27017.
+2. Open a new terminal window (server_runner) and change the directory to the
+   server codebase
+   ```commandline
+   cd ~/airavata-sandbox/gsoc2022/smilesdb/Server/
+```
+3. Build the Maven project.
+   ```commandline
+   mvn package
+   mvn clean install
+```
+4. Run the Spring Boot application.
+   ```commandline
+   mvn spring-boot:run
+```
+   On successful running of the server application, it shows a message as
+   _"Server running successfully"_ and open connection with mongodb driver.
 
 ## Middleware (Django Application)
-Open the **DjangoMiddleware** directory in Pycharm and follow the steps to run 
the middleware.
-1. Create a virtual environment using the following command. 
+Open a new terminal window and follow the steps to run the middleware 
application.
+1. Change the working directory to SMILES middleware.
+   ```commandline
+   cd ~/airavata-sandbox/gsoc2022/smilesdb/DjangoMiddleware
+   ```
+2. Create a virtual environment using the following command. 
Strictly recommended to use Python version 3.8.3 to build the 
**grpcio-wheel**.
   ```commandline
-  $ python -m venv 
-  $ source /bin/activate
+  $ conda create -n  python=3.8.3
+  $ conda activate 
   ```
-2. Install the required dependen

[airavata-sandbox] 26/26: Update README

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commit 9d915509adbe869b362c97fbdf4b5ae1dcb0db77
Author: Bhavesh Asanabada <62237873+bhavesh-as...@users.noreply.github.com>
AuthorDate: Mon Sep 12 19:59:23 2022 +0530

Update README

Changed the directory paths and reconfigured the run commands.
---
 gsoc2022/smilesdb/README.md | 20 ++--
 1 file changed, 10 insertions(+), 10 deletions(-)

diff --git a/gsoc2022/smilesdb/README.md b/gsoc2022/smilesdb/README.md
index 22ef8948..a1fa8470 100644
--- a/gsoc2022/smilesdb/README.md
+++ b/gsoc2022/smilesdb/README.md
@@ -88,11 +88,11 @@ connected clients across the distributed systems.
On successful running of the server application, it shows a message as
_"Server running successfully"_ and open connection with mongodb driver.
 
-## Middleware (Django Application)
+## RPC Handler (Django Application)
 Open a new terminal window and follow the steps to run the middleware 
application.
 1. Change the working directory to SMILES middleware.
```commandline
-   cd ~/airavata-sandbox/gsoc2022/smilesdb/DjangoMiddleware
+   cd ~/airavata-sandbox/gsoc2022/smilesdb/rpc_handler
```
 2. Create a virtual environment using the following command. 
Strictly recommended to use Python version 3.8.3 to build the 
**grpcio-wheel**.
@@ -109,7 +109,7 @@ Open a new terminal window and follow the steps to run the 
middleware applicatio
```commandline
python manage.py runserver
```
-5. Open http://127.0.0.1:8000/api/calcinfo/ to check the data transmission from
+5. Open http://127.0.0.1:8000/api/molecule/ to check the data transmission from
the server application. On successful transmission, the data can also be 
visualized 
in the server terminal.
 
@@ -123,17 +123,17 @@ and client application.
 To run the client application, open a new terminal window and follow the below 
steps
 1. Change the working directory to SMILES Dashboard.
```commandline
-   cd ~/airavata-sandbox/gsoc2022/smilesdb/smiles_dashboard
+   cd ~/airavata-sandbox/gsoc2022/smilesdb/data-catalog
```
 2. Open the new terminal and run the following commands to build the project.
```commandline
-   npm install
-   npm run serve
+   yarn install
+   yarn run serve
```
 3. Open
- http://localhost:8080/ for Login page.
-   - http://localhost:8080/SEAGrid for SEAGrid Homepage.
-   - http://localhost:8080/calcinfo for the live CalcInfo data synchronization.
+   - http://localhost:8080/home for SEAGrid Homepage.
+   - http://localhost:8080/search for the live data catalog.
 
 ## Database Management
 
@@ -152,7 +152,7 @@ mentioned below.
  show dbs
  use smiles
  show collections
- db.calcInfo.find()
+ db.molecule.find().pretty()
 ```
 
 # References
@@ -177,4 +177,4 @@ mentioned below.
 ## Contributor
 
 - Bhavesh Asanabada 
-  [https://img.shields.io/badge/LinkedIn-0077B5?style=plastic=linkedin=white;
 />](https://www.linkedin.com/in/bhavesh-asana/)
\ No newline at end of file
+  [https://img.shields.io/badge/LinkedIn-0077B5?style=plastic=linkedin=white;
 />](https://www.linkedin.com/in/bhavesh-asana/)

[airavata-sandbox] 05/26: defined api urls

[smarru]

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smarru pushed a commit to branch master
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commit cf320cfde0820b7c6fc3b6af066926a81989c44f
Author: Bhavesh Asanabada 
AuthorDate: Mon Jul 4 06:10:57 2022 +0530

defined api urls
---
 .../DjangoMiddleware/DjangoMiddleware/__init__.py  |   0
 .../__pycache__/__init__.cpython-38.pyc| Bin 0 -> 159 bytes
 .../__pycache__/settings.cpython-38.pyc| Bin 0 -> 2513 bytes
 .../__pycache__/urls.cpython-38.pyc| Bin 0 -> 998 bytes
 .../__pycache__/wsgi.cpython-38.pyc| Bin 0 -> 580 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 0 -> 1596 bytes
 .../__pycache__/calc_info_pb2_grpc.cpython-38.pyc  | Bin 0 -> 4065 bytes
 .../smilesdb/DjangoMiddleware/calc_info_pb2.py |  47 ++
 .../DjangoMiddleware/calc_info_pb2_grpc.py | 165 +
 .../smilesdb/DjangoMiddleware/calcinfo/__init__.py |   0
 .../calcinfo/__pycache__/__init__.cpython-38.pyc   | Bin 0 -> 151 bytes
 .../calcinfo/__pycache__/admin.cpython-38.pyc  | Bin 0 -> 192 bytes
 .../calcinfo/__pycache__/apps.cpython-38.pyc   | Bin 0 -> 431 bytes
 .../calcinfo/__pycache__/models.cpython-38.pyc | Bin 0 -> 189 bytes
 .../calcinfo/__pycache__/urls.cpython-38.pyc   | Bin 0 -> 274 bytes
 .../calcinfo/__pycache__/views.cpython-38.pyc  | Bin 0 -> 1294 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 0 -> 162 bytes
 .../smilesdb/DjangoMiddleware/calcinfo/models.py   |   3 +
 .../smilesdb/DjangoMiddleware/calcinfo/tests.py|   3 +
 .../smilesdb/DjangoMiddleware/calcinfo/urls.py |   7 +
 .../smilesdb/DjangoMiddleware/calcinfo/views.py|  37 +
 gsoc2022/smilesdb/DjangoMiddleware/db.sqlite3  | Bin 0 -> 131072 bytes
 gsoc2022/smilesdb/DjangoMiddleware/manage.py   |  22 +++
 .../DjangoMiddleware/protos/calc_info.proto|  40 +
 gsoc2022/smilesdb/DjangoMiddleware/requirements|  11 ++
 32 files changed, 528 insertions(+)

diff --git a/gsoc2022/smilesdb/DjangoMiddleware/DjangoMiddleware/__init__.py 
b/gsoc2022/smilesdb/DjangoMiddleware/DjangoMiddleware/__init__.py
new file mode 100644
index ..e69de29b
diff --git 
a/gsoc2022/smilesdb/DjangoMiddleware/DjangoMiddleware/__pycache__/__init__.cpython-38.pyc
 
b/gsoc2022/smilesdb/DjangoMiddleware/DjangoMiddleware/__pycache__/__init__.cpython-38.pyc
new file mode 100644
index ..6b2e1d71
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 differ
diff --git 
a/gsoc2022/smilesdb/DjangoMiddleware/DjangoMiddleware/__pycache__/settings.cpython-38.pyc
 
b/gsoc2022/smilesdb/DjangoMiddleware/DjangoMiddleware/__pycache__/settings.cpython-38.pyc
new file mode 100644
index ..fc36eeec
Binary files /dev/null and 
b/gsoc2022/smilesdb/DjangoMiddleware/DjangoMiddleware/__pycache__/settings.cpython-38.pyc
 differ
diff --git 
a/gsoc2022/smilesdb/DjangoMiddleware/DjangoMiddleware/__pycache__/urls.cpython-38.pyc
 
b/gsoc2022/smilesdb/DjangoMiddleware/DjangoMiddleware/__pycache__/urls.cpython-38.pyc
new file mode 100644
index ..75300992
Binary files /dev/null and 
b/gsoc2022/smilesdb/DjangoMiddleware/DjangoMiddleware/__pycache__/urls.cpython-38.pyc
 differ
diff --git 
a/gsoc2022/smilesdb/DjangoMiddleware/DjangoMiddleware/__pycache__/wsgi.cpython-38.pyc
 
b/gsoc2022/smilesdb/DjangoMiddleware/DjangoMiddleware/__pycache__/wsgi.cpython-38.pyc
new file mode 100644
index ..409a6dc4
Binary files /dev/null and 
b/gsoc2022/smilesdb/DjangoMiddleware/DjangoMiddleware/__pycache__/wsgi.cpython-38.pyc
 differ
diff --git a/gsoc2022/smilesdb/DjangoMiddleware/DjangoMiddleware/asgi.py 
b/gsoc2022/smilesdb/DjangoMiddleware/DjangoMiddleware/asgi.py
new file mode 100644
index ..a8c4d0c7
--- /dev/null
+++ b/gsoc2022/smilesdb/DjangoMiddleware/DjangoMiddleware/asgi.py
@@ -0,0 +1,16 @@
+"""
+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/settin

[airavata-sandbox] 12/26: Updated configuration

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smarru pushed a commit to branch master
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commit e01a18e86ec55fd7cdbfa756e20172adafa111f0
Author: Bhavesh Asanabada 
AuthorDate: Thu Jul 14 22:32:42 2022 +0530

Updated configuration
---
 gsoc2022/smilesdb/smiles_dashboard/package.json | 3 ++-
 1 file changed, 2 insertions(+), 1 deletion(-)

diff --git a/gsoc2022/smilesdb/smiles_dashboard/package.json 
b/gsoc2022/smilesdb/smiles_dashboard/package.json
index ac582f16..4bdfdfb0 100644
--- a/gsoc2022/smilesdb/smiles_dashboard/package.json
+++ b/gsoc2022/smilesdb/smiles_dashboard/package.json
@@ -9,7 +9,8 @@
   },
   "dependencies": {
 "core-js": "^3.8.3",
-"vue": "^3.2.13"
+"vue": "^3.2.13",
+"vue-router": "^4.0.13"
   },
   "devDependencies": {
 "@babel/core": "^7.12.16",

[airavata-sandbox] 16/26: Updated README

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This is an automated email from the ASF dual-hosted git repository.

smarru pushed a commit to branch master
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commit 905fa509fe7f8b6cf615ed901cc2f875114352b4
Author: Bhavesh Asanabada 
AuthorDate: Thu Jul 14 23:50:47 2022 +0530

Updated README
---
 gsoc2022/smilesdb/README.md | 172 +++-
 1 file changed, 171 insertions(+), 1 deletion(-)

diff --git a/gsoc2022/smilesdb/README.md b/gsoc2022/smilesdb/README.md
index 165c960e..44208696 100644
--- a/gsoc2022/smilesdb/README.md
+++ b/gsoc2022/smilesdb/README.md
@@ -1 +1,171 @@
-On Build!!
+# Small Molecule Ionic Lattices (SMILES) Data Models
+
+![GitHub last 
commit](https://img.shields.io/github/last-commit/bhavesh-asana/airavata-sandbox)
+![GitHub commit activity 
(branch)](https://img.shields.io/github/commit-activity/w/bhavesh-asana/airavata-sandbox/master)
+![GitHub code size in 
bytes](https://img.shields.io/github/languages/code-size/bhavesh-asana/airavata-sandbox)
+
+
+This project is an experimental workspace used for the Scientific and Chemical 
Engineering.
+This is an end to end implementation of [SEAGrid Data 
Catalog](https://data.seagrid.org/),
+embedded with the new features and advanced data visualization techniques.
+
+**DEVELOPMENT GOALS**
+1. Create a robust database to reduce the latency.
+2. Redesigning the data models.
+3. Synchronising the data with a user dashboard.
+
+# Table of Contents
+
+* [Pre-requisites](#pre-requisites)
+  * [Technical Stack](#technical-stack)
+  * [Set up the code directory](#set-up-the-code-directory)
+* [How to run the project](#how-to-run-the-project)
+  * [Server Initialization](#server-initialization)
+  * [Middleware (Django Application)](#middleware-django-application)
+  * [Client Initialization](#client-initialization)
+  * [Database](#database)
+* [Mongo Compass GUI](#visualize-the-data-with-mongo-compass-gui)
+* [Mongo Shell](#visualize-with-mongo-shell)
+  * [Test Data](#test-data)
+* [References](#references)
+* [The Team](#the-team)
+
+# Pre-requisites
+
+## Technical Stack
+
+| **Function** | **Language/Framework/Technology 
used**|
+|--|---|
+| Backend Microservice Implementation  | 1. Spring Boot (Java)  
_(Suggested tool IntelliJ)_   |
+| Frontend Microservice Implementation | 1. Django (Python)   2. Vue JS  
 _(Suggested tool PyCharm)_ |
+| Inter-service Communication  | 1. Google Remote Procedure Calls 
(gRPC)  2. REST framework   |
+| Database Management  | MongoDB (Mongo Compass)   
|
+| Performance Testing  | BloomRPC (for gRPC routing)   
|
+
+## Set up the code directory
+
+**Suggestion:** For the effective workspace management, use IntelliJ and 
PyCharm.
+**Working on Mac Environment:** 
+
+1. Open the terminal application and set the path to the home directory,
+   use the command `cd ~/` to move to the home directory.
+2. Clone the GitHub repository and use the following commands to change
+   the working directory.
+   ```commandline
+git init
+git clone https://github.com/bhavesh-asana/airavata-sandbox.git
+cd ~/airavata-sandbox/gsoc2022/smilesdb/
+```
+
+# How to run the project
+
+## Server Initialization
+
+On the server side, Spring Boot with the Maven configuration is being used to 
interact with the database
+and define the proto schema. To start the communication services the
+Google Remote Procedure Call (gRPC) stub is implemented in Java, which
+acts as a server and helps to transfer the data effectively with the
+connected clients across the distributed systems.
+
+Open the **Server** directory in IntelliJ and follow the steps to run the
+server application.
+
+1. Open the terminal in IntelliJ and ensure you are in the **Server** path.
+2. Run the following commands to build the maven project. 
+   ```commandline
+   mvn clean compile install
+   ```
+3. In the target folder, make the following directories as a source root.
+1. target/classes
+2. target/generated-sources/protobuf/grpc-java
+3. target/generated-sources/protobuf/java
+4. Run the **ServerApplication** to initialise the server.
+5. On successful build, you can find the following message in the 
terminal.
+   **message:** Server running successfully
+   This ensures that the server is listening at the local port 7594.
+
+## Middleware (Django Application)
+Open the **DjangoMiddleware** directory in Pycharm and follow the steps to run 
the middleware.
+1. Create a virtual environment using the following command. 
+   Strictly recommended to use Python version 3.8.3 to build the 
**grpcio-wheel**.
+  ```commandline
+  $ python -m venv 
+  $ source /bin

[airavata-sandbox] 15/26: Added navbar component

[smarru]

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smarru pushed a commit to branch master
in repository https://gitbox.apache.org/repos/asf/airavata-sandbox.git

commit 4e6589b78d6eb5ed1c9e3c598859f8dc41c5566f
Author: Bhavesh Asanabada 
AuthorDate: Thu Jul 14 23:01:04 2022 +0530

Added navbar component
---
 .../smiles_dashboard/src/components/SEAGrid.vue| 37 ++
 1 file changed, 37 insertions(+)

diff --git a/gsoc2022/smilesdb/smiles_dashboard/src/components/SEAGrid.vue 
b/gsoc2022/smilesdb/smiles_dashboard/src/components/SEAGrid.vue
index af7f29cb..ac225e81 100644
--- a/gsoc2022/smilesdb/smiles_dashboard/src/components/SEAGrid.vue
+++ b/gsoc2022/smilesdb/smiles_dashboard/src/components/SEAGrid.vue
@@ -1,4 +1,11 @@
 
+   
+
+  SEAGrid Data Catalog
+  Search
+  Directory 
Browser
+
+  
   
 Welcome to SEAGrid Data Catalog
 SEAGrid Data Catalog provides a sleek web interface for you to browse 
and
@@ -22,6 +29,7 @@ export default {
 
 
 
+
   .container{
 width: 70em;
 height: 80em;
@@ -46,4 +54,33 @@ export default {
 height: 500px;
 width: 700px;
   }
+.navbar{
+height: 3em;
+width:100%;
+background-color: #2C2C2C;
+display: flex;
+justify-content: space-between;
+align-items: center;
+  }
+
+  li{
+color: #edf0f1;
+text-decoration: none;
+font-size: 18px;
+  }
+
+  .navbar li{
+display: inline-block;
+padding: 0px 20px;
+  }
+
+  .navbar a{
+color: #edf0f1;
+text-decoration: none;
+transition: all 0.3s ease 0s;
+  }
+
+  .navbar a:hover{
+color: #0088a9;
+  }
 
\ No newline at end of file

[airavata-sandbox] 18/26: added dependency

[smarru]

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smarru pushed a commit to branch master
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commit 996ef33baba43b509ce93738e7cfdd0538c167b4
Author: Bhavesh Asanabada 
AuthorDate: Mon Jul 25 11:46:20 2022 +0530

added dependency
---
 gsoc2022/smilesdb/smiles_dashboard/package.json | 2 ++
 1 file changed, 2 insertions(+)

diff --git a/gsoc2022/smilesdb/smiles_dashboard/package.json 
b/gsoc2022/smilesdb/smiles_dashboard/package.json
index 4bdfdfb0..2fd31c76 100644
--- a/gsoc2022/smilesdb/smiles_dashboard/package.json
+++ b/gsoc2022/smilesdb/smiles_dashboard/package.json
@@ -8,6 +8,8 @@
 "lint": "vue-cli-service lint"
   },
   "dependencies": {
+"@auth0/auth0-vue": "^1.0.2",
+"axios": "^0.27.2",
 "core-js": "^3.8.3",
 "vue": "^3.2.13",
 "vue-router": "^4.0.13"

[airavata-sandbox] 14/26: updated SEAGrid home

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commit d1d9c666a887aaf5ed64ea86b91b74e06d732f55
Author: Bhavesh Asanabada 
AuthorDate: Thu Jul 14 22:35:57 2022 +0530

updated SEAGrid home
---
 .../smilesdb/smiles_dashboard/src/assets/architect.png | Bin 0 -> 487800 bytes
 1 file changed, 0 insertions(+), 0 deletions(-)

diff --git a/gsoc2022/smilesdb/smiles_dashboard/src/assets/architect.png 
b/gsoc2022/smilesdb/smiles_dashboard/src/assets/architect.png
new file mode 100644
index ..d7ab9b24
Binary files /dev/null and 
b/gsoc2022/smilesdb/smiles_dashboard/src/assets/architect.png differ

[airavata-sandbox] 13/26: updated source html

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commit cd50d15cc69f40048c7639778c9bd8baf8880110
Author: Bhavesh Asanabada 
AuthorDate: Thu Jul 14 22:35:04 2022 +0530

updated source html
---
 gsoc2022/smilesdb/smiles_dashboard/public/index.html | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/gsoc2022/smilesdb/smiles_dashboard/public/index.html 
b/gsoc2022/smilesdb/smiles_dashboard/public/index.html
index 3e5a1396..a766bb65 100644
--- a/gsoc2022/smilesdb/smiles_dashboard/public/index.html
+++ b/gsoc2022/smilesdb/smiles_dashboard/public/index.html
@@ -1,5 +1,5 @@
 
-
+
   
 
 

[airavata-sandbox] 21/26: Masked password field

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smarru pushed a commit to branch master
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commit 98d76a9b3c5191f351ba70e80b10eab377f29f72
Author: Bhavesh Asanabada 
AuthorDate: Mon Aug 22 17:48:07 2022 +0530

Masked password field
---
 gsoc2022/smilesdb/Migrations/migration.sh | 14 +++---
 1 file changed, 7 insertions(+), 7 deletions(-)

diff --git a/gsoc2022/smilesdb/Migrations/migration.sh 
b/gsoc2022/smilesdb/Migrations/migration.sh
index 1c312158..9d9f9210 100755
--- a/gsoc2022/smilesdb/Migrations/migration.sh
+++ b/gsoc2022/smilesdb/Migrations/migration.sh
@@ -1,24 +1,24 @@
 
-# echo 'b1h3a1v1e4s2h1' | openssl enc -aes-256-cbc -md sha512 -a -pbkdf2 -iter 
10 -salt -pass pass:'test@123'
+# echo '' | openssl enc -aes-256-cbc -md sha512 -a -pbkdf2 
-iter 10 -salt -pass pass:'test@123'
 
 # chmod 600 ./secret.txt
 
-# echo 'mysecretpassword' | openssl enc -base64 -e -aes-256-cbc -md sha512 -a 
-pbkdf2 -iter 10 -salt -pass pass:b1h3a1v1e4s2h1  > .secret.lck
+# echo 'mysecretpassword' | openssl enc -base64 -e -aes-256-cbc -md sha512 -a 
-pbkdf2 -iter 10 -salt -pass pass:  > .secret.lck
 
-# b1h3a1v1e4s2h1
+#  -> example: -pPass@123 
 
 
 echo creating database
-mysql -uroot -pb1h3a1v1e4s2h1 -e "create database OEstorage"
+mysql -uroot -p -e "create database OEstorage"
 
 echo Restoring Database
-mysql -h 127.0.0.1 -uroot -pb1h3a1v1e4s2h1 OEstorage < 
./data/dump_29july2022.sql
+mysql -h 127.0.0.1 -uroot -p OEstorage < 
./data/dump_29july2022.sql
 
 echo updating rows to replace double-quote
-mysql -h 127.0.0.1 -uroot -pb1h3a1v1e4s2h1 -DOEstorage < 
./data/moleculesUpdate.sql
+mysql -h 127.0.0.1 -uroot -p -DOEstorage < 
./data/moleculesUpdate.sql
 
 echo Generating JSON
-mysql -h 127.0.0.1 -uroot -pb1h3a1v1e4s2h1 -DOEstorage < ./data/molecule.sql > 
./data/molecule.temp1.json
+mysql -h 127.0.0.1 -uroot -p -DOEstorage < ./data/molecule.sql 
> ./data/molecule.temp1.json
 # rm ./data/molecule.json
 
 echo Replacing 'NULL' with ""

[airavata-sandbox] branch master updated (acb0eb95 -> 9d915509)

[smarru]

This is an automated email from the ASF dual-hosted git repository.

smarru pushed a change to branch master
in repository https://gitbox.apache.org/repos/asf/airavata-sandbox.git


from acb0eb95 README file updated
 new 0fb56458 Query SMILES Data
 new e7223634 Create README.md
 new b1320cef Added CRUD methods to MolData
 new 45179241 Resolved issues in calc_topology builder
 new cf320cfd defined api urls
 new 6e446b6c vue webpage
 new 3174daeb refactor client
 new bda01d7d added pom file
 new 4c550149 created login page
 new 224764ba created SEAGrid home page
 new a26cda17 Added router view
 new e01a18e8 Updated configuration
 new cd50d15c updated source html
 new d1d9c666 updated SEAGrid home
 new 4e6589b7 Added navbar component
 new 905fa509 Updated README
 new ec76f4c7 added stubs & code refactor
 new 996ef33b added dependency
 new d2260bb5 updated README
 new 60f0cd4d added migration script
 new 98d76a9b Masked password field
 new cabce699 modified files
 new b602ddf3 added UI components
 new 76c6e42b added the rpc streamline
 new cb4e1a20 added UI component
 new 9d915509 Update README

The 26 revisions listed above as "new" are entirely new to this
repository and will be described in separate emails.  The revisions
listed as "add" were already present in the repository and have only
been added to this reference.


Summary of changes:
 gsoc2022/smilesdb/Migrations/README.md |20 +
 .../smilesdb/Migrations/data/dump_29july2022.sql   | 18230 +++
 gsoc2022/smilesdb/Migrations/data/molecule.json| 1 +
 gsoc2022/smilesdb/Migrations/data/molecule.sql | 1 +
 gsoc2022/smilesdb/Migrations/data/molecule.sql.bkp | 1 +
 .../smilesdb/Migrations/data/moleculesUpdate.sql   | 5 +
 gsoc2022/smilesdb/Migrations/dropcollection.js | 3 +
 gsoc2022/smilesdb/Migrations/migration.sh  |36 +
 gsoc2022/smilesdb/README   | 1 -
 gsoc2022/smilesdb/README.md|   180 +
 gsoc2022/smilesdb/Server/.gitignore|33 +
 gsoc2022/smilesdb/Server/mvnw  |   316 +
 gsoc2022/smilesdb/Server/mvnw.cmd  |   188 +
 gsoc2022/smilesdb/Server/pom.xml   |   118 +
 .../src/main/java/com/smiles/CalcInfoImpl.java |   204 +
 .../src/main/java/com/smiles/MoleculeImpl.java |   372 +
 .../java/com/smiles/SpringServerApplication.java   |36 +
 .../smilesdb/Server/src/main/proto/calc_info.proto |85 +
 .../smilesdb/Server/src/main/proto/molecule.proto  |   119 +
 .../src/main/resources/application.properties  | 0
 .../com/smiles/SpringServerApplicationTests.java   |13 +
 gsoc2022/smilesdb/data-catalog/README.md   |24 +
 gsoc2022/smilesdb/data-catalog/babel.config.js | 5 +
 gsoc2022/smilesdb/data-catalog/jsconfig.json   |19 +
 gsoc2022/smilesdb/data-catalog/package.json|51 +
 gsoc2022/smilesdb/data-catalog/public/favicon.ico  |   Bin 0 -> 4286 bytes
 gsoc2022/smilesdb/data-catalog/public/index.html   |23 +
 gsoc2022/smilesdb/data-catalog/src/App.vue |30 +
 .../src/assets/data-catalog-overview.png   |   Bin 0 -> 464167 bytes
 gsoc2022/smilesdb/data-catalog/src/assets/logo.png |   Bin 0 -> 6849 bytes
 .../data-catalog/src/components/AppHeader.vue  |40 +
 .../data-catalog/src/components/CallBack.vue   |47 +
 .../data-catalog/src/components/NavBar.vue |42 +
 gsoc2022/smilesdb/data-catalog/src/main.js |22 +
 .../data-catalog/src/pages/AccountInfo.vue |29 +
 .../smilesdb/data-catalog/src/pages/DataSheet.vue  |17 +
 .../data-catalog/src/pages/DirectoryPage.vue   |13 +
 .../smilesdb/data-catalog/src/pages/HomePage.vue   |66 +
 .../smilesdb/data-catalog/src/pages/LoginPage.vue  |95 +
 .../smilesdb/data-catalog/src/pages/SearchPage.vue |   194 +
 gsoc2022/smilesdb/data-catalog/src/router.js   |45 +
 gsoc2022/smilesdb/data-catalog/vue.config.js   |24 +
 gsoc2022/smilesdb/data-catalog/yarn.lock   |  7079 +++
 gsoc2022/smilesdb/rpc_handler/calc_info_pb2.py |   137 +
 .../smilesdb/rpc_handler/calc_info_pb2_grpc.py |   198 +
 .../smilesdb/rpc_handler/dataHandler}/__init__.py  | 0
 .../__pycache__/__init__.cpython-38.pyc|   Bin 0 -> 169 bytes
 .../__pycache__/__init__.cpython-39.pyc|   Bin 0 -> 169 bytes
 .../dataHandler/__pycache__/admin.cpython-38.pyc   |   Bin 0 -> 210 bytes
 .../dataHandler/__pycache__/admin.cpython-39.pyc   |   Bin 0 -> 210 bytes
 .../dataHandler/__pycache__/apps.cpython-38.pyc|   Bin 0 -> 456 bytes
 .../dataHandler/__pycache__/apps.cpython-39.pyc|   Bin 0 -> 456 bytes
 .../dataHandler/__pycache__/models.cpython-38.pyc  |   Bin 0 -> 207 bytes
 .../dataHandler/__p

[airavata-sandbox] 17/26: added stubs & code refactor

[smarru]

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 ec76f4c70c89367308f9dadfcb8251f543e1b47c
Author: Bhavesh Asanabada 
AuthorDate: Mon Jul 25 11:25:12 2022 +0530

added stubs & code refactor
---
 .../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/views.py|   9 +-
 gsoc2022/smilesdb/DjangoMiddleware/molecule_pb2.py |  48 ++
 .../smilesdb/DjangoMiddleware/molecule_pb2_grpc.py | 165 +
 .../smilesdb/smiles_dashboard/public/favicon.ico   | Bin 4286 -> 0 bytes
 .../smiles_dashboard/src/components/HelloWorld.vue |  58 
 gsoc2022/smilesdb/smiles_dashboard/src/main.js |   7 +-
 gsoc2022/smilesdb/smiles_dashboard/src/routers.js  |  11 +-
 11 files changed, 674 insertions(+), 64 deletions(-)

diff --git a/gsoc2022/smilesdb/DjangoMiddleware/calc_properties_pb2.py 
b/gsoc2022/smilesdb/DjangoMiddleware/calc_properties_pb2.py
new file mode 100644
index ..3dfebd95
--- /dev/null
+++ b/gsoc2022/smilesdb/DjangoMiddleware/calc_properties_pb2.py
@@ -0,0 +1,56 @@
+# -*- 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
new file mode 100644
index ..08a13ca0
--- /dev/null
+++ b/gsoc2022/smilesdb/DjangoMiddleware/calc_properties_pb2_grpc.py
@@ -0,0 +1,165 @@
+# 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.

[airavata-sandbox] 02/26: Create README.md

[smarru]

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 e72236340897cb0d4ab4c30f8b12493ba1f3a77b
Author: Bhavesh Asanabada <62237873+bhavesh-as...@users.noreply.github.com>
AuthorDate: Mon Jun 27 08:08:58 2022 +0530

Create README.md
---
 gsoc2022/smilesdb/README.md | 1 +
 1 file changed, 1 insertion(+)

diff --git a/gsoc2022/smilesdb/README.md b/gsoc2022/smilesdb/README.md
new file mode 100644
index ..165c960e
--- /dev/null
+++ b/gsoc2022/smilesdb/README.md
@@ -0,0 +1 @@
+On Build!!

[airavata-sandbox] 23/26: added UI components

[smarru]

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 b602ddf3db45617c3468172957bc5c52a10a2339
Author: Bhavesh Asanabada 
AuthorDate: Mon Sep 12 13:44:23 2022 +0530

added UI components
---
 gsoc2022/smilesdb/data-catalog | 1 +
 1 file changed, 1 insertion(+)

diff --git a/gsoc2022/smilesdb/data-catalog b/gsoc2022/smilesdb/data-catalog
new file mode 16
index ..0394951e
--- /dev/null
+++ b/gsoc2022/smilesdb/data-catalog
@@ -0,0 +1 @@
+Subproject commit 0394951e6c2e3a178b1539165d20486eee0e20bd

[airavata-sandbox] 24/26: added the rpc streamline

[smarru]

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 76c6e42b3ad98501cb9bc2663c839e7494112c71
Author: Bhavesh Asanabada 
AuthorDate: Mon Sep 12 13:45:35 2022 +0530

added the rpc streamline
---
 gsoc2022/smilesdb/rpc_handler/calc_info_pb2.py | 137 ++
 .../smilesdb/rpc_handler/calc_info_pb2_grpc.py | 198 +
 .../smilesdb/rpc_handler/dataHandler/__init__.py   |   0
 .../__pycache__/__init__.cpython-38.pyc| Bin 0 -> 169 bytes
 .../__pycache__/__init__.cpython-39.pyc| Bin 0 -> 169 bytes
 .../dataHandler/__pycache__/admin.cpython-38.pyc   | Bin 0 -> 210 bytes
 .../dataHandler/__pycache__/admin.cpython-39.pyc   | Bin 0 -> 210 bytes
 .../dataHandler/__pycache__/apps.cpython-38.pyc| Bin 0 -> 456 bytes
 .../dataHandler/__pycache__/apps.cpython-39.pyc| Bin 0 -> 456 bytes
 .../dataHandler/__pycache__/models.cpython-38.pyc  | Bin 0 -> 207 bytes
 .../dataHandler/__pycache__/models.cpython-39.pyc  | Bin 0 -> 207 bytes
 .../dataHandler/__pycache__/urls.cpython-38.pyc| Bin 0 -> 290 bytes
 .../dataHandler/__pycache__/urls.cpython-39.pyc| Bin 0 -> 290 bytes
 .../dataHandler/__pycache__/views.cpython-38.pyc   | Bin 0 -> 2643 bytes
 .../dataHandler/__pycache__/views.cpython-39.pyc   | Bin 0 -> 2655 bytes
 gsoc2022/smilesdb/rpc_handler/dataHandler/admin.py |   3 +
 gsoc2022/smilesdb/rpc_handler/dataHandler/apps.py  |   6 +
 .../rpc_handler/dataHandler/code_gen/__init__.py   |   0
 .../code_gen/__pycache__/__init__.cpython-39.pyc   | Bin 0 -> 178 bytes
 .../rpc_handler/dataHandler/migrations/__init__.py |   0
 .../migrations/__pycache__/__init__.cpython-38.pyc | Bin 0 -> 180 bytes
 .../migrations/__pycache__/__init__.cpython-39.pyc | Bin 0 -> 180 bytes
 .../smilesdb/rpc_handler/dataHandler/models.py |   3 +
 .../rpc_handler/dataHandler/protos/calc_info.proto |  73 
 .../rpc_handler/dataHandler/protos/molecule.proto  | 116 
 gsoc2022/smilesdb/rpc_handler/dataHandler/tests.py |   3 +
 gsoc2022/smilesdb/rpc_handler/dataHandler/urls.py  |   7 +
 gsoc2022/smilesdb/rpc_handler/dataHandler/views.py | 128 +
 gsoc2022/smilesdb/rpc_handler/db.sqlite3   |   0
 gsoc2022/smilesdb/rpc_handler/manage.py|  22 +++
 gsoc2022/smilesdb/rpc_handler/molecule_pb2.py  | 137 ++
 gsoc2022/smilesdb/rpc_handler/molecule_pb2_grpc.py | 198 +
 gsoc2022/smilesdb/rpc_handler/requirements.txt |  12 ++
 .../smilesdb/rpc_handler/rpc_handler/__init__.py   |   0
 .../__pycache__/__init__.cpython-38.pyc| Bin 0 -> 169 bytes
 .../__pycache__/__init__.cpython-39.pyc| Bin 0 -> 169 bytes
 .../__pycache__/settings.cpython-38.pyc| Bin 0 -> 2516 bytes
 .../__pycache__/settings.cpython-39.pyc| Bin 0 -> 2446 bytes
 .../rpc_handler/__pycache__/urls.cpython-38.pyc| Bin 0 -> 1006 bytes
 .../rpc_handler/__pycache__/urls.cpython-39.pyc| Bin 0 -> 1006 bytes
 .../rpc_handler/__pycache__/wsgi.cpython-38.pyc| Bin 0 -> 580 bytes
 .../rpc_handler/__pycache__/wsgi.cpython-39.pyc| Bin 0 -> 580 bytes
 gsoc2022/smilesdb/rpc_handler/rpc_handler/asgi.py  |  16 ++
 .../smilesdb/rpc_handler/rpc_handler/settings.py   | 118 
 gsoc2022/smilesdb/rpc_handler/rpc_handler/urls.py  |  24 +++
 gsoc2022/smilesdb/rpc_handler/rpc_handler/wsgi.py  |  16 ++
 46 files changed, 1217 insertions(+)

diff --git a/gsoc2022/smilesdb/rpc_handler/calc_info_pb2.py 
b/gsoc2022/smilesdb/rpc_handler/calc_info_pb2.py
new file mode 100644
index ..892bcfd3
--- /dev/null
+++ b/gsoc2022/smilesdb/rpc_handler/calc_info_pb2.py
@@ -0,0 +1,137 @@
+# -*- 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\x08\x63\x61lcInfo\"\x8a\x01\n\x08\x43\x61lcInfo\x12\x13\n\x0b\x63\x61lcinfo_id\x18\x01
 \x01(\t\x12\x0e\n\x06smiles\x18\x02 \x01(\t\x12\x0e\n\x06nbasis\x18\x03 
\x01(\x03\x12\x0b\n\x03nmo\x18\x04 \x01(\x03\x12\x0e\n\x06nalpha\x18\x05 
\x01(\x03\x12\r\n\x05nbeta\x18\x06 \x01(\x03\x12\r\n\x05natom\x18\x07 
\x01(\x03\x12\x0e\n\x06\x65nergy\x18\x08 
\x01(\x01\"9\n\x11\x43reateInfoRequest\x12$\n\x08\x63\x61 [...]
+
+
+
+_CALCINFO = DESCRIPTOR.message_types_by_name

[airavata-sandbox] 01/26: Query SMILES Data

[smarru]

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 0fb564587eb7dfd61c480a46129e5330f5c4bb7d
Author: Bhavesh Asanabada 
AuthorDate: Mon Jun 27 08:04:08 2022 +0530

Query SMILES Data
---
 gsoc2022/smilesdb/README   |   1 -
 gsoc2022/smilesdb/Server/.gitignore|  33 +
 gsoc2022/smilesdb/Server/mvnw  | 316 +
 gsoc2022/smilesdb/Server/mvnw.cmd  | 188 +
 .../main/java/com/smiles/ServerApplication.java|  24 +
 .../src/main/java/com/smiles/SpringContext.java|  21 +
 .../java/com/smiles/calcinfo/CalcInfoEntity.java   |  94 +++
 .../java/com/smiles/calcinfo/CalcInfoImpl.java |  91 +++
 .../java/com/smiles/calcinfo/CalcInfoRepo.java |  13 +
 .../java/com/smiles/calcprops/CalcPropsEntity.java | 616 +
 .../java/com/smiles/calcprops/CalcPropsImpl.java   | 149 
 .../java/com/smiles/calcprops/CalcPropsRepo.java   |   8 +
 .../smiles/calctopology/CalcTopologyEntity.java| 123 
 .../com/smiles/calctopology/CalcTopologyImpl.java  |  52 ++
 .../com/smiles/calctopology/CalcTopologyRepo.java  |  10 +
 .../java/com/smiles/molData/MoleculeEntity.java| 761 +
 .../main/java/com/smiles/molData/MoleculeImpl.java |  97 +++
 .../main/java/com/smiles/molData/MoleculeRepo.java |   8 +
 .../smilesdb/Server/src/main/proto/calc_info.proto |  49 ++
 .../Server/src/main/proto/calc_properties.proto| 117 
 .../Server/src/main/proto/calc_topology.proto  |  53 ++
 .../smilesdb/Server/src/main/proto/molecule.proto  | 119 
 .../src/main/resources/application.properties  |   2 +
 .../java/com/smiles/ServerApplicationTests.java|  13 +
 .../__pycache__/calc_info_pb2.cpython-38.pyc   | Bin 0 -> 1629 bytes
 .../__pycache__/calc_info_pb2_grpc.cpython-38.pyc  | Bin 0 -> 4098 bytes
 gsoc2022/smilesdb/smiles_client/calc_info_pb2.py   |  47 ++
 .../smilesdb/smiles_client/calc_info_pb2_grpc.py   | 165 +
 gsoc2022/smilesdb/smiles_client/main.py|  56 ++
 .../smilesdb/smiles_client/proto/calc_info.proto   |  40 ++
 30 files changed, 3265 insertions(+), 1 deletion(-)

diff --git a/gsoc2022/smilesdb/README b/gsoc2022/smilesdb/README
deleted file mode 100644
index 4ea7287d..
--- a/gsoc2022/smilesdb/README
+++ /dev/null
@@ -1 +0,0 @@
-GSoC project to create databases for smiles
diff --git a/gsoc2022/smilesdb/Server/.gitignore 
b/gsoc2022/smilesdb/Server/.gitignore
new file mode 100644
index ..549e00a2
--- /dev/null
+++ b/gsoc2022/smilesdb/Server/.gitignore
@@ -0,0 +1,33 @@
+HELP.md
+target/
+!.mvn/wrapper/maven-wrapper.jar
+!**/src/main/**/target/
+!**/src/test/**/target/
+
+### STS ###
+.apt_generated
+.classpath
+.factorypath
+.project
+.settings
+.springBeans
+.sts4-cache
+
+### IntelliJ IDEA ###
+.idea
+*.iws
+*.iml
+*.ipr
+
+### NetBeans ###
+/nbproject/private/
+/nbbuild/
+/dist/
+/nbdist/
+/.nb-gradle/
+build/
+!**/src/main/**/build/
+!**/src/test/**/build/
+
+### VS Code ###
+.vscode/
diff --git a/gsoc2022/smilesdb/Server/mvnw b/gsoc2022/smilesdb/Server/mvnw
new file mode 100755
index ..8a8fb228
--- /dev/null
+++ b/gsoc2022/smilesdb/Server/mvnw
@@ -0,0 +1,316 @@
+#!/bin/sh
+# 
+# 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
+#
+#https://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.
+# 
+
+# 
+# Maven Start Up Batch script
+#
+# Required ENV vars:
+# --
+#   JAVA_HOME - location of a JDK home dir
+#
+# Optional ENV vars
+# -
+#   M2_HOME - location of maven2's installed home dir
+#   MAVEN_OPTS - parameters passed to the Java VM when running Maven
+# e.g. to debug Maven itself, use
+#   set MAVEN_OPTS=-Xdebug 
-Xrunjdwp:transport=dt_socket,server=y,suspend=y,address=8000
+#   MAVEN_SKIP_RC - flag to disable loading of mavenrc files
+# 

[airavata-sandbox] 07/26: refactor client

[smarru]

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 3174daebd5f8f93f4f33efacf498018cf0835607
Author: Bhavesh Asanabada 
AuthorDate: Mon Jul 4 06:20:34 2022 +0530

refactor client
---
 .../__pycache__/calc_info_pb2.cpython-38.pyc   | Bin 1629 -> 0 bytes
 .../__pycache__/calc_info_pb2_grpc.cpython-38.pyc  | Bin 4098 -> 0 bytes
 gsoc2022/smilesdb/smiles_client/calc_info_pb2.py   |  47 --
 .../smilesdb/smiles_client/calc_info_pb2_grpc.py   | 165 -
 gsoc2022/smilesdb/smiles_client/main.py|  56 ---
 .../smilesdb/smiles_client/proto/calc_info.proto   |  40 -
 6 files changed, 308 deletions(-)

diff --git 
a/gsoc2022/smilesdb/smiles_client/__pycache__/calc_info_pb2.cpython-38.pyc 
b/gsoc2022/smilesdb/smiles_client/__pycache__/calc_info_pb2.cpython-38.pyc
deleted file mode 100644
index 7d70f051..
Binary files 
a/gsoc2022/smilesdb/smiles_client/__pycache__/calc_info_pb2.cpython-38.pyc and 
/dev/null differ
diff --git 
a/gsoc2022/smilesdb/smiles_client/__pycache__/calc_info_pb2_grpc.cpython-38.pyc 
b/gsoc2022/smilesdb/smiles_client/__pycache__/calc_info_pb2_grpc.cpython-38.pyc
deleted file mode 100644
index 3776d2a0..
Binary files 
a/gsoc2022/smilesdb/smiles_client/__pycache__/calc_info_pb2_grpc.cpython-38.pyc 
and /dev/null differ
diff --git a/gsoc2022/smilesdb/smiles_client/calc_info_pb2.py 
b/gsoc2022/smilesdb/smiles_client/calc_info_pb2.py
deleted file mode 100644
index 37a1074a..
--- a/gsoc2022/smilesdb/smiles_client/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/smiles_client/calc_info_pb2_grpc.py 
b/gsoc2022/smilesdb/smiles_client/calc_info_pb2_grpc.py
deleted file mode 100644
index dcb4a1b5..
--- a/gsoc2022/smilesdb/smiles_client/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.CreateCalcInf

[airavata-sandbox] 08/26: added pom file

[smarru]

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 bda01d7d23c53795e198e5efbf57303124a954ae
Author: Bhavesh Asanabada 
AuthorDate: Thu Jul 14 18:31:16 2022 +0530

added pom file
---
 gsoc2022/smilesdb/Server/pom.xml | 91 
 1 file changed, 91 insertions(+)

diff --git a/gsoc2022/smilesdb/Server/pom.xml b/gsoc2022/smilesdb/Server/pom.xml
new file mode 100644
index ..cdf8e940
--- /dev/null
+++ b/gsoc2022/smilesdb/Server/pom.xml
@@ -0,0 +1,91 @@
+
+http://maven.apache.org/POM/4.0.0; 
xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance;
+ xsi:schemaLocation="http://maven.apache.org/POM/4.0.0 
https://maven.apache.org/xsd/maven-4.0.0.xsd;>
+4.0.0
+
+org.springframework.boot
+spring-boot-starter-parent
+2.7.0
+ 
+
+com.smiles
+Server
+0.0.1-SNAPSHOT
+Server
+Server
+
+18
+
+
+
+org.springframework.boot
+spring-boot-starter
+
+
+org.springframework.boot
+spring-boot-starter-test
+test
+
+
+org.springframework.boot
+spring-boot-starter-data-mongodb
+
+
+io.grpc
+grpc-netty-shaded
+1.47.0
+runtime
+
+
+io.grpc
+grpc-protobuf
+1.47.0
+
+
+io.grpc
+grpc-stub
+1.47.0
+
+ 
+org.apache.tomcat
+annotations-api
+6.0.53
+provided
+
+
+
+
+
+
+kr.motd.maven
+os-maven-plugin
+1.6.2
+
+
+
+
+org.springframework.boot
+spring-boot-maven-plugin
+
+
+org.xolstice.maven.plugins
+protobuf-maven-plugin
+0.6.1
+
+
com.google.protobuf:protoc:3.19.2:exe:${os.detected.classifier}
+grpc-java
+
io.grpc:protoc-gen-grpc-java:1.47.0:exe:${os.detected.classifier}
+
+
+
+
+compile
+compile-custom
+
+
+
+
+
+
+
+

[airavata-sandbox] 03/26: Added CRUD methods to MolData

[smarru]

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 b1320cef005d06cb8bd44a2892023dab8d86ec6b
Author: Bhavesh Asanabada 
AuthorDate: Mon Jun 27 14:16:25 2022 +0530

Added CRUD methods to MolData
---
 .../java/com/smiles/calcinfo/CalcInfoImpl.java |  2 -
 .../java/com/smiles/calcinfo/CalcInfoRepo.java |  2 +-
 .../java/com/smiles/calcprops/CalcPropsEntity.java |  2 +
 .../java/com/smiles/calcprops/CalcPropsImpl.java   | 15 ++--
 .../java/com/smiles/calcprops/CalcPropsRepo.java   |  4 +-
 .../com/smiles/calctopology/CalcTopologyImpl.java  |  4 +-
 .../main/java/com/smiles/molData/MoleculeImpl.java | 82 +-
 7 files changed, 98 insertions(+), 13 deletions(-)

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
index 3798ca5e..221bf9cc 100644
--- 
a/gsoc2022/smilesdb/Server/src/main/java/com/smiles/calcinfo/CalcInfoImpl.java
+++ 
b/gsoc2022/smilesdb/Server/src/main/java/com/smiles/calcinfo/CalcInfoImpl.java
@@ -77,7 +77,6 @@ public class CalcInfoImpl extends 
CalcInfoServiceGrpc.CalcInfoServiceImplBase {
 responseObserver.onCompleted();
 }
 
-
 @Override
 public void deleteCalcInfo(com.smiles.CalcInfoRequest request,

io.grpc.stub.StreamObserver responseObserver) {
@@ -87,5 +86,4 @@ public class CalcInfoImpl extends 
CalcInfoServiceGrpc.CalcInfoServiceImplBase {
 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
index 37611c92..2abe1fb0 100644
--- 
a/gsoc2022/smilesdb/Server/src/main/java/com/smiles/calcinfo/CalcInfoRepo.java
+++ 
b/gsoc2022/smilesdb/Server/src/main/java/com/smiles/calcinfo/CalcInfoRepo.java
@@ -4,7 +4,7 @@ import 
org.springframework.data.mongodb.repository.MongoRepository;
 
 public interface CalcInfoRepo extends MongoRepository {
 
-public CalcInfoEntity findByNalpha(long nalpha);
+//public CalcInfoEntity findByNalpha(long nalpha);
 
 public CalcInfoEntity findBySMILES(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
index e9b495c3..dbcbb1bd 100644
--- 
a/gsoc2022/smilesdb/Server/src/main/java/com/smiles/calcprops/CalcPropsEntity.java
+++ 
b/gsoc2022/smilesdb/Server/src/main/java/com/smiles/calcprops/CalcPropsEntity.java
@@ -1,11 +1,13 @@
 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
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
index 3aec2474..47ca39c7 100644
--- 
a/gsoc2022/smilesdb/Server/src/main/java/com/smiles/calcprops/CalcPropsImpl.java
+++ 
b/gsoc2022/smilesdb/Server/src/main/java/com/smiles/calcprops/CalcPropsImpl.java
@@ -15,8 +15,8 @@ public class CalcPropsImpl extends 
CalcPropsServiceGrpc.CalcPropsServiceImplBase
 public void getCalcProps(CalcPropsRequest request, 
StreamObserver responseObserver) {
 //super.getCalcInfo(request, responseObserver);
 
-CalcPropsEntity calcProps = 
repo1.findByPDB(request.getCalcPropsQuery());
-System.out.println(calcProps);
+CalcPropsEntity calcProps = 
repo1.findBySMILES(request.getCalcPropsQuery());
+System.out.println(calcProps.toString());
 
 CalcProps reply = CalcProps.newBuilder()
 .setInChI(calcProps.getInChI())
@@ -69,7 +69,9 @@ public class CalcPropsImpl extends 
CalcPropsServiceGrpc.CalcPropsServiceImplBase
 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
@@ -77,7 +79,7 @@ public class CalcPropsImpl extends 
CalcPropsServiceGrpc.CalcPropsServiceImplBase
 //super.updateCalcProps(request, responseObserver);
 CalcProps calcProps = request.getCalcProp();
 System.out.println(request.getAllFields());
-CalcPropsEntity c2001 = (CalcPropsEntity) 
repo1.findByPDB(calcPr

[airavata-sandbox] 11/26: Added router view

[smarru]

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 a26cda1769902b8029cfa2b47cc74bc77bd851c5
Author: Bhavesh Asanabada 
AuthorDate: Thu Jul 14 22:30:04 2022 +0530

Added router view
---
 gsoc2022/smilesdb/smiles_dashboard/src/App.vue| 23 ++--
 gsoc2022/smilesdb/smiles_dashboard/src/main.js|  4 +++-
 gsoc2022/smilesdb/smiles_dashboard/src/routers.js | 26 +++
 3 files changed, 36 insertions(+), 17 deletions(-)

diff --git a/gsoc2022/smilesdb/smiles_dashboard/src/App.vue 
b/gsoc2022/smilesdb/smiles_dashboard/src/App.vue
index 98060536..41a32c3d 100644
--- a/gsoc2022/smilesdb/smiles_dashboard/src/App.vue
+++ b/gsoc2022/smilesdb/smiles_dashboard/src/App.vue
@@ -1,35 +1,26 @@
 
-
-
-  
+ 
 
 
 
-// import HelloWorld from './components/HelloWorld.vue'
-//
-// export default {
-//   name: 'App',
-//   components: {
-// HelloWorld
-//   }
 
-import CalcInfo from './components/CalcInfo.vue'
 
 export default {
   name: 'App',
-  components: {
-CalcInfo,
-  }
 }
 
 
 
+*{
+  margin: 0;
+  padding: 0;
+}
 #app {
-  font-family: Avenir, Helvetica, Arial, sans-serif;
+  font-family: "Times New Roman",sans-serif;
   -webkit-font-smoothing: antialiased;
   -moz-osx-font-smoothing: grayscale;
   text-align: center;
   color: #2c3e50;
-  margin-top: 60px;
+  margin-top: 0px;
 }
 
diff --git a/gsoc2022/smilesdb/smiles_dashboard/src/main.js 
b/gsoc2022/smilesdb/smiles_dashboard/src/main.js
index 01433bca..c982a778 100644
--- a/gsoc2022/smilesdb/smiles_dashboard/src/main.js
+++ b/gsoc2022/smilesdb/smiles_dashboard/src/main.js
@@ -1,4 +1,6 @@
 import { createApp } from 'vue'
 import App from './App.vue'
 
-createApp(App).mount('#app')
+import router from "./routers"
+
+createApp(App).use(router).mount('#app')
diff --git a/gsoc2022/smilesdb/smiles_dashboard/src/routers.js 
b/gsoc2022/smilesdb/smiles_dashboard/src/routers.js
new file mode 100644
index ..95358f32
--- /dev/null
+++ b/gsoc2022/smilesdb/smiles_dashboard/src/routers.js
@@ -0,0 +1,26 @@
+import LoginPage from "./components/LoginPage";
+import CalcInfo from "./components/CalcInfo";
+
+import {createRouter, createWebHistory} from 'vue-router';
+
+const routes = [
+{
+name: 'Home',
+component: LoginPage,
+path:'/'
+},
+{
+name: 'CalcInfo',
+component: CalcInfo,
+path:'/calcinfo'
+}
+];
+
+const router = createRouter(
+{
+history:createWebHistory(),
+routes
+}
+)
+
+export default router
\ No newline at end of file

[airavata-sandbox] 04/26: Resolved issues in calc_topology builder

[smarru]

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 451792418d020430d32d735a55d04e40c14d2401
Author: Bhavesh Asanabada 
AuthorDate: Tue Jun 28 12:03:12 2022 +0530

Resolved issues in calc_topology builder
---
 .../com/smiles/calctopology/CalcTopologyImpl.java  |  18 ++-
 .../com/smiles/calctopology/CalcTopologyRepo.java  |   1 +
 .../main/java/com/smiles/molData/MoleculeImpl.java | 146 ++---
 .../Server/src/main/proto/calc_topology.proto  |   6 +-
 4 files changed, 88 insertions(+), 83 deletions(-)

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
index 2b143010..22fa6ec2 100644
--- 
a/gsoc2022/smilesdb/Server/src/main/java/com/smiles/calctopology/CalcTopologyImpl.java
+++ 
b/gsoc2022/smilesdb/Server/src/main/java/com/smiles/calctopology/CalcTopologyImpl.java
@@ -7,6 +7,7 @@ import com.smiles.SpringContext;
 import io.grpc.stub.StreamObserver;
 
 import javax.swing.*;
+import java.util.ArrayList;
 
 public class CalcTopologyImpl extends 
CalcTopologyServiceGrpc.CalcTopologyServiceImplBase {
 
@@ -16,20 +17,23 @@ public class CalcTopologyImpl extends 
CalcTopologyServiceGrpc.CalcTopologyServic
 //super.getCalcTopology(request, responseObserver);
 System.out.println(request.getAllFields());
 
-CalcTopologyEntity calcTopology = 
repo.findBySymbols(request.getcalcTopologyQuery());
+ArrayList input = new ArrayList();
+input.add(request.getCalcTopologyQuery());
+CalcTopologyEntity calcTopology = repo.findBySymbols(input);
 System.out.println(calcTopology.toString());
 
 CalcTopology reply = CalcTopology.newBuilder()
-.setSymbols(calcTopology.getSymbols())
-.setGeometry(calcTopology.getGeometry())
+.addAllSymbols(calcTopology.getSymbols())
+.addAllGeometry(calcTopology.getGeometry())
 .setMolCharge(calcTopology.getMol_charge())
 .setMolMultiplicity(calcTopology.getMol_multiplicity())
 .setName(calcTopology.getName())
 .setComment(calcTopology.getComment())
-.setMassNumbers(calcTopology.getMass_numbers())
-.setMasses(calcTopology.getMasses())
-.setAtomicNumber(calcTopology.getAtomic_number())
-.setAtomLabels(calcTopology.getAtomic_labels()).build();
+.addAllMassNumbers(calcTopology.getMass_numbers())
+.addAllMasses(calcTopology.getMasses())
+.addAllAtomicNumber(calcTopology.getAtomic_number())
+.addAllAtomLabels(calcTopology.getAtomic_labels()).build();
+
 }
 
 @Override
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
index a4fd1b98..2efbebea 100644
--- 
a/gsoc2022/smilesdb/Server/src/main/java/com/smiles/calctopology/CalcTopologyRepo.java
+++ 
b/gsoc2022/smilesdb/Server/src/main/java/com/smiles/calctopology/CalcTopologyRepo.java
@@ -7,4 +7,5 @@ import java.util.List;
 public interface CalcTopologyRepo extends MongoRepository {
 
 public CalcTopologyEntity findBySymbols(List symbols);
+
 }
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
index 6cf4a7b5..1b961a1a 100644
--- 
a/gsoc2022/smilesdb/Server/src/main/java/com/smiles/molData/MoleculeImpl.java
+++ 
b/gsoc2022/smilesdb/Server/src/main/java/com/smiles/molData/MoleculeImpl.java
@@ -55,7 +55,7 @@ public class MoleculeImpl extends 
MoleculeServiceGrpc.MoleculeServiceImplBase {
 //super.createMolecule(request, responseObserver);
 Molecule molecule = request.getMolecule();
 System.out.println(request.getAllFields());
-MoleculeEntity c4001 = new MoleculeEntity(molecule.getCasNr(),
+MoleculeEntity moleculeEntity = new MoleculeEntity(molecule.getCasNr(),
 molecule.getSmiles(), molecule.getSmilesStereo(),
 molecule.getInchi(), molecule.getMolfileBlobSource(),
 molecule.getEmpFormula(), molecule.getEmpFormulaSort(),
@@ -78,7 +78,7 @@ public class MoleculeImpl extends 
MoleculeServiceGrpc.MoleculeServiceImplBase {
 molecule.getBpSource(), molecule.getSafetyR(), 
molecule.getSafetyH(), molecule.getSafetyS(),
 molecule.getSafetyP(), molecule.getSafetyText(), 
molecule.getSafetySym(),
 molecule.getSafetySymGhs(), molecule.getSafetySource(), 
molecule.getCommentMol());
-repo.save(c4001);
+repo.save(moleculeEntity);
 responseObserver.onNext

[airavata-sandbox] 09/26: created login page

[smarru]

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 4c550149add1057f4c15b28135df2891bdde5b6a
Author: Bhavesh Asanabada 
AuthorDate: Thu Jul 14 22:25:25 2022 +0530

created login page
---
 .../smiles_dashboard/src/assets/molecule_bg1.jpeg  | Bin 0 -> 852281 bytes
 .../smiles_dashboard/src/components/LoginPage.vue  | 115 +
 2 files changed, 115 insertions(+)

diff --git a/gsoc2022/smilesdb/smiles_dashboard/src/assets/molecule_bg1.jpeg 
b/gsoc2022/smilesdb/smiles_dashboard/src/assets/molecule_bg1.jpeg
new file mode 100644
index ..b4aecb92
Binary files /dev/null and 
b/gsoc2022/smilesdb/smiles_dashboard/src/assets/molecule_bg1.jpeg differ
diff --git a/gsoc2022/smilesdb/smiles_dashboard/src/components/LoginPage.vue 
b/gsoc2022/smilesdb/smiles_dashboard/src/components/LoginPage.vue
new file mode 100644
index ..e96306c0
--- /dev/null
+++ b/gsoc2022/smilesdb/smiles_dashboard/src/components/LoginPage.vue
@@ -0,0 +1,115 @@
+
+  
+Login Page
+  
+
+  
+  
+SIGN IN
+Username
+
+Password
+
+Sign in
+Forgot Password?
+Login with CILogon
+  
+  
+
+
+
+
+
+export default {
+  name: "LoginPage"
+}
+
+
+
+* {
+  margin: 0;
+  padding: 0;
+  box-sizing: border-box;
+  font-family: 'Poppins', sans-serif;
+  cursor: pointer;
+}
+
+/*@import 
url(<a  rel="nofollow" href="https://fonts.googleapis.com/css2?family=Source+Sans+Pro&display=swap">https://fonts.googleapis.com/css2?family=Source+Sans+Pro&display=swap</a>);*/
+
+body {
+  height: 100vh;
+  width: 100%;
+  display: flex;
+  justify-content: center;
+  align-items: center;
+  /*background: linear-gradient(to right, #2C2C2C, #2c3e50);*/
+  background-image: url("../assets/molecule_bg1.jpeg");
+}
+
+form {
+  width: 25rem;
+  height: 28rem;
+  margin-right: 50rem;
+  display: flex;
+  flex-direction: column;
+  background: rgba(255, 255, 255, 0.04);
+  box-shadow: 0 8px 32px 0 rgba(52, 52, 52, 0.52);
+  border-radius: 30px;
+  border-left: 1px solid rgba(255, 255, 255, 0.3);
+  border-top: 1px solid rgba(255, 255, 255, 0.3);
+  border-right: 1px solid rgba(255, 255, 255, 0.3);
+  border-bottom: 1px solid rgba(255, 255, 255, 0.3);
+}
+
+h1 {
+  font-size: 50px;
+  color: #edf0f1;
+  text-align: center;
+  text-shadow: 2px 2px 4px rgba(255, 255, 255, 0.3);
+  letter-spacing: 3px;
+  margin-top: 20px;
+  margin-bottom: 5%;
+  opacity: 0.7;
+}
+
+label {
+  font-size: 20px;
+  color: #edf0f1;
+  display: flex;
+  text-align: left;
+  margin-left: 10%;
+  margin-bottom:1px;
+  opacity: 0.8;
+  text-shadow: 2px 2px 4px rgba(255, 255, 255, 0.3);
+}
+
+input {
+  width: 80%;
+  height: 20px;
+  font-size: 18px;
+  margin: 5% auto 8%;
+  border: none;
+  outline: none;
+  background: transparent;
+  color: white;
+  border-bottom: 1px solid rgba(255, 255, 255, 0.6);
+}
+
+button {
+  width: 50%;
+  margin: 3% auto;
+  color: white;
+  font-size: 15px;
+  opacity: 0.7;
+  background: rgba(255, 255, 255, 0.06);
+  padding: 10px 30px;
+  border: none;
+  outline: none;
+  border-radius: 20px;
+  text-shadow: 2px 2px 4px rgba(255, 255, 255, 0.3);
+  box-shadow: 3px 3px 5px rgba(255, 255, 255, 0.32);
+  border-left: 2px solid rgba(255, 255, 255, 0.3);
+  border-right: 2px solid rgba(255, 255, 255, 0.3);
+  border-top: 2px solid rgba(255, 255, 255, 0.3);
+}
+
\ No newline at end of file

[airavata-sandbox] 10/26: created SEAGrid home page

[smarru]

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 224764ba5dc19518aacd7e2ba9c131fc165865e7
Author: Bhavesh Asanabada 
AuthorDate: Thu Jul 14 22:26:26 2022 +0530

created SEAGrid home page
---
 .../smiles_dashboard/src/components/SEAGrid.vue| 49 ++
 1 file changed, 49 insertions(+)

diff --git a/gsoc2022/smilesdb/smiles_dashboard/src/components/SEAGrid.vue 
b/gsoc2022/smilesdb/smiles_dashboard/src/components/SEAGrid.vue
new file mode 100644
index ..af7f29cb
--- /dev/null
+++ b/gsoc2022/smilesdb/smiles_dashboard/src/components/SEAGrid.vue
@@ -0,0 +1,49 @@
+
+  
+Welcome to SEAGrid Data Catalog
+SEAGrid Data Catalog provides a sleek web interface for you to browse 
and
+  search through your SEAGrid data. Currently the system can index outputs 
of
+  several computational chemistry applications including Gaussian, Gamess,
+  Molpro and NWChem. Also it allows to publish your data into research data
+  publishing systems, do browser based visualization of molecular structure
+  and properties and to run complex search queries to filter the data.
+  So now you don't need to download all the data into your local machine 
after
+  running a HPC application but select only the interesting data based on 
the
+  results of configured post processing steps in the system.
+
+  
+
+
+
+export default {
+  name: "SEAGrid"
+}
+
+
+
+
+  .container{
+width: 70em;
+height: 80em;
+margin-left: auto;
+margin-right: auto;
+  }
+  h1 {
+padding-top: 1em;
+position: center;
+text-decoration: black;
+  }
+  p{
+display: block;
+margin-block-start: 1em;
+margin-block-end: 1em;
+margin-inline-start: 0px;
+margin-inline-end: 0px;
+text-align: justify ;
+font-size: 21px;
+  }
+  .sys-architect{
+height: 500px;
+width: 700px;
+  }
+
\ No newline at end of file

[airavata-sandbox] 06/13: Update README.md

[smarru]

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 daf1b350c2b109e9f3e6bbc838cf4e627196e0bf
Author: Aishwarya Vijay Sinhasane 
<48974593+aishwaryasinhas...@users.noreply.github.com>
AuthorDate: Thu Jul 21 03:10:43 2022 -0400

Update README.md
---
 gsoc2022/seagrid-rich-client/README.md | 15 +++
 1 file changed, 15 insertions(+)

diff --git a/gsoc2022/seagrid-rich-client/README.md 
b/gsoc2022/seagrid-rich-client/README.md
index 72b651da..4cd99781 100644
--- a/gsoc2022/seagrid-rich-client/README.md
+++ b/gsoc2022/seagrid-rich-client/README.md
@@ -7,6 +7,21 @@
 
![architecture](https://github.com/aishwaryasinhasane/airavata-sandbox/blob/master/gsoc2022/seagrid-rich-client/Modified_SeaGrid_Overview%20(2).png)
 
 ## Steps to Run the Application
+### Installation Steps:
+
+ To run electronJS application you need to install node.js. 
+   Follow below installation steps for node.js 
+
+   - https://nodejs.org/en/download/
+   
+   Check node.js installed 
+  - npm -v 
+  - node -v
+
+ Now to install electronJS run below command. 
+- npm install --save-dev electron
+
+ Run Application
 1. Clone the repository. 
 2. Run below command 
- npm start

[airavata-sandbox] 13/13: README file updated

[smarru]

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 acb0eb95dc6bbc2fd84e38fbf5e19e262193ed35
Author: BECOB257_Aishwarya Sinhasane 
AuthorDate: Sun Sep 11 20:56:49 2022 -0400

README file updated
---
 .../{ => Images}/Modified_SeaGrid_Overview (2).png   | Bin
 gsoc2022/seagrid-rich-client/Images/Mol3dEditor.png  | Bin 0 -> 246813 bytes
 gsoc2022/seagrid-rich-client/Images/jsme.png | Bin 0 -> 199966 bytes
 gsoc2022/seagrid-rich-client/Images/nglviewer.png| Bin 0 -> 334069 bytes
 gsoc2022/seagrid-rich-client/README.md   |  19 +--
 5 files changed, 17 insertions(+), 2 deletions(-)

diff --git a/gsoc2022/seagrid-rich-client/Modified_SeaGrid_Overview (2).png 
b/gsoc2022/seagrid-rich-client/Images/Modified_SeaGrid_Overview (2).png
similarity index 100%
rename from gsoc2022/seagrid-rich-client/Modified_SeaGrid_Overview (2).png
rename to gsoc2022/seagrid-rich-client/Images/Modified_SeaGrid_Overview (2).png
diff --git a/gsoc2022/seagrid-rich-client/Images/Mol3dEditor.png 
b/gsoc2022/seagrid-rich-client/Images/Mol3dEditor.png
new file mode 100644
index ..753a4060
Binary files /dev/null and 
b/gsoc2022/seagrid-rich-client/Images/Mol3dEditor.png differ
diff --git a/gsoc2022/seagrid-rich-client/Images/jsme.png 
b/gsoc2022/seagrid-rich-client/Images/jsme.png
new file mode 100644
index ..41c14892
Binary files /dev/null and b/gsoc2022/seagrid-rich-client/Images/jsme.png differ
diff --git a/gsoc2022/seagrid-rich-client/Images/nglviewer.png 
b/gsoc2022/seagrid-rich-client/Images/nglviewer.png
new file mode 100644
index ..e142a5fe
Binary files /dev/null and b/gsoc2022/seagrid-rich-client/Images/nglviewer.png 
differ
diff --git a/gsoc2022/seagrid-rich-client/README.md 
b/gsoc2022/seagrid-rich-client/README.md
index 73754958..8f3373a8 100644
--- a/gsoc2022/seagrid-rich-client/README.md
+++ b/gsoc2022/seagrid-rich-client/README.md
@@ -4,7 +4,7 @@
 
 ## Architecture of system 
 
-![architecture](https://github.com/aishwaryasinhasane/airavata-sandbox/blob/master/gsoc2022/seagrid-rich-client/Modified_SeaGrid_Overview%20(2).png)
+![architecture](https://github.com/aishwaryasinhasane/airavata-sandbox/blob/master/gsoc2022/seagrid-rich-client/Images/Modified_SeaGrid_Overview%20(2).png)
 
 ## Steps to Run the Application
 ### Installation Steps:
@@ -21,7 +21,7 @@
 
  Now to install electronJS run below command. 
 
-   - npm install --save-dev electron
+   - npm install electron --save-dev
 
  Run Application
 1. Clone the repository. 
@@ -31,3 +31,18 @@
 3. This will launch the application 
 4. You can login with your credentials and try to submit the experiment. Also 
you can view molecule structures using molecule viewer. 
 
+### Features of Application 
+1. Molecule Viewer
+   
![NGL](https://github.com/aishwaryasinhasane/airavata-sandbox/blob/master/gsoc2022/seagrid-rich-client/Images/nglviewer.png)
+
+2. Molecule Editors 
+   
+   1. JSME Editor 
+
+   
![JSME](https://github.com/aishwaryasinhasane/airavata-sandbox/blob/master/gsoc2022/seagrid-rich-client/Images/jsme.png)
+
+   2. Mol3dEditor 
+
+   
![Mol3dEditor](https://github.com/aishwaryasinhasane/airavata-sandbox/blob/master/gsoc2022/seagrid-rich-client/Images/Mol3dEditor.png)
+
+

[airavata-sandbox] 12/13: external applications added

[smarru]

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 57765045263d1074b6a8b69f034cb4c214f1927a
Author: BECOB257_Aishwarya Sinhasane 
AuthorDate: Sun Sep 11 19:45:23 2022 -0400

external applications added
---
 gsoc2022/seagrid-rich-client/main.js | 68 ++--
 1 file changed, 34 insertions(+), 34 deletions(-)

diff --git a/gsoc2022/seagrid-rich-client/main.js 
b/gsoc2022/seagrid-rich-client/main.js
index e2436460..e3d4359c 100644
--- a/gsoc2022/seagrid-rich-client/main.js
+++ b/gsoc2022/seagrid-rich-client/main.js
@@ -10,7 +10,8 @@ const {app, BrowserWindow, MenuItem} = require('electron')
 const path = require('path')
 const { Menu, dialog, shell } = require('electron')
 const defaultMenu = require('electron-default-menu')
-var {spawn} = require('child_process')
+var os = require('os');
+const { win32 } = require('path')
 var child = require('child_process').execFile;
 function createWindow () {
   // Create the browser window.
@@ -37,23 +38,8 @@ function createMolWindow () {
 }
   })
 
-  // and load the login page for app
-  //editorWindow.load("nanocad.html")
   editorWindow.loadURL("http://nglviewer.org/ngl/?script=showcase/ferredoxin;)
 }
-function createJSMolWindow () {
-  // Create the browser window.
-  const JSMolWindow = new BrowserWindow({
-width: 800,
-height: 600,
-webPreferences: {
-  preload: path.join(__dirname, 'preload.js')
-}
-  })
-
-  // and load the login page for app
-  
JSMolWindow.loadFile("C:\\Users\\aishw\\gsoc\\seagrid-client\\airavata-sandbox\\gsoc2022\\seagrid-rich-client\\ui\\samplemol.html")
-}
 function createJSMEWindow(){
   const JSMEWindow = new BrowserWindow({
 width: 800,
@@ -63,8 +49,10 @@ function createJSMEWindow(){
 }
   })
 
-  // and load the login page for app
-  
JSMEWindow.loadFile("C:\\Users\\aishw\\gsoc\\seagrid-client-electron\\airavata-sandbox\\gsoc2022\\seagrid-rich-client\\JSME\\dist\\index.html")
+  if(process.platform == win32)
+JSMEWindow.loadFile(".\\JSME\\dist\\index.html")
+  else
+JSMEWindow.loadFile("./JSME/dist/index.html")
 }
 function createMol3DWindow(){
   const Mol3DWindow = new BrowserWindow({
@@ -74,19 +62,32 @@ function createMol3DWindow(){
   preload: path.join(__dirname, 'preload.js')
 }
   })
-
-  // and load the login page for app
   
   Mol3DWindow.loadURL("https://molview.org/;)
 }
 function createAvogadro(){
 
-var executablePath = 'C:\\Program 
Files\\Avogadro2\\bin\\avogadro2.exe';
-var parameters = ['Hai', 'Test', 'Dat'];
-child(executablePath, function (err, data) {
+var homedir = process.env.HOME;
+if(os.platform == 'win32')
+  var executablePath = 'C:\\Program Files\\Avogadro2\\bin\\avogadro2.exe';
+else
+  var executablePath = homedir + '/Applications/avogadro2';
+child(executablePath, function (err, data) {
 console.log(err)
 console.log(data.toString());
-});
+});
+}
+function createVMD(){
+  
+  var homedir = process.env.HOME;
+  if(os.platform == 'win32')
+var executablePath = 'C:\\Program Files\\VMD\\vmd.exe';
+  else
+var executablePath = homedir + '/Applications/vmd';
+  child(executablePath, function (err, data) {
+  console.log(err)
+  console.log(data.toString());
+  });
 }
 
 // This method will be called when Electron has finished
@@ -100,9 +101,8 @@ app.whenReady().then(() => {
 // dock icon is clicked and there are no other windows open.
 if (BrowserWindow.getAllWindows().length === 0) createWindow()
   })
-  const menu = defaultMenu(app, shell);
+  const menu = defaultMenu(app, shell);  
   
- 
   // Add custom menu
   menu.splice(1,0,{
 label: 'Molecule Viewer',
@@ -112,12 +112,6 @@ app.whenReady().then(() => {
 click: (item, focusedWindow) => {
   createMolWindow()
 }
-  },
-  {
-label: 'JSMol Viewer',
-click: (item, focusedWindow) => {
-  createJSMolWindow()
-}
   }
 ]
   });
@@ -138,14 +132,20 @@ app.whenReady().then(() => {
   }
 ]
   });
-  menu.splice(2,0,{
-label: 'Avogadro Application',
+  menu.splice(3,0,{
+label: 'External Applications',
 submenu: [
   {
 label: 'Avogadro Editor',
 click: (item, focusedWindow) => {
   createAvogadro()
 }
+  },
+  {
+label: 'VMD',
+click: (item, focusedWindow) => {
+  createVMD()
+}
   }
 ]
   });

[airavata-sandbox] 03/13: Delete Modified_SeaGrid_Overview (2).jpg

[smarru]

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 214fbb1fc136264cac5dd1ae3f8f3db8c8591fb3
Author: Aishwarya Vijay Sinhasane 
<48974593+aishwaryasinhas...@users.noreply.github.com>
AuthorDate: Wed Jul 20 16:52:25 2022 -0400

Delete Modified_SeaGrid_Overview (2).jpg
---
 .../Modified_SeaGrid_Overview (2).jpg  | Bin 102337 -> 0 bytes
 1 file changed, 0 insertions(+), 0 deletions(-)

diff --git a/gsoc2022/seagrid-rich-client/Modified_SeaGrid_Overview (2).jpg 
b/gsoc2022/seagrid-rich-client/Modified_SeaGrid_Overview (2).jpg
deleted file mode 100644
index e555b5f5..
Binary files a/gsoc2022/seagrid-rich-client/Modified_SeaGrid_Overview (2).jpg 
and /dev/null differ

[airavata-sandbox] 07/13: Update README.md

[smarru]

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 cb7f652f0b5a7e30d91677c66224e0f4b165c12c
Author: Aishwarya Vijay Sinhasane 
<48974593+aishwaryasinhas...@users.noreply.github.com>
AuthorDate: Thu Jul 21 03:12:04 2022 -0400

Update README.md
---
 gsoc2022/seagrid-rich-client/README.md | 7 +--
 1 file changed, 5 insertions(+), 2 deletions(-)

diff --git a/gsoc2022/seagrid-rich-client/README.md 
b/gsoc2022/seagrid-rich-client/README.md
index 4cd99781..73754958 100644
--- a/gsoc2022/seagrid-rich-client/README.md
+++ b/gsoc2022/seagrid-rich-client/README.md
@@ -15,15 +15,18 @@
- https://nodejs.org/en/download/

Check node.js installed 
-  - npm -v 
+   
+  - npm -v
   - node -v
 
  Now to install electronJS run below command. 
-- npm install --save-dev electron
+
+   - npm install --save-dev electron
 
  Run Application
 1. Clone the repository. 
 2. Run below command 
+   
- npm start
 3. This will launch the application 
 4. You can login with your credentials and try to submit the experiment. Also 
you can view molecule structures using molecule viewer. 

[airavata-sandbox] 05/13: Create README.md

[smarru]

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 f235532d4ae75e120616fa7cd440db30301bfba1
Author: Aishwarya Vijay Sinhasane 
<48974593+aishwaryasinhas...@users.noreply.github.com>
AuthorDate: Wed Jul 20 16:57:10 2022 -0400

Create README.md
---
 gsoc2022/seagrid-rich-client/README.md | 15 +++
 1 file changed, 15 insertions(+)

diff --git a/gsoc2022/seagrid-rich-client/README.md 
b/gsoc2022/seagrid-rich-client/README.md
new file mode 100644
index ..72b651da
--- /dev/null
+++ b/gsoc2022/seagrid-rich-client/README.md
@@ -0,0 +1,15 @@
+## GSOC 2022 Project
+
+- **Aishwarya Sinhasane**
+
+## Architecture of system 
+
+![architecture](https://github.com/aishwaryasinhasane/airavata-sandbox/blob/master/gsoc2022/seagrid-rich-client/Modified_SeaGrid_Overview%20(2).png)
+
+## Steps to Run the Application
+1. Clone the repository. 
+2. Run below command 
+   - npm start
+3. This will launch the application 
+4. You can login with your credentials and try to submit the experiment. Also 
you can view molecule structures using molecule viewer. 
+

[airavata-sandbox] 02/13: Add files via upload

[smarru]

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 efe17ebb854d1d9e8835d467858573fd2b3d7ecc
Author: Aishwarya Vijay Sinhasane 
<48974593+aishwaryasinhas...@users.noreply.github.com>
AuthorDate: Wed Jul 20 16:46:09 2022 -0400

Add files via upload
---
 .../Modified_SeaGrid_Overview (2).jpg  | Bin 0 -> 102337 bytes
 1 file changed, 0 insertions(+), 0 deletions(-)

diff --git a/gsoc2022/seagrid-rich-client/Modified_SeaGrid_Overview (2).jpg 
b/gsoc2022/seagrid-rich-client/Modified_SeaGrid_Overview (2).jpg
new file mode 100644
index ..e555b5f5
Binary files /dev/null and 
b/gsoc2022/seagrid-rich-client/Modified_SeaGrid_Overview (2).jpg differ

[airavata-sandbox] 08/13: refactored code

[smarru]

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 1dbb954fbaf065ee86ceab4b0624e8bef18b0da3
Author: BECOB257_Aishwarya Sinhasane 
AuthorDate: Thu Jul 21 03:43:57 2022 -0400

 refactored code
---
 gsoc2022/seagrid-rich-client/main.js | 8 
 gsoc2022/seagrid-rich-client/{ => ui}/1aho.pdb   | 0
 gsoc2022/seagrid-rich-client/{ => ui/css}/styles.css | 0
 gsoc2022/seagrid-rich-client/{ => ui}/nanocad.html   | 0
 gsoc2022/seagrid-rich-client/{ => ui}/ngl.js | 0
 gsoc2022/seagrid-rich-client/{ => ui}/samplemol.html | 1 -
 gsoc2022/seagrid-rich-client/{ => ui}/samplengl.html | 0
 gsoc2022/seagrid-rich-client/{ => ui}/summary.html   | 0
 8 files changed, 4 insertions(+), 5 deletions(-)

diff --git a/gsoc2022/seagrid-rich-client/main.js 
b/gsoc2022/seagrid-rich-client/main.js
index ab5a06af..b9f64f71 100644
--- a/gsoc2022/seagrid-rich-client/main.js
+++ b/gsoc2022/seagrid-rich-client/main.js
@@ -51,7 +51,7 @@ function createJSMolWindow () {
   })
 
   // and load the login page for app
-  JSMolWindow.loadFile("samplengl.html")
+  
JSMolWindow.loadFile("C:\\Users\\aishw\\gsoc\\airavata-gsoc2022\\airavata-sandbox\\gsoc2022\\seagrid-rich-client\\ui\\samplemol.html")
   
//editorWindow.loadURL("http://nglviewer.org/ngl/?script=showcase/ferredoxin;)
 }
 // This method will be called when Electron has finished
@@ -70,16 +70,16 @@ app.whenReady().then(() => {
  
   // Add custom menu
   menu.splice(1,0,{
-label: 'Molecule Editor',
+label: 'Molecule Viewer',
 submenu: [
   {
-label: 'nanocad',
+label: 'NGLViewer',
 click: (item, focusedWindow) => {
   createMolWindow()
 }
   },
   {
-label: 'JSMol Editor',
+label: 'JSMol Viewer',
 click: (item, focusedWindow) => {
   createJSMolWindow()
 }
diff --git a/gsoc2022/seagrid-rich-client/1aho.pdb 
b/gsoc2022/seagrid-rich-client/ui/1aho.pdb
similarity index 100%
rename from gsoc2022/seagrid-rich-client/1aho.pdb
rename to gsoc2022/seagrid-rich-client/ui/1aho.pdb
diff --git a/gsoc2022/seagrid-rich-client/styles.css 
b/gsoc2022/seagrid-rich-client/ui/css/styles.css
similarity index 100%
rename from gsoc2022/seagrid-rich-client/styles.css
rename to gsoc2022/seagrid-rich-client/ui/css/styles.css
diff --git a/gsoc2022/seagrid-rich-client/nanocad.html 
b/gsoc2022/seagrid-rich-client/ui/nanocad.html
similarity index 100%
rename from gsoc2022/seagrid-rich-client/nanocad.html
rename to gsoc2022/seagrid-rich-client/ui/nanocad.html
diff --git a/gsoc2022/seagrid-rich-client/ngl.js 
b/gsoc2022/seagrid-rich-client/ui/ngl.js
similarity index 100%
rename from gsoc2022/seagrid-rich-client/ngl.js
rename to gsoc2022/seagrid-rich-client/ui/ngl.js
diff --git a/gsoc2022/seagrid-rich-client/samplemol.html 
b/gsoc2022/seagrid-rich-client/ui/samplemol.html
similarity index 98%
rename from gsoc2022/seagrid-rich-client/samplemol.html
rename to gsoc2022/seagrid-rich-client/ui/samplemol.html
index 953d585d..215220db 100644
--- a/gsoc2022/seagrid-rich-client/samplemol.html
+++ b/gsoc2022/seagrid-rich-client/ui/samplemol.html
@@ -10,7 +10,6 @@
 
 here is structure
 
-
 jmolApplet(400,"load 1aho.pdb","0");
 
 
diff --git a/gsoc2022/seagrid-rich-client/samplengl.html 
b/gsoc2022/seagrid-rich-client/ui/samplengl.html
similarity index 100%
rename from gsoc2022/seagrid-rich-client/samplengl.html
rename to gsoc2022/seagrid-rich-client/ui/samplengl.html
diff --git a/gsoc2022/seagrid-rich-client/summary.html 
b/gsoc2022/seagrid-rich-client/ui/summary.html
similarity index 100%
rename from gsoc2022/seagrid-rich-client/summary.html
rename to gsoc2022/seagrid-rich-client/ui/summary.html

[airavata-sandbox] 09/13: JSME Editor added

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commit 74b501053d845a23c8659ff43002aab9c12b03d6
Author: BECOB257_Aishwarya Sinhasane 
AuthorDate: Tue Jul 26 14:34:13 2022 -0400

JSME Editor added
---
 gsoc2022/seagrid-rich-client/JSME-webpack-example |  1 +
 gsoc2022/seagrid-rich-client/main.js  | 18 +++---
 gsoc2022/seagrid-rich-client/ngl  |  1 -
 gsoc2022/seagrid-rich-client/package-lock.json| 14 +++---
 gsoc2022/seagrid-rich-client/package.json |  2 +-
 5 files changed, 24 insertions(+), 12 deletions(-)

diff --git a/gsoc2022/seagrid-rich-client/JSME-webpack-example 
b/gsoc2022/seagrid-rich-client/JSME-webpack-example
new file mode 16
index ..07b3a035
--- /dev/null
+++ b/gsoc2022/seagrid-rich-client/JSME-webpack-example
@@ -0,0 +1 @@
+Subproject commit 07b3a035775fc3f5b6cb7b2dc0288e68d123e1c9
diff --git a/gsoc2022/seagrid-rich-client/main.js 
b/gsoc2022/seagrid-rich-client/main.js
index b9f64f71..c0dad527 100644
--- a/gsoc2022/seagrid-rich-client/main.js
+++ b/gsoc2022/seagrid-rich-client/main.js
@@ -54,6 +54,18 @@ function createJSMolWindow () {
   
JSMolWindow.loadFile("C:\\Users\\aishw\\gsoc\\airavata-gsoc2022\\airavata-sandbox\\gsoc2022\\seagrid-rich-client\\ui\\samplemol.html")
   
//editorWindow.loadURL("http://nglviewer.org/ngl/?script=showcase/ferredoxin;)
 }
+function createJSMEWindow(){
+  const JSMEWindow = new BrowserWindow({
+width: 800,
+height: 600,
+webPreferences: {
+  preload: path.join(__dirname, 'preload.js')
+}
+  })
+
+  // and load the login page for app
+  
JSMEWindow.loadFile("C:\\Users\\aishw\\gsoc\\airavata-gsoc2022\\airavata-sandbox\\gsoc2022\\seagrid-rich-client\\JSME-webpack-example\\dist\\index.html")
+}
 // This method will be called when Electron has finished
 // initialization and is ready to create browser windows.
 // Some APIs can only be used after this event occurs.
@@ -87,12 +99,12 @@ app.whenReady().then(() => {
 ]
   });
   menu.splice(2,0,{
-label: 'Applicaion Editor',
+label: 'Molecule Editor',
 submenu: [
   {
-label: 'G09',
+label: 'JSME Editor',
 click: (item, focusedWindow) => {
-  dialog.showMessageBox({message: 'Do something', buttons: ['OK'] });
+  createJSMEWindow()
 }
   }
 ]
diff --git a/gsoc2022/seagrid-rich-client/ngl b/gsoc2022/seagrid-rich-client/ngl
deleted file mode 16
index bd4a31c7..
--- a/gsoc2022/seagrid-rich-client/ngl
+++ /dev/null
@@ -1 +0,0 @@
-Subproject commit bd4a31c72e007d170b6bae298a5f7c976070e173
diff --git a/gsoc2022/seagrid-rich-client/package-lock.json 
b/gsoc2022/seagrid-rich-client/package-lock.json
index 5c554ad9..23fdf74a 100644
--- a/gsoc2022/seagrid-rich-client/package-lock.json
+++ b/gsoc2022/seagrid-rich-client/package-lock.json
@@ -13,7 +13,7 @@
 "ngl": "^0.10.4"
   },
   "devDependencies": {
-"electron": "^19.0.4"
+"electron": "^19.0.9"
   }
 },
 "node_modules/@electron/get": {
@@ -251,9 +251,9 @@
   "dev": true
 },
 "node_modules/electron": {
-  "version": "19.0.4",
-  "resolved": "https://registry.npmjs.org/electron/-/electron-19.0.4.tgz;,
-  "integrity": 
"sha512-roRYr1VNAWIhjD9n8qZdmhROtrzsFpuZEXrjWAw+GqPbZlrUInmvFCviRDC2Lt+VBsTNRpTfPpfzXSlLL4reEw==",
+  "version": "19.0.9",
+  "resolved": "https://registry.npmjs.org/electron/-/electron-19.0.9.tgz;,
+  "integrity": 
"sha512-ooEwrv8Y7NSzdhKcl6kPCYecnzcg5nFWuS5ryG+VFH3MMBR8zXh9nW2wLsZrBz6OGUxXrcc5BKBC7dA8C6RhGQ==",
   "dev": true,
   "hasInstallScript": true,
   "dependencies": {
@@ -1184,9 +1184,9 @@
   "dev": true
 },
 "electron": {
-  "version": "19.0.4",
-  "resolved": "https://registry.npmjs.org/electron/-/electron-19.0.4.tgz;,
-  "integrity": 
"sha512-roRYr1VNAWIhjD9n8qZdmhROtrzsFpuZEXrjWAw+GqPbZlrUInmvFCviRDC2Lt+VBsTNRpTfPpfzXSlLL4reEw==",
+  "version": "19.0.9",
+  "resolved": "https://registry.npmjs.org/electron/-/electron-19.0.9.tgz;,
+  "integrity": 
"sha512-ooEwrv8Y7NSzdhKcl6kPCYecnzcg5nFWuS5ryG+VFH3MMBR8zXh9nW2wLsZrBz6OGUxXrcc5BKBC7dA8C6RhGQ==",
   "dev": true,
   "requires": {
 "@electron/get": "^1.14.1",
diff --git a/gsoc2022/seagrid-rich-client/package.json 
b/gsoc2022/seagrid-rich-client/package.json
index 85007893..f8a00601 100644
--- a/gsoc2022/seagrid-rich-client/package.json
+++ b/gsoc2022/seagrid-rich-client/package.json
@@ -16,7 +16,7 @@
   "author": "Aishwarya",
   "license": "CC0-1.0",
   "devDependencies": {
-"electron": "^19.0.4"
+"electron": "^19.0.9"
   },
   "dependencies": {
 "electron-default-menu": "^1.0.2",

[airavata-sandbox] 04/13: Add files via upload

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commit 6ef0d0706b98240dbbc7766651221c6831316804
Author: Aishwarya Vijay Sinhasane 
<48974593+aishwaryasinhas...@users.noreply.github.com>
AuthorDate: Wed Jul 20 16:52:40 2022 -0400

Add files via upload
---
 .../Modified_SeaGrid_Overview (2).png  | Bin 0 -> 313195 bytes
 1 file changed, 0 insertions(+), 0 deletions(-)

diff --git a/gsoc2022/seagrid-rich-client/Modified_SeaGrid_Overview (2).png 
b/gsoc2022/seagrid-rich-client/Modified_SeaGrid_Overview (2).png
new file mode 100644
index ..23503ce4
Binary files /dev/null and 
b/gsoc2022/seagrid-rich-client/Modified_SeaGrid_Overview (2).png differ

[airavata] branch master updated: reverting to production url

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The following commit(s) were added to refs/heads/master by this push:
 new f042a5cc47 reverting to production url
f042a5cc47 is described below

commit f042a5cc479a8183757af9ba3719bb863ac08494
Author: Suresh Marru 
AuthorDate: Mon Aug 1 14:02:55 2022 -0400

reverting to production url
---
 .../inventories/scigap/production/host_vars/futurewater/vars.yml   | 3 +--
 1 file changed, 1 insertion(+), 2 deletions(-)

diff --git 
a/dev-tools/ansible/inventories/scigap/production/host_vars/futurewater/vars.yml
 
b/dev-tools/ansible/inventories/scigap/production/host_vars/futurewater/vars.yml
index 3b16fced2f..b594a34e69 100644
--- 
a/dev-tools/ansible/inventories/scigap/production/host_vars/futurewater/vars.yml
+++ 
b/dev-tools/ansible/inventories/scigap/production/host_vars/futurewater/vars.yml
@@ -32,8 +32,7 @@ user_data_dir: "/var/www/portals/gateway-user-data"
 # tusd_vhost_servername: "tus.scigap.org"
 tusd_vhost_servername:
 
-# vhost_servername: "gateway.futurewater.indiana.edu"
-vhost_servername: "futurewater.js2.scigap.org"
+vhost_servername: "gateway.futurewater.indiana.edu"
 vhost_ssl: True
 ssl_certificate_file: "/etc/letsencrypt/live/{{ vhost_servername }}/cert.pem"
 ssl_certificate_chain_file: "/etc/letsencrypt/live/{{ vhost_servername 
}}/fullchain.pem"

[airavata-site] branch asf-site updated: Changing copyright year

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The following commit(s) were added to refs/heads/asf-site by this push:
 new 2e9170b  Changing copyright year
2e9170b is described below

commit 2e9170b0ed9300d9cb83ff9833034d84340a6e9e
Author: Suresh Marru 
AuthorDate: Tue Apr 26 17:12:29 2022 -0400

Changing copyright year
---
 content/index.html | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/content/index.html b/content/index.html
index 99f8afc..897b80c 100644
--- a/content/index.html
+++ b/content/index.html
@@ -392,8 +392,8 @@
 
 
 
-Copyright  2021 The Apache 
Software Foundation, Licensed under the http://www.apache.org/licenses/LICENSE-2.0;>Apache License, Version 
2.0.
+Copyright  2022 The Apache 
Software Foundation, Licensed under the https://www.apache.org/licenses/LICENSE-2.0;>Apache License, Version 
2.0.
 
 Apache Airavata, Airavata, Apache, 
Apache Airavata Logo and the Apache
 feather logo are trademarks of The Apache Software 
Foundation.

[airavata] branch master updated (f412aeb290 -> e12c2497d5)

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from f412aeb290 AIRAVATA-3590 upgrade log4j and commons-io
 add e12c2497d5 AIRAVATA-3590 remove xmlbeans

No new revisions were added by this update.

Summary of changes:
 modules/distribution/pom.xml | 11 ---
 pom.xml  |  2 --
 2 files changed, 13 deletions(-)

[airavata] branch master updated: AIRAVATA-3590 upgrade log4j and commons-io

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The following commit(s) were added to refs/heads/master by this push:
 new f412aeb290 AIRAVATA-3590 upgrade log4j and commons-io
f412aeb290 is described below

commit f412aeb290dda5be31e950dd3a0d8561280dd357
Author: PJ Fanning 
AuthorDate: Thu Mar 17 13:42:39 2022 +0100

AIRAVATA-3590 upgrade log4j and commons-io
---
 pom.xml | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/pom.xml b/pom.xml
index 64507cd0ed..d7c9562e1c 100644
--- a/pom.xml
+++ b/pom.xml
@@ -79,7 +79,7 @@
 
UTF-8
 10.13.1.1
 1.7.25
-2.16.0
+2.17.2
 3.0.0-M4
 4.12
 2.8.0
@@ -111,7 +111,7 @@
 3.3.0
 1.0.0
 20160212
-2.4
+2.11.0
 20.0
 0.8.1
 3.1.0

[airavata] branch master updated (d3e29bcf03 -> 97a205cbc2)

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from d3e29bcf03 Update email-config.yaml.j2
 new 08a15d1123 jackson 2.9.10.8
 new 97a205cbc2 update versions

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repository and will be described in separate emails.  The revisions
listed as "add" were already present in the repository and have only
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Summary of changes:
 .../profile-service/iam-admin-services-core/pom.xml  |  2 +-
 modules/distribution/pom.xml | 16 
 pom.xml  |  2 ++
 3 files changed, 11 insertions(+), 9 deletions(-)

[airavata] 01/02: jackson 2.9.10.8

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commit 08a15d11238a8a0444f12d7247eba54732f259a9
Author: PJ Fanning 
AuthorDate: Thu Mar 17 14:19:25 2022 +0100

jackson 2.9.10.8
---
 airavata-services/profile-service/iam-admin-services-core/pom.xml | 2 +-
 modules/distribution/pom.xml  | 2 +-
 pom.xml   | 1 +
 3 files changed, 3 insertions(+), 2 deletions(-)

diff --git a/airavata-services/profile-service/iam-admin-services-core/pom.xml 
b/airavata-services/profile-service/iam-admin-services-core/pom.xml
index fd3b0acab1..7028f7b2d0 100644
--- a/airavata-services/profile-service/iam-admin-services-core/pom.xml
+++ b/airavata-services/profile-service/iam-admin-services-core/pom.xml
@@ -68,7 +68,7 @@
 
 com.fasterxml.jackson.core
 jackson-databind
-2.5.4
+${jackson.databind.version}
 
 
 
diff --git a/modules/distribution/pom.xml b/modules/distribution/pom.xml
index 2e2c35db04..37a8087aa6 100644
--- a/modules/distribution/pom.xml
+++ b/modules/distribution/pom.xml
@@ -324,7 +324,7 @@
 
 com.fasterxml.jackson.core
 jackson-databind
-2.9.4
+${jackson.databind.version}
 
 
 com.fasterxml.jackson.core
diff --git a/pom.xml b/pom.xml
index ffe1ae8d69..ea291e72c9 100644
--- a/pom.xml
+++ b/pom.xml
@@ -91,6 +91,7 @@
 2.10.7
 1.2.7
 0.9.4
+2.9.10.8
 1.13
 1.3.1
 1.1.3

[airavata-sandbox] branch master updated: adding a placeholder for 2022 gsoc projects

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The following commit(s) were added to refs/heads/master by this push:
 new 2971402  adding a placeholder for 2022 gsoc projects
2971402 is described below

commit 2971402f7f3cd5c32eec2052206f93069306f785
Author: Suresh Marru 
AuthorDate: Tue Mar 22 11:55:54 2022 -0400

adding a placeholder for 2022 gsoc projects
---
 gsoc2022/smilesdb/README | 1 +
 1 file changed, 1 insertion(+)

diff --git a/gsoc2022/smilesdb/README b/gsoc2022/smilesdb/README
new file mode 100644
index 000..4ea7287
--- /dev/null
+++ b/gsoc2022/smilesdb/README
@@ -0,0 +1 @@
+GSoC project to create databases for smiles

[airavata-data-lake] branch master updated: enabling issues

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The following commit(s) were added to refs/heads/master by this push:
 new e60e426  enabling issues
e60e426 is described below

commit e60e4267a0c2099c151d95314d3a3a8c5faa7e74
Author: Suresh Marru 
AuthorDate: Fri Feb 11 12:46:22 2022 -0500

enabling issues
---
 .asf.yaml | 41 +
 1 file changed, 41 insertions(+)

diff --git a/.asf.yaml b/.asf.yaml
new file mode 100644
index 000..a72ed27
--- /dev/null
+++ b/.asf.yaml
@@ -0,0 +1,41 @@
+#
+# 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.
+#
+notifications:
+  commits:  commits@airavata.apache.org
+  # Send all issue emails (new, closed, comments) to issues@
+  issues:   iss...@airavata.apache.org
+  # Send new/closed PR notifications to dev@
+  pullrequests_status:  iss...@airavata.apache.org
+  # Send individual PR comments/reviews to issues@
+  pullrequests_comment: iss...@airavata.apache.org
+
+github:
+  description: "Apache Airavata Data Lake"
+  homepage: https://airavata.apache.org/
+  labels:
+- airavata
+- apache
+- data
+- lake
+- MFT
+
+  features:
+wiki: true
+issues: true
+projects: true

[airavata-jupyter-kernel] branch master created (now ba5d76b)

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  at ba5d76b  bootsrtapong the repo

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 new ba5d76b  bootsrtapong the repo

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[airavata-jupyter-kernel] 01/01: bootsrtapong the repo

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commit ba5d76b4a43ae6f66c3c4a07809aa5e29653f3a4
Author: Suresh Marru 
AuthorDate: Wed Jan 26 15:12:34 2022 -0500

bootsrtapong the repo
---
 README | 1 +
 1 file changed, 1 insertion(+)

diff --git a/README b/README
new file mode 100644
index 000..a59df2e
--- /dev/null
+++ b/README
@@ -0,0 +1 @@
+Repository for Apache Airavata Jupyter Extensions
\ No newline at end of file

[airavata-site] 01/01: Merge pull request #8 from apache/asf-staging

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commit 8b0bf4f2f27b7b82408fb9539e5f82bb7399332c
Merge: e8fbbda 72a1ec9
Author: Suresh Marru 
AuthorDate: Wed May 19 10:55:56 2021 -0400

Merge pull request #8 from apache/asf-staging

adding yaml file to configure stagin

 .asf.yaml | 51 +++
 1 file changed, 51 insertions(+)

[airavata-site] branch asf-site updated (e8fbbda -> 8b0bf4f)

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from e8fbbda  updates affiliations
 add 72a1ec9  adding yaml file to configure stagin
 new 8b0bf4f  Merge pull request #8 from apache/asf-staging

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Summary of changes:
 .asf.yaml | 51 +++
 1 file changed, 51 insertions(+)
 create mode 100644 .asf.yaml

[airavata-site] branch asf-staging created (now 72a1ec9)

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  at 72a1ec9  adding yaml file to configure stagin

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[airavata-site] 01/01: adding yaml file to configure stagin

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commit 72a1ec91f429918190118e1dad72549c83a351ed
Author: Suresh Marru 
AuthorDate: Wed May 19 10:51:49 2021 -0400

adding yaml file to configure stagin
---
 .asf.yaml | 51 +++
 1 file changed, 51 insertions(+)

diff --git a/.asf.yaml b/.asf.yaml
new file mode 100644
index 000..c8226e7
--- /dev/null
+++ b/.asf.yaml
@@ -0,0 +1,51 @@
+#
+# 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.
+#
+notifications:
+  commits:  commits@airavata.apache.org
+  # Send all issue emails (new, closed, comments) to issues@
+  issues:   iss...@airavata.apache.org
+  # Send new/closed PR notifications to dev@
+  pullrequests_status:  iss...@airavata.apache.org
+  # Send individual PR comments/reviews to issues@
+  pullrequests_comment: iss...@airavata.apache.org
+
+github:
+  description: "Apache Airavata Website"
+  homepage: https://airavata.apache.org/
+  labels:
+- airavata
+- apache
+- security
+- oauth2
+- openidconnect
+- authentication
+- authorization
+
+  features:
+wiki: false
+issues: true
+projects: true
+
+staging:
+  profile: ~
+  whoami:  asf-staging
+ 
+ 
+publish:
+  whoami:  asf-site
\ No newline at end of file

[airavata-site] branch asf-site updated: updates affiliations

[smarru]

This is an automated email from the ASF dual-hosted git repository.

smarru pushed a commit to branch asf-site
in repository https://gitbox.apache.org/repos/asf/airavata-site.git


The following commit(s) were added to refs/heads/asf-site by this push:
 new e8fbbda  updates affiliations
e8fbbda is described below

commit e8fbbda83de925c0d57b909172f7b97f99ea95b6
Author: Suresh Marru 
AuthorDate: Thu May 6 17:07:59 2021 -0400

updates affiliations
---
 content/community.html | 20 ++--
 source/_data/team.yml  | 20 ++--
 2 files changed, 20 insertions(+), 20 deletions(-)

diff --git a/content/community.html b/content/community.html
index 1a340aa..a4ed377 100644
--- a/content/community.html
+++ b/content/community.html
@@ -123,15 +123,6 @@
   
 
   
-Thejaka Amila Kanewala
-amilaj
-amilaj [at] apache [dot] org
-Service Now
-committer, PMC
--8
-  
-
-  
 Anuj Bhandar
 anujbhan
 anujbhan [at] apache [dot] org
@@ -245,7 +236,7 @@
 hasini [at] google [dot] com
 Google
 committer
--5
+-8
   
 
   
@@ -465,6 +456,15 @@
   
 
   
+Thejaka Amila Kanewala
+amilaj
+amilaj [at] apache [dot] org
+Service Now
+committer, PMC
+-8
+  
+
+  
 Thilina Gunarathne
 thilina
 thilina [at] apache [dot] org
diff --git a/source/_data/team.yml b/source/_data/team.yml
index dc9501c..917a8c8 100644
--- a/source/_data/team.yml
+++ b/source/_data/team.yml
@@ -39,13 +39,6 @@
   roles: committer, PMC, Incubation Mentor
   time_zone: "-5"
 
-- name: Amila Jayasekara
-  apache_id: amilaj
-  email: amilaj [at] apache [dot] org
-  organization: Service Now
-  roles: committer, PMC
-  time_zone: "-8"
-
 - name: Anuj Bhandar
   apache_id: anujbhan
   email: anujbhan [at] apache [dot] org
@@ -133,14 +126,14 @@
 - name: Hasini Gunasinghe
   apache_id: hasini
   email: hasini [at] google [dot] com
-  organization: Purdue University
+  organization: Google
   roles: committer
-  time_zone: "-5"
+  time_zone: "-8"
 
 - name: Heshan Suriyaarachchi
   apache_id: heshan
   email: heshan [at] apache [dot] org
-  organization: Amazon
+  organization: Service Now
   roles: committer, PMC
   time_zone: "-8"
 
@@ -305,6 +298,13 @@
   roles: committer, PMC, PMC Chair
   time_zone: "-5"
 
+- name: Thejaka Amila Kanewala
+  apache_id: amilaj
+  email: amilaj [at] apache [dot] org
+  organization: Service Now
+  roles: committer, PMC
+  time_zone: "-8"
+
 - name: Thilina Gunarathne
   apache_id: thilina
   email: thilina [at] apache [dot] org

[airavata] branch master updated: adding apiprod letsencrypt keystore

[smarru]

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.git


The following commit(s) were added to refs/heads/master by this push:
 new d6ad14d  adding apiprod letsencrypt keystore
d6ad14d is described below

commit d6ad14d1c5ee34ea2cfb4a25379c1209d351a4da
Author: Suresh Marru 
AuthorDate: Thu Mar 25 09:10:44 2021 -0400

adding apiprod letsencrypt keystore
---
 .../scigap/production/files/letsencrypt_apiprod.jks  | Bin 0 -> 4275 bytes
 1 file changed, 0 insertions(+), 0 deletions(-)

diff --git 
a/dev-tools/ansible/inventories/scigap/production/files/letsencrypt_apiprod.jks 
b/dev-tools/ansible/inventories/scigap/production/files/letsencrypt_apiprod.jks
new file mode 100644
index 000..a6b5cff
Binary files /dev/null and 
b/dev-tools/ansible/inventories/scigap/production/files/letsencrypt_apiprod.jks 
differ

[airavata-site] branch asf-site updated: updating team affiliations

[smarru]

This is an automated email from the ASF dual-hosted git repository.

smarru pushed a commit to branch asf-site
in repository https://gitbox.apache.org/repos/asf/airavata-site.git


The following commit(s) were added to refs/heads/asf-site by this push:
 new 08cf40c  updating team affiliations
08cf40c is described below

commit 08cf40c3b4a5925574a6e10c7bd17be923750aac
Author: Suresh Marru 
AuthorDate: Sat Mar 20 18:06:22 2021 -0400

updating team affiliations
---
 content/about.html |   2 +-
 content/collaborations.html|   2 +-
 content/community.html |  10 +-
 content/consensusBuilding.html |   2 +-
 content/development.html   |   2 +-
 content/get-involved.html  |   2 +-
 content/gsoc.html  |   2 +-
 content/index.html |   2 +-
 content/lazy-consensus.html|   2 +-
 content/learning.html  |   2 +-
 content/logo.html  |   2 +-
 content/mailing-list.html  |   2 +-
 content/submit-patch.html  |   2 +-
 source/_data/team.yml  |   8 
 source/_includes/footer.html   |   2 +-
 source/api-docs/.DS_Store  | Bin 0 -> 6148 bytes
 source/development.md  |   2 +-
 17 files changed, 23 insertions(+), 23 deletions(-)

diff --git a/content/about.html b/content/about.html
index e099103..07e66f9 100644
--- a/content/about.html
+++ b/content/about.html
@@ -185,7 +185,7 @@
 
 
 
-Copyright  2016 The Apache 
Software Foundation, Licensed under the Copyright  2021 The Apache 
Software Foundation, Licensed under the http://www.apache.org/licenses/LICENSE-2.0;>Apache License, Version 
2.0.
 
 Apache Airavata, Airavata, Apache, 
Apache Airavata Logo and the Apache
diff --git a/content/collaborations.html b/content/collaborations.html
index b838bc1..bc56ce7 100644
--- a/content/collaborations.html
+++ b/content/collaborations.html
@@ -295,7 +295,7 @@
 
 
 
-Copyright  2016 The Apache 
Software Foundation, Licensed under the Copyright  2021 The Apache 
Software Foundation, Licensed under the http://www.apache.org/licenses/LICENSE-2.0;>Apache License, Version 
2.0.
 
 Apache Airavata, Airavata, Apache, 
Apache Airavata Logo and the Apache
diff --git a/content/community.html b/content/community.html
index ff0d278..bf2509b 100644
--- a/content/community.html
+++ b/content/community.html
@@ -99,9 +99,9 @@
 Aarushi Bisht
 aarushi
 aarushi [at] apache [dot] org
-Indiana University
+Unity Technologies
 committer
--5
+-8
   
 
   
@@ -144,7 +144,7 @@
 Ate Douma
 ate
 ate [at] apache [dot] org
-Hippo
+Bloomreach
 committer, PMC, Incubation Mentor
 +1
   
@@ -477,7 +477,7 @@
 Viknes Balasubramanee
 viknesb
 viknesb [at] apache [dot] org
-Interana
+Twitter
 committer
 -8
   
@@ -559,7 +559,7 @@
 
 
 
-Copyright  2016 The Apache 
Software Foundation, Licensed under the Copyright  2021 The Apache 
Software Foundation, Licensed under the http://www.apache.org/licenses/LICENSE-2.0;>Apache License, Version 
2.0.
 
 Apache Airavata, Airavata, Apache, 
Apache Airavata Logo and the Apache
diff --git a/content/consensusBuilding.html b/content/consensusBuilding.html
index 7986dd2..cb83ba7 100644
--- a/content/consensusBuilding.html
+++ b/content/consensusBuilding.html
@@ -170,7 +170,7 @@ the work under the https://community.apache.org/committers/lazyConsensu
 
 
 
-Copyright  2016 The Apache 
Software Foundation, Licensed under the Copyright  2021 The Apache 
Software Foundation, Licensed under the http://www.apache.org/licenses/LICENSE-2.0;>Apache License, Version 
2.0.
 
 Apache Airavata, Airavata, Apache, 
Apache Airavata Logo and the Apache
diff --git a/content/development.html b/content/development.html
index 3d3b2c5..ca1e647 100644
--- a/content/development.html
+++ b/content/development.html
@@ -503,7 +503,7 @@
 
 
 
-Copyright  2016 The Apache 
Software Foundation, Licensed under the Copyright  2021 The Apache 
Software Foundation, Licensed under the http://www.apache.org/licenses/LICENSE-2.0;>Apache License, Version 
2.0.
 
 Apache Airavata, Airavata, Apache, 
Apache Airavata Logo and the Apache
diff --git a/content/get-involved.html b/content/get-involved.html
index 46ef8db..b0de0dd 100644
--- a/content/get-involved.html
+++ b/content/get-involved.htm

[airavata-data-lake] 07/09: metadata service neo4j implementation

[smarru]

This is an automated email from the ASF dual-hosted git repository.

smarru pushed a commit to branch metadata-service
in repository https://gitbox.apache.org/repos/asf/airavata-data-lake.git

commit 2724b9a8e90f7a66150b69b359fe319d9b9dba0e
Author: Isuru Ranawaka 
AuthorDate: Wed Mar 10 21:44:02 2021 -0500

metadata service neo4j implementation
---
 airavata-data-lake.ipr | 112 ++
 airavata-data-lake.iws | 418 
 metadata-service/data-builders/data-builders.iml   |  16 +
 metadata-service/data-builders/pom.xml |  20 +
 metadata-service/db-service/db-service.iml | 420 +
 metadata-service/db-service/pom.xml|  49 +++
 .../datalake/metadata/db/service/AppConfig.java| 108 ++
 .../db/service/Neo4JServiceInitializer.java|  14 +
 .../metadata/db/service/XmlConfiguration.java  |   9 +
 .../metadata/db/service/backend/Connector.java |  10 +
 .../metadata/db/service/backend/Person.java|  74 
 .../db/service/backend/neo4j/Neo4JConnector.java   |  53 +++
 .../neo4j/curd/operators/GenericService.java   |  79 
 .../backend/neo4j/curd/operators/GroupService.java |   4 +
 .../neo4j/curd/operators/ResourceService.java  |   4 +
 .../neo4j/curd/operators/SearchOperator.java   |  33 ++
 .../backend/neo4j/curd/operators/Service.java  |  24 ++
 .../backend/neo4j/curd/operators/UserService.java  |   4 +
 .../service/backend/neo4j/model/nodes/Entity.java  | 109 ++
 .../service/backend/neo4j/model/nodes/Group.java   | 208 ++
 .../backend/neo4j/model/nodes/Resource.java| 215 +++
 .../db/service/backend/neo4j/model/nodes/Role.java |  37 ++
 .../backend/neo4j/model/nodes/ServiceAccount.java  |  29 ++
 .../service/backend/neo4j/model/nodes/Tenant.java  | 125 ++
 .../db/service/backend/neo4j/model/nodes/User.java | 132 +++
 .../backend/neo4j/model/relationships/Belongs.java |   9 +
 .../neo4j/model/relationships/ConfiguredWith.java  |   7 +
 .../backend/neo4j/model/relationships/Has.java |   9 +
 .../neo4j/model/relationships/HasAccess.java   |  23 ++
 .../neo4j/model/relationships/HasChildGroup.java   |   9 +
 .../model/relationships/HasChildResource.java  |   8 +
 .../neo4j/model/relationships/HasChildUser.java|  19 +
 .../neo4j/model/relationships/HasParentGroup.java  |  19 +
 .../model/relationships/HasParentResource.java |   7 +
 .../backend/neo4j/model/relationships/HasRole.java |   8 +
 .../neo4j/model/relationships/MemberOf.java|  19 +
 .../neo4j/model/relationships/Relationship.java|  81 
 .../neo4j/model/relationships/SharedWith.java  |  25 ++
 .../service/exceptions/DBConnectorException.java   |  10 +
 .../src/main/resources/application.properties  |  23 ++
 .../src/main/resources/applicationContext.xml  |  12 +
 metadata-service/metadata-service.iml  |  14 +
 metadata-service/pom.xml   | 130 +++
 pom.xml|  77 +++-
 44 files changed, 2814 insertions(+), 1 deletion(-)

diff --git a/airavata-data-lake.ipr b/airavata-data-lake.ipr
new file mode 100644
index 000..3bec1ac
--- /dev/null
+++ b/airavata-data-lake.ipr
@@ -0,0 +1,112 @@
+
+
+
+ 
+
+   
+  
+ 
+
+
+   
+  
+  
+  
+
+  
+
+
+   
+  
+  
+  
+  
+  
+ 
+
+   
+  
+  
+  
+  
+  
+  
+  
+  
+ 
+
+   
+  
+ 
+
+   
+  
+  
+  
+  
+  
+  
+  
+  
+  
+  
+  
+  
+  
+  
+ 
+
+   
+ 
+
+   
+ 
+
+
+   
+  
+  
+ 
+
+   
+  
+  
+  
+ 
+
+   
+ 
+
+  
+  
+  
+  
+  
+  
+ 
+
+   
+ 
+   
+
diff --git a/airavata-data-lake.iws b/airavata-data-lake.iws
new file mode 100644
index 000..57de9a0
--- /dev/null
+++ b/airavata-data-lake.iws
@@ -0,0 +1,418

[airavata-data-lake] 09/09: Merge pull request #1 from isururanawaka/metadata_service

[smarru]

This is an automated email from the ASF dual-hosted git repository.

smarru pushed a commit to branch metadata-service
in repository https://gitbox.apache.org/repos/asf/airavata-data-lake.git

commit d44747ec51d5618683451328703b0866246db988
Merge: ace1dc1 0bac93c
Author: Suresh Marru 
AuthorDate: Wed Mar 17 16:51:36 2021 -0400

Merge pull request #1 from isururanawaka/metadata_service

Metadata service

 airavata-data-lake.ipr | 114 +++
 airavata-data-lake.iws | 418 +++
 metadata-service/data-builders/data-builders.iml   |  16 +
 metadata-service/data-builders/pom.xml |  20 +
 metadata-service/db-service/client/client.iml  | 109 +++
 .../db-service/client/db-service-client.iml|  16 +
 metadata-service/db-service/client/pom.xml |  28 +
 .../metadata/clients/MetadataServiceClient.java|  35 +
 .../clients/MetadataServiceClientBuilder.java  |  12 +
 .../airavata/datalake/metadata/clients/Test.java   |  78 ++
 metadata-service/db-service/db-service.iml | 420 +++
 metadata-service/db-service/pom.xml|  28 +
 .../db-service/server/db-service-server.iml| 462 
 metadata-service/db-service/server/pom.xml |  69 ++
 metadata-service/db-service/server/server.iml  | 109 +++
 .../airavata/datalake/metadata/AppConfig.java  | 149 
 .../datalake/metadata/Neo4JServiceInitializer.java |  14 +
 .../datalake/metadata/XmlConfiguration.java|   9 +
 .../datalake/metadata/backend/Connector.java   |  10 +
 .../airavata/datalake/metadata/backend/Person.java |  72 ++
 .../metadata/backend/neo4j/Neo4JConnector.java |  53 ++
 .../neo4j/curd/operators/GenericService.java   |  90 +++
 .../backend/neo4j/curd/operators/GroupService.java |   4 +
 .../neo4j/curd/operators/GroupServiceImpl.java |  16 +
 .../neo4j/curd/operators/ResourceService.java  |   4 +
 .../neo4j/curd/operators/ResourceServiceImpl.java  |  16 +
 .../neo4j/curd/operators/SearchOperator.java   |  33 +
 .../backend/neo4j/curd/operators/Service.java  |  27 +
 .../neo4j/curd/operators/TenantService.java|   4 +
 .../neo4j/curd/operators/TenantServiceImpl.java|  15 +
 .../backend/neo4j/curd/operators/UserService.java  |   4 +
 .../neo4j/curd/operators/UserServiceImpl.java  |  16 +
 .../metadata/backend/neo4j/model/nodes/Entity.java | 109 +++
 .../metadata/backend/neo4j/model/nodes/Group.java  | 208 ++
 .../backend/neo4j/model/nodes/Resource.java| 215 ++
 .../metadata/backend/neo4j/model/nodes/Role.java   |  37 +
 .../backend/neo4j/model/nodes/ServiceAccount.java  |  29 +
 .../metadata/backend/neo4j/model/nodes/Tenant.java | 125 
 .../metadata/backend/neo4j/model/nodes/User.java   | 132 
 .../backend/neo4j/model/relationships/Belongs.java |   9 +
 .../neo4j/model/relationships/ConfiguredWith.java  |   7 +
 .../backend/neo4j/model/relationships/Has.java |   9 +
 .../neo4j/model/relationships/HasAccess.java   |  23 +
 .../neo4j/model/relationships/HasChildGroup.java   |   9 +
 .../model/relationships/HasChildResource.java  |   8 +
 .../neo4j/model/relationships/HasChildUser.java|  19 +
 .../neo4j/model/relationships/HasParentGroup.java  |  19 +
 .../model/relationships/HasParentResource.java |   7 +
 .../backend/neo4j/model/relationships/HasRole.java |   8 +
 .../neo4j/model/relationships/MemberOf.java|  19 +
 .../neo4j/model/relationships/Relationship.java|  81 +++
 .../neo4j/model/relationships/SharedWith.java  |  25 +
 .../metadata/exceptions/DBConnectorException.java  |  10 +
 .../metadata/handlers/GroupServiceHandler.java |  38 +
 .../metadata/handlers/ResourceServiceHandler.java  |  38 +
 .../metadata/handlers/TenantServiceHandler.java|  83 +++
 .../metadata/handlers/UserServiceHandler.java  |  29 +
 .../datalake/metadata/parsers/GroupParser.java |  68 ++
 .../datalake/metadata/parsers/ResourceParser.java  |  77 ++
 .../datalake/metadata/parsers/TenantParser.java|  79 ++
 .../datalake/metadata/parsers/UserParser.java  |  22 +
 .../src/main/resources/application.properties  |  23 +
 .../src/main/resources/applicationContext.xml  |  12 +
 .../db-service/stub/db-service-stub.iml|  84 +++
 metadata-service/db-service/stub/pom.xml   |  57 ++
 .../stub/src/main/proto/common/Common.proto|  12 +
 .../stub/src/main/proto/group/Group.proto  |  88 +++
 .../stub/src/main/proto/resource/Resource.proto|  97 +++
 .../stub/src/main/proto/tenant/Tenant.proto|  67 ++
 .../db-service/stub/src/main/proto/user/User.proto |  66 ++
 metadata-service/db-service/stub/stub.iml  | 111 +++
 metadata-service/metadata-service.iml  | 804 +
 metadata-service/pom.xml   |  69 ++
 pom.xml|  80 +-
 74 files changed, 5581 insertions

[airavata-data-lake] 06/09: Adding repository support for SFTP Remotes

[smarru]

This is an automated email from the ASF dual-hosted git repository.

smarru pushed a commit to branch metadata-service
in repository https://gitbox.apache.org/repos/asf/airavata-data-lake.git

commit ace1dc1bdfd9b3058574686cb1fc719901700bd8
Author: Dimuthu Wannipurage 
AuthorDate: Tue Jan 5 19:00:19 2021 -0500

Adding repository support for SFTP Remotes
---
 data-orchestrator/data-orchestrator-api/pom.xml|  19 +++
 .../api/controller/remote/SFTPController.java  |  46 +--
 .../api/db/entity/SFTPCredentialEntity.java| 140 +
 .../api/db/entity/SFTPRemoteEntity.java|  92 ++
 .../api/db/repo/SFTPCredentialRepository.java  |  26 
 .../api/db/repo/SFTPRemoteRepository.java  |  26 
 6 files changed, 337 insertions(+), 12 deletions(-)

diff --git a/data-orchestrator/data-orchestrator-api/pom.xml 
b/data-orchestrator/data-orchestrator-api/pom.xml
index c840c04..e6433cb 100644
--- a/data-orchestrator/data-orchestrator-api/pom.xml
+++ b/data-orchestrator/data-orchestrator-api/pom.xml
@@ -41,6 +41,25 @@
 
 
 org.springframework.boot
+spring-boot-starter-data-jpa
+2.4.1
+
+
+
+net.sf.dozer
+dozer
+5.5.1
+
+
+
+com.h2database
+h2
+1.4.197
+runtime
+
+
+
+org.springframework.boot
 spring-boot-starter-test
 test
 
diff --git 
a/data-orchestrator/data-orchestrator-api/src/main/java/org/apache/airavata/datalake/orchestrator/api/controller/remote/SFTPController.java
 
b/data-orchestrator/data-orchestrator-api/src/main/java/org/apache/airavata/datalake/orchestrator/api/controller/remote/SFTPController.java
index 5492889..e7bced6 100644
--- 
a/data-orchestrator/data-orchestrator-api/src/main/java/org/apache/airavata/datalake/orchestrator/api/controller/remote/SFTPController.java
+++ 
b/data-orchestrator/data-orchestrator-api/src/main/java/org/apache/airavata/datalake/orchestrator/api/controller/remote/SFTPController.java
@@ -19,39 +19,61 @@
  */
 package org.apache.airavata.datalake.orchestrator.api.controller.remote;
 
-import 
org.apache.airavata.datalake.orchestrator.api.model.remote.SFTPCredential;
+import 
org.apache.airavata.datalake.orchestrator.api.db.entity.SFTPRemoteEntity;
+import 
org.apache.airavata.datalake.orchestrator.api.db.repo.SFTPRemoteRepository;
 import org.apache.airavata.datalake.orchestrator.api.model.remote.SFTPRemote;
+import org.dozer.DozerBeanMapper;
+import org.springframework.beans.factory.annotation.Autowired;
+import org.springframework.http.HttpStatus;
 import org.springframework.web.bind.annotation.*;
+import org.springframework.web.server.ResponseStatusException;
+
+import java.util.Optional;
 
 @RestController
 @RequestMapping(path = "/remotes/sftp")
 public class SFTPController {
 
+@Autowired
+private SFTPRemoteRepository sftpRemoteRepository;
+
 @GetMapping(value = "/{remoteId}", produces = "application/json")
 public SFTPRemote fetchSFTPRemote(@PathVariable(name = "remoteId") String 
remoteId) {
-return new SFTPRemote()
-.setHost("localhost")
-.setPort(22)
-.setCredential(
-new SFTPCredential()
-.setAuthMethod(SFTPCredential.AuthMethod.SSH_KEY)
-.setPrivateKey("")
-.setPublicKey(""));
+
+Optional entityOp = 
sftpRemoteRepository.findById(remoteId);
+SFTPRemoteEntity sftpRemoteEntity = entityOp.orElseThrow(
+() -> new 
ResponseStatusException(HttpStatus.NOT_FOUND, remoteId + " not found"));
+DozerBeanMapper mapper = new DozerBeanMapper();
+return mapper.map(sftpRemoteEntity, SFTPRemote.class);
 }
 
 @PostMapping(value = "")
 public String createSFTPRemote(@RequestBody SFTPRemote sftpRemote) {
-return "Remote id";
+
+DozerBeanMapper mapper = new DozerBeanMapper();
+SFTPRemoteEntity sftpRemoteEntity = mapper.map(sftpRemote, 
SFTPRemoteEntity.class);
+SFTPRemoteEntity saved = sftpRemoteRepository.save(sftpRemoteEntity);
+return saved.getId();
 }
 
 @PutMapping(value = "/{remoteId}")
 public String updateSFTPRemote(@RequestBody SFTPRemote sftpRemote,
@PathVariable(name = "remoteId") String 
remoteId) {
-return "Remote id";
+
+DozerBeanMapper mapper = new DozerBeanMapper();
+SFTPRemoteEntity sftpRemoteEntity = mapper.map(sftpRemote, 
SFTPRemoteEntity.class);
+sftpRemoteEntity.setId(remoteId);
+SFTPRemoteEntity saved = sftpRemoteRepository.save(sftpRemoteEntity);
+return saved.getId();

[airavata-data-lake] 01/09: bootstrapping git repo

[smarru]

This is an automated email from the ASF dual-hosted git repository.

smarru pushed a commit to branch metadata-service
in repository https://gitbox.apache.org/repos/asf/airavata-data-lake.git

commit 3ed323a81d93a2da0cad1e748bc6e825102cb06d
Author: Suresh Marru 
AuthorDate: Tue Nov 10 13:02:25 2020 -0500

bootstrapping git repo
---
 README.md | 35 +++
 1 file changed, 35 insertions(+)

diff --git a/README.md b/README.md
new file mode 100644
index 000..fd06c5a
--- /dev/null
+++ b/README.md
@@ -0,0 +1,35 @@
+
+# Apache Airavata Data Lake
+
+[![License](http://img.shields.io/badge/license-Apache--2-blue.svg?style=flat)](https://apache.org/licenses/LICENSE-2.0)
+
+Apache Airavata use cases enable capture of data from observational and 
experimental instruments and computations resulting from Airavata's 
orchestration capabilities. As the data deluges into vast amounts, harvesting 
the data, capturing metadata, presenting it for easy and controlled access 
becomes unmanageable. 
+
+Airavata data lake will bundle stand alone services to catalog data in various 
data stores, extract and capture semantics and metadata descriptions of the 
data and preserve associated data provenance. The data lake will provide API's, 
query and search capabilities to programmatically search and retrieve data and 
power building user interactivity and data analysis applications on top of it. 
+
+![Airavata Data Lake 
Overview](https://cwiki.apache.org/confluence/download/attachments/165224787/Airavata%20Data%20Lake.png?version=1=160502062=v2)
+
+Airavata Data Lake will provide file watcher and other trigger capabilities to 
ingest data from scientific instruments as they become available. The framwork 
will enable pluggable data parsers to read structured and unstructured data 
files and extract meaningful descriptions. 
+
+A bundled Data replica catalogs will associate pointers to data at multiple 
storgae locations. The replica catalog maps logical file names to the physical 
locations. Data Lake client SDK's will provide API functions to query replica 
location and resolve into multiple physical file locations. The client will be 
bundled with access protocols to retrive the data or to embedd into 
computational pipelines. 
+
+Interfacing with Airavata [Managed File Transfer 
Service](https://github.com/apache/airavata-mft) Data can moved and archiving 
into longer term persistant storages like tapped archives. The Data archives 
will be indexed and have search capabilities  
+
+Data Lake's provenance will provide information to capture parameters 
influenced the production or modification of the data. An abstraction API will 
enable plugging fine granted provenance based on Airavata tentant context. 
Interfacing with Airavata Orchestration Services, pointers to experiment 
catalog will enable restructuring of the underting computations.
\ No newline at end of file

[airavata-data-lake] 03/09: Enabling the travis build

[smarru]

This is an automated email from the ASF dual-hosted git repository.

smarru pushed a commit to branch metadata-service
in repository https://gitbox.apache.org/repos/asf/airavata-data-lake.git

commit 10266978c902a3db2b7ae540f9563e373175eb97
Author: Dimuthu Wannipurage 
AuthorDate: Fri Dec 11 04:22:36 2020 -0500

Enabling the travis build
---
 .gitignore  |  6 +-
 .travis.yml | 36 
 pom.xml | 15 ++-
 3 files changed, 55 insertions(+), 2 deletions(-)

diff --git a/.gitignore b/.gitignore
index 5559ec0..753237f 100644
--- a/.gitignore
+++ b/.gitignore
@@ -2,4 +2,8 @@
 airavata-data-lake.iml
 data-orchestrator/data-orchestrator.iml
 data-orchestrator/data-orchestrator-api/data-orchestrator-api.iml
-data-orchestrator/data-orchestrator-core/data-orchestrator-core.iml
\ No newline at end of file
+data-orchestrator/data-orchestrator-core/data-orchestrator-core.iml
+target/
+data-orchestrator/target
+data-orchestrator/data-orchestrator-core/target
+data-orchestrator/data-orchestrator-api/target
\ No newline at end of file
diff --git a/.travis.yml b/.travis.yml
new file mode 100644
index 000..9f37705
--- /dev/null
+++ b/.travis.yml
@@ -0,0 +1,36 @@
+#
+# 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.
+#
+
+language: java
+
+sudo: false
+
+notifications:
+  email:
+on_success: change
+on_failure: always
+
+jdk:
+  - oraclejdk11
+
+script: mvn clean install
+
+# Git-describe Maven plugin needs the full history
+git:
+  depth: false
diff --git a/pom.xml b/pom.xml
index b3e53b6..48bcf01 100644
--- a/pom.xml
+++ b/pom.xml
@@ -50,6 +50,19 @@
 https://issues.apache.org/jira/browse/AIRAVATA
 
 
-
+
+
+
+org.apache.maven.plugins
+maven-compiler-plugin
+3.6.1
+
+11
+11
+true
+
+
+
+
 
 

[airavata-data-lake] 02/09: Initial project structure for data orchestrator

[smarru]

This is an automated email from the ASF dual-hosted git repository.

smarru pushed a commit to branch metadata-service
in repository https://gitbox.apache.org/repos/asf/airavata-data-lake.git

commit 1eb8a81b7e8fe7de1d4589833ad5358ea85195b2
Author: Dimuthu Wannipurage 
AuthorDate: Fri Dec 11 04:19:07 2020 -0500

Initial project structure for data orchestrator
---
 .gitignore |  5 ++
 data-orchestrator/data-orchestrator-api/pom.xml| 15 ++
 .../datalake/orchestrator/api/Application.java | 26 ++
 data-orchestrator/data-orchestrator-core/pom.xml   | 15 ++
 .../orchestrator/core/task/AbstractTask.java   | 26 ++
 data-orchestrator/pom.xml  | 20 
 pom.xml| 55 ++
 7 files changed, 162 insertions(+)

diff --git a/.gitignore b/.gitignore
new file mode 100644
index 000..5559ec0
--- /dev/null
+++ b/.gitignore
@@ -0,0 +1,5 @@
+.idea/*
+airavata-data-lake.iml
+data-orchestrator/data-orchestrator.iml
+data-orchestrator/data-orchestrator-api/data-orchestrator-api.iml
+data-orchestrator/data-orchestrator-core/data-orchestrator-core.iml
\ No newline at end of file
diff --git a/data-orchestrator/data-orchestrator-api/pom.xml 
b/data-orchestrator/data-orchestrator-api/pom.xml
new file mode 100644
index 000..720bd6c
--- /dev/null
+++ b/data-orchestrator/data-orchestrator-api/pom.xml
@@ -0,0 +1,15 @@
+
+http://maven.apache.org/POM/4.0.0;
+ xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance;
+ xsi:schemaLocation="http://maven.apache.org/POM/4.0.0 
http://maven.apache.org/xsd/maven-4.0.0.xsd;>
+
+data-orchestrator
+org.apache.airavata.data.lake
+0.01-SNAPSHOT
+
+4.0.0
+
+data-orchestrator-api
+
+
+
\ No newline at end of file
diff --git 
a/data-orchestrator/data-orchestrator-api/src/main/java/org/apache/airavata/datalake/orchestrator/api/Application.java
 
b/data-orchestrator/data-orchestrator-api/src/main/java/org/apache/airavata/datalake/orchestrator/api/Application.java
new file mode 100644
index 000..dc91369
--- /dev/null
+++ 
b/data-orchestrator/data-orchestrator-api/src/main/java/org/apache/airavata/datalake/orchestrator/api/Application.java
@@ -0,0 +1,26 @@
+/*
+ *
+ * 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.
+ */
+package org.apache.airavata.datalake.orchestrator.api;
+
+/**
+ * TODO: Spring Boot API
+ */
+public class Application {
+}
diff --git a/data-orchestrator/data-orchestrator-core/pom.xml 
b/data-orchestrator/data-orchestrator-core/pom.xml
new file mode 100644
index 000..583e58a
--- /dev/null
+++ b/data-orchestrator/data-orchestrator-core/pom.xml
@@ -0,0 +1,15 @@
+
+http://maven.apache.org/POM/4.0.0;
+ xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance;
+ xsi:schemaLocation="http://maven.apache.org/POM/4.0.0 
http://maven.apache.org/xsd/maven-4.0.0.xsd;>
+
+data-orchestrator
+org.apache.airavata.data.lake
+0.01-SNAPSHOT
+
+4.0.0
+
+data-orchestrator-core
+
+
+
\ No newline at end of file
diff --git 
a/data-orchestrator/data-orchestrator-core/src/main/java/org/apache/airavata/datalake/orchestrator/core/task/AbstractTask.java
 
b/data-orchestrator/data-orchestrator-core/src/main/java/org/apache/airavata/datalake/orchestrator/core/task/AbstractTask.java
new file mode 100644
index 000..1072614
--- /dev/null
+++ 
b/data-orchestrator/data-orchestrator-core/src/main/java/org/apache/airavata/datalake/orchestrator/core/task/AbstractTask.java
@@ -0,0 +1,26 @@
+/*
+ *
+ * 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 t

[airavata-data-lake] 05/09: Initial framework for orchestrator API

[smarru]

This is an automated email from the ASF dual-hosted git repository.

smarru pushed a commit to branch metadata-service
in repository https://gitbox.apache.org/repos/asf/airavata-data-lake.git

commit 5c072e3b648a1b56f7aa19910764f83df6ca3f14
Author: Dimuthu Wannipurage 
AuthorDate: Tue Jan 5 04:51:42 2021 -0500

Initial framework for orchestrator API
---
 data-orchestrator/data-orchestrator-api/pom.xml|  51 ++
 .../datalake/orchestrator/api/Application.java |   7 ++
 .../HookController.java}   |   7 +-
 .../api/controller/TransferController.java |  48 +
 .../api/controller/remote/SFTPController.java  |  57 +++
 .../orchestrator/api/model/TransferEntry.java  |  75 ++
 .../api/model/remote/SFTPCredential.java   | 110 +
 .../orchestrator/api/model/remote/SFTPRemote.java  |  73 ++
 data-orchestrator/pom.xml  |  21 
 9 files changed, 444 insertions(+), 5 deletions(-)

diff --git a/data-orchestrator/data-orchestrator-api/pom.xml 
b/data-orchestrator/data-orchestrator-api/pom.xml
index 720bd6c..c840c04 100644
--- a/data-orchestrator/data-orchestrator-api/pom.xml
+++ b/data-orchestrator/data-orchestrator-api/pom.xml
@@ -1,4 +1,25 @@
 
+
 http://maven.apache.org/POM/4.0.0;
  xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance;
  xsi:schemaLocation="http://maven.apache.org/POM/4.0.0 
http://maven.apache.org/xsd/maven-4.0.0.xsd;>
@@ -11,5 +32,35 @@
 
 data-orchestrator-api
 
+
+
+org.springframework.boot
+spring-boot-starter-web
+2.4.1
+
+
+
+org.springframework.boot
+spring-boot-starter-test
+test
+
+
+org.junit.vintage
+junit-vintage-engine
+
+
+2.4.1
+
+
+
+
+
+
+org.springframework.boot
+spring-boot-maven-plugin
+2.4.1
+
+
+
 
 
\ No newline at end of file
diff --git 
a/data-orchestrator/data-orchestrator-api/src/main/java/org/apache/airavata/datalake/orchestrator/api/Application.java
 
b/data-orchestrator/data-orchestrator-api/src/main/java/org/apache/airavata/datalake/orchestrator/api/Application.java
index dc91369..df78fc2 100644
--- 
a/data-orchestrator/data-orchestrator-api/src/main/java/org/apache/airavata/datalake/orchestrator/api/Application.java
+++ 
b/data-orchestrator/data-orchestrator-api/src/main/java/org/apache/airavata/datalake/orchestrator/api/Application.java
@@ -19,8 +19,15 @@
  */
 package org.apache.airavata.datalake.orchestrator.api;
 
+import org.springframework.boot.SpringApplication;
+import org.springframework.boot.autoconfigure.SpringBootApplication;
+
 /**
  * TODO: Spring Boot API
  */
+@SpringBootApplication
 public class Application {
+public static void main(String[] args) {
+SpringApplication.run(Application.class, args);
+}
 }
diff --git 
a/data-orchestrator/data-orchestrator-api/src/main/java/org/apache/airavata/datalake/orchestrator/api/Application.java
 
b/data-orchestrator/data-orchestrator-api/src/main/java/org/apache/airavata/datalake/orchestrator/api/controller/HookController.java
similarity index 87%
copy from 
data-orchestrator/data-orchestrator-api/src/main/java/org/apache/airavata/datalake/orchestrator/api/Application.java
copy to 
data-orchestrator/data-orchestrator-api/src/main/java/org/apache/airavata/datalake/orchestrator/api/controller/HookController.java
index dc91369..c171681 100644
--- 
a/data-orchestrator/data-orchestrator-api/src/main/java/org/apache/airavata/datalake/orchestrator/api/Application.java
+++ 
b/data-orchestrator/data-orchestrator-api/src/main/java/org/apache/airavata/datalake/orchestrator/api/controller/HookController.java
@@ -17,10 +17,7 @@
  * specific language governing permissions and limitations
  * under the License.
  */
-package org.apache.airavata.datalake.orchestrator.api;
+package org.apache.airavata.datalake.orchestrator.api.controller;
 
-/**
- * TODO: Spring Boot API
- */
-public class Application {
+public class HookController {
 }
diff --git 
a/data-orchestrator/data-orchestrator-api/src/main/java/org/apache/airavata/datalake/orchestrator/api/controller/TransferController.java
 
b/data-orchestrator/data-orchestrator-api/src/main/java/org/apache/airavata/datalake/orchestrator/api/controller/TransferController.java
new file mode 100644
index 000..5e5b04c
--- /dev/null
+++ 
b/data-orchestrator/data-orchestrator-api/src/main/java/org/apache/airavata/datalake/orchestrator/api/controller/TransferController.java
@@ -0,0 +1,48 @@
+/*
+ *
+ * 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

[airavata-data-lake] branch metadata-service updated (ace1dc1 -> d44747e)

[smarru]

This is an automated email from the ASF dual-hosted git repository.

smarru pushed a change to branch metadata-service
in repository https://gitbox.apache.org/repos/asf/airavata-data-lake.git.


from ace1dc1  Adding repository support for SFTP Remotes
 new 2724b9a  metadata service neo4j implementation
 new 0bac93c  gRCP saving path
 new d44747e  Merge pull request #1 from isururanawaka/metadata_service

The 9 revisions listed above as "new" are entirely new to this
repository and will be described in separate emails.  The revisions
listed as "add" were already present in the repository and have only
been added to this reference.


Summary of changes:
 airavata-data-lake.ipr | 114 +++
 airavata-data-lake.iws | 418 +++
 metadata-service/data-builders/data-builders.iml   |  16 +
 .../data-builders}/pom.xml |   9 +-
 metadata-service/db-service/client/client.iml  | 109 +++
 .../db-service/client/db-service-client.iml|  16 +
 metadata-service/db-service/client/pom.xml |  28 +
 .../metadata/clients/MetadataServiceClient.java|  35 +
 .../clients/MetadataServiceClientBuilder.java  |  12 +
 .../airavata/datalake/metadata/clients/Test.java   |  78 ++
 metadata-service/db-service/db-service.iml | 420 +++
 metadata-service/db-service/pom.xml|  28 +
 .../db-service/server/db-service-server.iml| 462 
 metadata-service/db-service/server/pom.xml |  69 ++
 metadata-service/db-service/server/server.iml  | 109 +++
 .../airavata/datalake/metadata/AppConfig.java  | 149 
 .../datalake/metadata/Neo4JServiceInitializer.java |  14 +
 .../datalake/metadata/XmlConfiguration.java|   9 +
 .../datalake/metadata/backend/Connector.java   |  10 +
 .../airavata/datalake/metadata/backend/Person.java |  72 ++
 .../metadata/backend/neo4j/Neo4JConnector.java |  53 ++
 .../neo4j/curd/operators/GenericService.java   |  90 +++
 .../backend/neo4j/curd/operators/GroupService.java |   4 +
 .../neo4j/curd/operators/GroupServiceImpl.java |  16 +
 .../neo4j/curd/operators/ResourceService.java  |   4 +
 .../neo4j/curd/operators/ResourceServiceImpl.java  |  16 +
 .../neo4j/curd/operators/SearchOperator.java   |  33 +
 .../backend/neo4j/curd/operators/Service.java  |  27 +
 .../neo4j/curd/operators/TenantService.java|   4 +
 .../neo4j/curd/operators/TenantServiceImpl.java|  15 +
 .../backend/neo4j/curd/operators/UserService.java  |   4 +
 .../neo4j/curd/operators/UserServiceImpl.java  |  16 +
 .../metadata/backend/neo4j/model/nodes/Entity.java | 109 +++
 .../metadata/backend/neo4j/model/nodes/Group.java  | 208 ++
 .../backend/neo4j/model/nodes/Resource.java| 215 ++
 .../metadata/backend/neo4j/model/nodes/Role.java   |  37 +
 .../backend/neo4j/model/nodes/ServiceAccount.java  |  29 +
 .../metadata/backend/neo4j/model/nodes/Tenant.java | 125 
 .../metadata/backend/neo4j/model/nodes/User.java   | 132 
 .../backend/neo4j/model/relationships/Belongs.java |   9 +
 .../neo4j/model/relationships/ConfiguredWith.java  |   7 +
 .../backend/neo4j/model/relationships/Has.java |   9 +
 .../neo4j/model/relationships/HasAccess.java   |  23 +
 .../neo4j/model/relationships/HasChildGroup.java   |   9 +
 .../model/relationships/HasChildResource.java  |   8 +
 .../neo4j/model/relationships/HasChildUser.java|  19 +
 .../neo4j/model/relationships/HasParentGroup.java  |  19 +
 .../model/relationships/HasParentResource.java |   7 +
 .../backend/neo4j/model/relationships/HasRole.java |   8 +
 .../neo4j/model/relationships/MemberOf.java|  19 +
 .../neo4j/model/relationships/Relationship.java|  81 +++
 .../neo4j/model/relationships/SharedWith.java  |  25 +
 .../metadata/exceptions/DBConnectorException.java  |  10 +
 .../metadata/handlers/GroupServiceHandler.java |  38 +
 .../metadata/handlers/ResourceServiceHandler.java  |  38 +
 .../metadata/handlers/TenantServiceHandler.java|  83 +++
 .../metadata/handlers/UserServiceHandler.java  |  29 +
 .../datalake/metadata/parsers/GroupParser.java |  68 ++
 .../datalake/metadata/parsers/ResourceParser.java  |  77 ++
 .../datalake/metadata/parsers/TenantParser.java|  79 ++
 .../datalake/metadata/parsers/UserParser.java  |  22 +
 .../src/main/resources/application.properties  |  23 +
 .../src/main/resources/applicationContext.xml  |  12 +
 .../db-service/stub/db-service-stub.iml|  84 +++
 metadata-service/db-service/stub/pom.xml   |  57 ++
 .../stub/src/main/proto/common/Common.proto|  12 +
 .../stub/src/main/proto/group/Group.proto  |  88 +++
 .../stub/src/main/proto/resource/Resource.proto|  97 +++
 .../stub/src/main/proto/tenant/Tenant.proto|  67 ++
 .../db-service/stub/src/main/proto/user/User.proto |  66 ++
 metadata-ser

[airavata-data-lake] 04/09: Showing the latest build status

[smarru]

This is an automated email from the ASF dual-hosted git repository.

smarru pushed a commit to branch metadata-service
in repository https://gitbox.apache.org/repos/asf/airavata-data-lake.git

commit d760234496163a8064b77373cfe762a4367b
Author: Dimuthu Wannipurage 
AuthorDate: Fri Dec 11 04:26:20 2020 -0500

Showing the latest build status
---
 README.md | 1 +
 1 file changed, 1 insertion(+)

diff --git a/README.md b/README.md
index fd06c5a..2c0476f 100644
--- a/README.md
+++ b/README.md
@@ -19,6 +19,7 @@
 # Apache Airavata Data Lake
 
 
[![License](http://img.shields.io/badge/license-Apache--2-blue.svg?style=flat)](https://apache.org/licenses/LICENSE-2.0)
+[![Build 
Status](https://travis-ci.org/apache/airavata-data-lake.svg?branch=master)](https://travis-ci.org/apache/airavata-data-lake)
 
 Apache Airavata use cases enable capture of data from observational and 
experimental instruments and computations resulting from Airavata's 
orchestration capabilities. As the data deluges into vast amounts, harvesting 
the data, capturing metadata, presenting it for easy and controlled access 
becomes unmanageable. 
 

[airavata-site] branch asf-site updated: homepage, add a space

[smarru]

This is an automated email from the ASF dual-hosted git repository.

smarru pushed a commit to branch asf-site
in repository https://gitbox.apache.org/repos/asf/airavata-site.git


The following commit(s) were added to refs/heads/asf-site by this push:
 new 313f96e  homepage, add a space
 new f3c4528  Merge pull request #5 from karoka/asf-site
313f96e is described below

commit 313f96eca18f8964ba6d09ff25da012773ad21a5
Author: karoka 
AuthorDate: Tue Feb 25 17:03:02 2020 -0500

homepage, add a space
---
 content/index.html | 2 +-
 source/index.md| 2 +-
 2 files changed, 2 insertions(+), 2 deletions(-)

diff --git a/content/index.html b/content/index.html
index 7f7f41d..8c1a5b2 100644
--- a/content/index.html
+++ b/content/index.html
@@ -68,7 +68,7 @@
 
 
 
-Apache AiravataTM is a software framework that enables 
you to compose, manage, execute, and monitor large scale applications and 
workflows on distributed computing resources such as local clusters, 
supercomputers,computational grids, and computing clouds.
+Apache AiravataTM is a software framework that enables 
you to compose, manage, execute, and monitor large scale applications and 
workflows on distributed computing resources such as local clusters, 
supercomputers, computational grids, and computing clouds.
 
 
 
diff --git a/source/index.md b/source/index.md
index 7ea368c..2bfaebd 100644
--- a/source/index.md
+++ b/source/index.md
@@ -9,7 +9,7 @@ layout: default
 
 
 
-Apache AiravataTM is a software framework that enables 
you to compose, manage, execute, and monitor large scale applications and 
workflows on distributed computing resources such as local clusters, 
supercomputers,computational grids, and computing clouds.
+Apache AiravataTM is a software framework that enables 
you to compose, manage, execute, and monitor large scale applications and 
workflows on distributed computing resources such as local clusters, 
supercomputers, computational grids, and computing clouds.
 
 
 

[airavata-site] branch asf-site updated: Tiny typo

[smarru]

This is an automated email from the ASF dual-hosted git repository.

smarru pushed a commit to branch asf-site
in repository https://gitbox.apache.org/repos/asf/airavata-site.git


The following commit(s) were added to refs/heads/asf-site by this push:
 new 76098d5  Tiny typo
 new 8d62ba8  Merge pull request #6 from rbowen/patch-1
76098d5 is described below

commit 76098d50f4cf1dbcaa7d075d3b63e86adb2032f8
Author: Rich Bowen 
AuthorDate: Fri Mar 27 13:44:18 2020 -0400

Tiny typo

s/availalbe/available/
---
 content/development.html | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/content/development.html b/content/development.html
index 0808d44..c03983a 100644
--- a/content/development.html
+++ b/content/development.html
@@ -180,7 +180,7 @@
 
 
 Airavata Web Site
-The Apache Airavata website is availalbe from 
Apache's Git repository and mirrored in
+The Apache Airavata website is available from 
Apache's Git repository and mirrored in
 GitHub.
 
 

[airavata-docs] branch master updated: Changing API documentation to latest master

[smarru]

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-docs.git


The following commit(s) were added to refs/heads/master by this push:
 new 4392300  Changing API documentation to latest master
4392300 is described below

commit 439230079e936ba8cd304e8beac75cf99c11c3d3
Author: Suresh Marru 
AuthorDate: Thu Feb 18 17:29:33 2021 -0500

Changing API documentation to latest master
---
 docs/technical-documentation/airavata-api.md | 86 +++-
 1 file changed, 45 insertions(+), 41 deletions(-)

diff --git a/docs/technical-documentation/airavata-api.md 
b/docs/technical-documentation/airavata-api.md
index db615a5..2464608 100644
--- a/docs/technical-documentation/airavata-api.md
+++ b/docs/technical-documentation/airavata-api.md
@@ -1,30 +1,34 @@
 ## Apache Airavata API
 
-For Airavata API documentation please visit http://airavata.apache.org/api-docs/0.16/; target="_blank">Airavata 0.16 
API Documentation
+For latest Airavata API documentation please visit http://airavata.apache.org/api-docs/master/; target="_blank">Airavata 
Master Branch (0.20) API Documentation
+
+Legacy Airavata API documentation please visit:
+http://airavata.apache.org/api-docs/0.16/; target="_blank">Airavata 
0.16 API Documentation
+
 ### Airavata APIs for Experiments & Projects
 
 |   Gateway Function/Feature|   Airavata API|  
 Description |
 
|:--|:--|:--|
 Project
-| Create a Project  | http://airavata.apache.org/api-docs/0.16/airavata_api.html#Fn_Airavata_createProject;
 target="_blank">createProject  | 
Linked with Create Project in PGA.|
-| Update Project| http://airavata.apache.org/api-docs/0.16/airavata_api.html#Fn_Airavata_updateProject;
 target="_blank">updateProject  | To 
update Project name and description.   |
-| Get a Project | http://airavata.apache.org/api-docs/0.16/airavata_api.html#Fn_Airavata_getProject;
 target="_blank">getProject| 
Retrieve Project by providing the ID.   |
-| Search Project by Name| http://airavata.apache.org/api-docs/0.16/airavata_api.html#Fn_Airavata_searchProjectsByProjectName;
 target="_blank">searchProjectsByProjectName  | Search for Project 
by giving part or full project name.  |
-| Search Project by Desc| http://airavata.apache.org/api-docs/0.16/airavata_api.html#Fn_Airavata_searchProjectsByProjectDesc;
 target="_blank">searchProjectsByProjectDesc  | Search for Project 
by giving part or full project description.  |
-| Get all user Projects | http://airavata.apache.org/api-docs/0.16/airavata_api.html#Fn_Airavata_getUserProjects;
 target="_blank">getUserProjects  | 
Retrieve all Projects of a user.  |
+| Create a Project  | https://airavata.apache.org/api-docs/master/airavata_api.html#Fn_Airavata_createProject;
 target="_blank">createProject  | 
Linked with Create Project in PGA.|
+| Update Project| https://airavata.apache.org/api-docs/master/airavata_api.html#Fn_Airavata_updateProject;
 target="_blank">updateProject  | To 
update Project name and description.   |
+| Get a Project | https://airavata.apache.org/api-docs/master/airavata_api.html#Fn_Airavata_getProject;
 target="_blank">getProject| 
Retrieve Project by providing the ID.   |
+| Search Project by Name| https://airavata.apache.org/api-docs/master/airavata_api.html#Fn_Airavata_searchProjectsByProjectName;
 target="_blank">searchProjectsByProjectName  | Search for Project 
by giving part or full project name.  |
+| Search Project by Desc| https://airavata.apache.org/api-docs/master/airavata_api.html#Fn_Airavata_searchProjectsByProjectDesc;
 target="_blank">searchProjectsByProjectDesc  | Search for Project 
by giving part or full project description.  |
+| Get all user Projects | https://airavata.apache.org/api-docs/master/airavata_api.html#Fn_Airavata_getUserProjects;
 target="_blank">getUserProjects  | 
Retrieve all Projects of a user.  |
 Experiment
-| Create an Experiment  

[airavata-site] branch asf-site updated: deleting jekyll cache files

[smarru]

This is an automated email from the ASF dual-hosted git repository.

smarru pushed a commit to branch asf-site
in repository https://gitbox.apache.org/repos/asf/airavata-site.git


The following commit(s) were added to refs/heads/asf-site by this push:
 new 19f6b5f  deleting jekyll cache files
19f6b5f is described below

commit 19f6b5f7cdb809ba2067f0685e715cf1e52f550d
Author: Suresh Marru 
AuthorDate: Sun Jan 10 13:05:39 2021 -0500

deleting jekyll cache files
---
 .gitignore |   1 +
 ...609ed40b622142f1c98125abcfe89a76a661b0e8e343910 |   1 -
 ...1a671e2ee900a3a58c53ae94ea1401f16f2dbc07414ff2c | 163 
 ...9c824944eac78e44f64eddfb7c7979c65f7a8cf46580c47 |  53 ---
 ...345ce4aba7ac7f0528154f3bbdbcfa4198093b46364512a |  87 -
 ...6a46a9203715db1e5012f466a112ac879cb1557ac5909d4 | 146 ---
 ...91e820783c45095900bdfbba211ff18cf2d0c1ffab160aa |  17 -
 ...b465cdabef43ccc4010aedf59a3b393f8765978d3d17beb | 116 --
 ...5019a6c0edac0eeb9df286d45c5f2c2bd18c09ebe3dd901 |  46 ---
 ...72f4a28dc0ba0149f8eb8086ec651e6c2bab9c6b916a0cb |  43 ---
 ...7b97451a103074ce27c18b8341e5fecfc68ed87ae941d3a | 427 -
 ...ff707b5f21de916ad0470c2aa93786bb8911b4a694dbb9b | 113 --
 ...51fa97d84fa7a053a888fe71a4d9205a20fd94ae787e65c | 276 -
 13 files changed, 1 insertion(+), 1488 deletions(-)

diff --git a/.gitignore b/.gitignore
index fd24be2..33caefb 100644
--- a/.gitignore
+++ b/.gitignore
@@ -2,3 +2,4 @@
 source/.sass-cache/
 /source/.jekyll-cache/
 /.jekyll-cache/
+/.jekyll-cache/
diff --git 
a/source/.jekyll-cache/Jekyll/Cache/Jekyll--Cache/b7/9606fb3afea5bd1609ed40b622142f1c98125abcfe89a76a661b0e8e343910
 
b/source/.jekyll-cache/Jekyll/Cache/Jekyll--Cache/b7/9606fb3afea5bd1609ed40b622142f1c98125abcfe89a76a661b0e8e343910
deleted file mode 100644
index 7d71082..000
--- 
a/source/.jekyll-cache/Jekyll/Cache/Jekyll--Cache/b7/9606fb3afea5bd1609ed40b622142f1c98125abcfe89a76a661b0e8e343910
+++ /dev/null
@@ -1 +0,0 @@
-I"{"source"=>"/Users/smarru/websites/airavata-site/source", 
"destination"=>"../content", "collections_dir"=>"", 
"cache_dir"=>".jekyll-cache", "plugins_dir"=>"_plugins", 
"layouts_dir"=>"_layouts", "data_dir"=>"_data", "includes_dir"=>"_includes", 
"collections"=>{"posts"=>{"output"=>true, 
"permalink"=>"/:categories/:year/:month/:day/:title:output_ext"}, 
"airavata_team"=>{}}, "safe"=>false, "include"=>[".htaccess"], 
"exclude"=>[".sass-cache", ".jekyll-cache", "gemfiles", "Gemfile", "Ge [...]
\ No newline at end of file
diff --git 
a/source/.jekyll-cache/Jekyll/Cache/Jekyll--Converters--Markdown/16/843fac9b3ef92561a671e2ee900a3a58c53ae94ea1401f16f2dbc07414ff2c
 
b/source/.jekyll-cache/Jekyll/Cache/Jekyll--Converters--Markdown/16/843fac9b3ef92561a671e2ee900a3a58c53ae94ea1401f16f2dbc07414ff2c
deleted file mode 100644
index 54431b1..000
--- 
a/source/.jekyll-cache/Jekyll/Cache/Jekyll--Converters--Markdown/16/843fac9b3ef92561a671e2ee900a3a58c53ae94ea1401f16f2dbc07414ff2c
+++ /dev/null
@@ -1,163 +0,0 @@
-I"�
- 
- Our Collaborators and Clients
- Domain and Application Gateways
- 
- 
- 
- 
- Title
- Field of Science
- 
- 
- 
- 
- https://seagrid.org/; 
target="_blank">SEAGrid Gateway
- Chemistry  Engineering
- 
- 
- http://wiki.bcf2.uthscsa.edu/limsv3/; 
target="_blank">Ultrascan Gateway
- Biophysics
- 
- 
- https://www.phylo.org/; target="_blank">CIPRES 
Gateway
- Systematic  Population Biology
- 
- 
- http://www.nsgportal.org/; target="_blank">NSG 
Gateway
- Neuroscience Biology
- 
- 
- https://testdrive.airavata.org/; 
target="_blank">PGA
- Computer  Information Science  Engineering
- 
- 
- https://dreg.dnasequence.org/; 
target="_blank">dREG Gateway
- Genetics  Nucleic Acids
- 
- 
- https://phasta.scigap.org/; 
target="_blank">Phasta Gateway
- Mechanical Engineering
- 
- 
- https://geosurveyiu.scigap.org/; 
target="_blank">SimCCS Gateway
- Geology Survey
- 
-

[airavata-site] branch asf-site updated: adding pointer to release wiki

[smarru]

This is an automated email from the ASF dual-hosted git repository.

smarru pushed a commit to branch asf-site
in repository https://gitbox.apache.org/repos/asf/airavata-site.git


The following commit(s) were added to refs/heads/asf-site by this push:
 new e19aa6c  adding pointer to release wiki
e19aa6c is described below

commit e19aa6c0809353ae2f3e8dd183fe0f8c1f86eb38
Author: Suresh Marru 
AuthorDate: Sun Jan 10 13:02:51 2021 -0500

adding pointer to release wiki
---
 content/assets/css/main.css|  13 +-
 content/assets/css/main.css.map|   2 +-
 content/development.html   |   5 +
 ...609ed40b622142f1c98125abcfe89a76a661b0e8e343910 |   2 +-
 ...b28bc45b8ecf490184e62c01ad2421ac4b5e1e908da7234 | 382 -
 ...3020cdbd0e0f84b9ffd0188135f4e4de676605ce21930e5 | 147 
 ...e8a3ce5912990d5b529227a1861146e6ff045506644579e | 382 -
 source/development.md  |   6 +
 8 files changed, 16 insertions(+), 923 deletions(-)

diff --git a/content/assets/css/main.css b/content/assets/css/main.css
index 1bdf35d..05cea81 100644
--- a/content/assets/css/main.css
+++ b/content/assets/css/main.css
@@ -50,7 +50,7 @@ pre > code { border: 0; padding-right: 0; padding-left: 0; }
 @media screen and (max-width: 800px) { .wrapper { max-width: 
-webkit-calc(800px - (30x)); max-width: calc(800px - (30x)); padding-right: 
15x; padding-left: 15x; } }
 
 /** Clearfix */
-.wrapper:after, .footer-col-wrapper:after { content: ""; display: table; 
clear: both; }
+.footer-col-wrapper:after, .wrapper:after { content: ""; display: table; 
clear: both; }
 
 /** Icons */
 .icon > svg { display: inline-block; width: 16px; height: 16px; 
vertical-align: middle; }
@@ -72,13 +72,7 @@ pre > code { border: 0; padding-right: 0; padding-left: 0; }
 
 .site-nav .page-link:not(:first-child) { margin-left: 20px; }
 
-@media screen and (max-width: 600px) { .site-nav { position: absolute; top: 
9px; right: 30px; background-color: #fdfdfd; border: 1px solid #e8e8e8; 
border-radius: 5px; text-align: right; }
-  .site-nav .menu-icon { display: block; float: right; width: 36px; height: 
26px; line-height: 0; padding-top: 10px; text-align: center; }
-  .site-nav .menu-icon > svg { width: 18px; height: 15px; }
-  .site-nav .menu-icon > svg path { fill: #424242; }
-  .site-nav .trigger { clear: both; display: none; }
-  .site-nav:hover .trigger { display: block; padding-bottom: 5px; }
-  .site-nav .page-link { display: block; padding: 5px 10px; } }
+@media screen and (max-width: 600px) { .site-nav { position: absolute; top: 
9px; right: 30px; background-color: #fdfdfd; border: 1px solid #e8e8e8; 
border-radius: 5px; text-align: right; } .site-nav .menu-icon { display: block; 
float: right; width: 36px; height: 26px; line-height: 0; padding-top: 10px; 
text-align: center; } .site-nav .menu-icon > svg { width: 18px; height: 15px; } 
.site-nav .menu-icon > svg path { fill: #424242; } .site-nav .trigger { clear: 
both; display: none; } .site- [...]
 
 /** Site footer */
 .site-footer { border-top: 1px solid #e8e8e8; padding: 30x 0; }
@@ -97,8 +91,7 @@ pre > code { border: 0; padding-right: 0; padding-left: 0; }
 
 .footer-col-3 { width: -webkit-calc(45% - (30x / 2)); width: calc(45% - (30x / 
2)); }
 
-@media screen and (max-width: 800px) { .footer-col-1, .footer-col-2 { width: 
-webkit-calc(50% - (30x / 2)); width: calc(50% - (30x / 2)); }
-  .footer-col-3 { width: -webkit-calc(100% - (30x / 2)); width: calc(100% - 
(30x / 2)); } }
+@media screen and (max-width: 800px) { .footer-col-1, .footer-col-2 { width: 
-webkit-calc(50% - (30x / 2)); width: calc(50% - (30x / 2)); } .footer-col-3 { 
width: -webkit-calc(100% - (30x / 2)); width: calc(100% - (30x / 2)); } }
 
 @media screen and (max-width: 600px) { .footer-col { float: none; width: 
-webkit-calc(100% - (30x / 2)); width: calc(100% - (30x / 2)); } }
 
diff --git a/content/assets/css/main.css.map b/content/assets/css/main.css.map
index 0cc0169..87e4699 100644
--- a/content/assets/css/main.css.map
+++ b/content/assets/css/main.css.map
@@ -14,5 +14,5 @@
"/**\n * Syntax highlighting styles\n */\n.highlight {\n
background: #fff;\n@extend %vertical-rhythm;\n\n.c { color: #998; 
font-style: italic } // Comment\n.err   { color: #a61717; background-color: 
#e3d2d2 } // Error\n.k { font-weight: bold } // Keyword\n.o { 
font-weight: bold } // Operator\n.cm{ color: #998; font-style: italic } 
// Comment.Multiline\n.cp{ color: #999; font-weight: bold } // 
Comment.Preproc\n.c1{ color: #998;  [...]
],
"names": [],
-   "mappings": 
"ACAA,gCAEG;AACH,,IAAI,EAAE,EAAE,EAAE,EAAE,EAAE,EAAE,EAAE,EAAE,EAAE,EAAE,EAAE,EAAE,EAC5B,CAAC,EAAE,UAAU,EAAE,GAAG,EAAE,EAAE,EACtB,EAAE,EAAE,EAAE,EAAE,EAAE,EAAE,EAAE,EAAE,MAAM,CAAC,EACnB,MAAM,EA

[airavata-data-lake] 01/01: bootstrapping git repo

[smarru]

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-data-lake.git

commit 3ed323a81d93a2da0cad1e748bc6e825102cb06d
Author: Suresh Marru 
AuthorDate: Tue Nov 10 13:02:25 2020 -0500

bootstrapping git repo
---
 README.md | 35 +++
 1 file changed, 35 insertions(+)

diff --git a/README.md b/README.md
new file mode 100644
index 000..fd06c5a
--- /dev/null
+++ b/README.md
@@ -0,0 +1,35 @@
+
+# Apache Airavata Data Lake
+
+[![License](http://img.shields.io/badge/license-Apache--2-blue.svg?style=flat)](https://apache.org/licenses/LICENSE-2.0)
+
+Apache Airavata use cases enable capture of data from observational and 
experimental instruments and computations resulting from Airavata's 
orchestration capabilities. As the data deluges into vast amounts, harvesting 
the data, capturing metadata, presenting it for easy and controlled access 
becomes unmanageable. 
+
+Airavata data lake will bundle stand alone services to catalog data in various 
data stores, extract and capture semantics and metadata descriptions of the 
data and preserve associated data provenance. The data lake will provide API's, 
query and search capabilities to programmatically search and retrieve data and 
power building user interactivity and data analysis applications on top of it. 
+
+![Airavata Data Lake 
Overview](https://cwiki.apache.org/confluence/download/attachments/165224787/Airavata%20Data%20Lake.png?version=1=160502062=v2)
+
+Airavata Data Lake will provide file watcher and other trigger capabilities to 
ingest data from scientific instruments as they become available. The framwork 
will enable pluggable data parsers to read structured and unstructured data 
files and extract meaningful descriptions. 
+
+A bundled Data replica catalogs will associate pointers to data at multiple 
storgae locations. The replica catalog maps logical file names to the physical 
locations. Data Lake client SDK's will provide API functions to query replica 
location and resolve into multiple physical file locations. The client will be 
bundled with access protocols to retrive the data or to embedd into 
computational pipelines. 
+
+Interfacing with Airavata [Managed File Transfer 
Service](https://github.com/apache/airavata-mft) Data can moved and archiving 
into longer term persistant storages like tapped archives. The Data archives 
will be indexed and have search capabilities  
+
+Data Lake's provenance will provide information to capture parameters 
influenced the production or modification of the data. An abstraction API will 
enable plugging fine granted provenance based on Airavata tentant context. 
Interfacing with Airavata Orchestration Services, pointers to experiment 
catalog will enable restructuring of the underting computations.
\ No newline at end of file

[airavata-data-lake] branch master created (now 3ed323a)

[smarru]

This is an automated email from the ASF dual-hosted git repository.

smarru pushed a change to branch master
in repository https://gitbox.apache.org/repos/asf/airavata-data-lake.git.


  at 3ed323a  bootstrapping git repo

This branch includes the following new commits:

 new 3ed323a  bootstrapping git repo

The 1 revisions listed above as "new" are entirely new to this
repository and will be described in separate emails.  The revisions
listed as "add" were already present in the repository and have only
been added to this reference.

[airavata-site] branch asf-site updated: changing git url

[smarru]

This is an automated email from the ASF dual-hosted git repository.

smarru pushed a commit to branch asf-site
in repository https://gitbox.apache.org/repos/asf/airavata-site.git


The following commit(s) were added to refs/heads/asf-site by this push:
 new 6d1f4bd  changing git url
6d1f4bd is described below

commit 6d1f4bd153da04492bf50d4b90fb098aeba93009
Author: Suresh Marru 
AuthorDate: Tue Oct 13 23:27:55 2020 -0400

changing git url
---
 content/custos/index.html | 2 +-
 source/custos/index.html  | 2 +-
 2 files changed, 2 insertions(+), 2 deletions(-)

diff --git a/content/custos/index.html b/content/custos/index.html
index a92c278..5511941 100644
--- a/content/custos/index.html
+++ b/content/custos/index.html
@@ -53,7 +53,7 @@
   alt="Custos Logo" 
class="ui centered small image">
 
 
-https://github.com/apache/airavata-custos/tree/develop; target="_blank" 
class="ui button black"> GitHub
+https://github.com/apache/airavata-custos; target="_blank" class="ui 
button black"> GitHub
 
 
 
diff --git a/source/custos/index.html b/source/custos/index.html
index a92c278..5511941 100644
--- a/source/custos/index.html
+++ b/source/custos/index.html
@@ -53,7 +53,7 @@
   alt="Custos Logo" 
class="ui centered small image">
 
 
-https://github.com/apache/airavata-custos/tree/develop; target="_blank" 
class="ui button black"> GitHub
+https://github.com/apache/airavata-custos; target="_blank" class="ui 
button black"> GitHub
 
 
 

[airavata-site] branch asf-site updated: Changing custos git link to master

[smarru]

This is an automated email from the ASF dual-hosted git repository.

smarru pushed a commit to branch asf-site
in repository https://gitbox.apache.org/repos/asf/airavata-site.git


The following commit(s) were added to refs/heads/asf-site by this push:
 new e15a589  Changing custos git link to master
e15a589 is described below

commit e15a589e3435fed43de6ffe9e17299204bd1e56e
Author: Suresh Marru 
AuthorDate: Tue Oct 13 23:25:35 2020 -0400

Changing custos git link to master
---
 content/custos/index.html |   2 +-
 source/custos/.DS_Store   | Bin 0 -> 6148 bytes
 source/custos/index.html  |   2 +-
 3 files changed, 2 insertions(+), 2 deletions(-)

diff --git a/content/custos/index.html b/content/custos/index.html
index c87a027..a92c278 100644
--- a/content/custos/index.html
+++ b/content/custos/index.html
@@ -31,7 +31,7 @@
 Partners
 Contact
 
-https://github.com/apache/airavata-custos/tree/develop; 
target="_blank"> GitHub
+https://github.com/apache/airavata-custos; target="_blank"> GitHub
 
 
 
diff --git a/source/custos/.DS_Store b/source/custos/.DS_Store
new file mode 100644
index 000..9e6f774
Binary files /dev/null and b/source/custos/.DS_Store differ
diff --git a/source/custos/index.html b/source/custos/index.html
index c87a027..a92c278 100644
--- a/source/custos/index.html
+++ b/source/custos/index.html
@@ -31,7 +31,7 @@
 Partners
 Contact
 
-https://github.com/apache/airavata-custos/tree/develop; 
target="_blank"> GitHub
+https://github.com/apache/airavata-custos; target="_blank"> GitHub
 
 
 

[airavata-site] branch asf-site updated: Changing custos git link to master

[smarru]

This is an automated email from the ASF dual-hosted git repository.

smarru pushed a commit to branch asf-site
in repository https://gitbox.apache.org/repos/asf/airavata-site.git


The following commit(s) were added to refs/heads/asf-site by this push:
 new e15a589  Changing custos git link to master
e15a589 is described below

commit e15a589e3435fed43de6ffe9e17299204bd1e56e
Author: Suresh Marru 
AuthorDate: Tue Oct 13 23:25:35 2020 -0400

Changing custos git link to master
---
 content/custos/index.html |   2 +-
 source/custos/.DS_Store   | Bin 0 -> 6148 bytes
 source/custos/index.html  |   2 +-
 3 files changed, 2 insertions(+), 2 deletions(-)

diff --git a/content/custos/index.html b/content/custos/index.html
index c87a027..a92c278 100644
--- a/content/custos/index.html
+++ b/content/custos/index.html
@@ -31,7 +31,7 @@
 Partners
 Contact
 
-https://github.com/apache/airavata-custos/tree/develop; 
target="_blank"> GitHub
+https://github.com/apache/airavata-custos; target="_blank"> GitHub
 
 
 
diff --git a/source/custos/.DS_Store b/source/custos/.DS_Store
new file mode 100644
index 000..9e6f774
Binary files /dev/null and b/source/custos/.DS_Store differ
diff --git a/source/custos/index.html b/source/custos/index.html
index c87a027..a92c278 100644
--- a/source/custos/index.html
+++ b/source/custos/index.html
@@ -31,7 +31,7 @@
 Partners
 Contact
 
-https://github.com/apache/airavata-custos/tree/develop; 
target="_blank"> GitHub
+https://github.com/apache/airavata-custos; target="_blank"> GitHub
 
 
 

[airavata-site] branch asf-site updated: changing git url

[smarru]

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smarru pushed a commit to branch asf-site
in repository https://gitbox.apache.org/repos/asf/airavata-site.git


The following commit(s) were added to refs/heads/asf-site by this push:
 new 6d1f4bd  changing git url
6d1f4bd is described below

commit 6d1f4bd153da04492bf50d4b90fb098aeba93009
Author: Suresh Marru 
AuthorDate: Tue Oct 13 23:27:55 2020 -0400

changing git url
---
 content/custos/index.html | 2 +-
 source/custos/index.html  | 2 +-
 2 files changed, 2 insertions(+), 2 deletions(-)

diff --git a/content/custos/index.html b/content/custos/index.html
index a92c278..5511941 100644
--- a/content/custos/index.html
+++ b/content/custos/index.html
@@ -53,7 +53,7 @@
   alt="Custos Logo" 
class="ui centered small image">
 
 
-https://github.com/apache/airavata-custos/tree/develop; target="_blank" 
class="ui button black"> GitHub
+https://github.com/apache/airavata-custos; target="_blank" class="ui 
button black"> GitHub
 
 
 
diff --git a/source/custos/index.html b/source/custos/index.html
index a92c278..5511941 100644
--- a/source/custos/index.html
+++ b/source/custos/index.html
@@ -53,7 +53,7 @@
   alt="Custos Logo" 
class="ui centered small image">
 
 
-https://github.com/apache/airavata-custos/tree/develop; target="_blank" 
class="ui button black"> GitHub
+https://github.com/apache/airavata-custos; target="_blank" class="ui 
button black"> GitHub
 
 
 

[airavata-custos-portal] branch master updated: Updating README

[smarru]

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smarru pushed a commit to branch master
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The following commit(s) were added to refs/heads/master by this push:
 new 0bf8024  Updating README
0bf8024 is described below

commit 0bf802455019468f813c3b52824d293242d5dc70
Author: Suresh Marru 
AuthorDate: Tue Oct 13 21:19:14 2020 -0400

Updating README
---
 README | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/README b/README
index 2f43c32..17f087a 100644
--- a/README
+++ b/README
@@ -1,3 +1,3 @@
 # Apache Airavata Custos Portal
 
-Portal interface implemented in Django Framework to use and administer Custos 
Services 
\ No newline at end of file
+A Reference Portal interface implemented in Vue.JS Framework to use and 
administer a sample Custos Tenant 

[airavata-custos] branch master updated: custos-python-sdk-demo

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smarru pushed a commit to branch master
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The following commit(s) were added to refs/heads/master by this push:
 new 2d34184  custos-python-sdk-demo
2d34184 is described below

commit 2d341849dd8ea8a7c2efec6cc73b01dfd495352e
Author: Suresh Marru 
AuthorDate: Tue Oct 13 21:15:22 2020 -0400

custos-python-sdk-demo
---
 custos-samples/configs/settings.ini|   8 +
 custos-samples/samples/__init__.py |   0
 custos-samples/samples/group_management_samples.py |  58 
 .../samples/identity_management_samples.py |  40 +++
 .../samples/secret_management_samples.py   |  62 
 .../secure_resources_with_custos_simulation.py | 361 +
 .../samples/sharing_management_samples.py  |  89 +
 custos-samples/samples/user_management_samples.py  |  66 
 8 files changed, 684 insertions(+)

diff --git a/custos-samples/configs/settings.ini 
b/custos-samples/configs/settings.ini
new file mode 100644
index 000..f6289bf
--- /dev/null
+++ b/custos-samples/configs/settings.ini
@@ -0,0 +1,8 @@
+[CustosServer]
+SERVER_HOST = custos.scigap.org
+SERVER_SSL_PORT = 31499
+;CLIENT_ID = 
+;CLIENT_SEC = 
+
+CLIENT_ID = 
+CLIENT_SEC = 
diff --git a/custos-samples/samples/__init__.py 
b/custos-samples/samples/__init__.py
new file mode 100644
index 000..e69de29
diff --git a/custos-samples/samples/group_management_samples.py 
b/custos-samples/samples/group_management_samples.py
new file mode 100644
index 000..a0082ee
--- /dev/null
+++ b/custos-samples/samples/group_management_samples.py
@@ -0,0 +1,58 @@
+import os
+
+from custos.clients.group_management_client import GroupManagementClient
+
+from custos.transport.settings import CustosServerClientSettings
+import custos.clients.utils.utilities as utl
+
+# load root directoty
+BASE_DIR = os.path.dirname(os.path.dirname(os.path.abspath(__file__)))
+
+# get settings file path (settings file path reside in configs folder under 
home directory)
+settings_path = os.path.join(BASE_DIR, 'configs', "settings.ini")
+
+# read settings
+custos_settings = 
CustosServerClientSettings(configuration_file_location=settings_path)
+
+# create custos user management client
+group_management_client = GroupManagementClient(custos_settings)
+
+# obtain base 64 encoded token for tenant
+b64_encoded_custos_token = utl.get_token(custos_settings=custos_settings)
+
+
+def create_group(name, description, owner_id):
+response = 
group_management_client.create_groups(token=b64_encoded_custos_token, name=name,
+ description=description,
+ owner_id=owner_id)
+print(response)
+return response
+
+
+def add_user_to_group(username, group_id, membership_type):
+response = 
group_management_client.add_user_to_group(token=b64_encoded_custos_token,
+ username=username,
+ group_id=group_id,
+ 
membership_type=membership_type)
+print(response)
+
+
+def add_child_group_to_parent_group(parent_group_id, child_group_id):
+response = 
group_management_client.add_child_group(token=b64_encoded_custos_token, 
parent_group_id=parent_group_id,
+   
child_group_id=child_group_id)
+print(response)
+
+
+def remove_child_group(parent_group_id, child_group_id):
+response = 
group_management_client.add_child_group(token=b64_encoded_custos_token, 
parent_group_id=parent_group_id,
+   
child_group_id=child_group_id)
+print(response)
+
+
+create_group("Group A", "Paren group", "TestUser4")
+create_group("Group B", "Child group", "TestUser4")
+
+add_user_to_group("Testuser5", "602336d5-e193-41ac-bde6-eb36a73f687e", 
"Member")
+
+add_child_group_to_parent_group("8b0f8241-e995-496e-a4f5-bdbde4235215", 
"602336d5-e193-41ac-bde6-eb36a73f687e")
+remove_child_group("8b0f8241-e995-496e-a4f5-bdbde4235215", 
"602336d5-e193-41ac-bde6-eb36a73f687e")
diff --git a/custos-samples/samples/identity_management_samples.py 
b/custos-samples/samples/identity_management_samples.py
new file mode 100644
index 000..d135f57
--- /dev/null
+++ b/custos-samples/samples/identity_management_samples.py
@@ -0,0 +1,40 @@
+import os
+
+from custos.clients.identity_management_client import IdentityManagementClient
+
+from custos.transport.settings import CustosServerClientSettings
+import custos.clients.utils.utilities as utl
+
+# load APIServerClient with default configuration
+BASE_DIR = os.pa

[airavata-custos] 01/01: Merge branch 'master' into develop

[smarru]

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smarru pushed a commit to branch master
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commit a16239330dea63f448b36f4369f3eac260039ac9
Merge: 9845ab1 e03271f
Author: Suresh Marru 
AuthorDate: Tue Oct 13 21:07:31 2020 -0400

Merge branch 'master' into develop

[airavata-custos] branch master updated: removing redundant flag

[smarru]

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smarru pushed a commit to branch master
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The following commit(s) were added to refs/heads/master by this push:
 new e03271f  removing redundant flag
e03271f is described below

commit e03271f3c40c120bb547591b6c57894f21717fd6
Author: Suresh Marru 
AuthorDate: Tue Oct 13 20:42:02 2020 -0400

removing redundant flag
---
 .asf.yaml | 2 --
 1 file changed, 2 deletions(-)

diff --git a/.asf.yaml b/.asf.yaml
index ad4680c..0fe606c 100644
--- a/.asf.yaml
+++ b/.asf.yaml
@@ -40,6 +40,4 @@ github:
   features:
 wiki: false
 issues: true
-
-projects: true
 projects: true

[airavata-custos] 01/01: Merge pull request #115 from apache/custos-python-sdk-demo

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smarru pushed a commit to branch master
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commit 4c89a610735582015a24ba9911b08f5e3f135643
Merge: cb5f076 f91dbdf
Author: Suresh Marru 
AuthorDate: Tue Oct 13 20:32:09 2020 -0400

Merge pull request #115 from apache/custos-python-sdk-demo

Merging Custos python sdk demo into Master

 .asf.yaml  |  20 ++
 .gitignore |  42 +++
 .travis.yml|   2 +-
 LICENSE| 201 
 README |   5 -
 custos-samples/configs/settings.ini|   8 +
 custos-samples/samples/__init__.py |   0
 custos-samples/samples/group_management_samples.py |  58 
 .../samples/identity_management_samples.py |  40 +++
 .../samples/secret_management_samples.py   |  62 
 .../secure_resources_with_custos_simulation.py | 361 +
 .../samples/sharing_management_samples.py  |  89 +
 custos-samples/samples/user_management_samples.py  |  66 
 pom.xml| 111 ---
 14 files changed, 747 insertions(+), 318 deletions(-)

[airavata-custos] branch master updated (cb5f076 -> 4c89a61)

[smarru]

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smarru pushed a change to branch master
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from cb5f076  removing legacy credential store and python clients
 add 6aea83b  added profile service, security service, custos common 
utilities and thrift files
 add 7d1e712  1. modified the project structure 2. corrected the thrift 
files 3. modified the UserProfileHandler, IamAdminServerHandler and 
TenantProfileHandler
 add 1f86fea  corrected the sql files
 add 6c3fb74  added logging
 add 8f67c2d  added logging
 add 55853a8  Merge branch 'custos-dev-abisht' of 
https://github.com/aarushiibisht/airavata-custos into custos-dev-abisht
 add 6563e2c  added authentication service
 add 0a9efcb  added gitignore file
 add d71d201  added custos authentication server
 add a01e225  corrected the authentication client
 add 37a1821  configuration changes
 add 1f8697e  Merge pull request #1 from aarushiibisht/custos-dev-abisht
 add 21e80c7  added custos tenant profile
 add 611cb4a  Merge pull request #2 from aarushiibisht/custos-dev-abisht
 add 07dbb75  removed hard coded version from the pom.xml files which now 
uses project version
 add 6fa92d1  code refactoring
 add 44b6bb1  Merge pull request #3 from aarushiibisht/custos-dev-abisht
 add bd6952c  code refactoring
 add b5260d9  Merge branch 'custos-dev-abisht' of 
https://github.com/aarushiibisht/airavata-custos into custos-dev-abisht
 add cf853a8  Merge branch 'custos-dev-abisht' of 
https://github.com/aarushiibisht/airavata-custos into custos-dev-abisht
 add ca8a8bb  Merge branch 'custos-dev-abisht' of 
https://github.com/aarushiibisht/airavata-custos into custos-dev-abisht
 add c9ca887  Merge pull request #4 from aarushiibisht/custos-dev-abisht
 add d268641  refactored tenant profile and iam admin services service
 add 20e5010  addes user profile test cases
 add 7ba18f6  Added user profile service unit test cases
 add e01fd7c  Merge pull request #2 from aarushiibisht/master
 add a08c0b1  added samples for end to end testing and junit test cases
 add 5595257  added readme, log4j properties files, samples for end to end 
testing of services and deleted unnecessary configuration files
 add 469150f  Merge pull request #4 from aarushiibisht/custos-dev-abisht
 add daf1e71  migrated sharing registry service into custos
 add d89e0de  created apis from group service and sharing service
 add a0b6462  Merge pull request #6 from aarushiibisht/custos-dev-abisht
 add 757fe55  updated the branch with master
 add b211e6d  Merge pull request #7 from 
aarushiibisht/custos_sharing_registry_changes
 add 3c65949  refactored some apis, added database dump
 add 7534acb  updated the sharing registry apis
 add 0a94161  Merge pull request #8 from 
aarushiibisht/custos_sharing_registry_changes
 add e59c4d8  added a readme
 add da05787  Merge pull request #9 from 
aarushiibisht/custos_sharing_registry_changes
 add fc08910  code refactoring
 add 5fe0bee  Merge pull request #10 from 
aarushiibisht/custos_sharing_registry_changes
 add 1b588e9  group profile service changes should go in a different commit
 add 409ac82  group profile service changes should go in a different commit
 add 2e3135a  Merge pull request #5 from aarushiibisht/master
 add 7fee0b2  added validations and refactored exception handling
 add 240a19b  Added validations and refactored exception handling for 
sharing service
 add a57cdd6  Merge pull request #6 from aarushiibisht/master
 add c01df51  added ansible playbooks
 add 76e8320  Merge pull request #9 from aarushiibisht/custos-dev-abisht
 add 5c69270  Updated ansible scripts
 add 9b13ad6  Added keystore
 add aee42eb  Rest API initial commit
 add 774ad91  Adding additional methods to TenantController
 add 269a523  Draft API definitions for Resource, Secret and CILogon 
controllers
 add 0c90bb7  custos project prototype
 add 699b768  Adding docker image build and helm  chart support
 add 8c57d05  Add asynchronuse messageflow support
 add b5911cd  Integrating slueth zipking and grpc tracing
 add 5a879da  Add prometheus support
 add 8d8179e  Adding side car support
 add 4419ad1  Add nginx controller
 add f1910ff  ingress-grpc
 add a2fa607  Tenant profile persistance data model
 add 4c06534  Complete Tenant Profile Service Functions
 add d41601c  COmplete tenant core
 add b922f59  Add IAM services
 add da2e1b9  Complete IAM Service
 add 7d1fffc  Add credential store service
 add e82f097  Add credential core stubs
 add fb839f7  Add CILogon client
 add dc66523  Add federated authentication core service
 add acd97a1  Add federated authentication core service
 add 81407f9  federated client stub
 add