feat: init repo (elixir-cloud-aai#2)

.dockerignore

@@ -0,0 +1,15 @@
+# Ignore Git- and GitHub-specific files and dirs
+.git
+.github
+.gitignore
+
+# Remove all docs but README.md from root directory
+*.md
+!README*.md
+
+# Ignore build-specific files and dirs
+**/*.egg-info
+src
+
+# Ignore CI-related files and dirs
+.travis.yml

.gitignore

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+###########################
+### AUTOMATIC ADDITIONS ###
+###########################
+
+# Created by https://www.gitignore.io/api/vim,linux,emacs,python,visualstudiocode
+
+### Emacs ###
+# -*- mode: gitignore; -*-
+*~
+\#*\#
+/.emacs.desktop
+/.emacs.desktop.lock
+*.elc
+auto-save-list
+tramp
+.\#*
+
+# Org-mode
+.org-id-locations
+*_archive
+
+# flymake-mode
+*_flymake.*
+
+# eshell files
+/eshell/history
+/eshell/lastdir
+
+# elpa packages
+/elpa/
+
+# reftex files
+*.rel
+
+# AUCTeX auto folder
+/auto/
+
+# cask packages
+.cask/
+dist/
+
+# Flycheck
+flycheck_*.el
+
+# server auth directory
+/server/
+
+# projectiles files
+.projectile
+
+# directory configuration
+.dir-locals.el
+
+### Linux ###
+
+# temporary files which can be created if a process still has a handle open of a deleted file
+.fuse_hidden*
+
+# KDE directory preferences
+.directory
+
+# Linux trash folder which might appear on any partition or disk
+.Trash-*
+
+# .nfs files are created when an open file is removed but is still being accessed
+.nfs*
+
+### Python ###
+# Byte-compiled / optimized / DLL files
+__pycache__/
+*.py[cod]
+*$py.class
+
+# C extensions
+*.so
+
+# Distribution / packaging
+.Python
+build/
+develop-eggs/
+downloads/
+eggs/
+.eggs/
+lib/
+lib64/
+parts/
+sdist/
+var/
+wheels/
+*.egg-info/
+.installed.cfg
+*.egg
+MANIFEST
+
+# PyInstaller
+#  Usually these files are written by a python script from a template
+#  before PyInstaller builds the exe, so as to inject date/other infos into it.
+*.manifest
+*.spec
+
+# Installer logs
+pip-log.txt
+pip-delete-this-directory.txt
+
+# Unit test / coverage reports
+htmlcov/
+.tox/
+.coverage
+.coverage.*
+.cache
+nosetests.xml
+coverage.xml
+*.cover
+.hypothesis/
+.pytest_cache/
+
+# Translations
+*.mo
+*.pot
+
+# Django stuff:
+*.log
+local_settings.py
+db.sqlite3
+
+# Flask stuff:
+instance/
+.webassets-cache
+
+# Scrapy stuff:
+.scrapy
+
+# Sphinx documentation
+docs/_build/
+
+# PyBuilder
+target/
+
+# Jupyter Notebook
+.ipynb_checkpoints
+
+# pyenv
+.python-version
+
+# celery beat schedule file
+celerybeat-schedule
+
+# SageMath parsed files
+*.sage.py
+
+# Environments
+.env
+.venv
+env/
+venv/
+ENV/
+env.bak/
+venv.bak/
+
+# Spyder project settings
+.spyderproject
+.spyproject
+
+# Rope project settings
+.ropeproject
+
+# mkdocs documentation
+/site
+
+# mypy
+.mypy_cache/
+
+### Python Patch ###
+.venv/
+
+### Python.VirtualEnv Stack ###
+# Virtualenv
+# http://iamzed.com/2009/05/07/a-primer-on-virtualenv/
+[Bb]in
+[Ii]nclude
+[Ll]ib
+[Ll]ib64
+[Ll]ocal
+[Ss]cripts
+pyvenv.cfg
+pip-selfcheck.json
+
+### Vim ###
+# Swap
+[._]*.s[a-v][a-z]
+[._]*.sw[a-p]
+[._]s[a-rt-v][a-z]
+[._]ss[a-gi-z]
+[._]sw[a-p]
+
+# Session
+Session.vim
+
+# Temporary
+.netrwhist
+# Auto-generated tag files
+tags
+# Persistent undo
+[._]*.un~
+
+### VisualStudioCode ###
+.vscode/*
+!.vscode/settings.json
+!.vscode/tasks.json
+!.vscode/launch.json
+!.vscode/extensions.json
+
+
+# End of https://www.gitignore.io/api/vim,linux,emacs,python,visualstudiocode
+
+########################
+### Custom additions ###
+########################
+
+# Add any custom additions below
+!.gitkeep
+.vscode/
+*.modified.yaml
+.idea/*

.travis.yml

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+os:
+  - linux
+dist: bionic
+language: python
+python:
+  - "3.6"
+  - "3.7"
+  - "3.8"
+
+# Build once for pushes to the repo, and once for PR from forks
+if: (type == push) OR (type == pull_request AND fork == true)
+
+script:
+  - flake8

Dockerfile

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+##### BASE IMAGE #####
+FROM elixircloud/foca:latest
+
+##### METADATA ##### 
+LABEL software="TRS-filer"
+LABEL software.description="Tool Registry Service with FOCA"
+LABEL software.website="https://github.com/elixir-cloud-aai/trs-filer"
+LABEL software.license="https://spdx.org/licenses/Apache-2.0"
+LABEL maintainer="[email protected]"
+LABEL maintainer.organisation="ELIXIR Cloud & AAI"
+
+# Python UserID workaround for OpenShift/K8S
+ENV LOGNAME=ipython
+ENV USER=ipython
+ENV HOME=/tmp/user
+
+# Install general dependencies
+RUN apt-get update && apt-get install -y nodejs openssl git build-essential python3-dev curl jq
+
+## Set working directory
+WORKDIR /app
+
+## Copy Python requirements
+COPY ./requirements.txt /app/requirements.txt
+
+## Install Python dependencies - (TODO: Refer cwl-wes later)
+RUN cd /app \
+  && pip install -r requirements.txt \
+
+## Copy remaining app files
+COPY ./ /app
+
+## Install app
+RUN cd /app \
+  && python setup.py develop \

PULL_REQUEST_TEMPLATE.md

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+## Description
+
+Please include a summary of the change and which issue is fixed. Please also include relevant motivation and context. List any dependencies that are required for this change.
+
+Fixes # (issue)
+
+## Type of change
+
+Please delete options that are not relevant.
+
+- [ ] Bug fix (non-breaking change which fixes an issue)
+- [ ] New feature (non-breaking change which adds functionality)
+- [ ] Breaking change (fix or feature that would cause existing functionality to not work as expected)
+- [ ] Documentation update
+
+## Checklist:
+
+- [ ] My code follows the [style guidelines](https://github.com/elixir-cloud-aai/elixir-cloud-aai/blob/dev/resources/contributing_guidelines.md#language-specific-guidelines) of this project
+- [ ] I have performed a self-review of my own code
+- [ ] I have commented my code, particularly in hard-to-understand areas
+- [ ] My changes generate no new warnings
+- [ ] I have added tests that prove my fix is effective or that my feature works
+- [ ] New and existing unit tests pass locally with my changes
+- [ ] I have not reduced the existing code coverage
+- [ ] I have added docstrings following the [Python style guidelines](https://github.com/elixir-cloud-aai/elixir-cloud-aai/blob/dev/resources/python.md) of this project to all new modules, classes, methods and functions are documented with docstrings following; I have updated any previously existing docstrings, if applicable
+- [ ] I have updated any sections of the app's documentation that are affected by the proposed changes, if applicable

README.md

@@ -1 +1,56 @@
-# trs-filer
+# TRS-filer
+
+[![License][badge-license]][badge-url-license]
+[![Build_status][badge-build-status]][badge-url-build-status]
+[![Coverage][badge-coverage]][badge-url-coverage]
+
+## Synopsis
+
+
+## Description
+
+
+## Usage
+
+
+## Contributing
+
+This project is a community effort and lives off your contributions, be it in
+the form of bug reports, feature requests, discussions, or fixes and other code
+changes. Please refer to our organization's [contributing
+guidelines][res-elixir-cloud-contributing] if you are interested to contribute.
+Please mind the [code of conduct][res-elixir-cloud-coc] for all interactions
+with the community.
+
+## Versioning
+
+The project adopts the [semantic versioning][res-semver] scheme for versioning.
+Currently the service is in beta stage, so the API may change without further
+notice.
+
+## License
+
+This project is covered by the [Apache License 2.0][license-apache] also
+[shipped with this repository][license].
+
+## Contact
+
+The project is a collaborative effort under the umbrella of [ELIXIR Cloud &
+AAI][org-elixir-cloud]. Follow the link to get in touch with us via chat or
+email. Please mention the name of this service for any inquiry, proposal,
+question etc.
+
+[badge-build-status]:<https://travis-ci.com/elixir-cloud-aai/trs-filer.svg?branch=dev>
+[badge-coverage]:<https://img.shields.io/coveralls/github/elixir-cloud-aai/trs-filer>
+[badge-github-tag]:<https://img.shields.io/github/v/tag/elixir-cloud-aai/trs-filer?color=C39BD3>
+[badge-license]:<https://img.shields.io/badge/license-Apache%202.0-blue.svg>
+[badge-url-build-status]:<https://travis-ci.com/elixir-cloud-aai/trs-filer>
+[badge-url-coverage]:<https://coveralls.io/github/elixir-cloud-aai/trs-filer>
+[badge-url-github-tag]:<https://github.com/elixir-cloud-aai/trs-filer/releases>
+[badge-url-license]:<http://www.apache.org/licenses/LICENSE-2.0>
+[license]: LICENSE
+[license-apache]: <https://www.apache.org/licenses/LICENSE-2.0>
+[org-elixir-cloud]: <https://github.com/elixir-cloud-aai/elixir-cloud-aai>
+[res-elixir-cloud-coc]: <https://github.com/elixir-cloud-aai/elixir-cloud-aai/blob/dev/CODE_OF_CONDUCT.md>
+[res-elixir-cloud-contributing]: <https://github.com/elixir-cloud-aai/elixir-cloud-aai/blob/dev/CONTRIBUTING.md>
+[res-semver]: <https://semver.org/>

requirements.txt

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+flake8==3.7.9
+Flask==1.1.2
+foca==0.1.0
+pylint==2.4.4
+PyYAML==5.3