renkulab.io: init OA-armsim

renku-transaction: 31e96e2550774412ac5c3e6c135adc44

.dockerignore

+data
+notebooks
+.renku
+.git

.gitignore

+
+# Created by https://www.gitignore.io/api/macos,python,R,linux,vim,emacs,visualstudiocode,intellij
+# Edit at https://www.gitignore.io/?templates=macos,python,R,linux,vim,emacs,visualstudiocode,intellij
+
+### 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
+
+# network security
+/network-security.data
+
+
+### Intellij ###
+# Covers JetBrains IDEs: IntelliJ, RubyMine, PhpStorm, AppCode, PyCharm, CLion, Android Studio and WebStorm
+# Reference: https://intellij-support.jetbrains.com/hc/en-us/articles/206544839
+
+# User-specific stuff
+.idea/**/workspace.xml
+.idea/**/tasks.xml
+.idea/**/usage.statistics.xml
+.idea/**/dictionaries
+.idea/**/shelf
+
+# Generated files
+.idea/**/contentModel.xml
+
+# Sensitive or high-churn files
+.idea/**/dataSources/
+.idea/**/dataSources.ids
+.idea/**/dataSources.local.xml
+.idea/**/sqlDataSources.xml
+.idea/**/dynamic.xml
+.idea/**/uiDesigner.xml
+.idea/**/dbnavigator.xml
+
+# Gradle
+.idea/**/gradle.xml
+.idea/**/libraries
+
+# Gradle and Maven with auto-import
+# When using Gradle or Maven with auto-import, you should exclude module files,
+# since they will be recreated, and may cause churn.  Uncomment if using
+# auto-import.
+# .idea/modules.xml
+# .idea/*.iml
+# .idea/modules
+
+# CMake
+cmake-build-*/
+
+# Mongo Explorer plugin
+.idea/**/mongoSettings.xml
+
+# File-based project format
+*.iws
+
+# IntelliJ
+out/
+
+# mpeltonen/sbt-idea plugin
+.idea_modules/
+
+# JIRA plugin
+atlassian-ide-plugin.xml
+
+# Cursive Clojure plugin
+.idea/replstate.xml
+
+# Crashlytics plugin (for Android Studio and IntelliJ)
+com_crashlytics_export_strings.xml
+crashlytics.properties
+crashlytics-build.properties
+fabric.properties
+
+# Editor-based Rest Client
+.idea/httpRequests
+
+# Android studio 3.1+ serialized cache file
+.idea/caches/build_file_checksums.ser
+
+# JetBrains templates
+**___jb_tmp___
+
+### Intellij Patch ###
+# Comment Reason: https://github.com/joeblau/gitignore.io/issues/186#issuecomment-215987721
+
+# *.iml
+# modules.xml
+# .idea/misc.xml
+# *.ipr
+
+# Sonarlint plugin
+.idea/sonarlint
+
+### 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*
+
+### macOS ###
+# General
+.DS_Store
+.AppleDouble
+.LSOverride
+
+# Icon must end with two \r
+Icon
+
+# Thumbnails
+._*
+
+# Files that might appear in the root of a volume
+.DocumentRevisions-V100
+.fseventsd
+.Spotlight-V100
+.TemporaryItems
+.Trashes
+.VolumeIcon.icns
+.com.apple.timemachine.donotpresent
+
+# Directories potentially created on remote AFP share
+.AppleDB
+.AppleDesktop
+Network Trash Folder
+Temporary Items
+.apdisk
+
+### 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/
+pip-wheel-metadata/
+share/python-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/
+.nox/
+.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
+
+# IPython
+profile_default/
+ipython_config.py
+
+# pyenv
+.python-version
+
+# pipenv
+#   According to pypa/pipenv#598, it is recommended to include Pipfile.lock in version control.
+#   However, in case of collaboration, if having platform-specific dependencies or dependencies
+#   having no cross-platform support, pipenv may install dependencies that don't work, or not
+#   install all needed dependencies.
+#Pipfile.lock
+
+# 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/
+.dmypy.json
+dmypy.json
+
+# Pyre type checker
+.pyre/
+
+### 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
+
+### VisualStudioCode Patch ###
+# Ignore all local history of files
+.history
+
+# End of https://www.gitignore.io/api/macos,python,R,linux,vim,emacs,visualstudiocode,intellij
+
+# Renku
+.renku.lock
+.renku/tmp
+.renku/cache

.gitlab-ci.yml

+variables:
+  GIT_STRATEGY: fetch
+  GIT_SSL_NO_VERIFY: "true"
+  GIT_LFS_SKIP_SMUDGE: 1
+
+stages:
+  - build
+
+image_build:
+  stage: build
+  image: docker:stable
+  before_script:
+    - docker login -u gitlab-ci-token -p $CI_JOB_TOKEN http://$CI_REGISTRY
+  script: |
+    CI_COMMIT_SHA_7=$(echo $CI_COMMIT_SHA | cut -c1-7)
+    docker build --tag $CI_REGISTRY_IMAGE:$CI_COMMIT_SHA_7 .
+    docker push $CI_REGISTRY_IMAGE:$CI_COMMIT_SHA_7

.renku/metadata.yml

+# Dummy file kept for backwards compatibility, does not contain actual version
+'http://schema.org/schemaVersion': '9'
\ No newline at end of file

.renku/metadata/65/1e/651edec2f8694a7980af2f83bffca04595e79068b091480c81cdad1745971489

+{
+  "@renku_data_type": "BTrees.OOBTree.OOBucket",
+  "@renku_data_value": {
+    "@renku_data_type": "builtins.tuple",
+    "@renku_data_value": [
+      {
+        "@renku_data_type": "builtins.tuple",
+        "@renku_data_value": [
+          "BTree",
+          {
+            "@renku_data_type": "type",
+            "@renku_data_value": "BTrees.OOBTree.OOBTree"
+          },
+          "Bucket",
+          {
+            "@renku_data_type": "type",
+            "@renku_data_value": "BTrees.OOBTree.OOBucket"
+          },
+          "Set",
+          {
+            "@renku_data_type": "type",
+            "@renku_data_value": "BTrees.OOBTree.OOSet"
+          },
+          "TreeSet",
+          {
+            "@renku_data_type": "type",
+            "@renku_data_value": "BTrees.OOBTree.OOTreeSet"
+          },
+          "attrname",
+          "downstream",
+          "call",
+          false,
+          "difference",
+          {
+            "@renku_data_type": "function",
+            "@renku_data_value": "BTrees._OOBTree.difference"
+          },
+          "dump",
+          {
+            "@renku_data_type": "function",
+            "@renku_data_value": "renku.infrastructure.gateway.database_gateway.dump_activity"
+          },
+          "element",
+          {
+            "@renku_data_type": "zope.interface.interface.Attribute",
+            "@renku_data_value": {
+              "_Element__tagged_values": null,
+              "__doc__": "the downstream activities",
+              "__name__": "downstream",
+              "interface": {
+                "@renku_data_type": "type",
+                "@renku_data_value": "renku.infrastructure.gateway.database_gateway.IActivityDownstreamRelation"
+              }
+            }
+          },
+          "interface",
+          {
+            "@renku_data_type": "type",
+            "@renku_data_value": "renku.infrastructure.gateway.database_gateway.IActivityDownstreamRelation"
+          },
+          "intersection",
+          {
+            "@renku_data_type": "function",
+            "@renku_data_value": "BTrees._OOBTree.intersection"
+          },
+          "load",
+          {
+            "@renku_data_type": "function",
+            "@renku_data_value": "renku.infrastructure.gateway.database_gateway.load_activity"
+          },
+          "multiple",
+          false,
+          "multiunion",
+          null,
+          "name",
+          "downstream",
+          "union",
+          {
+            "@renku_data_type": "function",
+            "@renku_data_value": "BTrees._OOBTree.union"
+          }
+        ]
+      }
+    ]
+  },
+  "@renku_oid": "651edec2f8694a7980af2f83bffca04595e79068b091480c81cdad1745971489"
+}
\ No newline at end of file

.renku/metadata/_downstream_relations

+{
+  "@renku_data_type": "renku.infrastructure.database.RenkuOOBTree",
+  "@renku_data_value": null,
+  "@renku_oid": "_downstream_relations"
+}
\ No newline at end of file

.renku/metadata/activities

+{
+  "@renku_data_type": "renku.infrastructure.database.RenkuOOBTree",
+  "@renku_data_value": null,
+  "@renku_oid": "activities"
+}
\ No newline at end of file

.renku/metadata/activities-by-generation

+{
+  "@renku_data_type": "renku.infrastructure.database.RenkuOOBTree",
+  "@renku_data_value": null,
+  "@renku_oid": "activities-by-generation"
+}
\ No newline at end of file

.renku/metadata/activities-by-usage

+{
+  "@renku_data_type": "renku.infrastructure.database.RenkuOOBTree",
+  "@renku_data_value": null,
+  "@renku_oid": "activities-by-usage"
+}
\ No newline at end of file

.renku/metadata/activity-catalog

+{
+  "@renku_data_type": "zc.relation.catalog.Catalog",
+  "@renku_oid": "activity-catalog",
+  "_EMPTY_name_TO_relcount_relset": {
+    "@renku_data_type": "BTrees.OOBTree.OOBTree",
+    "@renku_oid": "fd386da0f34b43e6b6184ea731615b8d9c372d80727b45e983ebaf2b0caa33ac",
+    "@renku_reference": true
+  },
+  "_attrs": {
+    "@renku_data_type": "BTrees.OOBTree.OOBucket",
+    "@renku_oid": "c0d76f28ebc340abbbe442c12b567a1b55f1d7545dc74f65982c5f78dd54c4ad",
+    "@renku_reference": true
+  },
+  "_name_TO_mapping": {
+    "@renku_data_type": "BTrees.OOBTree.OOBTree",
+    "@renku_oid": "a1d8a235afad40168688ee550f1def978caa833bbdad4cfea8f2eb5eec7ecd8a",
+    "@renku_reference": true
+  },
+  "_queryFactories": {
+    "@renku_data_type": "builtins.tuple",
+    "@renku_data_value": [
+      {
+        "@renku_data_type": "zc.relation.queryfactory.TransposingTransitive",
+        "@renku_oid": "7a46b2661c564f87b98fa5340f273e2fa1bac439ec914ad3bd06d251123d7cf7",
+        "@renku_reference": true
+      }
+    ]
+  },
+  "_relLength": {
+    "@renku_data_type": "BTrees.Length.Length",
+    "@renku_data_value": 0
+  },
+  "_relTokens": {
+    "@renku_data_type": "BTrees.OOBTree.OOTreeSet",
+    "@renku_data_value": null
+  },
+  "_relTools": {
+    "BTree": {
+      "@renku_data_type": "type",
+      "@renku_data_value": "BTrees.OOBTree.OOBTree"
+    },
+    "Bucket": {
+      "@renku_data_type": "type",
+      "@renku_data_value": "BTrees.OOBTree.OOBucket"
+    },
+    "Set": {
+      "@renku_data_type": "type",
+      "@renku_data_value": "BTrees.OOBTree.OOSet"
+    },
+    "TreeSet": {
+      "@renku_data_type": "type",
+      "@renku_data_value": "BTrees.OOBTree.OOTreeSet"
+    },
+    "difference": {
+      "@renku_data_type": "function",
+      "@renku_data_value": "BTrees._OOBTree.difference"
+    },
+    "dump": {
+      "@renku_data_type": "function",
+      "@renku_data_value": "renku.infrastructure.gateway.database_gateway.dump_downstream_relations"
+    },
+    "intersection": {
+      "@renku_data_type": "function",
+      "@renku_data_value": "BTrees._OOBTree.intersection"
+    },
+    "load": {
+      "@renku_data_type": "function",
+      "@renku_data_value": "renku.infrastructure.gateway.database_gateway.load_downstream_relations"
+    },
+    "multiunion": null,
+    "union": {
+      "@renku_data_type": "function",
+      "@renku_data_value": "BTrees._OOBTree.union"
+    }
+  },
+  "_reltoken_name_TO_objtokenset": {
+    "@renku_data_type": "BTrees.OOBTree.OOBTree",
+    "@renku_oid": "9f3c54d3bfdb4249b464488f60409499eb19b00062bd46b1aa72eaa476d604b9",
+    "@renku_reference": true
+  }
+}
\ No newline at end of file

.renku/metadata/activity-collections

+{
+  "@renku_data_type": "renku.infrastructure.database.RenkuOOBTree",
+  "@renku_data_value": null,
+  "@renku_oid": "activity-collections"
+}
\ No newline at end of file

.renku/metadata/bb/a5/bba5c5cae3024f94b2ef921b6b3bf1908c81ee11aa884636880a62b12f44e60a

+{
+  "@renku_data_type": "BTrees.OOBTree.OOBucket",
+  "@renku_data_value": {
+    "@renku_data_type": "builtins.tuple",
+    "@renku_data_value": [
+      {
+        "@renku_data_type": "builtins.tuple",
+        "@renku_data_value": [
+          "BTree",
+          {
+            "@renku_data_type": "type",
+            "@renku_data_value": "BTrees.OOBTree.OOBTree"
+          },
+          "Bucket",
+          {
+            "@renku_data_type": "type",
+            "@renku_data_value": "BTrees.OOBTree.OOBucket"
+          },
+          "Set",
+          {
+            "@renku_data_type": "type",
+            "@renku_data_value": "BTrees.OOBTree.OOSet"
+          },
+          "TreeSet",
+          {
+            "@renku_data_type": "type",
+            "@renku_data_value": "BTrees.OOBTree.OOTreeSet"
+          },
+          "attrname",
+          "upstream",
+          "call",
+          false,
+          "difference",
+          {
+            "@renku_data_type": "function",
+            "@renku_data_value": "BTrees._OOBTree.difference"
+          },
+          "dump",
+          {
+            "@renku_data_type": "function",
+            "@renku_data_value": "renku.infrastructure.gateway.database_gateway.dump_activity"
+          },
+          "element",
+          {
+            "@renku_data_type": "zope.interface.interface.Attribute",
+            "@renku_data_value": {
+              "_Element__tagged_values": null,
+              "__doc__": "the upstream activities",
+              "__name__": "upstream",
+              "interface": {
+                "@renku_data_type": "type",
+                "@renku_data_value": "renku.infrastructure.gateway.database_gateway.IActivityDownstreamRelation"
+              }
+            }
+          },
+          "interface",
+          {
+            "@renku_data_type": "type",