Merge Develop into master

.gitignore

@@ -0,0 +1,101 @@
+/dist
+/images
+/docs_src/build
+/tests/images
+/build
+/bin
+/seeq_causality.egg-info
+/.spyproject
+.idea
+.ptest_cache
+*.pyc
+*.egg-info
+*.egg
+
+log/
+*.log
+
+**/node_modules
+
+# OS clutter
+*.DS_Store
+**/Thumbs.db
+.keep
+
+/target
+/*/image
+
+*.zip
+*.tar.gz
+
+
+# Vim/Emacs old files
+*~
+
+# office temp files
+~$*
+~*.tmp
+
+# Eclipse settings
+*.classpath
+*.project
+*.prefs
+*.class
+
+# IntelliJ settings
+.idea
+*.iml
+
+# Visual Studio settings
+.localhistory/
+Backup*/
+*.[Cc]ache
+!*.[Cc]ache/
+*.e2e
+ipch/
+*.aps
+*.ncb
+*.opendb
+*.opensdf
+*.sdf
+*.cachefile
+*.VC.db
+*.VC.VC.opendb
+*_i.c
+*_p.c
+*_h.h
+*.ilk
+*.meta
+*.obj
+*.iobj
+*.pch
+*.pdb
+*.ipdb
+*.pgc
+*.pgd
+*.rsp
+*.sbr
+*.tlb
+*.tli
+*.tlh
+*.tmp
+*.tmp_proj
+*_wpftmp.csproj
+*.vspscc
+*.vssscc
+.builds
+*.pidb
+*.svclog
+*.scc
+Generated\ Files/
+*.rsuser
+*.suo
+*.user
+*.userosscache
+*.sln.docstates
+.csv
+*.xlsx
+*.pdf
+
+# credential files
+*.key

addon.json

@@ -0,0 +1,66 @@
+{
+    "identifier": "com.seeq.addon.correlation",
+    "name": "Correlation Analysis",
+    "description": "Determine cross correlations and time shifts to maximize correlations among signals",
+    "version": "Input version here",
+    "license": "Apache-2.0 license",
+    "icon": "fa fa-th",
+    "tags": {"maintainer":"Seeq"},
+    "previews": [
+      "additional_content/LargeMatrixExample.png"
+    ],
+    "elements": [
+      {
+        "name": "Correlation Analysis",
+        "description": "Determine cross correlations and time shifts to maximize correlations among signals",
+        "identifier": "com.seeq.addon.correlation.correlation",
+        "type": "AddOnTool",
+        "path": "data-lab-functions",
+        "notebook_file_path": "correlation_analysis_master.ipynb",
+        "extensions": ["ipyvuetify", "widgetsnbextension","ipyvue"],
+        "configuration_schema": {
+          "type": "object",
+          "properties": {
+            "display": {
+              "type": "object",
+              "properties": {
+                "icon": {
+                  "type": "string",
+                  "default": "fa fa-th"
+                },
+                "linkType": {
+                  "enum": ["window", "tab", "none"],
+                  "default": "window"
+                },
+                "sortKey": {
+                  "type": "string",
+                  "default": "c"
+                },
+                "windowDetails": {
+                  "type": "string",
+                  "default": "toolbar=0,location=0,left=800,top=400,height=1000,width=1400"
+                },
+                "reuseWindow": {
+                  "type": "boolean",
+                  "default": true
+                },
+                "includeWorkbookParameters": {
+                  "type": "boolean",
+                  "default": true
+                }
+              },
+              "required": [
+                "icon",
+                "linkType",
+                "sortKey",
+                "windowDetails",
+                "reuseWindow",
+                "includeWorkbookParameters"
+              ]
+            }
+          },
+          "required": ["display"]
+        }
+      }
+    ]
+}

build.py

@@ -0,0 +1,150 @@
+import sys
+import os
+import json
+import zipfile
+import pathlib
+import shutil
+import argparse
+import subprocess
+from pathlib import Path
+from artifactory import ArtifactoryPath
+
+parser = argparse.ArgumentParser()
+parser.add_argument(
+    '-d', '--distribute',
+    help='Upload the built files to their distribution channels.',
+    action='store_true'
+)
+parser.add_argument(
+    '-c', '--compile',
+    help='Produce a compiled version of the code in addition to the source version',
+    action='store_true'
+)
+parser.add_argument(
+    '-a', '--addon',
+    help='Produce a zipped version for installation through the addon manager.',
+    action='store_true'
+)
+args = parser.parse_args()
+
+# build the distribution
+distribution_relative_dir = 'dist'
+distribution_abs_dir = os.path.join(os.getcwd(), distribution_relative_dir)
+if os.path.isdir(distribution_abs_dir):
+    shutil.rmtree(distribution_abs_dir)
+build_command = ['python3.8', 'setup.py', 'bdist_wheel',
+                 '-d', distribution_relative_dir,
+                 f'--python-tag=py{sys.version_info.major}{sys.version_info.minor}']
+subprocess.run(build_command, cwd=os.getcwd())
+source_wheel = max(
+    [os.path.join(distribution_abs_dir, f) for f in os.listdir(distribution_abs_dir)],
+    key=os.path.getctime
+)
+
+source_wheel_name = os.path.split(source_wheel)[-1]
+version = source_wheel_name.split('-')[1]
+
+compiled_wheel = None
+if args.compile:
+    print('Creating pyc file')
+    pyc_relative_dir = os.path.join(distribution_relative_dir, 'bin')
+    pyc_abs_dir = os.path.join(distribution_abs_dir, 'bin')
+    build_command = [sys.executable, 'setup.py', 'bdist_egg',
+                     '-d', pyc_relative_dir,
+                     '--exclude-source-files',
+                     '-m', '+c']
+    build_result = subprocess.run(build_command, cwd=os.getcwd(), capture_output=True, text=True)
+    wheel_command = ['wheel', 'convert', os.path.join(pyc_relative_dir, '*.egg'), '-d', pyc_relative_dir]
+    wheel_result = subprocess.run(wheel_command, cwd=os.getcwd(), capture_output=True, text=True)
+
+    # move the pyc wheel file to the dist dir
+    path = Path('.')
+    wheel_file = list(path.glob('**/bin/*.whl'))[0]
+    wheel_file.rename(Path(wheel_file.parent.parent, wheel_file.name))
+    compiled_wheel = os.path.join(wheel_file.parent.parent, wheel_file.name)
+
+    # remove the bin dir
+    shutil.rmtree(pyc_abs_dir)
+
+addon_manager_artifacts = []
+if args.addon:
+    name = 'correlation'
+    print(f'Creating {name}.addon')
+    # Ensure output folder exists
+    bin = os.path.join(os.getcwd(), 'bin')
+    if not os.path.exists(bin):
+        os.makedirs(bin)
+
+    with open('addon.json') as json_file:
+        parsed_json = json.load(json_file)
+    parsed_json['version'] = version
+
+    addon = os.path.join(bin, f'{name}.addon')
+    addon_meta = os.path.join(bin, f'{name}.addonmeta')
+
+    # Build addon
+    with zipfile.ZipFile(addon, 'w') as z:
+        z.write(source_wheel, arcname=os.path.join('data-lab-functions', source_wheel_name))
+        z.writestr('data-lab-functions/requirements.txt', f"./{source_wheel_name}")
+        with z.open("addon.json", "w") as c:
+            c.write(json.dumps(parsed_json, indent=2).encode("utf-8"))
+        directory = pathlib.Path("./seeq/addons/correlation/deployment_notebook/")
+        for file in directory.rglob('*ipynb'):
+            z.write(file, arcname=os.path.join('data-lab-functions', file.name))
+        directory = pathlib.Path("./additional_content/")
+        for file in directory.iterdir():
+            z.write(file)
+        addon_manager_artifacts.append(addon)
+    # Build addonmeta
+    print(f'Creating {name}.addonmeta')
+    with zipfile.ZipFile(addon_meta, 'w') as z:
+        with z.open("addon.json", "w") as c:
+            c.write(json.dumps(parsed_json, indent=2).encode("utf-8"))
+        directory = pathlib.Path("./additional_content/")
+        for file in directory.iterdir():
+            z.write(file)
+        addon_manager_artifacts.append(addon_meta)
+
+    print('Successfully created.')
+
+if args.distribute:
+
+    # THIS BLOCK OF CODE IS NO MORE IN USE BUT COULD LATER BE USED IN FUTURE PURPOSES
+    # if compiled_wheel is not None:
+    #     print(f'Distributing compiled wheel {compiled_wheel} to pipy.seeq.com')
+    #     command_distribute_compiled = \
+    #         ['twine', 'upload',
+    #          '--repository-url', 'https://pypi.seeq.com',
+    #          '-u', username,
+    #          '-p', password,
+    #          compiled_wheel]
+    #     result = subprocess.run(' '.join(command_distribute_compiled))
+    #     if result.stderr:
+    #         print(f'There was an error uploading the compiled version: {result.stderr}')
+    #
+    # print(f'Distributing source wheel {source_wheel} to pypi.seeq.com:8081')
+    # command_distribute_source = \
+    #     ['twine', 'upload',
+    #      '--repository-url', 'https://pypi.seeq.com:8081',
+    #      '-u', username,
+    #      '-p', password,
+    #      source_wheel]
+    # result = subprocess.run(' '.join(command_distribute_source))
+    # if result.stderr:
+    #     print(f'There was an error uploading the source version: {result.stderr}')
+
+    if addon_manager_artifacts:
+        print(f'Distributing addon manager artifacts to seeq.jfrog.io')
+        api_key = os.getenv('JFROG_API_KEY')
+        for artifact in addon_manager_artifacts:
+            _, file = os.path.split(artifact)
+            path = ArtifactoryPath(f"https://seeq.jfrog.io/artifactory/seeq-add-ons-prod-local/Correlation/{file}",
+                                   apikey=api_key)
+            try:
+                path.deploy_file(artifact)
+                properties = path.properties
+                # Add identifier property
+                properties["identifier"] = "com.seeq.addon.correlation"
+                path.properties = properties
+            except Exception as e:
+                print(e)

docs/.buildinfo

@@ -1,4 +1,4 @@
 # Sphinx build info version 1
 # This file hashes the configuration used when building these files. When it is not found, a full rebuild will be done.
-config: 8c9883435912791d366ba286ccb3fd61
+config: 88a6b7e57b24bdbe7e73d954fc7a4080
 tags: 645f666f9bcd5a90fca523b33c5a78b7

docs/_modules/index.html

@@ -3,7 +3,7 @@
 <head>
   <meta charset="utf-8" />
   <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-  <title>Overview: module code &mdash; seeq-correlation 0.1.8 documentation</title>
+  <title>Overview: module code &mdash; seeq-correlation 0.1.9 documentation</title>
       <link rel="stylesheet" href="../_static/pygments.css" type="text/css" />
       <link rel="stylesheet" href="../_static/css/theme.css" type="text/css" />
   <!--[if lt IE 9]>
@@ -26,7 +26,7 @@
             <a href="../index.html" class="icon icon-home"> seeq-correlation
           </a>
               <div class="version">
-                0.1.8
+                0.1.9
               </div>
 <div role="search">
   <form id="rtd-search-form" class="wy-form" action="../search.html" method="get">

docs/_modules/seeq/addons/correlation/__main__.html

@@ -3,7 +3,7 @@
 <head>
   <meta charset="utf-8" />
   <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-  <title>seeq.addons.correlation.__main__ &mdash; seeq-correlation 0.1.8 documentation</title>
+  <title>seeq.addons.correlation.__main__ &mdash; seeq-correlation 0.1.9 documentation</title>
       <link rel="stylesheet" href="../../../../_static/pygments.css" type="text/css" />
       <link rel="stylesheet" href="../../../../_static/css/theme.css" type="text/css" />
   <!--[if lt IE 9]>
@@ -26,7 +26,7 @@
             <a href="../../../../index.html" class="icon icon-home"> seeq-correlation
           </a>
               <div class="version">
-                0.1.8
+                0.1.9
               </div>
 <div role="search">
   <form id="rtd-search-form" class="wy-form" action="../../../../search.html" method="get">

docs/_modules/seeq/addons/correlation/_cross_correlations.html

@@ -3,7 +3,7 @@
 <head>
   <meta charset="utf-8" />
   <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-  <title>seeq.addons.correlation._cross_correlations &mdash; seeq-correlation 0.1.8 documentation</title>
+  <title>seeq.addons.correlation._cross_correlations &mdash; seeq-correlation 0.1.9 documentation</title>
       <link rel="stylesheet" href="../../../../_static/pygments.css" type="text/css" />
       <link rel="stylesheet" href="../../../../_static/css/theme.css" type="text/css" />
   <!--[if lt IE 9]>
@@ -26,7 +26,7 @@
             <a href="../../../../index.html" class="icon icon-home"> seeq-correlation
           </a>
               <div class="version">
-                0.1.8
+                0.1.9
               </div>
 <div role="search">
   <form id="rtd-search-form" class="wy-form" action="../../../../search.html" method="get">