First version working locally (with run-local)

.bumpversion.cfg

@@ -0,0 +1,17 @@
+[bumpversion]
+current_version = 1.0.0
+commit = False
+message = service version: {current_version} → {new_version}
+tag = False
+
+[bumpversion:file:.osparc/metadata.yml]
+search = {current_version}
+replace = {new_version}
+
+[bumpversion:file:Makefile]
+search = {current_version}
+replace = {new_version}
+
+[bumpversion:file:docker-compose-local.yml]
+search = {current_version}
+replace = {new_version}

.cookiecutterrc

@@ -0,0 +1,41 @@
+# This file exists so you can easily regenerate your project.
+#
+# `cookiepatcher` is a convenient shim around `cookiecutter`
+# for regenerating projects (it will generate a .cookiecutterrc
+# automatically for any template). To use it:
+#
+#    pip install cookiepatcher
+#    cookiepatcher gh:itisfoundation/cookiecutter-osparc-service project-path
+#
+# See:
+#    https://pypi.python.org/pypi/cookiepatcher
+#
+# Alternatively, you can run:
+#
+#    cookiecutter --overwrite-if-exists --config-file=project-path/.cookiecutterrc gh:itisfoundation/cookiecutter-osparc-service
+#
+
+default_context:
+
+    _output_dir:               '/home/iavarone/tests'
+    _template:                 '/home/iavarone/repos/cookiecutter-osparc-jupyterlab-service/'
+    author_affiliation:        "IT'IS Foundation"
+    author_email:              '[email protected]'
+    author_name:               'Elisabetta Iavarone'
+    contact_email:             '[email protected]'
+    docker_base:               'quay.io/jupyter/minimal-notebook:7285848c0a11@sha256:1f43611f561bd6e8480f4bc03d0c56ce56b6657f1b21cd2bfb2debbb54973164'
+    git_repo:                  'github'
+    git_username:              'elisabettai'
+    install_custom_software:   'no'
+    install_other_kernel:      'no'
+    install_python_kernel:     'yes'
+    number_of_inputs:          '4'
+    number_of_outputs:         '4'
+    project_name:              'AxonDeepSeg in JupyterLab'
+    project_package_name:      'jupyter_axondeepseg'
+    project_short_description: 'AxonDeepSeg in JupyterLab'
+    project_slug:              'jupyter-axondeepseg'
+    release_date:              '2024'
+    resources_CPU_nanoCPUs:    '4000000000'
+    resources_RAM_nanoBytes:   '16000000000'
+    version:                   '1.0.0'

.github/CODEOWNERS

@@ -0,0 +1,15 @@
+
+# Maps code in repository with maintainers
+# Order is important. The last matching pattern has the most precedence.
+# SEE https://docs.github.com/en/free-pro-team@latest/github/creating-cloning-and-archiving-repositories/about-code-owners#example-of-a-codeowners-file
+
+
+# files and folders recursively
+Dockerfile          @elisabettai
+Makefile            @elisabettai
+
+# NOTE: '/' denotes the root of the repository
+/.github/            @pcrespov @GitHK
+/.osparc/            @pcrespov @GitHK @elisabettai
+/kernels/            @elisabettai
+/docker/             @pcrespov @GitHK

.github/ISSUE_TEMPLATE/ask_question.md

@@ -0,0 +1,14 @@
+---
+name: 💬 Question
+about: Ask a question
+labels: question
+---
+
+## What version of this service are you using?
+
+<!--
+Different ways are possible. 
+If you have the service open in o²S²PARC, the service version can be found under the "More Options" menu
+-->
+
+## How can we help you?

.github/ISSUE_TEMPLATE/bug_report.md

@@ -0,0 +1,43 @@
+---
+name: 🐛 Bug
+about: File a bug/issue
+labels: bug
+---
+
+## What version of this service are you using?
+
+
+
+
+<!--
+Different ways are possible. 
+If you have the service open in o²S²PARC, the service version can be found under the "More Options" menu
+-->
+## Long story short
+
+<!-- Please describe your problem and why the fix is important. -->
+
+## Expected behaviour
+
+<!-- What is the behaviour you expect? -->
+
+## Actual behaviour
+
+<!-- What's actually happening? -->
+
+## Steps to reproduce
+
+<!-- Please describe steps to reproduce the issue.
+     If you have a script that does that please include it here within
+     markdown code markup -->
+
+## Your environment
+
+<!-- Describe the environment you have that lead to your issue.
+     This includes aiohttp version, OS, proxy server and other bits that
+     are related to your case.
+
+     IMPORTANT: aiohttp is both server framework and client library.
+     For getting rid of confusing please put 'server', 'client' or 'both'
+     word here.
+     -->

.github/ISSUE_TEMPLATE/feature_request.md

@@ -0,0 +1,27 @@
+---
+name: ✨  Feature request
+about: Suggest an idea to implement
+labels: enhancement
+---
+
+## User Story
+
+<!-- A clear and concise description of how the feature works and looks like from the user's perspective.
+
+Ex. I want to be able the stop the running pipeline by pressing a stop button. If the pipeline is stopped, I see a info-level message confirming it in the logger, if it fails the message should be displayed in red (error). Also, all the progress bars in the nodes must be set to 0. -->
+
+## Example
+
+<!-- Any file/screenshot/photomontage/video/website is provided for a better understanding of the request -->
+
+
+## Definition of Done
+<!--
+A clear and concise description of what the feature requires.
+
+1. Play button turns into stop button when pipeline is running
+2. Stop button turns into play button when pipeline is finished
+3. Stop button turns into play button when pipeline is successfully stopped
+4. Logger displays messages everytime the play/stop button is pressed
+5. Progress bars are set to 0 when stopping pipeline
+6. Stop button has a Python interface -->

.github/workflows/check-image.yml

@@ -0,0 +1,22 @@
+name: Build and check image
+
+on: push
+
+jobs:
+  verify-image-build:
+    runs-on: ubuntu-latest
+    steps:
+      - name: Checkout repo content
+        uses: actions/checkout@v2
+      - name: ooil version
+        uses: docker://itisfoundation/ci-service-integration-library:v1.0.3-dev-4
+        with:
+          args: ooil --version
+      - name: Assemble docker-compose spec
+        uses: docker://itisfoundation/ci-service-integration-library:v1.0.3-dev-4
+        with:
+          args: ooil compose
+      - name: Build all images if multiple
+        uses: docker://itisfoundation/ci-service-integration-library:v1.0.3-dev-4
+        with:
+          args: docker-compose build

.osparc/docker-compose.overwrite.yml

@@ -0,0 +1,5 @@
+version: "3.7"
+services:
+  jupyter-axondeepseg:
+    build:
+      dockerfile: Dockerfile

.osparc/metadata.yml

@@ -0,0 +1,197 @@
+name: AxonDeepSeg in JupyterLab
+key: simcore/services/dynamic/jupyter-axondeepseg
+type: dynamic
+integration-version: 2.0.0
+version: 1.0.0
+description: AxonDeepSeg in JupyterLab
+contact: [email protected]
+thumbnail: https://raw.githubusercontent.com/axondeepseg/doc-figures/main/index/fig2.png
+authors:
+  - name: Elisabetta Iavarone
+    email: [email protected]
+    affiliation: IT'IS Foundation
+inputs:
+  input_1:
+    displayOrder: 1
+    label: input_file_1
+    description:
+      Any input files. One or several files compressed in a zip will be
+      downloaded in an inputs folder.   
+    type: data:*/*
+  input_2:
+    displayOrder: 2
+    label: input_file_2
+    description:
+      Any input files. One or several files compressed in a zip will be
+      downloaded in an inputs folder.   
+    type: data:*/*
+  input_3:
+    displayOrder: 3
+    label: input_file_3
+    description:
+      Any input files. One or several files compressed in a zip will be
+      downloaded in an inputs folder.   
+    type: data:*/*
+  input_4:
+    displayOrder: 4
+    label: input_file_4
+    description:
+      Any input files. One or several files compressed in a zip will be
+      downloaded in an inputs folder.   
+    type: data:*/*
+  input_4:
+    displayOrder: 4.0
+    label: input_files_4
+    description:
+      Any input files. One or several files compressed in a zip will be
+      downloaded in an inputs folder.
+    type: data:*/*
+  input_5:
+    displayOrder: 5.0
+    label: input_files_5
+    description:
+      Any input files. One or several files compressed in a zip will be
+      downloaded in an inputs folder.
+    type: data:*/*
+  input_6:
+    displayOrder: 6.0
+    label: input_files_6
+    description:
+      Any input files. One or several files compressed in a zip will be
+      downloaded in an inputs folder.
+    type: data:*/*
+  input_7:
+    displayOrder: 7.0
+    label: input_files_7
+    description:
+      Any input files. One or several files compressed in a zip will be
+      downloaded in an inputs folder.
+    type: data:*/*
+  input_8:
+    displayOrder: 8.0
+    label: input_files_8
+    description:
+      Any input files. One or several files compressed in a zip will be
+      downloaded in an inputs folder.
+    type: data:*/*
+  input_9:
+    displayOrder: 9.0
+    label: input_files_9
+    description:
+      Any input files. One or several files compressed in a zip will be
+      downloaded in an inputs folder.
+    type: data:*/*
+  input_10:
+    displayOrder: 10.0
+    label: input_files_10
+    description:
+      Any input files. One or several files compressed in a zip will be
+      downloaded in an inputs folder.
+    type: data:*/*
+  input_11:
+    displayOrder: 11.0
+    label: input_files_11
+    description:
+      Any input files. One or several files compressed in a zip will be
+      downloaded in an inputs folder.
+    type: data:*/*
+  input_12:
+    displayOrder: 12.0
+    label: input_files_12
+    description:
+      Any input files. One or several files compressed in a zip will be
+      downloaded in an inputs folder.
+    type: data:*/*
+  input_13:
+    displayOrder: 13.0
+    label: input_files_13
+    description:
+      Any input files. One or several files compressed in a zip will be
+      downloaded in an inputs folder.
+    type: data:*/*
+  input_14:
+    displayOrder: 14.0
+    label: input_files_14
+    description:
+      Any input files. One or several files compressed in a zip will be
+      downloaded in an inputs folder.
+    type: data:*/*
+  input_15:
+    displayOrder: 15.0
+    label: input_files_15
+    description:
+      Any input files. One or several files compressed in a zip will be
+      downloaded in an inputs folder.
+    type: data:*/*
+  input_16:
+    displayOrder: 16.0
+    label: input_files_16
+    description:
+      Any input files. One or several files compressed in a zip will be
+      downloaded in an inputs folder.
+    type: data:*/*
+  input_17:
+    displayOrder: 17.0
+    label: input_files_17
+    description:
+      Any input files. One or several files compressed in a zip will be
+      downloaded in an inputs folder.
+    type: data:*/*
+  input_18:
+    displayOrder: 18.0
+    label: input_files_18
+    description:
+      Any input files. One or several files compressed in a zip will be
+      downloaded in an inputs folder.
+    type: data:*/*
+  input_19:
+    displayOrder: 19.0
+    label: input_files_19
+    description:
+      Any input files. One or several files compressed in a zip will be
+      downloaded in an inputs folder.
+    type: data:*/*
+  input_20:
+    displayOrder: 20.0
+    label: input_files_20
+    description:
+      Any input files. One or several files compressed in a zip will be
+      downloaded in an inputs folder.
+    type: data:*/*  
+outputs:
+  output_1:
+    displayOrder: 1
+    label: output_files_1
+    description: Output files uploaded from the outputs folder
+    type: data:*/*
+  output_2:
+    displayOrder: 2
+    label: output_files_2
+    description: Output files uploaded from the outputs folder
+    type: data:*/*
+  output_3:
+    displayOrder: 3
+    label: output_files_3
+    description: Output files uploaded from the outputs folder
+    type: data:*/*
+  output_4:
+    displayOrder: 4
+    label: output_files_4
+    description: Output files uploaded from the outputs folder
+    type: data:*/*
+
+boot-options:
+  boot_mode:
+    label: Boot mode
+    description: Select boot type for the service
+    default: "0"
+    items:
+      "0":
+        label: JupyterLab
+        description: Display the JupyterLab interface the default boot mode
+      "1":
+        label: Voila
+        description:
+          To start as Voila save a notebook as "voila.ipynb" in the root
+          folder
+min-visible-inputs: 4