diff --git a/.github/workflows/check.yml b/.github/workflows/check.yml
new file mode 100644
index 0000000..615b7ca
--- /dev/null
+++ b/.github/workflows/check.yml
@@ -0,0 +1,41 @@
+name: check
+
+on:
+ push:
+ branches:
+ - main
+ - edge
+ - beta
+ - stable
+ pull_request:
+ merge_group:
+ workflow_dispatch:
+
+jobs:
+ ci:
+ strategy:
+ fail-fast: false
+ matrix:
+ forklift-version: [0.5.0, 0.4.0]
+ runs-on: ubuntu-latest
+ defaults:
+ run:
+ shell: bash
+ steps:
+ - uses: actions/checkout@v4
+
+ - name: Setup Forklift
+ uses: PlanktoScope/setup-forklift@v1
+ with:
+ version: ${{ matrix.forklift-version }}
+
+ - name: Cache Forklift repos
+ run: |
+ mkdir -p $HOME/.forklift
+ forklift dev plt cache-repo
+
+ - name: Run Forklift checks
+ run: forklift dev plt check
+
+ - name: Make Forklift deployment plan:w
+ run: forklift dev plt plan
diff --git a/.gitignore b/.gitignore
new file mode 100644
index 0000000..5420ac6
--- /dev/null
+++ b/.gitignore
@@ -0,0 +1,2 @@
+# Downloaded forklift binary
+forklift
diff --git a/CHANGELOG.md b/CHANGELOG.md
new file mode 100644
index 0000000..91d2128
--- /dev/null
+++ b/CHANGELOG.md
@@ -0,0 +1,13 @@
+# Changelog
+
+All notable changes to this project will be documented in this file.
+
+The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.0.0/),
+and this project uses [Calendar Versioning](https://calver.org/) with a `YYYY.minor.patch` scheme.
+All dates in this file are given in the [UTC time zone](https://en.wikipedia.org/wiki/Coordinated_Universal_Time).
+
+## Unreleased
+
+### Added
+
+- Added packages and deployments for a proof-of-concept of an independently-running segmenter.
diff --git a/LICENSE-Apache b/LICENSE-Apache
new file mode 100644
index 0000000..261eeb9
--- /dev/null
+++ b/LICENSE-Apache
@@ -0,0 +1,201 @@
+ Apache License
+ Version 2.0, January 2004
+ http://www.apache.org/licenses/
+
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+ any Contribution intentionally submitted for inclusion in the Work
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+ 7. Disclaimer of Warranty. Unless required by applicable law or
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+ whether in tort (including negligence), contract, or otherwise,
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+ on Your own behalf and on Your sole responsibility, not on behalf
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+ To apply the Apache License to your work, attach the following
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+ Licensed 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
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diff --git a/LICENSE-BlueOak.md b/LICENSE-BlueOak.md
new file mode 100644
index 0000000..c5402b9
--- /dev/null
+++ b/LICENSE-BlueOak.md
@@ -0,0 +1,55 @@
+# Blue Oak Model License
+
+Version 1.0.0
+
+## Purpose
+
+This license gives everyone as much permission to work with
+this software as possible, while protecting contributors
+from liability.
+
+## Acceptance
+
+In order to receive this license, you must agree to its
+rules. The rules of this license are both obligations
+under that agreement and conditions to your license.
+You must not do anything with this software that triggers
+a rule that you cannot or will not follow.
+
+## Copyright
+
+Each contributor licenses you to do everything with this
+software that would otherwise infringe that contributor's
+copyright in it.
+
+## Notices
+
+You must ensure that everyone who gets a copy of
+any part of this software from you, with or without
+changes, also gets the text of this license or a link to
+<https://blueoakcouncil.org/license/1.0.0>.
+
+## Excuse
+
+If anyone notifies you in writing that you have not
+complied with [Notices](#notices), you can keep your
+license by taking all practical steps to comply within 30
+days after the notice. If you do not do so, your license
+ends immediately.
+
+## Patent
+
+Each contributor licenses you to do everything with this
+software that would otherwise infringe any patent claims
+they can license or become able to license.
+
+## Reliability
+
+No contributor can revoke this license.
+
+## No Liability
+
+***As far as the law allows, this software comes as is,
+without any warranty or condition, and no contributor
+will be liable to anyone for any damages related to this
+software or this license, under any kind of legal claim.***
diff --git a/README.md b/README.md
index c535539..24c3a2a 100644
--- a/README.md
+++ b/README.md
@@ -1,2 +1,82 @@
# pallet-segmenter
An experimental Forklift pallet for running the PlanktoScope's segmenter separately on a computer
+
+## Introduction
+
+pallet-segmenter is a [Forklift](https://github.com/PlanktoScope/forklift) pallet
+specifying a configuration of Forklift package deployments for running the PlanktoScope segmenter on
+any Docker host.
+
+## Usage
+
+### Prerequisites
+
+You will need to have the Docker Engine installed on your computer. Installation instructions are
+available [here](https://docs.docker.com/engine/install/).
+
+Then, you will set up the [`forklift`](https://github.com/PlanktoScope/forklift) tool on your
+computer. Setup instructions are available
+[here](https://github.com/PlanktoScope/forklift?tab=readme-ov-file#downloadinstall-forklift). Note
+that currently `forklift` is only tested and built for Linux computers.
+
+### Deployment
+
+You can clone the latest commit of this Forklift pallet to your computer, by
+using the `forklift` tool:
+```
+forklift plt clone github.com/PlanktoScope/pallet-segmenter@main
+```
+
+Then you can apply the cloned pallet on your computer using the following sequence of `forklift`
+CLI commands:
+```
+forklift plt cache-repo
+sudo -E forklift plt apply
+```
+
+Warning: this will replace all Docker containers on your Docker host with the package deployments
+specified by this pallet and delete any Docker containers not specified by this pallet's package
+deployments.
+
+If your user is [in the `docker` group](https://docs.docker.com/engine/install/linux-postinstall/#manage-docker-as-a-non-root-user)
+(so that you don't need to use `sudo` when running `docker`
+commands), then you can just run a single command instead of the two the commands listed above:
+
+```
+forklift plt switch github.com/PlanktoScope/pallet-segmenter@main
+```
+
+Then you can access the Node-RED dashboard from your web browser at
+<http://localhost:1880/ui>, or you can programmatically interact with the segmenter over MQTT via
+<mqtt://localhost:1883> (e.g. using [github.com/PlanktoScope/cli](https://github.com/PlanktoScope/cli)).
+You can also access the Node-RED dashboard editor from your web browser at <http://localhost:1880/admin>.
+
+The segmenter loads input datasets - and saves output files - in `~/.local/share/planktoscope/data`,
+instead of the usual path on PlanktoScopes (`/home/pi/data`). Similarly, logs are saved in
+`~/.local/share/planktoscope/device-backend-logs` instead of `/home/pi/device-backend-logs`.
+The simplest way to add input datasets and download EcoTaxa export archives (working around issues
+with file permissions between your user account and the `root` user used for running the segmenter)
+will be to use the filebrowser in your web browser, at <http://localhost:9000>.
+
+### Forking
+
+To make your own copy of this repository for experimentation, you should fork this repository to a
+new repository. Then, update the `path` fields of the `forklift-pallet.yml` and
+`forklift-repository.yml` files to match the path of your new repository.
+
+## Licensing
+
+Forklift packages deployed by this pallet have their own software licenses, as specified in the
+Forklift repositories where those packages are published. Any source code provided with this
+Forklift pallet is covered by the following information, except where otherwise indicated:
+
+Copyright Ethan Li and PlanktoScope project contributors
+
+SPDX-License-Identifier: Apache-2.0 OR BlueOak-1.0.0
+
+You can use the source code provided here either under the
+[Apache 2.0 License](https://www.apache.org/licenses/LICENSE-2.0)
+or under the [Blue Oak Model License 1.0.0](https://blueoakcouncil.org/license/1.0.0);
+you get to decide. We are making the software available under the Apache license because it's
+[OSI-approved](https://writing.kemitchell.com/2019/05/05/Rely-on-OSI.html),
+but we like the Blue Oak Model License more because it's easier to read and understand.
diff --git a/deployments/filebrowser.deploy.yml b/deployments/filebrowser.deploy.yml
new file mode 100644
index 0000000..946aa97
--- /dev/null
+++ b/deployments/filebrowser.deploy.yml
@@ -0,0 +1,2 @@
+package: /deployments/filebrowser
+disabled: false
diff --git a/deployments/filebrowser/compose.yml b/deployments/filebrowser/compose.yml
new file mode 100644
index 0000000..e6164b6
--- /dev/null
+++ b/deployments/filebrowser/compose.yml
@@ -0,0 +1,17 @@
+services:
+ server:
+ image: filebrowser/filebrowser:v2.27.0
+ ports:
+ - 9000:80
+ volumes:
+ - ~/.local/share/planktoscope/data/:/home/pi/data/
+ - ~/.local/share/planktoscope/data/:/srv # this prevents filebrowser from making an unnamed volume
+ - server-data:/database
+ environment:
+ - FB_DATABASE=/database/filebrowser.db
+ - FB_ROOT=/home/pi/data
+ - FB_PORT=80 # for some reason filebrowser doesn't work if this is port 8080
+ - FB_NOAUTH=true
+
+volumes:
+ server-data: {}
diff --git a/deployments/filebrowser/forklift-package.yml b/deployments/filebrowser/forklift-package.yml
new file mode 100644
index 0000000..ca92328
--- /dev/null
+++ b/deployments/filebrowser/forklift-package.yml
@@ -0,0 +1,19 @@
+package:
+ description: In-browser file manager for PlanktoScope datasets
+ maintainers:
+ - name: Ethan Li
+ email: lietk12@gmail.com
+ license: Apache-2.0
+ sources:
+ - https://github.com/filebrowser/filebrowser
+
+deployment:
+ compose-files: [compose.yml]
+ description: Provides a filebrowser server
+ provides:
+ services:
+ - description: File browser & manager for PlanktoScope's datasets
+ port: 9000
+ protocol: http
+ paths:
+ - /*
diff --git a/deployments/mosquitto.deploy.yml b/deployments/mosquitto.deploy.yml
new file mode 100644
index 0000000..3b77ebc
--- /dev/null
+++ b/deployments/mosquitto.deploy.yml
@@ -0,0 +1,4 @@
+package: github.com/PlanktoScope/device-pkgs/core/infra/mosquitto
+features:
+ - mqtt-broker
+disabled: false
diff --git a/deployments/node-red-dashboard.deploy.yml b/deployments/node-red-dashboard.deploy.yml
new file mode 100644
index 0000000..1bb883f
--- /dev/null
+++ b/deployments/node-red-dashboard.deploy.yml
@@ -0,0 +1,3 @@
+package: /deployments/node-red-dashboard
+features:
+disabled: false
diff --git a/deployments/node-red-dashboard/compose.yml b/deployments/node-red-dashboard/compose.yml
new file mode 100644
index 0000000..c0f6150
--- /dev/null
+++ b/deployments/node-red-dashboard/compose.yml
@@ -0,0 +1,10 @@
+services:
+ server:
+ image: ghcr.io/planktoscope/segmenter-node-red-dashboard:sha-df8fc69
+ ports:
+ - 1880:1880
+ volumes:
+ - ~/.local/share/planktoscope/data/img/:/home/pi/data/img/
+ - ~/.local/share/planktoscope/data/export/ecotaxa/:/home/pi/data/export/ecotaxa/
+ extra_hosts:
+ - host.docker.internal:host-gateway
diff --git a/deployments/node-red-dashboard/forklift-package.yml b/deployments/node-red-dashboard/forklift-package.yml
new file mode 100644
index 0000000..ca92536
--- /dev/null
+++ b/deployments/node-red-dashboard/forklift-package.yml
@@ -0,0 +1,45 @@
+package:
+ description: Web GUI for operating the PlanktoScope's segmenter
+ maintainers:
+ - name: Ethan Li
+ email: lietk12@gmail.com
+ license: GPL-3.0-or-later
+ sources:
+ - https://github.com/PlanktoScope/PlanktoScope
+
+deployment:
+ compose-files: [compose.yml]
+ requires:
+ services:
+ - tags: [mqtt-broker]
+ port: 1883
+ protocol: mqtt
+ nonblocking: true
+ - tags: [planktoscope-api-v2]
+ port: 1883
+ protocol: mqtt
+ paths:
+ - /segmenter/segment
+ - /status/segmenter
+ - /status/segmenter/name
+ - /status/segmenter/object_id
+ - /status/segmenter/metric
+ # TODO: add fileset dependencies for /home/pi/PlanktoScope/config.json, /home/pi/data/img,
+ # /home/pi/.local/etc/pkscope-distro/installer-versioning.yml,
+ provides:
+ listeners:
+ - description: Node-RED server providing an interactive dashboard to operate the segmenter
+ port: 1880
+ protocol: tcp
+ services:
+ - description: The Node-RED editor for the Node-RED dashboard
+ port: 1880
+ protocol: http
+ paths:
+ - /
+ - description: Node-RED graphical user interface for the segmenter
+ port: 1880
+ protocol: http
+ paths:
+ - /ui
+ - /ui/*
diff --git a/deployments/segmenter.deploy.yml b/deployments/segmenter.deploy.yml
new file mode 100644
index 0000000..5d0ca9a
--- /dev/null
+++ b/deployments/segmenter.deploy.yml
@@ -0,0 +1,4 @@
+package: /deployments/segmenter
+features:
+ # - dev-src
+disabled: false
diff --git a/deployments/segmenter/compose-dev-src.yml b/deployments/segmenter/compose-dev-src.yml
new file mode 100644
index 0000000..8e8abcd
--- /dev/null
+++ b/deployments/segmenter/compose-dev-src.yml
@@ -0,0 +1,4 @@
+services:
+ worker:
+ volumes:
+ - ~/.local/share/planktoscope/src/device-backend/processing/segmenter:/home/pi/device-backend/processing/segmenter
diff --git a/deployments/segmenter/compose.yml b/deployments/segmenter/compose.yml
new file mode 100644
index 0000000..3e14f56
--- /dev/null
+++ b/deployments/segmenter/compose.yml
@@ -0,0 +1,9 @@
+services:
+ worker:
+ image: ghcr.io/planktoscope/device-backend-processing-segmenter:sha-ebd357f
+ volumes:
+ - ./machine-name:/var/lib/planktoscope/machine-name
+ - ~/.local/share/planktoscope/data:/home/pi/data
+ - ~/.local/share/planktoscope/device-backend-logs/processing/segmenter:/home/pi/device-backend-logs/processing/segmenter
+ extra_hosts:
+ - host.docker.internal:host-gateway
diff --git a/deployments/segmenter/forklift-package.yml b/deployments/segmenter/forklift-package.yml
new file mode 100644
index 0000000..734a404
--- /dev/null
+++ b/deployments/segmenter/forklift-package.yml
@@ -0,0 +1,34 @@
+package:
+ description: PlanktoScope object segmenter for export to EcoTaxa
+ maintainers:
+ - name: Ethan Li
+ email: lietk12@gmail.com
+ license: GPL-3.0-or-later
+ sources:
+ - https://github.com/PlanktoScope/device-backend
+
+deployment:
+ compose-files: [compose.yml]
+ requires:
+ services:
+ - tags: [mqtt-broker]
+ port: 1883
+ protocol: mqtt
+ nonblocking: false # absence of the MQTT server is not yet handled
+ provides:
+ services:
+ - description: MQTT handling of segmenter commands and broadcasting of segmenter statuses
+ tags: [planktoscope-api-v2]
+ port: 1883
+ protocol: mqtt
+ paths:
+ - /segmenter/segment
+ - /status/segmenter
+ - /status/segmenter/name
+ - /status/segmenter/object_id
+ - /status/segmenter/metric
+
+features:
+ dev-src:
+ description: Allows the source code to be overwritten from an existing codebase for development & troubleshooting
+ compose-files: [compose-dev-src.yml]
diff --git a/deployments/segmenter/machine-name b/deployments/segmenter/machine-name
new file mode 100644
index 0000000..0acc657
--- /dev/null
+++ b/deployments/segmenter/machine-name
@@ -0,0 +1 @@
+standalone-unknown
diff --git a/forklift-pallet.yml b/forklift-pallet.yml
new file mode 100644
index 0000000..f730967
--- /dev/null
+++ b/forklift-pallet.yml
@@ -0,0 +1,6 @@
+forklift-version: v0.5.2
+
+pallet:
+ path: github.com/PlanktoScope/pallet-segmenter
+ description: An experimental Forklift pallet for running the PlanktoScope's segmenter separately on a computer
+ readme-file: README.md
diff --git a/forklift-repository.yml b/forklift-repository.yml
new file mode 100644
index 0000000..6345b38
--- /dev/null
+++ b/forklift-repository.yml
@@ -0,0 +1,6 @@
+forklift-version: v0.4.0
+
+repository:
+ path: github.com/PlanktoScope/pallet-segmenter
+ description: Packages to help with running the PlanktoScope's segmenter separately on a computer
+ readme-file: README.md
diff --git a/requirements/repositories/github.com/PlanktoScope/device-pkgs/forklift-version-lock.yml b/requirements/repositories/github.com/PlanktoScope/device-pkgs/forklift-version-lock.yml
new file mode 100644
index 0000000..8a411a6
--- /dev/null
+++ b/requirements/repositories/github.com/PlanktoScope/device-pkgs/forklift-version-lock.yml
@@ -0,0 +1,4 @@
+type: pseudoversion
+tag: v2024.0.0-alpha.0
+timestamp: "20240227034045"
+commit: 3809b4ed589ee267ee37e7f57d6dc1f2b4465eb4