PolusAI · vanlam2308 · Mar 19, 2026
@@ -0,0 +1,16 @@
+[bumpversion]
+current_version = 0.1.10
+commit = False
+tag = False
+
+[bumpversion:file:VERSION]
+
+[bumpversion:file:pyproject.toml]
+search = version = "{current_version}"
+replace = version = "{new_version}"
+
+[bumpversion:file:plugin.json]
+
+[bumpversion:file:ict.yaml]
+
+[bumpversion:file:intensityprojectionplugin.cwl]
@@ -1,19 +1,14 @@
-
-FROM polusai/bfio:2.1.9
-
-COPY VERSION /
-
-ARG EXEC_DIR="/opt/executables"
-ARG DATA_DIR="/data"
-
-RUN mkdir -p ${EXEC_DIR} \
-    && mkdir -p ${DATA_DIR}/inputs \
-    && mkdir ${DATA_DIR}/outputs
-
-COPY src/requirements.txt ${EXEC_DIR}/
-RUN pip3 install -r ${EXEC_DIR}/requirements.txt --no-cache-dir
-
-COPY src ${EXEC_DIR}/
+# Build from repo root (monorepo) or from this tool directory — both work.
+FROM polusai/bfio:2.5.0
+ENV EXEC_DIR="/opt/executables" POLUS_IMG_EXT=".ome.tif" POLUS_TAB_EXT=".csv" POLUS_LOG="INFO"
 WORKDIR ${EXEC_DIR}
-
-ENTRYPOINT ["python3", "/opt/executables/main.py"]
+ENV TOOL_DIR="transforms/images/polus-intensity-projection-plugin"
+RUN mkdir -p image-tools
+COPY . ${EXEC_DIR}/image-tools
+RUN pip3 install -U pip setuptools wheel \
+  && python3 -c 'import sys; assert sys.version_info>=(3,11)' \
+  && R="${EXEC_DIR}/image-tools" && M="$R/$TOOL_DIR" \
+  && if [ -f "$M/pyproject.toml" ]; then pip3 install --no-cache-dir "$M"; \
+     else pip3 install --no-cache-dir "$R"; fi
+ENTRYPOINT ["python3", "-m", "main"]
+CMD ["--help"]
@@ -2,16 +2,16 @@
 
 This WIPP plugin calculates the volumetric intensity projection of a 3d image
 along the z-direction(depth).  The following types of intensity projections have
-been implemented: 
+been implemented:
 
-1. Maximum: 
-2. Minimum 
-3. Mean 
+1. Maximum:
+2. Minimum
+3. Mean
 ```
 Example: Consider an input image of size: (x,y,z). If the user chooses the
 option `max`, the code will calculate the value of the maximum intensity value
 along the z-direction for every x,y position. The output will be a 2d image of
-size (x,y). 
+size (x,y).
 ```
 Contact [Gauhar Bains](mailto:gauhar.bains@labshare.org) for more information.
 
@@ -37,4 +37,3 @@ This plugin takes one input argument and one output argument:
 | `--inpDir`         | Input image collection to be processed  | Input  | collection |
 | `--projectionType` | Type of volumetric intensity projection | Input  | string     |
 | `--outDir`         | Output collection                       | Output | collection |
-
@@ -1 +1 @@
-0.1.9
+0.1.10
@@ -1,4 +1,4 @@
 #!/bin/bash
 
 version=$(<VERSION)
-docker build . -t polusai/intensity-projection-plugin:${version}
+docker build . -t polusai/intensity-projection-plugin:${version}
@@ -1,7 +1,7 @@
 author:
 - Gauhar Bains
 contact: gauhar.bains@labshare.org
-container: polusai/intensity-projection-plugin:0.1.9
+container: polusai/intensity-projection-plugin:0.1.10
 description: Calculate volumetric intensity projections
 entrypoint: '[python3, main.py]'
 inputs:
@@ -41,4 +41,4 @@ ui:
   key: inputs.projectionType
   title: Projection Type
   type: select
-version: 0.1.9
+version: 0.1.10
@@ -20,7 +20,7 @@ outputs:
     type: Directory
 requirements:
   DockerRequirement:
-    dockerPull: polusai/intensity-projection-plugin:0.1.9
+    dockerPull: polusai/intensity-projection-plugin:0.1.10
   InitialWorkDirRequirement:
     listing:
     - entry: $(inputs.outDir)

@@ -1,52 +1,52 @@
 {
-    "name": "Intensity Projection Plugin",
-    "version": "0.1.9",
-    "title": "Intensity Projection Plugin",
-    "description": "Calculate volumetric intensity projections",
-    "author": "Gauhar Bains (gauhar.bains@labshare.org)",
-    "institution": "National Center for Advancing Translational Sciences, National Institutes of Health",
-    "repository": "https://github.com/labshare/polus-plugins",
-    "website": "https://ncats.nih.gov/preclinical/core/informatics",
-    "citation": "",
-    "containerId": "polusai/intensity-projection-plugin:0.1.9",
-    "inputs": [
-      {
-        "name": "inpDir",
-        "type": "collection",
-        "description": "Input image collection to be processed by this plugin",
-        "required": true
+  "name": "Intensity Projection Plugin",
+  "version": "0.1.10",
+  "title": "Intensity Projection Plugin",
+  "description": "Calculate volumetric intensity projections",
+  "author": "Gauhar Bains (gauhar.bains@labshare.org)",
+  "institution": "National Center for Advancing Translational Sciences, National Institutes of Health",
+  "repository": "https://github.com/labshare/polus-plugins",
+  "website": "https://ncats.nih.gov/preclinical/core/informatics",
+  "citation": "",
+  "containerId": "polusai/intensity-projection-plugin:0.1.10",
+  "inputs": [
+    {
+      "name": "inpDir",
+      "type": "collection",
+      "description": "Input image collection to be processed by this plugin",
+      "required": true
+    },
+    {
+      "name": "projectionType",
+      "type": "enum",
+      "description": "Type of volumetric intensity projection",
+      "options": {
+        "values": [
+          "max",
+          "min",
+          "mean"
+        ]
       },
-      {
-        "name": "projectionType",
-        "type": "enum",
-        "description": "Type of volumetric intensity projection",
-        "options": {
-            "values": [
-                        "max",
-                        "min",
-                        "mean"
-               ]
-        },
-        "required": true
-      }
-    ],
-    "outputs": [
-      {
-        "name": "outDir",
-        "type": "collection",
-        "description": "Output collection"
-      }
-    ],
-    "ui": [
-      {
-        "key": "inputs.inpDir",
-        "title": "Input collection",
-        "description": "Input image collection to be processed by this plugin"
-      },
-      {
-        "key": "inputs.projectionType",
-        "title": "Projection Type",
-        "description": "Type of volumetric intensity projection"
-      }
-    ]
-  }
+      "required": true
+    }
+  ],
+  "outputs": [
+    {
+      "name": "outDir",
+      "type": "collection",
+      "description": "Output collection"
+    }
+  ],
+  "ui": [
+    {
+      "key": "inputs.inpDir",
+      "title": "Input collection",
+      "description": "Input image collection to be processed by this plugin"
+    },
+    {
+      "key": "inputs.projectionType",
+      "title": "Projection Type",
+      "description": "Type of volumetric intensity projection"
+    }
+  ]
+}
@@ -0,0 +1,15 @@
+[project]
+name = "polus-intensity-projection-plugin"
+version = "0.1.10"
+description = "Calculate volumetric intensity projections"
+requires-python = ">=3.11"
+dependencies = [
+    "bfio>=2.5.0",
+]
+
+[build-system]
+requires = ["hatchling"]
+build-backend = "hatchling.build"
+
+[tool.hatch.build.targets.wheel]
+packages = ["src"]
@@ -0,0 +1 @@
+"""Intensity projection plugin."""