PolusAI · hamshkhawar · Nov 6, 2024 · Nov 6, 2024
@@ -1,5 +1,5 @@
 [bumpversion]
-current_version = 2.1.2
+current_version = 2.1.3-dev0
 commit = True
 tag = False
 parse = (?P<major>\d+)\.(?P<minor>\d+)\.(?P<patch>\d+)(\-(?P<release>[a-z]+)(?P<dev>\d+))?
@@ -26,4 +26,8 @@ replace = version = "{new_version}"
 
 [bumpversion:file:README.md]
 
+[bumpversion:file:flatfieldestimationusingbasicalgorithm.cwl]
+
+[bumpversion:file:ict.yaml]
+
 [bumpversion:file:src/polus/images/regression/basic_flatfield_estimation/__init__.py]
@@ -1,4 +1,4 @@
-# BaSiC Flatfield Correction (v2.1.2)
+# BaSiC Flatfield Correction (v2.1.3-dev0)
 
 This WIPP plugin will take a collection of images and use the BaSiC flatfield
 correction algorithm to generate a flatfield image, a darkfield image, and a

@@ -1 +1 @@
-2.1.2
+2.1.3-dev0
@@ -28,7 +28,7 @@ outputs:
     type: Directory
 requirements:
   DockerRequirement:
-    dockerPull: polusai/basic-flatfield-estimation-tool:2.1.2-dev0
+    dockerPull: polusai/basic-flatfield-estimation-tool:2.1.3-dev0
   InitialWorkDirRequirement:
     listing:
     - entry: $(inputs.outDir)

@@ -1,62 +1,63 @@
 author:
-- Nick Schaub
-- Najib Ishaq
+  - Nick Schaub
+  - Najib Ishaq
 contact: nick.schaub@nih.gov
-container: polusai/basic-flatfield-estimation-tool:2.1.2-dev0
+container: polusai/basic-flatfield-estimation-tool:2.1.3-dev0
 description: Generates images used for flatfield correction using the BaSiC algorithm.
 entrypoint: python3 -m polus.images.regression.basic_flatfield_estimation
 inputs:
-- description: Input image collection.
-  format:
-  - collection
-  name: inpDir
-  required: true
-  type: path
-- description: Filename pattern used to separate images by channel, timepoint, and
-    replicate.
-  format:
-  - string
-  name: filePattern
-  required: true
-  type: string
-- description: Group images together for flatfield by variable.
-  format:
-  - string
-  name: groupBy
-  required: false
-  type: string
-- description: Calculate darkfield image.
-  format:
-  - boolean
-  name: getDarkfield
-  required: true
-  type: boolean
+  - description: Input image collection.
+    format:
+      - collection
+    name: inpDir
+    required: true
+    type: path
+  - description:
+      Filename pattern used to separate images by channel, timepoint, and
+      replicate.
+    format:
+      - string
+    name: filePattern
+    required: true
+    type: string
+  - description: Group images together for flatfield by variable.
+    format:
+      - string
+    name: groupBy
+    required: false
+    type: string
+  - description: Calculate darkfield image.
+    format:
+      - boolean
+    name: getDarkfield
+    required: true
+    type: boolean
 name: polusai/FlatfieldEstimationusingBaSiCalgorithm.
 outputs:
-- description: Output data for the plugin
-  format:
-  - collection
-  name: outDir
-  required: true
-  type: path
-repository: https://github.com/polusai/polus-plugins
+  - description: Output data for the plugin
+    format:
+      - collection
+    name: outDir
+    required: true
+    type: path
+repository: https://github.com/polusai/image-tools
 specVersion: 1.0.0
 title: Flatfield Estimation using BaSiC algorithm.
 ui:
-- description: Image collection...
-  key: inputs.inpDir
-  title: 'Input image collection: '
-  type: path
-- description: Use a filename pattern to calculate flatfield information by subsets
-  key: inputs.filePattern
-  title: 'Filename pattern: '
-  type: text
-- description: Group data together with varying variable values.
-  key: inputs.groupBy
-  title: 'Grouping Variables: '
-  type: text
-- description: If selected, will generate a darkfield image
-  key: inputs.getDarkfield
-  title: 'Calculate darkfield: '
-  type: checkbox
-version: 2.1.2-dev0
+  - description: Image collection...
+    key: inputs.inpDir
+    title: "Input image collection: "
+    type: path
+  - description: Use a filename pattern to calculate flatfield information by subsets
+    key: inputs.filePattern
+    title: "Filename pattern: "
+    type: text
+  - description: Group data together with varying variable values.
+    key: inputs.groupBy
+    title: "Grouping Variables: "
+    type: text
+  - description: If selected, will generate a darkfield image
+    key: inputs.getDarkfield
+    title: "Calculate darkfield: "
+    type: checkbox
+version: 2.1.3-dev0
@@ -1,14 +1,14 @@
 {
   "name": "BaSiC Flatfield Estimation",
-  "version": "2.1.2",
+  "version": "2.1.3-dev0",
   "title": "Flatfield Estimation using BaSiC algorithm.",
   "description": "Generates images used for flatfield correction using the BaSiC algorithm.",
   "author": "Nick Schaub (nick.schaub@nih.gov), Najib Ishaq (najib.ishaq@nih.gov)",
   "institution": "National Center for the Advancing Translational Sciences, National Institutes of Health",
   "repository": "https://github.com/polusai/polus-plugins",
   "website": "https://ncats.nih.gov/preclinical/core/informatics",
   "citation": "Peng et al. \"A BaSiC tool for background and shading correction of optical microscopy images\" Nature Communications (2017)",
-  "containerId": "polusai/basic-flatfield-estimation-tool:2.1.2",
+  "containerId": "polusai/basic-flatfield-estimation-tool:2.1.3-dev0",
   "baseCommand": [
     "python3",
     "-m",

@@ -1,6 +1,6 @@
 [tool.poetry]
 name = "polus-images-regression-basic-flatfield-estimation"
-version = "2.1.2"
+version = "2.1.3-dev0"
 description = ""
 authors = [
     "Nick Schaub <nick.schaub@nih.gov>",
@@ -16,7 +16,7 @@ filepattern = "^2.0.4"
 typer = { version = "^0.7.0", extras = ["all"] }
 numpy = "^1.24.3"
 tqdm = "^4.65.0"
-basicpy = "1.1.0"
+basicpy = "1.2.0"
 
 [tool.poetry.group.dev.dependencies]
 bump2version = "^1.0.1"

@@ -10,7 +10,7 @@
 
 __all__ = ["estimate", "__version__"]
 
-__version__ = "2.1.2"
+__version__ = "2.1.3-dev0"
 
 # Set the basicpy logger to warning
 logging.getLogger("basicpy.basicpy").setLevel(logging.WARNING)