Merge pull request #102 from KumarLabJax/release/v0.2.0

Prepare for v0.2.0 release

Author: bergsalex

nextflow.config

@@ -1,6 +1,18 @@
-
 nextflow.enable.dsl=2
 
+manifest {
+    name = "Kumar Lab Mouse Tracking Pipelines"
+    homePage = "https://github.com/KumarLabJax/mouse-tracking-runtime"
+    mainScript = "main.nf"
+    defaultBranch = 'main'
+    nextflowVersion = "!>=22.04.3"
+    version = "0.2.0"
+    contributors = [
+        [name: 'Brian Geuther'],
+        [name: 'Alexander Berger-Liedtka']
+    ]
+}
+
 params {
     /*
      * Parameters:
@@ -13,6 +25,7 @@ params {
      * - path_depth: depth of the path to preserve in the output
      * - pubdir: directory to publish the results (defaults in profiles)
      */
+    version = '0.2.0'
     input_batch = null
     ignore_invalid_inputs = false
     profile = 'sumner2'
@@ -45,15 +58,6 @@ params {
     git_hash = 'git rev-parse HEAD'.execute().text.trim() ?: 'unknown'
 }
 
-manifest {
-    name = "Kumar Lab Mouse Tracking Pipelines"
-    homePage = "https://github.com/KumarLabJax/mouse-tracking-runtime"
-    mainScript = "main.nf"
-    nextflowVersion = "!>=22.04.3"
-    version = "0.0.1"
-    author = 'Brian Geuther'
-}
-
 profiles {
     development  { includeConfig "nextflow/configs/profiles/development.config" }
     sumner2      { includeConfig "nextflow/configs/profiles/sumner2.config" }

nextflow/configs/profiles/sumner2.config

@@ -191,7 +191,7 @@ process {
      * Runtime options
      */
     withLabel: "tracking" {
-        container = "/projects/kumar-lab/meta/images/mouse-tracking-runtime/runtime/v0.1.4/latest.sif"
+        container = "/projects/kumar-lab/meta/images/mouse-tracking-runtime/runtime/v${params.version}/latest.sif"
     }
     withLabel: "jabs_classify" {
         container = "/projects/kumar-lab/meta/images/JABS-behavior-classifier/headless/v0.36.1/latest.sif"
@@ -200,7 +200,7 @@ process {
         container = "/projects/kumar-lab/meta/images/JABS-postprocess/jabs-postprocess/v0.5.1/latest.sif"
     }
     withLabel: "jabs_table_convert" {
-        container = "/projects/kumar-lab/meta/images/mouse-tracking-runtime/RBase/v0.1.4/latest.sif"
+        container = "/projects/kumar-lab/meta/images/mouse-tracking-runtime/RBase/v${params.version}/latest.sif"
     }
     withLabel: "gait" {
         container = "/projects/kumar-lab/multimouse-pipeline/nextflow-containers/gait-pipeline-2025-03-27.sif"
@@ -209,14 +209,14 @@ process {
         container = "/projects/kumar-lab/multimouse-pipeline/nextflow-containers/vfi-2025-03-27.sif"
     }
     withLabel: "sleap" {
-        container = "/projects/kumar-lab/meta/images/mouse-tracking-runtime/sleap-1.4.1/v0.1.4/latest.sif"
+        container = "/projects/kumar-lab/meta/images/mouse-tracking-runtime/sleap-1.4.1/v${params.version}/latest.sif"
     }
     withLabel: "sleap_io" {
-        container = "/projects/kumar-lab/meta/images/mouse-tracking-runtime/sleap-io-0.2.0/v0.1.4/latest.sif"
+        container = "/projects/kumar-lab/meta/images/mouse-tracking-runtime/sleap-io-0.2.0/v${params.version}/latest.sif"
     }
     withLabel: "rclone" {
         // executor.queueSize = 1
-        container = "/projects/kumar-lab/meta/images/mouse-tracking-runtime/rclone/v0.1.4/latest.sif"
+        container = "/projects/kumar-lab/meta/images/mouse-tracking-runtime/rclone/v${params.version}/latest.sif"
         cpus = 1
         time = '48h'
         memory = '12GB'

pyproject.toml

@@ -1,6 +1,6 @@
 [project]
 name = "mouse-tracking"
-version = "0.1.4"
+version = "0.2.0"
 description = "Runtime environment for mouse tracking experiments"
 requires-python = ">=3.10,<3.11"
 packages = ["src/mouse_tracking"]

submit-nextflow.sh

@@ -44,7 +44,7 @@ EOF
 
 # Default values
 PIPELINE="KumarLabJax/mouse-tracking-runtime"
-REVISION=""
+REVISION="v0.2.0"
 WORKFLOW="single-mouse"
 PROFILE="sumner2"
 JOB_NAME="KL_Tracking_Nextflow"