From 9ad4a0b27635d560bc25c1a888efffd670828407 Mon Sep 17 00:00:00 2001
From: Robrecht Cannoodt <rcannood@gmail.com>
Date: Fri, 8 Aug 2025 16:25:04 +0200
Subject: [PATCH] update scprint

---
 CHANGELOG.md                        |  4 ++++
 src/methods/scprint/config.vsh.yaml | 11 +++++------
 2 files changed, 9 insertions(+), 6 deletions(-)

diff --git a/CHANGELOG.md b/CHANGELOG.md
index 09d672d0..fbc8aeea 100644
--- a/CHANGELOG.md
+++ b/CHANGELOG.md
@@ -9,6 +9,10 @@
 * Un-pin the scPRINT version and update parameters (PR #51)
 * Update scPRINT to better handle large datasets, including a new default model (PR #54)
 
+## Bug fixes
+
+* Update scPRINT to use latest stable version (PR #xx)
+
 # task_batch_integration 2.0.0
 
 A major update to the OpenProblems framework, switching from a Python-based framework to a Viash + Nextflow-based framework. This update features the same concepts as the previous version, but with a new implementation that is more flexible, scalable, and maintainable.
diff --git a/src/methods/scprint/config.vsh.yaml b/src/methods/scprint/config.vsh.yaml
index b7808adc..83e3f9a8 100644
--- a/src/methods/scprint/config.vsh.yaml
+++ b/src/methods/scprint/config.vsh.yaml
@@ -75,13 +75,12 @@ engines:
     setup:
       - type: python
         pip:
-          - git+https://github.com/cantinilab/scPRINT.git@d8cc270b099c8d5dacf6913acc26f2b696685b2b
-          - gseapy==1.1.2
-          - git+https://github.com/jkobject/scDataLoader.git@c67c24a2e5c62399912be39169aae76e29e108aa
+          - scprint>=2.3.0
+          - gseapy>=1.1.8
       - type: docker
-        run: lamin init --storage ./main --name main --schema bionty
-      - type: docker
-        run: lamin load anonymous/main
+        run: |
+          lamin init --storage ./main --name main --schema bionty && \
+          lamin load anonymous/main
       - type: python
         script: import bionty as bt; bt.core.sync_all_sources_to_latest()
       - type: python