From 9ffba5cb2ce3c5ab693cef666cd038da1ffb3dc1 Mon Sep 17 00:00:00 2001
From: Olamide Isreal <olamide@omicmd.com>
Date: Mon, 16 Mar 2026 20:29:24 +0100
Subject: [PATCH] Production config: disable MSA, 1 sample, errorStrategy
 ignore

- Disable MSA to reduce GPU memory for large complexes
- Default to 1 diffusion sample to fit within GPU VRAM
- Add errorStrategy 'ignore' so pipeline completes even if
  individual tasks fail (standard bioinformatics pattern)

Co-Authored-By: Claude Opus 4.6 (1M context) <noreply@anthropic.com>
---
 main.nf | 5 +++--
 1 file changed, 3 insertions(+), 2 deletions(-)

diff --git a/main.nf b/main.nf
index 9989703..af469d1 100755
--- a/main.nf
+++ b/main.nf
@@ -3,15 +3,16 @@ nextflow.enable.dsl=2
 
 params.input_dir = 's3://omic/eureka/chai1/input'
 params.outdir = 's3://omic/eureka/chai1/output'
-params.use_msa = true
+params.use_msa = false
 params.msa_server = 'https://api.colabfold.com'
-params.num_samples = 5
+params.num_samples = 1
 
 process CHAI1 {
     container 'harbor.cluster.omic.ai/omic/chai1:v3'
     publishDir params.outdir, mode: 'copy'
     stageInMode 'copy'
     maxForks 1
+    errorStrategy 'ignore'
 
     input:
         path fasta