From c3683221a8f68a8fda8ab03943a65c57f7c7c42b Mon Sep 17 00:00:00 2001
From: lb584 <lb584@cam.ac.uk>
Date: Fri, 23 Aug 2024 15:28:04 +0100
Subject: [PATCH] adding epi-fit task (early work)
---
.gitlab-ci.yml | 12 ++++++++++++
1 file changed, 12 insertions(+)
diff --git a/.gitlab-ci.yml b/.gitlab-ci.yml
index 47e79a2..d5753f2 100644
--- a/.gitlab-ci.yml
+++ b/.gitlab-ci.yml
@@ -24,6 +24,7 @@ stages:
- docs
- half-fat
- full-fat
+ - epi-fit
.before_script:
before_script:
@@ -124,6 +125,17 @@ full_fat_depo:
- $CI_PROJECT_DIR/test_reports
expire_in: 10 days
+epi_fit:
+ when: manual
+ stage: epi-fit
+ extends: .before_script
+ tags: ["ewas-production"]
+ script:
+ - >
+ cd $PACKAGES_DIR/epimodel/ews/epi_model
+
+ python3 fit.py /storage/app/EWS_prod/regions/EastAfrica/test_workspace/integration/epi_fit/dev/data_proc/6.0_epi_pipeline/inputs/configs/epi_fit_S3_H4_D1_M1_F2_Q1_short.json /storage/app/EWS_prod/regions/EastAfrica/test_workspace/integration/epi_fit/dev/data_proc/6.0_epi_pipeline/run_S3_H4_C3_D1_M1_F2_Q1_2016/outputty/ 2016
+
full_fat_env_suit:
when: manual
stage: full-fat
--
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