From 40116fccf66f353da71ef4784ccf0eec46f5d9d9 Mon Sep 17 00:00:00 2001
From: "Gervaise H. Henry" <gervaise.henry@utsouthwestern.edu>
Date: Mon, 13 Apr 2020 20:57:21 -0500
Subject: [PATCH] Replace pytest
---
.gitlab-ci.yml | 6 ++++++
1 file changed, 6 insertions(+)
diff --git a/.gitlab-ci.yml b/.gitlab-ci.yml
index 2eaaa76..b33b296 100755
--- a/.gitlab-ci.yml
+++ b/.gitlab-ci.yml
@@ -41,6 +41,7 @@ simple_1:
- master
script:
- nextflow -q run workflow/main.nf -profile biohpc_cluster --fastq "test_data/hu.v3s1r500/*.fastq.gz" --designFile "test_data/hu.v3s1r500/design.csv" --genome 'GRCh38-3.0.0' --kitVersion '3GEXv3' --version '3.1.0'
+ - pytest -m count310
artifacts:
name: "$CI_JOB_NAME"
when: always
@@ -65,6 +66,7 @@ simple_2:
- tags
script:
- nextflow -q run workflow/main.nf -profile biohpc_cluster --fastq "test_data/mu.v3s1r500/*.fastq.gz" --designFile "test_data/mu.v3s1r500/design.csv" --genome 'mm10-3.0.0' --kitVersion '3GEXv3' --version '3.1.0'
+ - pytest -m count310
artifacts:
name: "$CI_JOB_NAME"
when: always
@@ -88,6 +90,7 @@ detailed_1:
- tags
script:
- nextflow -q run workflow/main.nf -profile biohpc,_cluster --fastq "test_data/hu.v3s2r10k/*.fastq.gz" --designFile "test_data/hu.v3s2r10k/design.csv" --genome 'GRCh38-3.0.0' --kitVersion 'auto' --version '3.1.0'
+ - pytest -m count310
artifacts:
name: "$CI_JOB_NAME"
when: always
@@ -112,6 +115,7 @@ detailed_2:
- tags
script:
- nextflow -q run workflow/main.nf -profile biohpc_cluster --fastq "test_data/hu.v3s2r10k/*.fastq.gz" --designFile "test_data/hu.v3s2r10k/design.csv" --genome 'GRCh38-3.0.0' --kitVersion 'auto' --version '3.0.2'
+ - pytest -m count302
artifacts:
name: "$CI_JOB_NAME"
when: always
@@ -135,6 +139,7 @@ detailed_3:
- tags
script:
- nextflow -q run workflow/main.nf -profile biohpc_cluster --fastq "test_data/mu.v3s2r10k/*.fastq.gz" --designFile "test_data/mu.v3s2r10k/design.csv" --genome 'mm10-3.0.0' --kitVersion 'three' --version '3.0.1'
+ - pytest -m count301
artifacts:
name: "$CI_JOB_NAME"
when: always
@@ -158,6 +163,7 @@ detailed_4:
- tags
script:
- nextflow -q run workflow/main.nf -profile biohpc_cluster --fastq "test_data/hu.v2s2r10k/*.fastq.gz" --designFile "test_data/hu.v2s2r10k/design.csv" --genome 'GRCh38-1.2.0' --kitVersion 'two' --version '2.1.1'
+ - pytest -m count211
artifacts:
name: "$CI_JOB_NAME"
when: always
--
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