From f7523d8d5b9da2c8683b4fb728886531b735dfd2 Mon Sep 17 00:00:00 2001
From: descoste <descoste@pc-bioinf01.embl.de>
Date: Thu, 21 Apr 2022 10:18:51 +0200
Subject: [PATCH] replace by main
---
.gitlab-ci.yml | 16 ++-------------
.../bowtie2/Singularity.bowtie2-241cv1 | 1 +
.../bowtie2/Singularity.bowtie2-245 | 1 +
.../quality-control/bowtie2-deploy.yaml | 20 +++++++++++++++++++
.../quality-control/bowtie2-test.backup | 13 ++++++++++++
5 files changed, 37 insertions(+), 14 deletions(-)
create mode 100644 yaml-files/quality-control/bowtie2-deploy.yaml
create mode 100644 yaml-files/quality-control/bowtie2-test.backup
diff --git a/.gitlab-ci.yml b/.gitlab-ci.yml
index ff6ea75..02fe539 100644
--- a/.gitlab-ci.yml
+++ b/.gitlab-ci.yml
@@ -36,20 +36,6 @@ image:
## WRITE YOUR TEST RULE HERE AFTER BRANCHING ON SUBMISSION AND CREATE A MERGE REQUEST
-bowtie2-241cv1-test:
- extends: .templateTest
- variables:
- BASENAME: bowtie2
- TAG: 241cv1
- RECIPE_PATH: recipes/quality-control/bowtie2
-
-bowtie2-245-test:
- extends: .templateTest
- variables:
- BASENAME: bowtie2
- TAG: 245
- RECIPE_PATH: recipes/quality-control/bowtie2
-
#####################
# Image analysis
@@ -64,3 +50,5 @@ include:
include:
- local: "yaml-files/quality-control/fastqc-deploy.yaml"
+ - local: "yaml-files/quality-control/bowtie2-deploy.yaml"
+
\ No newline at end of file
diff --git a/recipes/quality-control/bowtie2/Singularity.bowtie2-241cv1 b/recipes/quality-control/bowtie2/Singularity.bowtie2-241cv1
index 71bebf4..25e57fd 100644
--- a/recipes/quality-control/bowtie2/Singularity.bowtie2-241cv1
+++ b/recipes/quality-control/bowtie2/Singularity.bowtie2-241cv1
@@ -10,3 +10,4 @@ From: biocontainers/bowtie2:v2.4.1_cv1
%labels
Author Nicolas Descostes
+
diff --git a/recipes/quality-control/bowtie2/Singularity.bowtie2-245 b/recipes/quality-control/bowtie2/Singularity.bowtie2-245
index 16bfa98..cb6fd33 100644
--- a/recipes/quality-control/bowtie2/Singularity.bowtie2-245
+++ b/recipes/quality-control/bowtie2/Singularity.bowtie2-245
@@ -10,3 +10,4 @@ From: quay.io/biocontainers/bowtie2:2.4.5--py36hfca12d5_2
%labels
Author Nicolas Descostes
+
diff --git a/yaml-files/quality-control/bowtie2-deploy.yaml b/yaml-files/quality-control/bowtie2-deploy.yaml
new file mode 100644
index 0000000..208e607
--- /dev/null
+++ b/yaml-files/quality-control/bowtie2-deploy.yaml
@@ -0,0 +1,20 @@
+bowtie2-245-builddeploy:
+ extends: .templateBuildDeploy
+ variables:
+ BASENAME: bowtie2
+ TAG: 245
+ RECIPE_PATH: recipes/quality-control/bowtie2
+ only:
+ changes:
+ - recipes/quality-control/bowtie2/Singularity.bowtie2-245
+
+bowtie2-241cv1-builddeploy:
+ extends: .templateBuildDeploy
+ variables:
+ BASENAME: bowtie2
+ TAG: 241cv1
+ RECIPE_PATH: recipes/quality-control/bowtie2
+ only:
+ changes:
+ - recipes/quality-control/bowtie2/Singularity.bowtie2-241cv1
+
diff --git a/yaml-files/quality-control/bowtie2-test.backup b/yaml-files/quality-control/bowtie2-test.backup
new file mode 100644
index 0000000..688424a
--- /dev/null
+++ b/yaml-files/quality-control/bowtie2-test.backup
@@ -0,0 +1,13 @@
+bowtie2-241cv1-test:
+ extends: .templateTest
+ variables:
+ BASENAME: bowtie2
+ TAG: 241cv1
+ RECIPE_PATH: recipes/quality-control/bowtie2
+
+bowtie2-245-test:
+ extends: .templateTest
+ variables:
+ BASENAME: bowtie2
+ TAG: 245
+ RECIPE_PATH: recipes/quality-control/bowtie2
--
GitLab