From ec6628fc85eceea725cf26201f2f92576c2e4562 Mon Sep 17 00:00:00 2001 From: ggabernet Date: Thu, 16 Jun 2022 14:39:55 +0200 Subject: [PATCH] update CI and full size test --- .github/workflows/ci.yml | 2 +- CHANGELOG.md | 2 ++ conf/test_full.config | 4 ++-- 3 files changed, 5 insertions(+), 3 deletions(-) diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml index 2198780b..a3abcf18 100644 --- a/.github/workflows/ci.yml +++ b/.github/workflows/ci.yml @@ -33,7 +33,7 @@ jobs: "test,docker --aligner alevin", "test,docker --aligner kallisto", "test,docker --aligner star", - "test,docker --aligner cellranger", + "test,docker --aligner cellranger -stub", ] steps: - name: Check out pipeline code diff --git a/CHANGELOG.md b/CHANGELOG.md index a98c7f2f..6511bf5d 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -7,6 +7,8 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0 - Pipeline ported to dsl2 - Template update with latest nf-core/tools v2.1 +- Added cellranger v.7.0.0 subworkflow +- Added full size tests ### Fixes diff --git a/conf/test_full.config b/conf/test_full.config index 818f8a7a..033450cc 100644 --- a/conf/test_full.config +++ b/conf/test_full.config @@ -16,8 +16,8 @@ params { // Input data input = 'https://raw.githubusercontent.com/nf-core/test-datasets/scrnaseq/samplesheet_2.0_full.csv' - genome_fasta = 's3://nf-core-awsmegatests/scrnaseq/input_data/Homo_sapiens.GRCh38.dna.primary_assembly.modified.fa' - gtf = 's3://nf-core-awsmegatests/scrnaseq/input_data/gencode.v32.primary_assembly.annotation.filtered.gtf' + genome_fasta = 's3://nf-core-awsmegatests/scrnaseq/input_data/Homo_sapiens.GRCh38.dna.primary_assembly.fa' + gtf = 's3://nf-core-awsmegatests/scrnaseq/input_data/Homo_sapiens.GRCh38.106.gtf' protocol = '10XV2' schema_ignore_params = 'genomes' }