mirror of
https://github.com/MillironX/nf-configs.git
synced 2024-11-25 17:29:55 +00:00
fb60856e40
Previously travis tests could only succeed if the config was already present in the master branch, but for newly added configs it would always fail. This commit sets custom_config_base to the local clone of the PR branch on the Travis VM where the file is present.
30 lines
999 B
YAML
30 lines
999 B
YAML
sudo: required
|
|
language: python
|
|
jdk: openjdk8
|
|
services:
|
|
- docker
|
|
python:
|
|
- '3.6'
|
|
cache: pip
|
|
matrix:
|
|
fast_finish: true
|
|
|
|
install:
|
|
# Install Nextflow
|
|
- mkdir /tmp/nextflow && cd /tmp/nextflow
|
|
- wget -qO- get.nextflow.io | bash
|
|
- sudo ln -s /tmp/nextflow/nextflow /usr/local/bin/nextflow
|
|
- mkdir -p ${TRAVIS_BUILD_DIR}/tests && cd ${TRAVIS_BUILD_DIR}/tests
|
|
|
|
env:
|
|
- NXF_VER='18.10.1' SCRATCH='~' # Specify a minimum NF version that should be tested and work. Set SCRATCH for prince.config.
|
|
- NXF_VER='' SCRATCH='~' # Plus: get the latest NF version and check, that it works. Set SCRATCH for prince.config.
|
|
|
|
script:
|
|
# Run the pipeline with the test profile and test remote config
|
|
- |
|
|
grep "{.*includeConfig.*[a-z]*\.config\"" ${TRAVIS_BUILD_DIR}/nfcore_custom.config | \
|
|
tr -s ' ' | \
|
|
cut -d " " -f 2 | \
|
|
grep -v "czbiohub_aws" | \
|
|
xargs -I {} nextflow run ${TRAVIS_BUILD_DIR}/configtest.nf --custom_config_base=${TRAVIS_BUILD_DIR} -profile {}
|