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Code Issues Releases Packages Activity

Update more paths

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This commit is contained in:
Phil Ewels 2020-07-11 14:36:12 +02:00
parent d3f3432451
commit 905e842f36
7 changed files with 16 additions and 16 deletions
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6
.github/workflows/cutadapt.yml vendored
View file

@ -2,7 +2,7 @@ name: cutadapt
on: on:
push: {} push: {}
pull_request: pull_request:
paths: tools/cutadapt/* paths: software/cutadapt/*
jobs: jobs:
run_ci_test: run_ci_test:
@ -25,10 +25,10 @@ jobs:
- name: Test module with paired-end data - name: Test module with paired-end data
run: | run: |
cd tools/cutadapt/test_paired/ cd software/cutadapt/test_paired/
nextflow run . -ansi-log false nextflow run . -ansi-log false
- name: Test module with single-end data - name: Test module with single-end data
run: | run: |
cd tools/cutadapt/test_single/ cd software/cutadapt/test_single/
nextflow run . -ansi-log false nextflow run . -ansi-log false

6
.github/workflows/docker.yml vendored
View file

@ -5,8 +5,8 @@ on:
branches: master branches: master
# Only if a conda environment file or a docker build file has been updated # Only if a conda environment file or a docker build file has been updated
paths: paths:
- tools/*/environment.yml - software/*/environment.yml
- tools/*/Dockerfile - software/*/Dockerfile
jobs: jobs:
build_docker: build_docker:
@ -36,7 +36,7 @@ jobs:
echo $TOOL echo $TOOL
done; done;
echo '-----' echo '-----'
for d in tools/*; do for d in software/*; do
for TOOL in $TOOLS; do for TOOL in $TOOLS; do
echo "$d -- $TOOL" echo "$d -- $TOOL"
if echo $d/ | grep -q "$TOOL"; then if echo $d/ | grep -q "$TOOL"; then

4
.github/workflows/fastqc.yml vendored
View file

@ -2,7 +2,7 @@ name: FastQC
on: on:
push: {} push: {}
pull_request: pull_request:
paths: tools/fastqc/* paths: software/fastqc/*
jobs: jobs:
run_ci_test: run_ci_test:
@ -20,4 +20,4 @@ jobs:
sudo mv nextflow /usr/local/bin/ sudo mv nextflow /usr/local/bin/
# Test the module # Test the module
- run: nextflow run ./tools/fastqc/test/ -ansi-log false - run: nextflow run ./software/fastqc/test/ -ansi-log false

4
.github/workflows/samtools_index.yml vendored
View file

@ -2,7 +2,7 @@ name: samtools index
on: on:
push: {} push: {}
pull_request: pull_request:
paths: tools/samtools/index* paths: software/samtools/index*
jobs: jobs:
run_ci_test: run_ci_test:
@ -20,4 +20,4 @@ jobs:
sudo mv nextflow /usr/local/bin/ sudo mv nextflow /usr/local/bin/
# Test the module # Test the module
- run: nextflow run ./tools/samtools/index/test/ -ansi-log false - run: nextflow run ./software/samtools/index/test/ -ansi-log false

4
.github/workflows/samtools_sort.yml vendored
View file

@ -2,7 +2,7 @@ name: samtools sort
on: on:
push: {} push: {}
pull_request: pull_request:
paths: tools/samtools/sort* paths: software/samtools/sort*
jobs: jobs:
run_ci_test: run_ci_test:
@ -20,4 +20,4 @@ jobs:
sudo mv nextflow /usr/local/bin/ sudo mv nextflow /usr/local/bin/
# Test the module # Test the module
- run: nextflow run ./tools/samtools/sort/test/ -ansi-log false - run: nextflow run ./software/samtools/sort/test/ -ansi-log false

4
.github/workflows/tcoffee.yml vendored
View file

@ -2,7 +2,7 @@ name: tcoffee
on: on:
push: {} push: {}
pull_request: pull_request:
paths: tools/tcoffee/* paths: software/tcoffee/*
jobs: jobs:
run_ci_test: run_ci_test:
@ -26,5 +26,5 @@ jobs:
# Test the module # Test the module
- run: | - run: |
cd tools/tcoffee/test/ cd software/tcoffee/test/
nextflow run . -ansi-log false nextflow run . -ansi-log false

4
.github/workflows/trim_galore.yml vendored
View file

@ -2,7 +2,7 @@ name: Trim Galore!
on: on:
push: {} push: {}
pull_request: pull_request:
paths: tools/trim_galore/* paths: software/trim_galore/*
jobs: jobs:
run_ci_test: run_ci_test:
@ -20,4 +20,4 @@ jobs:
sudo mv nextflow /usr/local/bin/ sudo mv nextflow /usr/local/bin/
# Test the module # Test the module
- run: nextflow run ./tools/trim_galore/test/ -ansi-log false - run: nextflow run ./software/trim_galore/test/ -ansi-log false