add nextflow d30e48d

This commit is contained in:
2026-04-29 23:01:54 +02:00
parent d0b12d668d
commit 97cc9058d3
2840 changed files with 730250 additions and 0 deletions

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@@ -0,0 +1,48 @@
set -e
export NXF_ASSETS=$PWD/assets
cp .config nextflow.config
#
# First run test `success` is `true`
#
echo ''
$NXF_RUN -name first > stdout
[[ `grep 'INFO' .nextflow.log | grep -c 'Submitted process > sayHello'` == 5 ]] || false
[[ `grep -c 'DONE' stdout` == 1 ]] || false
[[ `grep -c 'command: echo' stdout` == 1 ]] || false
[[ `grep -c 'revision: null' stdout` == 1 ]] || false
[[ `grep -c 'repository: null' stdout` == 1 ]] || false
[[ `grep -c 'success: true' stdout` == 1 ]] || false
[[ `grep -c 'exitStatus: 0' stdout` == 1 ]] || false
[[ `grep -c 'runName: first' stdout` == 1 ]] || false
#
# Second run test `success` if `false`
#
echo ''
$NXF_RUN -name second --command xxx > stdout || true
[[ `grep -c 'DONE' stdout` == 1 ]] || false
[[ `grep -c 'command: xxx' stdout` == 1 ]] || false
[[ `grep -c 'revision: null' stdout` == 1 ]] || false
[[ `grep -c 'repository: null' stdout` == 1 ]] || false
[[ `grep -c 'success: false' stdout` == 1 ]] || false
[[ `grep -c 'exitStatus: 127' stdout` == 1 ]] || false
[[ `grep -c 'runName: second' stdout` == 1 ]] || false
#
# Third run download the script from Github and test `repository` and `revision` are set
#
echo ''
$NXF_CMD run nextflow-io/hello -name third --command hola > stdout
[[ `grep 'INFO' .nextflow.log | grep -c 'Submitted process > sayHello'` == 4 ]] || false
[[ `grep -c 'DONE' stdout` == 1 ]] || false
[[ `grep -c 'command: hola' stdout` == 1 ]] || false
[[ `grep -c 'revision: master' stdout` == 1 ]] || false
[[ `grep -c 'repository: https://github.com/nextflow-io/hello' stdout` == 1 ]] || false
[[ `grep -c 'success: true' stdout` == 1 ]] || false
[[ `grep -c 'exitStatus: 0' stdout` == 1 ]] || false
[[ `grep -c 'runName: third' stdout` == 1 ]] || false