Contents

#!/usr/bin/env bash
set -e

# run a conformance test for all files in the tools/
o_pwd=$(pwd)
cd test/
mkdir -p test-files/dm3
chmod 777 test-files/dm3

for i in ../tools/*.cwl; do
 bn=$(basename ${i} .cwl)

 echo "Testing: ${bn}"

 #if [ -f ${bn}-test.yaml ]; then
     cwltool --validate ${i}
     #./cwltest.py --tool "cwltool" --conformance-test --test ${bn}-test.yaml --force-test-tool ${i}
 #else
 #   echo "fail"
 #fi

done

#PUSH_DOCKER=""
#
#if [ "${TRAVIS_PULL_REQUEST}" = "false" ]; then
#    PUSH_DOCKER="--push-image"
#fi
#
#
#echo "STAR real run indexing genome/ reads alignment"
#./cwltest.py ${PUSH_DOCKER} --tool "cwltool" --test STAR-test.yaml
#
#echo "samtools-index indexing BAM"
#./cwltest.py ${PUSH_DOCKER} --tool "cwltool" --test samtools-index-test.yaml
#
#echo "bedtools-genomecov genomecov bedGraph"
#./cwltest.py ${PUSH_DOCKER} --tool "cwltool" --test bedtools-genomecov-test.yaml


cd ${o_pwd}

Version data entries

21 entries across 21 versions & 1 rubygems

Version	Path
ro-crate-0.5.2	test/fixtures/workflow-0.2.0/test/test.sh
ro-crate-0.5.1	test/fixtures/workflow-0.2.0/test/test.sh
ro-crate-0.5.0	test/fixtures/workflow-0.2.0/test/test.sh
ro-crate-0.4.17	test/fixtures/workflow-0.2.0/test/test.sh
ro-crate-0.4.16	test/fixtures/workflow-0.2.0/test/test.sh
ro-crate-0.4.15	test/fixtures/workflow-0.2.0/test/test.sh
ro-crate-0.4.14	test/fixtures/workflow-0.2.0/test/test.sh
ro-crate-0.4.13	test/fixtures/workflow-0.2.0/test/test.sh
ro-crate-0.4.12	test/fixtures/workflow-0.2.0/test/test.sh
ro-crate-0.4.11	test/fixtures/workflow-0.2.0/test/test.sh
ro-crate-0.4.10	test/fixtures/workflow-0.2.0/test/test.sh
ro-crate-0.4.9	test/fixtures/workflow-0.2.0/test/test.sh
ro-crate-0.4.8	test/fixtures/workflow-0.2.0/test/test.sh
ro-crate-0.4.7	test/fixtures/workflow-0.2.0/test/test.sh
ro-crate-0.4.6	test/fixtures/workflow-0.2.0/test/test.sh
ro-crate-0.4.5	test/fixtures/workflow-0.2.0/test/test.sh
ro-crate-0.4.4	test/fixtures/workflow-0.2.0/test/test.sh
ro-crate-0.4.3	test/fixtures/workflow-0.2.0/test/test.sh
ro-crate-0.4.2	test/fixtures/workflow-0.2.0/test/test.sh
ro-crate-0.4.1	test/fixtures/workflow-0.2.0/test/test.sh