From 4ee75793c87fe0d15a9763e00a92adb474bab92f Mon Sep 17 00:00:00 2001 From: evdh0 Date: Fri, 18 Nov 2016 19:31:03 +0000 Subject: [PATCH] Make integrationTest.sh directory independend --- integrationTest.sh | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/integrationTest.sh b/integrationTest.sh index 702abac..f46dc26 100755 --- a/integrationTest.sh +++ b/integrationTest.sh @@ -23,7 +23,7 @@ if [ ! -f inputData/testSet75.fasta ]; then fi cd $curdir -python poreFUME.py inputData/testSet76.fasta inputData/pb_39.fasta --PacBioLegacyBarcode --cores 1 --pathCARD=inputData/n.fasta.protein.homolog.fasta --pathNanocorrect=/home/ubuntu/poreFUME/nanocorrect/ --pathRawreads=/home/ubuntu/poreFUME/test/data/testSet75 --overwriteNanocorrect --pathNanopolish=/home/ubuntu/poreFUME/nanopolish/ --overwriteNanopolish --overwriteDemux --overwriteCARD +python poreFUME.py inputData/testSet75.fasta inputData/pb_39.fasta --PacBioLegacyBarcode --cores 8 --pathCARD=inputData/n.fasta.protein.homolog.fasta --pathNanocorrect=$curdir/nanocorrect/ --pathRawreads=$curdir/test/data/testSet75 --overwriteNanocorrect --pathNanopolish=$curdir/nanopolish/ --overwriteNanopolish --overwriteDemux --overwriteCARD if ! diff -q output/annotation/testSet75/testSet75.afterNP.annotated.csv test/data/testSet75.afterNP.annotated.csv > /dev/null 2>&1; then echo "Integration test failed, the output in output/annotation/testSet75/testSet75.afterNP.annotated.csv is not what is expected"