diff --git a/rna-seq.nf b/rna-seq.nf index a3da72994d10b185116f2fa3cf4586e827a51cc6..65b4565b05e34f4d720632b597e29b5c15bf8924 100644 --- a/rna-seq.nf +++ b/rna-seq.nf @@ -240,7 +240,7 @@ process getData { input: path script_bdbagFetch - path cookies, stageAs: "deriva-cookies.txt" from bdbag + path cookies from bdbag path inputBag from inputBag_getData output: @@ -258,7 +258,7 @@ process getData { # link deriva cookie for authentication echo -e "LOG: linking deriva cookie" >> ${repRID}.getData.log mkdir -p ~/.bdbag - ln -sf `readlink -e deriva-cookies.txt` ~/.bdbag/deriva-cookies.txt + ln -sf `readlink -e cookies.txt` ~/.bdbag/deriva-cookies.txt echo -e "LOG: linked" >> ${repRID}.getData.log # get bag basename