diff --git a/rna-seq.nf b/rna-seq.nf index 693199ef15b589d30e8c1730afc72bef4385b259..1fe526ce3f2e1f4717d1061545f4eccb291f88aa 100644 --- a/rna-seq.nf +++ b/rna-seq.nf @@ -1335,6 +1335,12 @@ process uploadInputBag { hostname > ${repRID}.uploadInputBag.log ulimit -a >> ${repRID}.uploadInputBag.log + # link credential file for authentication + echo -e "LOG: linking deriva credentials" >> ${repRID}.uploadInputBag.log + mkdir -p ~/.deriva + ln -sf `readlink -e credential.json` ~/.deriva/credential.json + echo -e "LOG: linked" >> ${repRID}.uploadInputBag.log + yr=\$(date +'%Y') mn=\$(date +'%m') dy=\$(date +'%d') @@ -2287,6 +2293,12 @@ process uploadOutputBag { hostname > ${repRID}.uploadOutputBag.log ulimit -a >> ${repRID}.uploadOutputBag.log + # link credential file for authentication + echo -e "LOG: linking deriva credentials" >> ${repRID}.uploadOutputBag.log + mkdir -p ~/.deriva + ln -sf `readlink -e credential.json` ~/.deriva/credential.json + echo -e "LOG: linked" >> ${repRID}.uploadOutputBag.log + yr=\$(date +'%Y') mn=\$(date +'%m') dy=\$(date +'%d')