1,120
edits
Changes
From Genome Analysis Wiki
Jump to navigationJump to search→STEP 0 : Login to the cluster
% ssh yourid@uwcmg-head.gs.washington.edu
% ssh yourid@uwcmg-head.gs.washington.edu
Password:
% qlogin�
% qlogin
Your job 120 ("QLOGIN") has been submitted�
Your job 120 ("QLOGIN") has been submitted
waiting for interactive job to be scheduled …�
waiting for interactive job to be scheduled …
Your interactive job 120 has been successfully scheduled.
Your interactive job 120 has been successfully scheduled.
Establishing /usr/local/bin/qlogin_command session to host uwcmg001.gs.washington.edu ...
yourid@uwcmg001.gs.washington.edu's password:
yourid@uwcmg001.gs.washington.edu's password:
% ls ${GC}/examples�
% ls ${GC}/examples
=== Step 1 : GotCloud Alignment Pipeline ===
=== Step 1 : GotCloud Alignment Pipeline ===
% export GC=/home/presenter02/day2/session1/uwcmg_2013_08/
% export GC=/home/presenter02/day2/session1/uwcmg_2013_08/
% ls ${GC}/examples/fastq�
% ls ${GC}/examples/fastq
% ls ${GC}/examples�
% ls ${GC}/examples
% cat ${GC}/examples/index/chr7.CFTR.fastq.index
% cat ${GC}/examples/index/chr7.CFTR.fastq.index
% cat align/QCFiles/NA06984.genoCheck.selfSM
% cat align/QCFiles/NA06984.genoCheck.selfSM
== STEP 3 : Run GotCloud SNP Calling Pipeline ==
== STEP 3 : Run GotCloud SNP Calling Pipeline ==
