Our project: 20120820NGS
- Make sure you source the common profile, or if not, be sure to execute umask 002 to make all files you create group writable.
- If your primary group is not the NGSC group, do this right after logging so that all files you create will be the NGSC group (G-803889)
newgrp - G-803889
Use this when list a command to submit to the queue, not run interactively
Submit via qsub
Use launcher_creator.py followed by qsub to submit this command.
- Launcher creator - update - with usage(), output what it's doing - Aaron
- Explain SAM format when we look at data in IGV
- Create more intro materials - SPHS/JB
- Any other visualization tools?
Done:
- Obtain allocation for Aug course - SPHS
- Ask Chris Jordan for NGCS web allocation - SPHS/AB
- AB: Add new dir or re-use on /corral-repl/utexas; make new global linking to it.
- AB: will email group RE global .profile_user we should use with the right umask.
- Hardcopies of http://www.tjhsst.edu/~dhyatt/superap/unixcmd.html - DA to trim, then SPHS ask Vicki/heather to print/laminate
- SPSH edit flowchart icncluding quafelkfuyt.
- Refer folks to linux intro tutorials -
- http://loving.corral.tacc.utexas.edu/bioiteam/ which links to $BI/web
Guidelines on scripting vs. individual commands:
1. On early-on basics (e.g. day 1), try to lead students to do it themselves; copy and paste hidden is OK.
We're going to run R interactively on HN, idev -m <bunch> is backup, local machines is next. John F. looking at other options.
SPHS to move $BI/subdirs into ngs_course and update links
