1 October 2013 (FCID: D2FU3ACXX-D2HJ3ACXX, 2x100, jason + purugganan)

[smondet]

4 lanes

• [x] create Submission Sheet and email -> Jason
• [x] create Submission Sheet and email -> Rachel
• [x] validate Submission Sheet(s)
• [x] if needed, remove previous run directories on rabbot:/hiseq to make space
• [x] if needed, remove previous run directories on bowery:/scratch to make space
• [x] transfer data gencore@bowery$ qsub -v DIR=$RUNID ~/bin/rsync.pbs
• [x] make tarball qsub -v DIR=$RUNID ~/bin/tar.pbs
• [ ] backup tarball to sftp.bio qsub -v DIR=$RUNID ~/bin/sftp.bio-backup.pbs
• [x] validate Submission Sheet(s) again and remove edit permissions
• [x] import Submission Sheet(s) and register flowcell
• [x] demultiplex
• [x] fastx
• [x] review statistics
• [x] deliver
• [x] send emails

[smondet]

$ qsub -v DIR=131003_SN911_0183_BD2HJ3ACXX rsync-tar.pbs                                                                                                                                                                              
2654094.crunch.local

PBS Job Id: 2654094.crunch.local
Job Name:   tar-hiseq-rsync
Exec host:  compute-12-14/0
Execution terminated
Exit_status=0
resources_used.cput=01:22:29
resources_used.mem=9004kb
resources_used.vmem=347856kb
resources_used.walltime=04:17:28

 $ qsub -v DIR=131003_SN911_0183_BD2HJ3ACXX untar.pbs 
2655560.crunch.local

PBS Job Id: 2655560.crunch.local
Job Name:   untar
Exec host:  compute-13-17/2
Execution terminated
Exit_status=0
resources_used.cput=02:12:00
resources_used.mem=4380kb
resources_used.vmem=216180kb
resources_used.walltime=18:37:34

[smondet]

 $ hitscore production b2f start -user sm4431 $PWD/131003_SN911_0183_BD2HJ3ACXX/

Evaluation 36351 started.

SUCCESS

[smondet]

gencore@bowery-0-3:/scratch/gencore/hiseq-700911 $ hitscore production fxqs start -user sm4431 -from-b2f 36351
aa144 : cgsb users
sm4431 : cgsb users
ps103 : cgsb users carlton
id: jsd6: No such user
kw1213 : cgsb users
carltj01 : cgsb users carlton
aa144 : cgsb users
sm4431 : cgsb users
ps103 : cgsb users carlton
id: jsd6: No such user
kw1213 : cgsb users
carltj01 : cgsb users carlton
aa144 : cgsb users
sm4431 : cgsb users
ps103 : cgsb users carlton
id: jsd6: No such user
kw1213 : cgsb users
carltj01 : cgsb users carlton
aa144 : cgsb users
sm4431 : cgsb users
ps103 : cgsb users carlton
id: jsd6: No such user
kw1213 : cgsb users
carltj01 : cgsb users carlton
aa144 : cgsb users
sm4431 : cgsb users
ps103 : cgsb users carlton
id: jsd6: No such user
kw1213 : cgsb users
carltj01 : cgsb users carlton
Creating VFS link (coerce_b2f_unaligned)
Evaluation 36374 started!

[smondet]

gencore@bowery-0-3:~/bin $ qsub -v DIR=131003_SN911_0183_BD2HJ3ACXX sftp.bio-backup.pbs 
2672126.crunch.local

FAILED

[smondet]

Flowcell A Backup

$ qsub -v DIR=131003_SN911_0184_AD2FU3ACXX rsync-tar.pbs
2672124.crunch.local

PBS Job Id: 2672124.crunch.local
Job Name:   tar-hiseq-rsync
Exec host:  compute-12-11/4
Execution terminated
Exit_status=0
resources_used.cput=00:47:15
resources_used.mem=9532kb
resources_used.vmem=348492kb
resources_used.walltime=02:08:44

 $ qsub -v DIR=131003_SN911_0184_AD2FU3ACXX sftp.bio-backup.pbs 
2673436.crunch.local

FAILED

[smondet]

$ qsub -v DIR=131003_SN911_0183_BD2HJ3ACXX md5.pbs 
2691783.crunch.local
$ qsub -v DIR=131003_SN911_0184_AD2FU3ACXX md5.pbs                                                                                                                                                                                                              
2691784.crunch.local

SUCCESS

$ cat 2013-10-24.14:25:40.131003_SN911_0183_BD2HJ3ACXX.tar.gz.md5 2013-10-24.14:25:40.131003_SN911_0184_AD2FU3ACXX.tar.gz.md5
a0547a931a8d357a35a4b6707c2d1823  131003_SN911_0183_BD2HJ3ACXX.tar.gz
4debbf80c78c275f52e1202e11a128b4  131003_SN911_0184_AD2FU3ACXX.tar.gz