soichih

hayashis@h1(karst):/N/dc2/scratch/hayashis/tmp/python36 $ ./run.sh 
enabling debugging
ending argument loop
Exec'ing: /N/soft/rhel6/singularity/2.2/libexec/singularity/cli/exec.exec /N/u/hayashis/Karst/download/python_3.6-2016-11-01-156ca2b5b15f.imgVERBOSE [U=740536,P=13639] message.c:52:init()                        : Set messagelevel to: 5
DEBUG   [U=740536,P=13639] privilege.c:66:singularity_priv_init()     : Called singularity_priv_init(void)
DEBUG   [U=740536,P=13639] privilege.c:131:singularity_priv_init()    : Returning singularity_priv_init(void)
DEBUG   [U=740536,P=13639] privilege.c:179:singularity_priv_drop()    : Dropping privileges to UID=740536, GID=236
DEBUG   [U=740536,P=13639] privilege.c:191:singularity_priv_drop()    : Confirming we have correct UID/GID
VERBOSE [U=740536,P=13639] sexec.c:73:main()                          : Running NON-SUID program workflow
DEBUG   [U=740536,P=13639] sexec.c:75:main()                          : Checking program has appropriate permissions

soichih

hayashis@aprun4(br2):~/test/singularity $ strace -ff singularity exec -vv tensorflow_latest-gpu-2016-09-29-4ca8cbd91fe3.img uname -a
execve("/N/soft/cle5/singularity/2.2/bin/singularity", ["singularity", "exec", "-vv", "tensorflow_latest-gpu-2016-09-29"..., "uname", "-a"], [/* 439 vars */]) = 0
brk(0)                                  = 0x698000
mmap(NULL, 4096, PROT_READ|PROT_WRITE, MAP_PRIVATE|MAP_ANONYMOUS, -1, 0) = 0x7f3201105000
access("/etc/ld.so.preload", R_OK)      = 0
open("/etc/ld.so.preload", O_RDONLY)    = 3
fstat(3, {st_mode=S_IFREG|0644, st_size=0, ...}) = 0
close(3)                                = 0
open("/etc/ld.so.cache", O_RDONLY)      = 3
fstat(3, {st_mode=S_IFREG|0644, st_size=672061, ...}) = 0

soichih

#!/usr/bin/python

import urllib2
import libxml2

vo_summary_oasis_url = "http://myosg.grid.iu.edu/vosummary/xml?summary_attrs_showoasis=on&start_type=7daysago&start_date=12%2F24%2F2014&end_type=now&end_date=12%2F24%2F2014&all_vos=on&active=on&active_value=1&oasis=on&oasis_value=1&sort_key=name"


#download vosummary (for oasis enabled)
response = urllib2.urlopen(vo_summary_oasis_url)

soichih

{
"service": "blast",

"input": "input.2000.fasta",
"db": "oasis:dmel-all-chromosome-r5.55",
"blast": "blastn",
"blast_opts": "-evalue 0.001 -best_hit_score_edge 0.05 -best_hit_overhang 0.25 -perc_identity 98.0"
}

soichih

{
   "tests" : [
      {
         "members" : {
            "members" : [
               "lhcmon.bnl.gov",
               "psum02.aglt2.org",
               "psmsu02.aglt2.org",
               "iut2-net2.iu.edu",
               "mwt2-ps02.campuscluster.illinois.edu",

soichih