radical-collaboration / extasy-grlsd

Repository to hold the input data and scripts for the ExTASY gromacs-lsdmap work
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bootstrap gpu bw fails #53

Closed euhruska closed 6 years ago

euhruska commented 6 years ago

I had this or similar error before, but what was the fix? bootstrap fails on the gpu settings of extasy.

obtained lock /mnt/c/scratch/sciteam/hruska/radical.pilot.sandbox/ve.ncsa.bw_aprun.0.47.4.lock
0.7734,ve_create_start,bootstrap_1,MainThread,pilot.0000,PMGR_ACTIVE_PENDING,

# -------------------------------------------------------------------
#
# Download virtualenv tgz
# cmd: curl -k -O 'https://pypi.python.org/packages/source/v/virtualenv/virtualenv-1.9.tar.gz'
#
  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed
^M  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0^M100   122  100   122    0     0   2595      0 --:--:-- --:--:-- --:--:--  2652
#
# SUCCESS
#
# -------------------------------------------------------------------

# -------------------------------------------------------------------
#
# unpacking virtualenv tgz
# cmd: tar zxmf 'virtualenv-1.9.tar.gz'
#

gzip: stdin: not in gzip format
tar: Child returned status 1
tar: Error is not recoverable: exiting now
#
# ERROR
# no fallback command available
#
# -------------------------------------------------------------------
Couldn't unpack virtualenv! Using systemv version
ERROR: invalid or unusable virtenv_dist option
Error on virtenv creation -- abort
removed `/mnt/c/scratch/sciteam/hruska/radical.pilot.sandbox/ve.ncsa.bw_aprun.0.47.4.lock'

local env installed with

conda install -c conda-forge rabbitmq-server tmux pip git python=2.7.14
pip install git+https://github.com/radical-cybertools/radical.utils.git@devel
pip install git+https://github.com/radical-cybertools/saga-python.git@devel
pip install git+https://github.com/radical-cybertools/radical.pilot.git@feature/gpu
pip install git+https://github.com/radical-cybertools/radical.entk.git@feature/gpu
pip install git+https://github.com/radical-cybertools/radical.analytics@devel

radical-stack

  python               : 2.7.14
  pythonpath           :
  virtualenv           : extasy7

  radical.analytics    : v0.45.2-102-gaec2e1d@devel
  radical.entk         : 0.6.1-0.6.0-31-g19668b3@HEAD-detached-at-19668b3
  radical.pilot        : 0.47.4-merge-pre_gpu-150-gec325c89@HEAD-detached-at-ec325c89
  radical.utils        : 0.47.4-merge-pre_gpu-22-ga942c4b@devel
  saga                 : 0.47.4-v0.47.4-32-g71a97659@devel
andre-merzky commented 6 years ago

Hi Eugene - our default MongoDB was full - that will have triggered the above error if you used it. I cleaned it out, so you could give it another try.

andre-merzky commented 6 years ago

The fix has now been merged into RP devel.