Running METAP SERVER
Tue Jun 21 10:22:01 CEST 2016
ID=160621102108785
/home/metap2/exec:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
/home/metap2/data
+ echo 'we are here'
we are here
+ pwd
/home/metap2/public_html/users/160621102108785
+ hostname
metap
+ uname -a
Linux metap 3.13.0-79-generic #123-Ubuntu SMP Fri Feb 19 14:27:58 UTC 2016 x86_64 x86_64 x86_64 GNU/Linux
+ echo 'this is the environment'
this is the environment
+ env
RATIOS=n
OUTLIER=n
MISSING=n
DATADIR=/home/metap2/data
SHELL=/bin/sh
JOBID=Linsen_P1
REFERENCE=n
PATH=/home/metap2/exec:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
PWD=/home/metap2/public_html/users/160621102108785
PRIVAT=0
LANG=en_US.UTF-8
SHLVL=1
HOME=/home/metap2
ID=160621102108785
DEL_METABS=n
FORMAT=absoluteIDQ
LOGNAME=metap2
EMAIL=unknown
USERID=unknown
DEVELOPT=
_=/usr/bin/env
+ echo 'this is a first R script that works on the input data'
this is a first R script that works on the input data
+ '[' '' = werner ']'
+ '[' '' = karsten ']'
+ '[' '' = gabi ']'
+ '[' '' = elisabeth ']'
+ process_metaP_data.R
RUNNING /home/metap2/exec/process_metaP_data.R
Use of uninitialized value $out0 in substitution (s///) at /home/metap2/exec/readAux.pl line 66.
Use of uninitialized value $out0 in substitution (s///) at /home/metap2/exec/readAux.pl line 67.
Use of uninitialized value in transliteration (tr///) at /home/metap2/exec/readAux.pl line 68.
Use of uninitialized value $out0 in concatenation (.) or string at /home/metap2/exec/readAux.pl line 69.
Use of uninitialized value $max_length in numeric lt (<) at /home/metap2/exec/readAux.pl line 71.
-rw-rw-r-- 1 metap2 metap2 4715 Jun 21 10:22 .R.Rout
  adding: processing_log.txt (deflated 69%)
  adding: options (deflated 39%)
  adding: out_params.txt (stored 0%)
  adding: input (deflated 85%)
  adding: phenotypes.txt (stored 0%)
  adding: aux.txt (stored 0%)
  adding: server_log.txt (deflated 58%)
FINISHED with /home/metap2/exec/process_metaP_data.R
+ echo 'these are the files that are now here:'
these are the files that are now here:
+ ls -ltra
total 956
drwxrwxrwx    2 www-data www-data   4096 Jun 21 10:21 barplots
-rw-r--r--    1 www-data www-data 331901 Jun 21 10:21 input.tmp
-rw-r--r--    1 www-data www-data      0 Jun 21 10:21 phenotypes.txt.tmp
-rw-r--r--    1 www-data www-data 331901 Jun 21 10:21 input
-rw-r--r--    1 www-data www-data      0 Jun 21 10:21 phenotypes.txt
-rw-r--r--    1 www-data www-data      0 Jun 21 10:21 aux.txt
-rw-r--r--    1 www-data www-data    241 Jun 21 10:21 options
-rwxr-xr-x    1 www-data www-data    597 Jun 21 10:21 metaPjob.cmd
drwxrwxrwx 1917 metap2   metap2   212992 Jun 21 10:22 ..
-rw-rw-r--    1 metap2   metap2        1 Jun 21 10:22 out_params.txt
-rw-rw-r--    1 metap2   metap2     4715 Jun 21 10:22 .R.Rout
-rw-rw-r--    1 metap2   metap2      864 Jun 21 10:22 processing_log.txt
-rw-rw-r--    1 metap2   metap2     2079 Jun 21 10:22 server_log.txt
-rw-rw-r--    1 metap2   metap2    51230 Jun 21 10:22 download.zip
drwxrwxrwx    3 www-data www-data   4096 Jun 21 10:22 .
+ set -
Finishing METAP SERVER