Running METAP SERVER
Mon Aug  5 13:31:02 CEST 2019
ID=19080513302217157
/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/19080513302217157
+ hostname
metap
+ uname -a
Linux metap 4.4.0-157-generic #185-Ubuntu SMP Tue Jul 23 09:17:01 UTC 2019 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=mb-oak
REFERENCE=n
PATH=/home/metap2/exec:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
PWD=/home/metap2/public_html/users/19080513302217157
PRIVAT=0
LANG=en_US.UTF-8
SHLVL=1
HOME=/home/metap2
ID=19080513302217157
DEL_METABS=n
FORMAT=csv
LOGNAME=metap2
EMAIL=mbertic55@gmail.com
USERID=mbertic55
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 5067 Aug  5 13:31 .R.Rout
  adding: processing_log.txt (deflated 38%)
  adding: options (deflated 38%)
  adding: metabNamesMapping.csv (deflated 27%)
  adding: out_params.txt (stored 0%)
  adding: input (deflated 50%)
  adding: phenotypes.txt (stored 0%)
  adding: aux.txt (stored 0%)
  adding: server_log.txt (deflated 59%)
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 340
-rw-r--r--    1 www-data www-data   8268 Aug  5 13:30 input.tmp
drwxrwxrwx    2 www-data www-data   4096 Aug  5 13:30 barplots
-rw-r--r--    1 www-data www-data   8267 Aug  5 13:30 input
-rw-r--r--    1 www-data www-data      0 Aug  5 13:30 phenotypes.txt.tmp
-rw-r--r--    1 www-data www-data      0 Aug  5 13:30 phenotypes.txt
-rw-r--r--    1 www-data www-data      0 Aug  5 13:30 aux.txt
-rw-r--r--    1 www-data www-data    246 Aug  5 13:30 options
-rwxr-xr-x    1 www-data www-data    633 Aug  5 13:30 metaPjob.cmd
drwxrwxrwx 2416 metap2   metap2   262144 Aug  5 13:31 ..
-rw-rw-r--    1 metap2   metap2        1 Aug  5 13:31 out_params.txt
-rw-rw-r--    1 metap2   metap2       30 Aug  5 13:31 metabNamesMapping.csv
-rw-rw-r--    1 metap2   metap2     7908 Aug  5 13:31 input_4R
-rw-rw-r--    1 metap2   metap2     5067 Aug  5 13:31 .R.Rout
-rw-rw-r--    1 metap2   metap2      417 Aug  5 13:31 processing_log.txt
-rw-rw-r--    1 metap2   metap2     2137 Aug  5 13:31 server_log.txt
-rw-rw-r--    1 metap2   metap2     6600 Aug  5 13:31 download.zip
drwxrwxrwx    3 www-data www-data   4096 Aug  5 13:31 .
+ set -
Finishing METAP SERVER