On Zenobe, when executing coral submit, the job passes the waiting list, but fails early afterwards, during the running process. No output data are produced. The logging file shows:
head -n 3 ~/modeles/nemo/3.6/CONFIG/ORCA1_LIM3_REF/EXP00/EXP_REF.o1495821
[PROLOGUE] Starting prologue on node node0293 at date Fri Oct 27 10:21:58 CEST 2017
cp: cannot stat `xios_config/*xml': No such file or directory
The run directory doesn't contain xml files, indicating that xios config is not copied by coral.
The copy command is contained in Coral/templates/scripts/skeleton.sh, line 53. The cp is run in the wrong directory. Adding a cd to the start directory after its creation seems to solve the problem:
On Zenobe, when executing `coral submit`, the job passes the waiting list, but fails early afterwards, during the running process. No output data are produced. The logging file shows:
```
head -n 3 ~/modeles/nemo/3.6/CONFIG/ORCA1_LIM3_REF/EXP00/EXP_REF.o1495821
```
```
[PROLOGUE] Starting prologue on node node0293 at date Fri Oct 27 10:21:58 CEST 2017
cp: cannot stat `xios_config/*xml': No such file or directory
```
The run directory doesn't contain xml files, indicating that `xios` config is not copied by coral.
The copy command is contained in [Coral/templates/scripts/skeleton.sh, line 53](http://climate.be:3000/TECLIM/Coral/src/master/templates/scripts/skeleton.sh#L53). The `cp` is run in the wrong directory. Adding a `cd` to the start directory after its creation seems to solve the problem:
```
mkdir -p "${run_dir:?}"$
cd "${start_dir}"
cp -u xios_config/*xml "${run_dir}"
cp -u namelists/* "${run_dir}"
cd "${run_dir}"
cp -u "${nem_exe_file:?}" .
cp -u "${xio_exe_file:?}" .
```
On Zenobe, when executing
coral submit
, the job passes the waiting list, but fails early afterwards, during the running process. No output data are produced. The logging file shows:The run directory doesn't contain xml files, indicating that
xios
config is not copied by coral.The copy command is contained in Coral/templates/scripts/skeleton.sh, line 53. The
cp
is run in the wrong directory. Adding acd
to the start directory after its creation seems to solve the problem:Bug not seen in the current version of coral. Closing the ticket.