Running nicerl2 in a batch

Creating a nicerl2_command.sh bash script

The nicerl2_command_create function will create an all purpose bash script that can be used in combination with an file containing enviroment variables to run nicerl2 for all the ObsIDs with specific options.

First, create a file that has all of the names of the ObsID for example:

ObsID.dat:

3627010101
3627010201

Then in a python shell:

>>> import nicer.nicer as n
>>> n.nicerl2_command_create(filename='ObsID.dat', output='nicerl2_command.sh')

will create a nicerl2_command.sh file that looks like this:

nicerl2 indir=3627010101 clobber=YES ${FLAGS}
mv 3627010101/xti/event_cl/ni3627010101_0mpu7_cl.evt 3627010101/xti/event_cl/ni3627010101_0mpu7_cl_${TYPE}.evt

nicerl2 indir=3627010201 clobber=YES ${FLAGS}
mv 3627010201/xti/event_cl/ni3627010201_0mpu7_cl.evt 3627010201/xti/event_cl/ni3627010201_0mpu7_cl_${TYPE}.evt

As you can see, for each ObsID in the list, nicerl2 is executed, with options contained in the environement variable $FLAG (see below), and then the cleaned event list is renamed ni3627010201_0mpu7_cl_${TYPE}.evt where the environement variable $TYPE contains the suffix to apply.

The reason being renaming the files is because nicerl2 clobbers the cleaned event list.

Using the nicerl2_command.sh

To process data, you first need to define the two environment variables. I do this by creating a file nicerl2_source.sh that could look like this:

# For default processing. 
export TYPE="default"
export FLAGS=""

# For changing the SAA region
#export TYPE="SAA"
#export FLAGS="nicersaafilt=NO saafilt=YES"

Then to process the data:

> source nicerl2_source.sh
> bash nicerl2_command.sh

The end